Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold267
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: 2306539
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 10 of 15
Found at i:1437205 original size:39 final size:39
Alignment explanation
Indices: 1437146--1437254 Score: 155
Period size: 39 Copynumber: 2.8 Consensus size: 39
1437136 ACTTCGTCTC
* *
1437146 TAAGACCAATGTTGCTGGCCTTGAATCAGTACATAGGCA
1 TAAGCCCAATGTTGCTGGCCTTGAATCAGCACATAGGCA
*
1437185 TAAGCCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATGTTGCTGGCCTTGAATCAGCACATAGGCA
* * * *
1437224 CAAGCCCAATATCGCTGGTCTTGAATCAGCA
1 TAAGCCCAATGTTGCTGGCCTTGAATCAGCA
1437255 TATTGGCACC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (39 bp):
TAAGCCCAATGTTGCTGGCCTTGAATCAGCACATAGGCA
Found at i:1437736 original size:39 final size:39
Alignment explanation
Indices: 1437685--1437874 Score: 157
Period size: 39 Copynumber: 4.6 Consensus size: 39
1437675 TCTAATGTCA
* *
1437685 CTGGCCATGAATCAGCACATTGGCATAAACCCAATATCA
1 CTGGCCTTGAATCAGCACATTGGCATAAACCCAATATCG
* *
1437724 CTGGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGA-CCAATGTCG
1 CTGGCCTTGAATCAGCACATTGGCA---------TAA-ACCCAATATCG
* * * *
1437772 TTGGCTTTGAATCAGCACATTGGCATAAGCCCAATGTCG
1 CTGGCCTTGAATCAGCACATTGGCATAAACCCAATATCG
* * * *
1437811 TTGGCCTTGAATCAGCACATTGGCACAAGCCCAGTATCG
1 CTGGCCTTGAATCAGCACATTGGCATAAACCCAATATCG
* *
1437850 CTGGCCTTGAATCAGTATATTGGCA
1 CTGGCCTTGAATCAGCACATTGGCA
1437875 CCTTCATTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
39 92 0.74
48 32 0.26
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
CTGGCCTTGAATCAGCACATTGGCATAAACCCAATATCG
Found at i:1437926 original size:612 final size:612
Alignment explanation
Indices: 1433182--1438173 Score: 2238
Period size: 612 Copynumber: 8.1 Consensus size: 612
1433172 ACTCCATGGC
* * *
1433182 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTAGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
* * ** * * * **
1433247 TTGAATCAGCATATTGGCA-CATTGTC-TT--TAAGACCAATGTCGCGGGCCTTGAATCAGCACA
66 TTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCTTGTCTCAGCACA
* * * * ** ** * *
1433308 TTGGCACTTTCATCTTTAAGTCCAATATCGTTGGCTTTGCATCAGCATATTGGCATCTTTAACAT
131 TTGGCA--TTCTTCTTCAAGTCTAATGTCACTGGCCATGAATCAGCACATTGG---------CA-
* * * ** * * * *
1433373 TCCTAAGCCCAATCTCGCTAGCTTTGTCTCAGCACATTGGCA-TTCTTCT-TCAAGTCTAATGTC
184 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCGTCTCT-AAGACCAATGTC
* * * * * * *
1433436 ACTGGCCATGAATCAGCACATTGTCATAAGCCTAATATCGTTGGCCTTGAATCAGCATATTGGCA
245 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
1433501 CTTCGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATAGG------CA----TAAGCCC
310 --------C-AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACC
* * * *
1433556 AATGTTGCTGGCCTTGAATTAGCACATCAGCACCTCAACCATCTTTAAGTCCAATGTCGCTGGCC
366 AATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTAACCATCTTTAAGTCCAATGTCGCTGGCC
1433621 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
431 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* *
1433686 GCACCTTCGTCATCTCTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
496 GCGCCTTCGTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * ** * *
1433751 TAATTCTAATATCATTGGCCTTGAATCAACATATTGGCACATTGTCTTTAAG
561 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTTAAG
* *
1433803 ACCAATGTCGCTGCCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAATATCGTTGGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
* *
1433868 TTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCTTTGTCTCAGCACA
66 TTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCTTGTCTCAGCACA
* * * *
1433933 TTGGCATTCTTCTTCAAGTATAATGTCGCTGGCCATGAATCAGCACATTGTCCTAAGCCCAATAT
131 TTGGCATTCTTCTTCAAGTCTAATGTCACTGGCCATGAATCAGCACATTGGCATAAGCCCAATAT
* *
1433998 CGCTAGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGACCAATGTCGTTGGCCTTGAATCAG
196 CGCTGGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAG
* ** * * *
1434063 CACATAGGCATAAGCCCAATGTCATTGGCCTTGAATCAACATATTGGCACAAGCCCAGTATCGCT
261 CACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCT
* * *
1434128 GGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAT
326 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
* ** *
1434193 ATCGGCACCTCAACCATCTTTAAGTTAAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCA
391 ATCGGCACCTTAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
1434258 T-TTTGAAGTCCAATATCGCTGGCCGTGAATCAGCACATTGGCGCCTTCGTCATCTCTAAGACCA
456 TCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTCGTCATCTCTAAGACCA
* * *
1434322 ATCTTAG-TGGCCTTGAATCAGCACATTGGCATATTCATCTTTAAGTCCAATATCGCTGGCCTTG
520 AT-GTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTG
*
1434386 AATCAGCATATTGGCACATTGTCTTTAAG
584 AATCAGCATATTGGCACATTATCTTTAAG
* *
1434415 ACCAATGTCGCTGGCCTTGAATCAGTACATTAGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
* * * *
1434480 TTACATCAGCATATTGGCATCTTTAACATTCCTAAGCCTAATGTCACTGGCCTTATCTCAGCATA
66 TTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCTTGTCTCAGCACA
* * * *
1434545 TTGGAATTCTTCTTCAAGTCTAATGTCACCGGCCATGAATTAGCACATTGGGATAAGCCCAATAT
131 TTGGCATTCTTCTTCAAGTCTAATGTCACTGGCCATGAATCAGCACATTGGCATAAGCCCAATAT
* *
1434610 CGTTGGTCTTGAATCAGCATATTGGCAGC-TCGTCTCTAAGACCAATGTCGCTGGCCTTGAATCA
196 CGCTGGCCTTGAATCAGCATATTGGCA-CTTCGTCTCTAAGACCAATGTCGCTGGCCTTGAATCA
* * * * *
1434674 GCACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAACACATTAGCATAAGCCCAATGTCAC
260 GCACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGC
* * * *
1434739 TGGCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAGTCGAATGTCGCTGGCCTTGAATCA
325 TGGCCTTGAATCAGCACATTGGCACCT---TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCA
* * * *
1434804 GCACATTGGCACCTT---CATCTTTAAGTCCAATATCGCTGGCCTTGAATCATCACATTGGCGCC
387 GCACATCGGCACCTTAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * * * *
1434866 TTCGTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTTA
452 TTC---ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTCGTCATCTCTA
* * * * * * * *
1434928 AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CATT-GTCTTTAAGACCAATGTCGCGG
514 AGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-TTCATCTTTAAGTCCAATATCGCTG
* *
1434991 GCCTTGAATCAGCACATTGGCACTTTCATCTTTAAG
578 GCCTTGAATCAGCATATTGGCACATT-ATCTTTAAG
* * * * * * * * * * * * *
1435027 TCCAATATCGTTGGCTTTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATCTCGCTA
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGTCCAATATCGTTG
* * * * * **
1435092 GCTTTGTC-TCAGCACATTGGCAT-TCTT--C-TT-C-AAGTCTAATGTCACTGGCCATGAATCA
63 GCCTTG-CATCAGCATATTGGCATCT-TTAACATTCCTAAGCCCAATGTCACTGGCCTTGTCTCA
* * * ** * *
1435150 GCACATT-G------TCAT-AAGCCTAATATCGTTGGCCTTGAATCAGCATATTGGCACTTCGTC
126 GCACATTGGCATTCTTCTTCAAGTCTAATGTCACTGGCCATGAATCAGCACATTGGCA-------
* * * * * * *
1435207 TCTAAGACTAATGTCGCTGGCCTTGAATCAGCACATAGGCA---------TAAGCCCAATGTTGC
184 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGACCAATGTCGC
* ** *
1435263 TGGCCTTGAATTAGCACATCAGCACCTCAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCA
247 TGGCCTTGAATCAGCACAT-------T--GGCA----TAAGCCCAATGTCGCTGGCCTTGAATCA
* *
1435328 GCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTC
299 GCACATTGG------CA-C---AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T-
* * *
1435393 GTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTT---CATCTTTAAGT
352 -TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTAACCATCTTTAAGT
* * * * * * * *
1435455 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACATT-GTCTTTAAGACCAATGTCGCGGGCCT
416 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
* * * * * * *
1435519 TGAATCAGCATATTGGC-ACTT--TCATCTTTAAGTCCAATATCGTTGG-CTCT-ACATCAGCAT
481 TGAATCAGCACATTGGCGCCTTCGTCATCTCTAAGACCAATGTCGCTGGCCT-TGA-ATCAGCAC
* * * *
1435579 ATTGGCATCTTTAACATTCCTAAGCCCAATATCGCAGGCCTTGAATCAGCATATTGGCAC-TTCA
544 ATTGGCATCTTCATC-TT--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT-A
*
1435643 TCTCTAAG
605 TCTTTAAG
* **
1435651 ACCAATGTCACTGGCCTTGAATCAGCACATTGG------CA----TAAG-CCAAATATCACTGGC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC-AATATCGTTGGC
** * ** * * * ** *
1435705 CTTAAAGCAGCATATTGGCAT-TTTGTC--T-CTAAGACCAATATCAATGGCCTTGAATCAGCAT
65 CTTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCTTGTCTCAGCAC
*** * ** * * * * ***
1435766 ATTGGCA-TAAGC-CCAATGT-TGCTGGC-CTTG-AATTAGCACATCAGCACCTCAACCATCTTT
130 ATTGGCATTCTTCTTCAA-GTCTAATGTCACTGGCCA-T-G-A-ATCAGCACAT-TGGCA----T
* * * * * *
1435826 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
185 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTCGTCTCTAAGACCAATGTCGCTG
* * * * *
1435891 GCCTTGAATCAGCACATTGGCACCTTCGTCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATA
249 GCCTTGAATCAGCACATTGGCA----------TAAGCCCAATGTCGCTGGCCTTGAATCAGCACA
* * *
1435956 TTGGCACTTCGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATAGG------CA----T
304 TTGGCA--------C-AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* ** * * *
1436011 AAGCCCAATGTCATTGGCCTTGAATCAACATATTGGCA-C--AAGCC--C----AGT---A--TC
360 AAGACCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTAA-CCATCTTTAAGTCCAATGTC
* * ** *
1436062 GCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAG
424 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * * ** * * *** * *
1436127 TATATCGGCACC-TCAACCATTTTTAAGTTAAATGTCGCTGGCCTTGAATCAGTACATTGGCACC
489 CACATTGGCGCCTTC-GTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC
* * * * * *
1436191 TTCATTTTTAAGTCCAATATCGCTGGCCGTGAATCAGCACT-TTGGCGCCTTCGTCATCTCTACG
553 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA-TATTGGC-ACAT--T-ATCTTTAAG
* ** * *
1436255 ACCAATGTTAG-TGGCCTTGAATCAGCACATTGGCATATTCATCTTTAAGTCTAATATCGCTGGC
1 ACCAATG-TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGC
* ** * * ** *
1436319 CTTGAATCAGCATATTGGCAAATTGT--C-TT--TAAGACCAATGTCGCTGGCCTTGAATCAGTA
65 CTTGCATCAGCATATTGGCATCTT-TAACATTCCTAAGCCCAATGTCACTGGCCTTGTCTCAGCA
* * * * * * * *
1436379 CATTGGCACCTT-TATCTTTAAGTCCAATATCATTGGCCTTGCATCAGCATATTGGCATCATTAA
129 CATTGGCA--TTCT-TCTTCAAGTCTAATGTCACTGGCCATGAATCAGCACATTGGCAT-A--AG
* * ** * *
1436443 CATTCCTAAGCCTAATGTCACTGGCCTT-ATCTCAGCATATTGGCA-TTTTTCT-TCAAGTCTAA
188 C---CC-AA---T-A--TCGCTGGCCTTGA-ATCAGCATATTGGCACTTCGTCTCT-AAGACCAA
* * * * * * *
1436505 TGTCACCGGCCATGAATTAGCACATTGGGATAAGCCCAATATCGCTGGCCTTGAATCAGCATATT
241 TGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATT
* *
1436570 GGCAGTTCGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA----TAA
306 GGCA--------C-AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* * * *
1436625 GCCCAATGTTGCTGGCCTTGAATCA--ACA----CA--TT-AGCA----TAAGCCCAATGTCGCA
362 GACCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTAACCATCTTTAAGTCCAATGTCGC-
* * * *
1436677 T-GCCTTAAATCAGCACATCGGCA-CTTCAACCATCTTTAAGTCGAATGTCGCTGGCCTTGAATC
426 TGGCCTTGAATCAGCACATTGGCACCTT----CATCTTTAAGTCCAATATCGCTGGCCTTGAATC
* * * * **
1436740 AGCACATTGGCACC-T--TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGC
487 AGCACATTGGCGCCTTCGTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
* * * *
1436802 CTTCGTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-TTCATCTTTAA
552 CTTC---ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATT-ATCTTTAA
1436866 G
612 G
* * * * * * * * **
1436867 TCCAATATCGCTAGCCTTGAATTAGCATATTGGCACATT-ATCTTTAAGACCAATGTCGCGGGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
* * * * * ** *
1436931 TTGAATCAGCACATTGGCA-CTTT--CA-TCTTTAAGTCCAATATCGTTGGCTTTG-CATCAGCA
66 TTGCATCAGCATATTGGCATCTTTAACATTC-CTAAGCCCAATGTCACTGGCCTTGTC-TCAGCA
* * * * ** **
1436991 TATTGGCA-TCTTTAACATTCCTAAGCCCAATGTCGCTGGCTTTGTCTCAGCACATTGGCATTCT
129 CATTGGCATTC-TT--C-TT-C-AAGTCTAATGTCACTGGCCATGAATCAGCACATTGGCA----
* * * * * * * * *
1437055 TCTTCAAGTCTAATGTCACTAGCCATGAATCAGC--A----CA-TT-GTC-ATAAGCCCAATATC
184 ---T-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGACCAATGTC
* * * * * *
1437111 GTTGGCCTTGAATGAGCATATTGGCACTTCGTCTCTAAGACCAATGTTGCTGGCCTTGAATCAGT
245 GCTGGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATGTCGCTGGCCTTGAATCAGC
* * * * *
1437176 ACATAGGCATAAGCCCAATGTTGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCC
301 ACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACC
* * * * *
1437231 AATATCGCTGGTCTTGAATCAGCATATTGGCACCTT---CATCTTTAAGACCAATGTCGCTGGCC
366 AATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTAACCATCTTTAAGTCCAATGTCGCTGGCC
* * * *
1437293 TTGAATCAACATATTGGCACCTTAACCATTTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACA
431 TTGAATCAGCACATTGGCACCTT---CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA
* * * * * * * *
1437358 TTAGCACC-T--TCATCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCACATTGGCGCCTTCGT
493 TTGGCGCCTTCGTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTT
* * * * * * * **
1437420 CATCTCTAAGACCAATGTCGCTAGCCTGGAATCAACACATTGGCTTATTAATCTTTAAG
555 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT-ATCTTTAAG
* * * * * * * * * * **
1437479 TCCAATATCGCTGGCCTTGAATTAGCATATTGGCACATT-GTCTTTAAGACTAGTGTCACTGGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
* ** * * * * * ** *
1437543 TTGAATCAGCACGTTGGCACCTTCATC-TT--TAAGTCCAATATCGTTGGCCTTG-CATCAGCAT
66 TTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCTTGTC-TCAGCAC
* * * * ** *
1437604 ATTGGCA-TCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTTAGCACATTGGCATTATT
130 ATTGGCATTC-TT--C-TT-C-AAGTCTAATGTCACTGGCCATGAATCAGCACATTGGC---A--
* * * * * * *
1437668 CTTCAAGTCTAATGTCACTGGCCATGAATCAGCACATTGGCA---------TAA-ACCCAATATC
184 --T-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGA-CCAATGTC
* * * * *
1437723 ACTGGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGACCAATGTCGTTGGCTTTGAATCAGC
245 GCTGGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATGTCGCTGGCCTTGAATCAGC
* * * *
1437788 ACATTGGCATAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCC
301 ACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACC
* * * * * * * * *
1437843 AGTATCGCTGGCCTTGAATCAGTATATTGGCACCTT---CATTTTTAAGACTATTGTCGCTGGCC
366 AATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTAACCATCTTTAAGTCCAATGTCGCTGGCC
* * * * * *
1437905 TTGATTTC-GCACATCGGCACCTCAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGTAC
431 TTGA-ATCAGCACATTGGCACCT---TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAC
* * * * * * * *
1437969 ATTGGCACC-T--TCATCTTTAAGTCCAATATTGCTGGCCTTGAATTAGCACATTGGCGCCTTCG
492 ATTGGCGCCTTCGTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCT
* * * * * * * *
1438031 TCATCTCTAAGACCAATGTTGCTAGCCTTGAATCAGCACATTGGTATC-TTCACCTTTAAG
554 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATT-ATCTTTAAG
* * * * * * * *
1438091 TCCAATATCGCTAGCCTTGAATCAGCATATTGGCACATT-GTCTTTAAGACCAATGTCGTTGGCC
1 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
* *
1438155 TTGAATCAGCACATTGGCA
66 TTGCATCAGCATATTGGCA
1438174 CCTTCATCTT
Statistics
Matches: 3592, Mismatches: 518, Indels: 531
0.77 0.11 0.11
Matches are distributed among these distances:
599 29 0.01
600 72 0.02
601 4 0.00
602 181 0.05
603 44 0.01
604 51 0.01
605 2 0.00
606 3 0.00
607 2 0.00
608 9 0.00
609 40 0.01
610 91 0.03
611 266 0.07
612 1725 0.48
613 23 0.01
614 75 0.02
615 266 0.07
616 53 0.01
617 14 0.00
618 17 0.00
619 6 0.00
620 12 0.00
621 161 0.04
622 80 0.02
623 78 0.02
624 62 0.02
625 194 0.05
626 32 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (612 bp):
ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
TTGCATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCTTGTCTCAGCACA
TTGGCATTCTTCTTCAAGTCTAATGTCACTGGCCATGAATCAGCACATTGGCATAAGCCCAATAT
CGCTGGCCTTGAATCAGCATATTGGCACTTCGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAG
CACATTGGCATAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
ATCGGCACCTTAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTCGTCATCTCTAAGACCAA
TGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
TCAGCATATTGGCACATTATCTTTAAG
Found at i:1444220 original size:10 final size:9
Alignment explanation
Indices: 1444201--1444258 Score: 64
Period size: 10 Copynumber: 6.0 Consensus size: 9
1444191 TGCTAGCAAA
1444201 TTTCTTTTTT
1 TTTC-TTTTT
1444211 TTTCTCTTTT
1 TTTCT-TTTT
1444221 TTTGCTTTTT
1 TTT-CTTTTT
1444231 CTTTC-TTTT
1 -TTTCTTTTT
1444240 TTTCTTTTT
1 TTTCTTTTT
1444249 TTTGCTTTTT
1 TTT-CTTTTT
1444259 CCTCTCTACT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.09
9 12 0.28
10 22 0.51
11 5 0.12
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:1444230 original size:21 final size:19
Alignment explanation
Indices: 1444201--1444251 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
1444191 TGCTAGCAAA
1444201 TTTCTTTTTTTTTCTCTTTT
1 TTTCTTTTTTTTT-TCTTTT
*
1444221 TTTGC-TTTTTCTTTCTTTT
1 TTT-CTTTTTTTTTTCTTTT
1444240 TTTCTTTTTTTT
1 TTTCTTTTTTTT
1444252 GCTTTTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 15 0.56
20 10 0.37
21 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTCTTTTTTTTTTCTTTT
Found at i:1444237 original size:19 final size:17
Alignment explanation
Indices: 1444207--1444258 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 17
1444197 CAAATTTCTT
1444207 TTTTTTTCTCTTTTTTTGC
1 TTTTTTT-TCTTTTTTT-C
1444226 TTTTTCTTTCTTTTTTTC
1 TTTTT-TTTCTTTTTTTC
1444244 TTTTTTTTGCTTTTT
1 TTTTTTTT-CTTTTT
1444259 CCTCTCTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.10
18 12 0.39
19 14 0.45
20 2 0.06
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTTC
Found at i:1444239 original size:27 final size:28
Alignment explanation
Indices: 1444201--1444259 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
1444191 TGCTAGCAAA
*
1444201 TTTCTTTTTTTTTCTC-TTTTTTTGCTT
1 TTTCTTTCTTTTTCTCTTTTTTTTGCTT
*
1444228 TTTCTTTCTTTTTTTCTTTTTTTTGCTT
1 TTTCTTTCTTTTTCTCTTTTTTTTGCTT
1444256 TTTC
1 TTTC
1444260 CTCTCTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.81
Consensus pattern (28 bp):
TTTCTTTCTTTTTCTCTTTTTTTTGCTT
Found at i:1444258 original size:8 final size:8
Alignment explanation
Indices: 1444208--1444250 Score: 50
Period size: 8 Copynumber: 4.9 Consensus size: 8
1444198 AAATTTCTTT
1444208 TTTTTTCTC
1 TTTTTT-TC
1444217 TTTTTTTGC
1 TTTTTTT-C
1444226 TTTTTCTTTC
1 -TTTT-TTTC
1444236 TTTTTTTC
1 TTTTTTTC
1444244 TTTTTTT
1 TTTTTTT
1444251 TGCTTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 12 0.39
9 11 0.35
10 5 0.16
11 3 0.10
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1444271 original size:28 final size:28
Alignment explanation
Indices: 1444211--1444273 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
1444201 TTTCTTTTTT
* **
1444211 TTTCTCTTTTTTTGCTTTTTCTTTCTTTT
1 TTTCT-TTTTTTTGCTTTTTCTCTCTTAC
1444240 TTTCTTTTTTTTGCTTTTTC-CTCTCTAC
1 TTTCTTTTTTTTGCTTTTTCTCTCT-TAC
1444268 TTTCTT
1 TTTCTT
1444274 CCTATCAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 3 0.10
28 22 0.73
29 5 0.17
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTCTTTTTTTTGCTTTTTCTCTCTTAC
Found at i:1451218 original size:99 final size:99
Alignment explanation
Indices: 1451115--1451318 Score: 234
Period size: 100 Copynumber: 2.1 Consensus size: 99
1451105 AATCTTAACG
* * * * *
1451115 AATTT-AAAAACAGGGTTGGAGTATCTCTTCGAAAGAT-AGGGTTGGA-TATCCTCGTAGATAAC
1 AATTTGAAAAACAGGGTTAGAGTA--TC-TCAAAAGATCAGGGTTAGAGTATCCACATAGATAAC
* *
1451177 AAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATA
63 AAATAATTTTGACAAAAGAGAAGTTCAAATCTAGATA
* * * * *
1451214 AATTTTGAAGAGCAGGGTTAGAGTATCTCAAAAGGTCGGGGTTAGAGTATCCACATGGATAACAA
1 AA-TTTGAAAAACAGGGTTAGAGTATCTCAAAAGATCAGGGTTAGAGTATCCACATAGATAACAA
*
1451279 ATAATTTTGACAAATGAGAAGTTCAAATCTAGATA
65 ATAATTTTGACAAAAGAGAAGTTCAAATCTAGATA
1451314 AATTT
1 AATTT
1451319 TGAAGAACGA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
98 7 0.08
99 14 0.16
100 52 0.59
101 15 0.17
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.29
Consensus pattern (99 bp):
AATTTGAAAAACAGGGTTAGAGTATCTCAAAAGATCAGGGTTAGAGTATCCACATAGATAACAAA
TAATTTTGACAAAAGAGAAGTTCAAATCTAGATA
Found at i:1451238 original size:101 final size:100
Alignment explanation
Indices: 1451146--1451324 Score: 263
Period size: 100 Copynumber: 1.8 Consensus size: 100
1451136 TATCTCTTCG
* * * *
1451146 AAAGAT-AGGGTTGGA-TATCCTCGTAGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCT
1 AAAGATCAGGGTTAGAGTATCCACATAGATAACAAATAATTTTGACAAAAGAGAAGTTCAAATCT
*
1451209 TGATAAATTTTGAAGAGCAGGGTTAGAGTATCTCA
66 AGATAAATTTTGAAGAGCAGGGTTAGAGTATCTCA
* * * *
1451244 AAAGGTCGGGGTTAGAGTATCCACATGGATAACAAATAATTTTGACAAATGAGAAGTTCAAATCT
1 AAAGATCAGGGTTAGAGTATCCACATAGATAACAAATAATTTTGACAAAAGAGAAGTTCAAATCT
1451309 AGATAAATTTTGAAGA
66 AGATAAATTTTGAAGA
1451325 ACGAGTTGGA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
98 5 0.07
99 7 0.10
100 58 0.83
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (100 bp):
AAAGATCAGGGTTAGAGTATCCACATAGATAACAAATAATTTTGACAAAAGAGAAGTTCAAATCT
AGATAAATTTTGAAGAGCAGGGTTAGAGTATCTCA
Found at i:1453797 original size:51 final size:52
Alignment explanation
Indices: 1453673--1453808 Score: 143
Period size: 51 Copynumber: 2.6 Consensus size: 52
1453663 TGCCTACGTG
* * *
1453673 TATCGATAC-ATTGAAGAATGTATCGATACATTTGTGTCAAAAACCCAGAATG
1 TATCGATACAATT-AAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATA
** * * *
1453725 TATTTATACAATTAAGAATGTATTAATACATTTGGGT-TAAAACCCAGGATA
1 TATCGATACAATTAAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATA
* *
1453776 TATCGATACAATATAA-CATGTATCGATACATTT
1 TATCGATACAAT-TAAGAATGTATCAATACATTT
1453809 TCATTCCAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
51 35 0.51
52 31 0.45
53 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (52 bp):
TATCGATACAATTAAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATA
Found at i:1454351 original size:19 final size:20
Alignment explanation
Indices: 1454304--1454390 Score: 97
Period size: 19 Copynumber: 4.5 Consensus size: 20
1454294 ACCCTTGAAA
* *
1454304 GTATCGATACATATCCAAAT
1 GTATCGATACATATTCAATT
* *
1454324 GTATTGATACATGTTC-ATT
1 GTATCGATACATATTCAATT
*
1454343 GTATCGATACATGTTC-ATT
1 GTATCGATACATATTCAATT
* *
1454362 GTATCGATATATACTCAATT
1 GTATCGATACATATTCAATT
1454382 GTATCGATA
1 GTATCGATA
1454391 TATAAAAGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
19 33 0.57
20 25 0.43
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (20 bp):
GTATCGATACATATTCAATT
Found at i:1454461 original size:13 final size:13
Alignment explanation
Indices: 1454443--1454467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1454433 CATGGGATAA
1454443 TGTATCGATACAC
1 TGTATCGATACAC
1454456 TGTATCGATACA
1 TGTATCGATACA
1454468 TGAAGAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1454482 original size:33 final size:33
Alignment explanation
Indices: 1454423--1454487 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1454413 CTAAGTAAAA
* *
1454423 TGTATCGATACATGGGATAATGTATCGATACAC
1 TGTATCGATACATGAGATAATATATCGATACAC
*
1454456 TGTATCGATACATGAAGA-ATTATATCGATACA
1 TGTATCGATACATG-AGATAATATATCGATACA
1454488 TTATGCCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGAGATAATATATCGATACAC
Found at i:1461766 original size:15 final size:15
Alignment explanation
Indices: 1461748--1461782 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1461738 TGAGTCCGTT
1461748 TCATCATTATCATCA
1 TCATCATTATCATCA
*
1461763 TCATCATTATCTTCA
1 TCATCATTATCATCA
1461778 TCATC
1 TCATC
1461783 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:1463435 original size:33 final size:33
Alignment explanation
Indices: 1463373--1463436 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1463363 CGTTGGGCAT
*
1463373 AATGTATCGATACAATTCTTCATGCATCGATAC
1 AATGTATCGATACAATTCTCCATGCATCGATAC
* *
1463406 AATGTATCGATAC-ATTATCCCATGTATCGAT
1 AATGTATCGATACAATTCT-CCATGCATCGAT
1463437 GTTTATAGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACAATTCTCCATGCATCGATAC
Found at i:1463464 original size:83 final size:83
Alignment explanation
Indices: 1463356--1463519 Score: 292
Period size: 83 Copynumber: 2.0 Consensus size: 83
1463346 ATTAAAGTTG
* *
1463356 TTATGGCCGTTGGGCATAATGTATCGATACAATTCTTCATGCATCGATACAATGTATCGATACAT
1 TTATAGCCGTTGGGCATAATGTATCGATACAATTCTTCATGCATCGATACAATGTATCAATACAT
1463421 TATCCCATGTATCGATGT
66 TATCCCATGTATCGATGT
*
1463439 TTATAGCCGTTGGGCATAATGTATCGATACAATTCTTCATGTATCGATACAATGTATCAATACAT
1 TTATAGCCGTTGGGCATAATGTATCGATACAATTCTTCATGCATCGATACAATGTATCAATACAT
*
1463504 TGTCCCATGTATCGAT
66 TATCCCATGTATCGAT
1463520 ACATTTTACT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (83 bp):
TTATAGCCGTTGGGCATAATGTATCGATACAATTCTTCATGCATCGATACAATGTATCAATACAT
TATCCCATGTATCGATGT
Found at i:1463502 original size:33 final size:33
Alignment explanation
Indices: 1463456--1463522 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1463446 CGTTGGGCAT
* *
1463456 AATGTATCGATACAATTCT-TCATGTATCGATAC
1 AATGTATCAATAC-ATTCTCCCATGTATCGATAC
*
1463489 AATGTATCAATACATTGTCCCATGTATCGATAC
1 AATGTATCAATACATTCTCCCATGTATCGATAC
1463522 A
1 A
1463523 TTTTACTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCAATACATTCTCCCATGTATCGATAC
Found at i:1463596 original size:19 final size:19
Alignment explanation
Indices: 1463555--1463638 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
1463545 CACTTTCATA
**
1463555 TATCGATACAATTGAGTATG
1 TATCGATACAA-TGAACATG
1463575 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
1463594 TATCGATAC-----A-ATG
1 TATCGATACAATGAACATG
1463607 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
1463626 TATCGATACAATG
1 TATCGATACAATG
1463639 TATCGATACA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
18 1 0.02
19 31 0.55
20 11 0.20
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:1463609 original size:13 final size:13
Alignment explanation
Indices: 1463591--1463649 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
1463581 TACAATGAAC
1463591 ATGTATCGATACA
1 ATGTATCGATACA
1463604 ATGTATCGATAC-
1 ATGTATCGATACA
1463616 A---AT-GA-AC-
1 ATGTATCGATACA
1463623 ATGTATCGATACA
1 ATGTATCGATACA
1463636 ATGTATCGATACA
1 ATGTATCGATACA
1463649 A
1 A
1463650 AGCATGATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 26 0.65
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1463613 original size:32 final size:32
Alignment explanation
Indices: 1463572--1463668 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
1463562 ACAATTGAGT
1463572 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
1463604 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
* **
1463636 ATGTATCGATACAAAGCATGATGTATCGATACA
1 ATGTATCGATACAATG-AACATGTATCGATACA
1463669 TCTGGATATG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.77
33 14 0.23
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:1464578 original size:2 final size:2
Alignment explanation
Indices: 1464571--1464608 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1464561 AATATAAGTA
1464571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1464609 TGAAACTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1465277 original size:11 final size:11
Alignment explanation
Indices: 1465228--1465279 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
1465218 TGTTTATGAA
*
1465228 TCATTTAAAGC
1 TCATTTAAAAC
*
1465239 TCATTTAATAAA
1 TCATTTAA-AAC
*
1465251 TCGTTTAAAA-
1 TCATTTAAAAC
1465261 TCCATTTAAAAC
1 T-CATTTAAAAC
1465273 TCATTTA
1 TCATTTA
1465280 TTATTTGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 1 0.03
11 24 0.71
12 9 0.26
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (11 bp):
TCATTTAAAAC
Found at i:1465364 original size:39 final size:41
Alignment explanation
Indices: 1465288--1465364 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
1465278 TATTATTTGA
*
1465288 TTATAATATAAATATAATAATTTATGTATTATTTTATTCAT
1 TTATAATATAAATATAATAATTTATGTATTATGTTATTCAT
*
1465329 TTATAATATAATTAATAAT-ATTTATGT-TT-TGTTATT
1 TTATAATATAAAT-ATAATAATTTATGTATTATGTTATT
1465365 TTATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 6 0.18
40 2 0.06
41 20 0.61
42 5 0.15
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (41 bp):
TTATAATATAAATATAATAATTTATGTATTATGTTATTCAT
Found at i:1465999 original size:21 final size:22
Alignment explanation
Indices: 1465973--1466027 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
1465963 TTCTACAATT
1465973 TGTATCGATACAATAAGTG-AA
1 TGTATCGATACAATAAGTGAAA
***
1465994 TGTATCGATAC-ATGTTTGAAA
1 TGTATCGATACAATAAGTGAAA
1466015 TGTATCGATACAA
1 TGTATCGATACAA
1466028 GATCATGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (22 bp):
TGTATCGATACAATAAGTGAAA
Found at i:1466147 original size:52 final size:51
Alignment explanation
Indices: 1466068--1466184 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
1466058 TAAAAAATTG
* * * * *
1466068 TATCGATACA-GTTTTATTGTATCGATACATTCTAGGTTTTTGACCCAAATA
1 TATCGATACATTTTTTATTATATAGATACA-TCTAAGTTCTTGACCCAAATA
* *
1466119 TGTCGATACATTTTTTATTATATAGATACATCTAAGTTCTTGACCCATATA
1 TATCGATACATTTTTTATTATATAGATACATCTAAGTTCTTGACCCAAATA
1466170 TATCGATACATTTTT
1 TATCGATACATTTTT
1466185 CAATTTAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 41 0.72
52 16 0.28
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (51 bp):
TATCGATACATTTTTTATTATATAGATACATCTAAGTTCTTGACCCAAATA
Found at i:1468580 original size:79 final size:77
Alignment explanation
Indices: 1468397--1468751 Score: 233
Period size: 79 Copynumber: 4.5 Consensus size: 77
1468387 CTGCCATCCC
* ** **
1468397 TGAGGGGATACTCCAACCCTGTCTTTACTTCCAAAAACATTAAATTTTTCA--AAGGGATGCTCC
1 TGAGGGGATACTCCAACCCTGT-TTTACTTCC-AAAACATTAGATTTTTCATCTTGGGACACTCC
1468460 AACCCCACCATTTA
64 AACCCCACCATTTA
* *
1468474 TGAGAAGGATACTCCAACCCTATTTTTACTTCCAAAACATTAGATTTTTCATCTTGAGGACACTC
1 TGAG-GGGATACTCCAACCCT-GTTTTACTTCCAAAACATTAGATTTTTCATCTTG-GGACACTC
*
1468539 CAACCTCACCA-TTA
63 CAACCCCACCATTTA
* * *
1468553 TCGAGGGGATACTCCAACCCTGGTTTTATTTCTC-AAACA-CAGAATTTTTCATCTTTGGGGATA
1 T-GAGGGGATACTCCAACCCT-GTTTTACTTC-CAAAACATTAG-ATTTTTCATC-TT-GGGACA
* * * *
1468616 CCCCAAACCCATCATTTC
60 CTCCAACCCCACCATTTA
** * * *
1468634 TGAAAGGATGCAT-CAA-CCTCGTTTCTATTTTCTAAAACATT-GATTTTCTTCATCTTTGGGGA
1 TGAGGGGATAC-TCCAACCCT-GTTT-TA-CTTCCAAAACATTAGA-TTT-TTCATC-TT-GGGA
* *
1468696 TACTCCAACCCCACCATTTC
58 CACTCCAACCCCACCATTTA
* * *
1468716 TAAGGGGATACTCTAA-CCTCGTTTTTACTTCTAAAA
1 TGAGGGGATACTCCAACCCT-G-TTTTACTTCCAAAA
1468752 TACCAAAATT
Statistics
Matches: 224, Mismatches: 34, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
77 21 0.09
78 26 0.12
79 51 0.23
80 49 0.22
81 27 0.12
82 47 0.21
83 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (77 bp):
TGAGGGGATACTCCAACCCTGTTTTACTTCCAAAACATTAGATTTTTCATCTTGGGACACTCCAA
CCCCACCATTTA
Found at i:1468734 original size:82 final size:78
Alignment explanation
Indices: 1468450--1468751 Score: 252
Period size: 80 Copynumber: 3.8 Consensus size: 78
1468440 ATTTTTCAAA
* * * ** * *
1468450 GGGATGCTCCAACCCCACCATTTATGAGAAGGATACTCCAACCCTATTTTTACTTCCAAAACATT
1 GGGATACTCCAACCCCACCATTTCTAAG-AGGATACTCCAA-CCTCGTTTTATTTCTAAAACATT
1468515 AGATTTTTCATC-TTG
64 -GATTTTTCATCTTTG
* * * * * * * **
1468530 AGGACACTCCAACCTCACCATTATC-GAGGGGATACTCCAACCCTGGTTTTATTTCTCAAACACA
1 GGGATACTCCAACCCCACCATT-TCTAAGAGGATACTCCAA-CCTCGTTTTATTTCTAAAACATT
1468594 GAATTTTTCATCTTTG
64 G-ATTTTTCATCTTTG
* * * *
1468610 GGGATACCCCAAACCCATCATTTCTGAA-AGGATGCAT-CAACCTCGTTTCTATTTTCTAAAACA
1 GGGATACTCCAACCCCACCATTTCT-AAGAGGATAC-TCCAACCTCGTTT-TA-TTTCTAAAACA
1468673 TTGATTTTCTTCATCTTTG
62 TTGA-TTT-TTCATCTTTG
* * *
1468692 GGGATACTCCAACCCCACCATTTCTAAGGGGATACTCTAACCTCGTTTTTACTTCTAAAA
1 GGGATACTCCAACCCCACCATTTCTAAGAGGATACTCCAACCTCG-TTTTATTTCTAAAA
1468752 TACCAAAATT
Statistics
Matches: 176, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
78 1 0.01
79 47 0.27
80 51 0.29
81 28 0.16
82 46 0.26
83 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (78 bp):
GGGATACTCCAACCCCACCATTTCTAAGAGGATACTCCAACCTCGTTTTATTTCTAAAACATTGA
TTTTTCATCTTTG
Found at i:1468951 original size:22 final size:21
Alignment explanation
Indices: 1468921--1468966 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
1468911 CTAGATAAGT
1468921 ATAAATG-TTTTCAAGACTTAAA
1 ATAAATGTTTTTCAAG--TTAAA
*
1468943 ATAAGTGTTTTTCAAGTTAAA
1 ATAAATGTTTTTCAAGTTAAA
1468964 ATA
1 ATA
1468967 TATCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 6 0.27
23 8 0.36
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (21 bp):
ATAAATGTTTTTCAAGTTAAA
Found at i:1475347 original size:13 final size:13
Alignment explanation
Indices: 1475329--1475364 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1475319 GCATTCTCTA
*
1475329 TATCGATACATTG
1 TATCGATACAGTG
1475342 TATCGATACAGTG
1 TATCGATACAGTG
1475355 TATCGATACA
1 TATCGATACA
1475365 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:1476303 original size:13 final size:13
Alignment explanation
Indices: 1476285--1476311 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1476275 TACAATGAAC
1476285 ATGTATCGATACA
1 ATGTATCGATACA
1476298 ATGTATCGATACA
1 ATGTATCGATACA
1476311 A
1 A
1476312 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1477532 original size:37 final size:37
Alignment explanation
Indices: 1477436--1477675 Score: 175
Period size: 37 Copynumber: 6.5 Consensus size: 37
1477426 CGAAACCCTT
* * * **
1477436 GTGGCATAGGTTAG-AACAAAAACTACTATTCTCAGCCG
1 GTGGCAT-GGTTTGAAACAAAAACCACTATTCTTA-CTA
* * * *
1477474 GTGGCATGG-TTCAAATTAAAAACCA-TTTTTTTAACTA
1 GTGGCATGGTTTGAAA-CAAAAACCACTATTCTT-ACTA
* * * *
1477511 GTGGTATGGTTTGAAACAAAAACCACTATTTTTAATTG
1 GTGGCATGGTTTGAAACAAAAACCACTATTCTT-ACTA
* * *
1477549 GTGGCACGGTTT-AGAACAAAAACTACTATTCTTACCA
1 GTGGCATGGTTTGA-AACAAAAACCACTATTCTTACTA
* * *
1477586 GTGGCACGGGTTGAAACAAAAACCACTTTTCTTACTA
1 GTGGCATGGTTTGAAACAAAAACCACTATTCTTACTA
* * * *
1477623 GTGGCATGGGTAGGAAC-AAAATCACTATTCTTACTA
1 GTGGCATGGTTTGAAACAAAAACCACTATTCTTACTA
*
1477659 GTGGAATGGTTTGAAAC
1 GTGGCATGGTTTGAAAC
1477676 TAGTTTTTAA
Statistics
Matches: 160, Mismatches: 35, Indels: 16
0.76 0.17 0.08
Matches are distributed among these distances:
36 31 0.19
37 72 0.45
38 57 0.36
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (37 bp):
GTGGCATGGTTTGAAACAAAAACCACTATTCTTACTA
Found at i:1477673 original size:73 final size:75
Alignment explanation
Indices: 1477507--1477675 Score: 202
Period size: 75 Copynumber: 2.3 Consensus size: 75
1477497 CATTTTTTTA
* * * *
1477507 ACTAGTGGTATGGTTTGAAACAAAAACCACTATTTTTAATTGGTGGCACGGTTTAGAACAAAAAC
1 ACTAGTGGAATGGTTTGAAACAAAAACCACTATTTTTAACTAGTGGCACGGTGTAGAACAAAAAC
1477572 TACTATTCTT
66 TACTATTCTT
* * * * *
1477582 ACCAGTGGCACGGGTTGAAACAAAAACCACT-TTTCTT-ACTAGTGGCATGG-GTAGGAACAAAA
1 ACTAGTGGAATGGTTTGAAACAAAAACCACTATTT-TTAACTAGTGGCACGGTGTA-GAACAAAA
*
1477644 TC-ACTATTCTT
64 ACTACTATTCTT
1477655 ACTAGTGGAATGGTTTGAAAC
1 ACTAGTGGAATGGTTTGAAAC
1477676 TAGTTTTTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
73 28 0.35
74 22 0.28
75 29 0.37
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (75 bp):
ACTAGTGGAATGGTTTGAAACAAAAACCACTATTTTTAACTAGTGGCACGGTGTAGAACAAAAAC
TACTATTCTT
Found at i:1477855 original size:15 final size:15
Alignment explanation
Indices: 1477831--1477861 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1477821 CATAAATCAT
*
1477831 ATTATTTACAAAGCA
1 ATTATGTACAAAGCA
1477846 ATTATGTACAAAGCA
1 ATTATGTACAAAGCA
1477861 A
1 A
1477862 ATTTCAGATT
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:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (15 bp):
ATTATGTACAAAGCA
Found at i:1479919 original size:13 final size:13
Alignment explanation
Indices: 1479901--1479926 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1479891 CAATTTTTTG
1479901 TGTATCGATACAT
1 TGTATCGATACAT
1479914 TGTATCGATACAT
1 TGTATCGATACAT
1479927 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1480666 original size:21 final size:21
Alignment explanation
Indices: 1480625--1480668 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1480615 CTCTCCTTTA
* *
1480625 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1480646 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1480667 TC
1 TC
1480669 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1482492 original size:13 final size:13
Alignment explanation
Indices: 1482474--1482512 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1482464 ATAATCACCC
1482474 TGTATCGATACAA
1 TGTATCGATACAA
1482487 TGTATCGATACAA
1 TGTATCGATACAA
1482500 TGTATCGATACAA
1 TGTATCGATACAA
1482513 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1484603 original size:15 final size:15
Alignment explanation
Indices: 1484583--1484613 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1484573 ATTTCGTTTG
*
1484583 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1484598 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1484613 G
1 G
1484614 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1486446 original size:21 final size:21
Alignment explanation
Indices: 1486417--1486461 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1486407 AAGTTTTCAT
*
1486417 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1486437 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1486459 TTT
1 TTT
1486462 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1488706 original size:13 final size:13
Alignment explanation
Indices: 1488688--1488713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1488678 CAATTTTTTG
1488688 TGTATCGATACAT
1 TGTATCGATACAT
1488701 TGTATCGATACAT
1 TGTATCGATACAT
1488714 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1492733 original size:14 final size:14
Alignment explanation
Indices: 1492700--1492752 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
1492690 ACCATAAATG
1492700 TTAAGTTTTGAAATTTA
1 TTAA-TTTT-AAA-TTA
1492717 TTAATTTTAAATTA
1 TTAATTTTAAATTA
*
1492731 TTAAATTT-AATT-
1 TTAATTTTAAATTA
1492743 TTAATTTTAA
1 TTAATTTTAA
1492753 TAACATTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 7 0.21
13 5 0.15
14 10 0.30
15 3 0.09
16 4 0.12
17 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
TTAATTTTAAATTA
Found at i:1497819 original size:11 final size:11
Alignment explanation
Indices: 1497802--1497834 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1497792 TAGTAAATTA
1497802 AATAATTATTT
1 AATAATTATTT
*
1497813 GATAATTATTT
1 AATAATTATTT
1497824 AATAA-TATTT
1 AATAATTATTT
1497834 A
1 A
1497835 TATGATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (11 bp):
AATAATTATTT
Found at i:1498190 original size:2 final size:2
Alignment explanation
Indices: 1498183--1498211 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1498173 ATTTTAGATT
1498183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1498212 TTTAAAGGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1500394 original size:20 final size:21
Alignment explanation
Indices: 1500366--1500420 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1500356 AGGGTCCTAA
*
1500366 GTATTGATACATTA-GCCAAT
1 GTATCGATACATTATGCCAAT
* *
1500386 GTATCGATAAATTATGGCAAT
1 GTATCGATACATTATGCCAAT
1500407 GTATCGATACATTA
1 GTATCGATACATTA
1500421 CATTAGTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
GTATCGATACATTATGCCAAT
Found at i:1501821 original size:33 final size:32
Alignment explanation
Indices: 1501779--1501841 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1501769 CACCCAGATG
* *
1501779 TATCGATACATTATGCTTTGTATCAATACATTA
1 TATCGATACATGAT-CATTGTATCAATACATTA
*
1501812 TATCGATACATGATCATTGTATCGATACAT
1 TATCGATACATGATCATTGTATCAATACAT
1501842 GGACAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (32 bp):
TATCGATACATGATCATTGTATCAATACATTA
Found at i:1501834 original size:19 final size:18
Alignment explanation
Indices: 1501806--1501863 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1501796 TTGTATCAAT
*
1501806 ACATTATATCGATACATG
1 ACATTGTATCGATACATG
1501824 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
1501844 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1501863 A
1 A
1501864 AACTAGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.50
20 17 0.47
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:1501852 original size:20 final size:20
Alignment explanation
Indices: 1501807--1501862 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1501797 TGTATCAATA
*
1501807 CATTATATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
1501826 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
1501845 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
1501863 AAACTAGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:1505830 original size:13 final size:13
Alignment explanation
Indices: 1505812--1505839 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1505802 ATACAAAGAT
1505812 CAATGTATCGATA
1 CAATGTATCGATA
1505825 CAATGTATCGATA
1 CAATGTATCGATA
1505838 CA
1 CA
1505840 TTGAGTAATG
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1505831 original size:33 final size:33
Alignment explanation
Indices: 1505794--1505859 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1505784 AAATTCCCAG
1505794 ATGTATCAATACAAAGA-TCAATGTATCGATACA
1 ATGTATCAATACAAAGAGT-AATGTATCGATACA
* **
1505827 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCAATACAAAGAGTAATGTATCGATACA
1505860 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACAAAGAGTAATGTATCGATACA
Found at i:1505915 original size:19 final size:21
Alignment explanation
Indices: 1505891--1505943 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1505881 AGTGATACAT
1505891 TGTATCGATACAA-CACT-TA
1 TGTATCGATACAATCACTGTA
* *
1505910 TGTATCGATACAATTACTGTT
1 TGTATCGATACAATCACTGTA
1505931 TGTATCGATACAA
1 TGTATCGATACAA
1505944 ATTGTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (21 bp):
TGTATCGATACAATCACTGTA
Found at i:1510488 original size:13 final size:13
Alignment explanation
Indices: 1510470--1510527 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1510460 ATTTTTTTTG
1510470 TGTATCGATACAT
1 TGTATCGATACAT
1510483 TGTATCGATACATACTTT
1 TGTATCGATAC--A---T
1510501 GTGTATCGATACAT
1 -TGTATCGATACAT
1510515 TGTATCGATACAT
1 TGTATCGATACAT
1510528 ACTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1510507 original size:19 final size:19
Alignment explanation
Indices: 1510483--1510545 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1510473 ATCGATACAT
1510483 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
1510502 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
1510515 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
1510534 TGTATCGATACA
1 TGTATCGATACA
1510546 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:1510507 original size:32 final size:32
Alignment explanation
Indices: 1510466--1510545 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
1510456 TACAATTTTT
1510466 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
1510498 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
1510530 TTTGTGTATCGATACA
1 TTTGTGTATCGATACA
1510546 AGTTTGGCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTGTGTATCGATACATTGTATCGATACATAC
Found at i:1510617 original size:65 final size:65
Alignment explanation
Indices: 1510534--1510675 Score: 284
Period size: 65 Copynumber: 2.2 Consensus size: 65
1510524 ACATACTTTG
1510534 TGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCA
1 TGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCA
1510599 TGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCA
1 TGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCA
1510664 TGTATCGATACA
1 TGTATCGATACA
1510676 TTGCAACATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 77 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (65 bp):
TGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCA
Found at i:1513165 original size:13 final size:13
Alignment explanation
Indices: 1513149--1513184 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1513139 AATCCCCCTA
1513149 TATCGATACAGTG
1 TATCGATACAGTG
*
1513162 TATCGATACATTG
1 TATCGATACAGTG
1513175 TATCGATACA
1 TATCGATACA
1513185 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:1515243 original size:15 final size:15
Alignment explanation
Indices: 1515223--1515253 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1515213 ATTTCGTTTG
*
1515223 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1515238 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1515253 G
1 G
1515254 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1524130 original size:13 final size:13
Alignment explanation
Indices: 1524112--1524137 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1524102 CACACCTAGA
1524112 TGTATCGATACAT
1 TGTATCGATACAT
1524125 TGTATCGATACAT
1 TGTATCGATACAT
1524138 GATCATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1524149 original size:19 final size:18
Alignment explanation
Indices: 1524121--1524178 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1524111 ATGTATCGAT
1524121 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
*
1524139 ATCATTATATCGATACATGG
1 A-CATTGTATCGATACAT-G
1524159 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1524178 A
1 A
1524179 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 16 0.46
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:1524171 original size:20 final size:20
Alignment explanation
Indices: 1524122--1524177 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1524112 TGTATCGATA
1524122 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
*
1524141 CATTATATCGATACATGGA-
1 CATTGTATCGATACATGGAT
1524160 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
1524178 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:1524240 original size:13 final size:13
Alignment explanation
Indices: 1524222--1524252 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1524212 CGATACATGG
*
1524222 TACATTGTATCGA
1 TACATTATATCGA
1524235 TACATTATATCGA
1 TACATTATATCGA
1524248 TACAT
1 TACAT
1524253 GAGGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:1524251 original size:33 final size:33
Alignment explanation
Indices: 1524209--1524273 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1524199 CCACTGTTTG
*
1524209 TATCGATACATG-GTACATTGTATCGATACATTA
1 TATCGATACATGAGGA-ATTGTATCGATACATTA
1524242 TATCGATACATGAGGAATTGTATCGATACATT
1 TATCGATACATGAGGAATTGTATCGATACATT
1524274 GCTTGTAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TATCGATACATGAGGAATTGTATCGATACATTA
Found at i:1525420 original size:16 final size:15
Alignment explanation
Indices: 1525382--1525441 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 15
1525372 TAACTCGAAC
1525382 CTGAAATGACCCAAA
1 CTGAAATGACCCAAA
*
1525397 CTTAAAATGACCCAAA
1 C-TGAAATGACCCAAA
* **
1525413 GCTGAAATGAACTGAA
1 -CTGAAATGACCCAAA
1525429 CTCGAAATGACCC
1 CT-GAAATGACCC
1525442 CAACAATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 3 0.09
16 31 0.89
17 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.17
Consensus pattern (15 bp):
CTGAAATGACCCAAA
Found at i:1537397 original size:13 final size:13
Alignment explanation
Indices: 1537361--1537398 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1537351 CAGTATTCTT
* *
1537361 TGTATCGATACAT
1 TGTATCGATATAC
1537374 TGTATCGATATAC
1 TGTATCGATATAC
1537387 TGTATCGATATA
1 TGTATCGATATA
1537399 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATATAC
Found at i:1537866 original size:20 final size:21
Alignment explanation
Indices: 1537833--1537885 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1537823 CCCACTAGGC
*
1537833 AGCACCCACCAGGTCGCGACCG
1 AGCACCC-CCAGGTCGCAACCG
*
1537855 -GCACCCCCAGGTTGCAACCG
1 AGCACCCCCAGGTCGCAACCG
1537875 AGCAGCCCCCA
1 AGCA-CCCCCA
1537886 CAGTAGCCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
21 9 0.33
22 6 0.22
ACGTcount: A:0.23, C:0.47, G:0.25, T:0.06
Consensus pattern (21 bp):
AGCACCCCCAGGTCGCAACCG
Found at i:1539966 original size:13 final size:13
Alignment explanation
Indices: 1539948--1539972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1539938 ACACACAGTA
1539948 TGTATCGATACAT
1 TGTATCGATACAT
1539961 TGTATCGATACA
1 TGTATCGATACA
1539973 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1539969 original size:32 final size:33
Alignment explanation
Indices: 1539928--1539995 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1539918 GTAGCCAAAC
**
1539928 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
1539960 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
1539993 TTG
1 TTG
1539996 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:1541543 original size:13 final size:12
Alignment explanation
Indices: 1541525--1541567 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
1541515 ATTTTTCACA
1541525 TTTTTCATCATCT
1 TTTTTCATCAT-T
1541538 TTTTTCCATCATAT
1 TTTTT-CATCAT-T
*
1541552 GTTTTCATCATT
1 TTTTTCATCATT
1541564 TTTT
1 TTTT
1541568 CTTTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 4 0.15
13 11 0.42
14 11 0.42
ACGTcount: A:0.16, C:0.19, G:0.02, T:0.63
Consensus pattern (12 bp):
TTTTTCATCATT
Found at i:1543662 original size:21 final size:21
Alignment explanation
Indices: 1543633--1543675 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1543623 ATTTAGTCAA
*
1543633 TCATTTTAACCAACTATTCTT
1 TCATCTTAACCAACTATTCTT
1543654 TCATCTTAACCAACTATTCTT
1 TCATCTTAACCAACTATTCTT
1543675 T
1 T
1543676 TATTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (21 bp):
TCATCTTAACCAACTATTCTT
Found at i:1546492 original size:16 final size:15
Alignment explanation
Indices: 1546467--1546502 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1546457 AGTTCCAGTG
*
1546467 AAAAAGGAAAAAGAAA
1 AAAAAAGAAAAA-AAA
1546483 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
1546498 AAAAA
1 AAAAA
1546503 GGAGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAA
Found at i:1546494 original size:11 final size:10
Alignment explanation
Indices: 1546474--1546502 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1546464 GTGAAAAAGG
1546474 AAAAAGAAAA
1 AAAAAGAAAA
1546484 AAAAAGAAAA
1 AAAAAGAAAA
1546494 AAAAA-AAAA
1 AAAAAGAAAA
1546503 GGAGAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:1546497 original size:14 final size:15
Alignment explanation
Indices: 1546475--1546503 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1546465 TGAAAAAGGA
1546475 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAG
1546490 AAAA-AAAAAAAAAG
1 AAAAGAAAAAAAAAG
1546504 GAGAAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:1546508 original size:17 final size:17
Alignment explanation
Indices: 1546467--1546509 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
1546457 AGTTCCAGTG
*
1546467 AAAAAGGA-AAAAGAAA
1 AAAAAGGAGAAAAAAAA
1546483 AAAAA--AGAAAAAAAA
1 AAAAAGGAGAAAAAAAA
1546498 AAAAAGGAGAAA
1 AAAAAGGAGAAA
1546510 TCAAGTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 12 0.52
16 5 0.22
17 5 0.22
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGGAGAAAAAAAA
Found at i:1547285 original size:15 final size:16
Alignment explanation
Indices: 1547232--1547282 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
1547222 AATTTGAATG
*
1547232 TTAAA-TTAAAAAAAT
1 TTAAATTTAAAATAAT
*
1547247 TTAAATTTTAAATAAT
1 TTAAATTTAAAATAAT
*
1547263 TTAAATTTAAAATTAT
1 TTAAATTTAAAATAAT
1547279 TTAA
1 TTAA
1547283 TTTTTTTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:1548076 original size:21 final size:21
Alignment explanation
Indices: 1548032--1548093 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
1548022 TTTAAAAGTA
* **
1548032 ATAAATAATATTATTAACTATT
1 ATAAATAATA-TAATATTTATT
**
1548054 ATATTTAATATAATATTTATT
1 ATAAATAATATAATATTTATT
*
1548075 ATAAATAATATATTATTTA
1 ATAAATAATATAATATTTA
1548094 ATTTTAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAATAATATAATATTTATT
Found at i:1556995 original size:20 final size:20
Alignment explanation
Indices: 1556970--1557007 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1556960 TATCACTATT
1556970 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
1556990 TGTATCGATACATGGTAT
1 TGTATCGATACATGGTAT
1557008 CGATACATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:1557009 original size:13 final size:13
Alignment explanation
Indices: 1556991--1557016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1556981 ATGGTATAAT
1556991 GTATCGATACATG
1 GTATCGATACATG
1557004 GTATCGATACATG
1 GTATCGATACATG
1557017 ATGAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:1557013 original size:33 final size:33
Alignment explanation
Indices: 1556971--1557035 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1556961 ATCACTATTT
*
1556971 GTATCGATACATGGT-ATAATGTATCGATACATG
1 GTATCGATACATGATGA-AATGTATCGATACATG
1557004 GTATCGATACATGATGAAATGTATCGATACAT
1 GTATCGATACATGATGAAATGTATCGATACAT
1557036 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (33 bp):
GTATCGATACATGATGAAATGTATCGATACATG
Found at i:1558713 original size:46 final size:46
Alignment explanation
Indices: 1558663--1558756 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
1558653 AAATTAATCA
*
1558663 AGTTGCAAGTTGATATTCAAAGATTGGCTAATGAAAATGATGAATT
1 AGTTGCAAGTTGATATTAAAAGATTGGCTAATGAAAATGATGAATT
1558709 AGTTGCAAGTTGATATTAAAAGATTGGCTAATGAAAATGATGAATT
1 AGTTGCAAGTTGATATTAAAAGATTGGCTAATGAAAATGATGAATT
1558755 AG
1 AG
1558757 CTAAGAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.32
Consensus pattern (46 bp):
AGTTGCAAGTTGATATTAAAAGATTGGCTAATGAAAATGATGAATT
Found at i:1560588 original size:16 final size:16
Alignment explanation
Indices: 1560554--1560593 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
1560544 ACACAAGGAG
1560554 CAAAATGAA-AATGTT
1 CAAAATGAAGAATGTT
1560569 CAAAATGAAGAA-GCTT
1 CAAAATGAAGAATG-TT
1560585 CAAAA-GAAG
1 CAAAATGAAG
1560594 TTGAAGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (16 bp):
CAAAATGAAGAATGTT
Found at i:1562527 original size:18 final size:20
Alignment explanation
Indices: 1562504--1562545 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1562494 TTTGATATTT
1562504 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
*
1562522 ATTATGCTTGTTTGATATGA
1 ATTATGCTTGTGTGATATGA
1562542 ATTA
1 ATTA
1562546 GGGTCTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:1562543 original size:20 final size:19
Alignment explanation
Indices: 1562494--1562545 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1562484 TTGAATGAAT
**
1562494 TTTGATATTTATTATGTTG
1 TTTGATATGAATTATGTTG
*
1562513 TGTGA-ATGAATTATGCTTG
1 TTTGATATGAATTATG-TTG
1562532 TTTGATATGAATTA
1 TTTGATATGAATTA
1562546 GGGTCTATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 8 0.30
19 11 0.41
20 8 0.30
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.52
Consensus pattern (19 bp):
TTTGATATGAATTATGTTG
Found at i:1562960 original size:88 final size:88
Alignment explanation
Indices: 1562860--1563040 Score: 344
Period size: 88 Copynumber: 2.1 Consensus size: 88
1562850 TTTTTTATCA
*
1562860 AAATCATCAACAAAAACGATTTTAATTTCATCAAATTGATCTTTTAAAGTCATCCAAAAATCATT
1 AAATCATCAACAAAAACGATTTTAATTTCATCAAATTGATCTTTTAAAGTCATCAAAAAATCATT
1562925 TTCTGTCACTTTTTAAATCCTTC
66 TTCTGTCACTTTTTAAATCCTTC
*
1562948 AAATCATCAACAAAAACGATTTTAATTTCATTAAATTGATCTTTTAAAGTCATCAAAAAATCATT
1 AAATCATCAACAAAAACGATTTTAATTTCATCAAATTGATCTTTTAAAGTCATCAAAAAATCATT
1563013 TTCTGTCACTTTTTAAATCCTTC
66 TTCTGTCACTTTTTAAATCCTTC
1563036 AAATC
1 AAATC
1563041 TCTCCATTCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (88 bp):
AAATCATCAACAAAAACGATTTTAATTTCATCAAATTGATCTTTTAAAGTCATCAAAAAATCATT
TTCTGTCACTTTTTAAATCCTTC
Found at i:1563014 original size:44 final size:46
Alignment explanation
Indices: 1562863--1563007 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 46
1562853 TTTATCAAAA
*
1562863 TCATCAACAAAAACGATTTTAATTTCATCAAATTGATCTTTTAAAG
1 TCATCAACAAAAACGATTTTAATTTCATTAAATTGATCTTTTAAAG
* * * * * *
1562909 TCATC--CAAAAATC-ATTTT-CTGTCACTT--TTTAAATCCTTCAAA-
1 TCATCAACAAAAA-CGATTTTAATTTCA-TTAAATT-GATCTTTTAAAG
1562951 TCATCAACAAAAACGATTTTAATTTCATTAAATTGATCTTTTAAAG
1 TCATCAACAAAAACGATTTTAATTTCATTAAATTGATCTTTTAAAG
1562997 TCATCAA-AAAA
1 TCATCAACAAAA
1563008 TCATTTTCTG
Statistics
Matches: 76, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
42 7 0.09
43 13 0.17
44 25 0.33
45 17 0.22
46 14 0.18
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (46 bp):
TCATCAACAAAAACGATTTTAATTTCATTAAATTGATCTTTTAAAG
Found at i:1565135 original size:20 final size:19
Alignment explanation
Indices: 1565097--1565135 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1565087 AATATTGAAT
*
1565097 AAAACCGTAAAATGTTTTA
1 AAAACCGTAAAAAGTTTTA
*
1565116 AAAATCGTAAACAAGTTTTA
1 AAAACCGTAAA-AAGTTTTA
1565136 TTCACTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AAAACCGTAAAAAGTTTTA
Found at i:1565373 original size:20 final size:20
Alignment explanation
Indices: 1565350--1565400 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1565340 CACCCAGATG
1565350 TATCGATACATTATGCTTTA
1 TATCGATACATTATGCTTTA
* *
1565370 TATCGATATATTATGCTTTG
1 TATCGATACATTATGCTTTA
1565390 TATCGATACAT
1 TATCGATACAT
1565401 GTTCACTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (20 bp):
TATCGATACATTATGCTTTA
Found at i:1565432 original size:20 final size:20
Alignment explanation
Indices: 1565386--1565436 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1565376 TATATTATGC
**
1565386 TTTGTATCGATACATGTTCA
1 TTTGTATCGATACATGGACA
*
1565406 -CTGTATCGATACATGGACA
1 TTTGTATCGATACATGGACA
1565425 TTTGTATCGATA
1 TTTGTATCGATA
1565437 TATGAAACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
TTTGTATCGATACATGGACA
Found at i:1566792 original size:21 final size:21
Alignment explanation
Indices: 1566767--1566806 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1566757 TTTAGTAATT
1566767 TTAAAATT-ATTATGGAATTAA
1 TTAAAATTGATT-TGGAATTAA
*
1566788 TTAAAGTTGATTTGGAATT
1 TTAAAATTGATTTGGAATT
1566807 GGAGTTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (21 bp):
TTAAAATTGATTTGGAATTAA
Found at i:1568937 original size:55 final size:55
Alignment explanation
Indices: 1568840--1568945 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 55
1568830 GATTTGATGT
* *
1568840 CATGCTCGTTCTTAATGAGAACTCAAATTCTTAAATATAATCATTTTTAATATGA
1 CATGCTCGTTCTTAATGAGAACTCAAATTCTTAAATACAATCATTCTTAATATGA
* * *
1568895 CATGCTCGTTCTTAATGAGAATTCAAATTTTTAAGTACAATCATTCTTAAT
1 CATGCTCGTTCTTAATGAGAACTCAAATTCTTAAATACAATCATTCTTAAT
1568946 CTCTTTCTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (55 bp):
CATGCTCGTTCTTAATGAGAACTCAAATTCTTAAATACAATCATTCTTAATATGA
Found at i:1569511 original size:23 final size:23
Alignment explanation
Indices: 1569480--1569531 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1569470 TTTTCAAGTA
*
1569480 AAAGGAAAAAGAG-AAGAGAAAGG
1 AAAGAAAAAAGAGAAAGAG-AAGG
1569503 AAAGAAAAAAGAGAAAGAGAAGG
1 AAAGAAAAAAGAGAAAGAGAAGG
1569526 -AAGAAA
1 AAAGAAA
1569532 GGAAAAGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.22
23 16 0.59
24 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAGAGAAAGAGAAGG
Found at i:1569536 original size:18 final size:18
Alignment explanation
Indices: 1569480--1569519 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1569470 TTTTCAAGTA
*
1569480 AAAGGAAA-AAGAGAAGAG
1 AAAGGAAAGAA-AAAAGAG
1569498 AAAGGAAAGAAAAAAGAG
1 AAAGGAAAGAAAAAAGAG
1569516 AAAG
1 AAAG
1569520 AGAAGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGGAAAGAAAAAAGAG
Found at i:1569729 original size:21 final size:21
Alignment explanation
Indices: 1569704--1569746 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1569694 TTTTTTCAAG
*
1569704 ATTTATTTAAAAAATTTATTT
1 ATTTATTTAAAAAATATATTT
*
1569725 ATTTATTTAAATAATATATTT
1 ATTTATTTAAAAAATATATTT
1569746 A
1 A
1569747 AAAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATTTAAAAAATATATTT
Found at i:1570495 original size:22 final size:22
Alignment explanation
Indices: 1570442--1570495 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
1570432 ATAAATAAAT
* * *
1570442 AAAATTTAATTTAAAATTATTT
1 AAAATTTAATTAAAAACTATTA
*
1570464 AAACTATTAATTAAAAACTATTA
1 AAAAT-TTAATTAAAAACTATTA
1570487 AAAATTTAA
1 AAAATTTAA
1570496 AAACTCCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTTAATTAAAAACTATTA
Found at i:1570671 original size:17 final size:17
Alignment explanation
Indices: 1570650--1570691 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1570640 ATTAATCAAT
*
1570650 TATTAAAATTATTTTTAA
1 TATTAAAATT-TTTTAAA
*
1570668 -ATTATAATTTTTTAAA
1 TATTAAAATTTTTTAAA
1570684 TATTAAAA
1 TATTAAAA
1570692 ATAGATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAAATTTTTTAAA
Found at i:1570707 original size:17 final size:16
Alignment explanation
Indices: 1570687--1570722 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
1570677 TTTTAAATAT
1570687 TAAAAATAGATAAAAAA
1 TAAAAATA-ATAAAAAA
1570704 TAAAAAATAATAAAAAA
1 T-AAAAATAATAAAAAA
1570721 TA
1 TA
1570723 TCTGTAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 10 0.56
18 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
TAAAAATAATAAAAAA
Found at i:1571071 original size:22 final size:21
Alignment explanation
Indices: 1571012--1571071 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 21
1571002 CAAATCTGCC
* **
1571012 TCCTCTCCTCCTCTATTTCTTT
1 TCCTCTCCTCCTAT-TTTCGCT
*
1571034 TTCTCTCCTCC-A-TTTCGCT
1 TCCTCTCCTCCTATTTTCGCT
1571053 TCCTCTCCTCCTATCTTTC
1 TCCTCTCCTCCTAT-TTTC
1571072 CTCAATCGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 15 0.50
20 1 0.03
22 14 0.47
ACGTcount: A:0.05, C:0.43, G:0.02, T:0.50
Consensus pattern (21 bp):
TCCTCTCCTCCTATTTTCGCT
Found at i:1577638 original size:96 final size:98
Alignment explanation
Indices: 1577517--1577748 Score: 269
Period size: 96 Copynumber: 2.4 Consensus size: 98
1577507 AATGGGGTTG
* * *
1577517 GAGTATCCCCTC-AAAGGAATAGGGTTGGAGTATCCTCGACGA-TGACAAATTGAG-AAAAATAA
1 GAGTATCCCCTCGGAA-GAATAGGGTTGGAGTATCCTCGA-GATTGACAAATTAAGCAAAAACAA
* * *
1577579 GATTTAAATCTTGAGAAGTTT-AAAAACGGAG-TTA
64 -ACTTAAATCTTGACAAGTTTAAAAAAAGGAGATTA
* * * *
1577613 GAGTATCCCCTCGGAAGAATTGGGTTGGAGTATCCTCGATATTTACAATTTAAGCAAAAACAAAC
1 GAGTATCCCCTCGGAAGAATAGGGTTGGAGTATCCTCGAGATTGACAAATTAAGCAAAAACAAAC
*
1577678 TTAAATCTTGACAAGTTTAAAAAAAGGCGATTA
66 TTAAATCTTGACAAGTTTAAAAAAAGGAGATTA
* * *
1577711 GAGTATCCCTTTGGAAG-ATAGGGTTGGAGTATCTTCGA
1 GAGTATCCCCTCGGAAGAATAGGGTTGGAGTATCCTCGA
1577749 TGAATAAAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
95 1 0.01
96 61 0.53
97 36 0.31
98 18 0.16
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (98 bp):
GAGTATCCCCTCGGAAGAATAGGGTTGGAGTATCCTCGAGATTGACAAATTAAGCAAAAACAAAC
TTAAATCTTGACAAGTTTAAAAAAAGGAGATTA
Found at i:1577760 original size:97 final size:96
Alignment explanation
Indices: 1577501--1577760 Score: 262
Period size: 96 Copynumber: 2.7 Consensus size: 96
1577491 TAATTTTTGG
* * * *
1577501 TTAAAAAATGGGGTTGGAGTATCCCCTC-AAAGGAATAGGGTTGGAGTATCCTCGACG-ATGACA
1 TTAAAAAA-GGAGTTAGAGTATCCCCTCGGAA-GAATAGGGTTGGAGTATCCTCGATGAAT-A-A
* * * *
1577564 AA-TTGAGAAAAATAAGATTTAAATCTTGAGAAGT
62 AATTTAAGAAAAACAAGACTTAAATCTTGACAAGT
* * * *
1577598 TTAAAAACGGAGTTAGAGTATCCCCTCGGAAGAATTGGGTTGGAGTATCCTCGAT-ATTTACAAT
1 TTAAAAAAGGAGTTAGAGTATCCCCTCGGAAGAATAGGGTTGGAGTATCCTCGATGA-ATAAAAT
1577662 TTAAGCAAAAACAA-ACTTAAATCTTGACAAGT
65 TTAAG-AAAAACAAGACTTAAATCTTGACAAGT
* * * *
1577694 TTAAAAAAAGGCGATTAGAGTATCCCTTTGGAAG-ATAGGGTTGGAGTATCTTCGATGAATAAAA
1 TT-AAAAAAGGAG-TTAGAGTATCCCCTCGGAAGAATAGGGTTGGAGTATCCTCGATGAATAAAA
1577758 TTT
64 TTT
1577761 TGATATTTTT
Statistics
Matches: 135, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
95 2 0.01
96 62 0.46
97 52 0.39
98 19 0.14
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (96 bp):
TTAAAAAAGGAGTTAGAGTATCCCCTCGGAAGAATAGGGTTGGAGTATCCTCGATGAATAAAATT
TAAGAAAAACAAGACTTAAATCTTGACAAGT
Found at i:1578457 original size:33 final size:33
Alignment explanation
Indices: 1578402--1578466 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1578392 TACCACTGTT
*
1578402 TGTATCGATACATGGCACATTGTATTGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
1578435 TGTATCGATACATGATG-A-ATTGTATCGATACA
1 TGTATCGATACATG--GCACATTGTATCGATACA
1578467 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:1580073 original size:3 final size:3
Alignment explanation
Indices: 1580058--1580100 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
1580048 AACCATTAAA
*
1580058 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1580101 TTAACTCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:1586610 original size:66 final size:66
Alignment explanation
Indices: 1586475--1586626 Score: 213
Period size: 67 Copynumber: 2.3 Consensus size: 66
1586465 AAATAAATTT
* * *
1586475 TTATCAAGTGGGAG-AA--TTTTTTTTTTAAAACGATTATCAAGGGGGAGAAAATTTTTTTAAAC
1 TTATCAAG-GGGAGAAATTTTTTTTTTTTAAAACGATTATCAAAGGGGAGAAAATTCTTGTAAAC
1586537 GA
65 GA
*
1586539 TTATCAAGGGGAGAAATTTTTTTTTTTTAAAAACGATTATCAAAGGGGAGAAAA-TCTTGTAAAT
1 TTATCAAGGGGAGAAATTTTTTTTTTTT-AAAACGATTATCAAAGGGGAGAAAATTCTTGTAAAC
1586603 GA
65 GA
1586605 TTATCAAGGGAGAGAAATTTTT
1 TTATCAAGGG-GAGAAATTTTT
1586627 AAACGAGAGC
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
63 5 0.06
64 10 0.13
66 29 0.37
67 35 0.44
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (66 bp):
TTATCAAGGGGAGAAATTTTTTTTTTTTAAAACGATTATCAAAGGGGAGAAAATTCTTGTAAACG
A
Found at i:1590382 original size:52 final size:52
Alignment explanation
Indices: 1590304--1590453 Score: 239
Period size: 52 Copynumber: 2.9 Consensus size: 52
1590294 CAAAATATGA
1590304 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
1590356 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* **
1590408 AAATTTGCCCGCATGTATCGATACA-AATATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTTAT-AGTGTATCGATACAT
1590454 TTTTTTGGCA
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 3 0.03
52 87 0.97
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:1590499 original size:19 final size:20
Alignment explanation
Indices: 1590475--1590527 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1590465 TAGCTTAAAT
1590475 TGTATCGATACAAAAC-TTA
1 TGTATCGATACAAAACTTTA
*
1590494 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTTA
1590514 TGTATCGATACAAA
1 TGTATCGATACAAA
1590528 TCGTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAACTTTA
Found at i:1593827 original size:52 final size:52
Alignment explanation
Indices: 1593751--1593924 Score: 199
Period size: 52 Copynumber: 3.3 Consensus size: 52
1593741 TAACTAGATG
* * * * * * *
1593751 TATCGATACATTAAAGAATGTATCGATACATTTTGGTCAAAAACCTATAATG
1 TATCGATACAATAAAAAATATATCGATACATTTAGATCAAAAACCTAAAATA
* **
1593803 TATCGATACAATGAAAAATATATCGATACATTTAGAT-AAAAGACCTGGAATA
1 TATCGATACAATAAAAAATATATCGATACATTTAGATCAAAA-ACCTAAAATA
* * *
1593855 TATTGATACAATAAAAAATATATCGATATATCTAGATCAAAAA-CTCAAAATA
1 TATCGATACAATAAAAAATATATCGATACATTTAGATCAAAAACCT-AAAATA
1593907 TATCGATACAATAAAAAA
1 TATCGATACAATAAAAAA
1593925 ATGTATTGAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
51 6 0.06
52 93 0.90
53 4 0.04
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (52 bp):
TATCGATACAATAAAAAATATATCGATACATTTAGATCAAAAACCTAAAATA
Found at i:1594699 original size:52 final size:52
Alignment explanation
Indices: 1594628--1594881 Score: 222
Period size: 52 Copynumber: 4.9 Consensus size: 52
1594618 TTGAAGGCCT
* * * * *
1594628 ACGACACTAGACTTGAAGATGATAAGGGTGCTAATGTGTTGATTCAAAGCCA
1 ACGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAAGCCA
* * * * *
1594680 ATGACATTGGACTTAAAGATGATAAAGGTGCCAATGTACTGATTCAAGGCTA
1 ACGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAAGCCA
* * * *
1594732 GCGACATTAGACTTAAAGATGGTAAAGGTGCCAATGTGCTGATTCAAGGTCA
1 ACGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAAGCCA
* * * * * * ** * * * *
1594784 GCAACAATGGACTTAATGATAATAAAAATG-CAGTGTGCTAATTCAAGGTCA
1 ACGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAAGCCA
* * ** *
1594835 GCGACATTAGACTTAAAGATTATAAAGGTGTTAATGTACTGATTCAA
1 ACGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAA
1594882 GACTAGTGAC
Statistics
Matches: 163, Mismatches: 38, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
51 42 0.26
52 121 0.74
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (52 bp):
ACGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAAGCCA
Found at i:1594861 original size:103 final size:104
Alignment explanation
Indices: 1594621--1594882 Score: 287
Period size: 104 Copynumber: 2.5 Consensus size: 104
1594611 ATATAGATTG
* * * * * **
1594621 AAGGCCTA-CGACACTAGACTTGAAGATGATAAGGGTGCTAATGTGTTGATTCAAAGCCAATGAC
1 AAGG-CTAGCGACATTAGACTTAAAGATGATAAAGGTGCTAATGTGCTGATTCAAGGCCAACAAC
* * ** *
1594685 ATTGGACTTAAAGATGATAAAGGTGCCAATGTACTGATTC
65 AATGGACTTAAAGATAATAAAAATGCCAATGTACTAATTC
* * * *
1594725 AAGGCTAGCGACATTAGACTTAAAGATGGTAAAGGTGCCAATGTGCTGATTCAAGGTCAGCAACA
1 AAGGCTAGCGACATTAGACTTAAAGATGATAAAGGTGCTAATGTGCTGATTCAAGGCCAACAACA
* * *
1594790 ATGGACTTAATGATAATAAAAATG-CAGTGTGCTAATTC
66 ATGGACTTAAAGATAATAAAAATGCCAATGTACTAATTC
* * *
1594828 AAGG-TCAGCGACATTAGACTTAAAGATTATAAAGGTGTTAATGTACTGATTCAAG
1 AAGGCT-AGCGACATTAGACTTAAAGATGATAAAGGTGCTAATGTGCTGATTCAAG
1594883 ACTAGTGACA
Statistics
Matches: 132, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
102 1 0.01
103 62 0.47
104 69 0.52
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (104 bp):
AAGGCTAGCGACATTAGACTTAAAGATGATAAAGGTGCTAATGTGCTGATTCAAGGCCAACAACA
ATGGACTTAAAGATAATAAAAATGCCAATGTACTAATTC
Found at i:1595126 original size:138 final size:138
Alignment explanation
Indices: 1594926--1595231 Score: 373
Period size: 138 Copynumber: 2.2 Consensus size: 138
1594916 TGCCACTGTA
* * * *
1594926 TTGATTCAAGGTCAGCGACATTGGGCTTTAGTGAAGAAGATTTAATGAGTGTCATTTTACATAGG
1 TTGATTCAAGGCCAGCGACATTGGGCTTTAGTGAAAAAGATTTAATAAGTGTCATTTTACATAAG
* * * * * ** * * *
1594991 TAGGGTGCCAAT-TTACTAATTCAAGGCTAGTGACATTGGGCTTTGGAAAGAAGGTTTGACAAGT
66 CAAGGCGCCAATGTGA-TAATTCAAGGCCAACGACATTAGGCTTTGGAAAAAAAGTTTGACAAGT
*
1595055 GCTAATGTG
130 GCTAATATG
* * *
1595064 TTTATTCAAGGCCAGCGACATTGGGCTTTAGTGAAAAAGATTTGATAAGTG-CTTTTTAACATAA
1 TTGATTCAAGGCCAGCGACATTGGGCTTTAGTGAAAAAGATTTAATAAGTGTCATTTT-ACATAA
* * *
1595128 GCAAGGCGTCAATGTGATGATTCAAGGCCAACGACATTAGGCTTTGGAAAAAAAGTTTGATAAGT
65 GCAAGGCGCCAATGTGATAATTCAAGGCCAACGACATTAGGCTTTGGAAAAAAAGTTTGACAAGT
1595193 GCTAATATG
130 GCTAATATG
**
1595202 TTGATTCAAGGCCAATGACATTGGGCTTTA
1 TTGATTCAAGGCCAGCGACATTGGGCTTTA
1595232 AAAAGATATG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
137 5 0.04
138 135 0.95
139 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (138 bp):
TTGATTCAAGGCCAGCGACATTGGGCTTTAGTGAAAAAGATTTAATAAGTGTCATTTTACATAAG
CAAGGCGCCAATGTGATAATTCAAGGCCAACGACATTAGGCTTTGGAAAAAAAGTTTGACAAGTG
CTAATATG
Found at i:1595274 original size:60 final size:57
Alignment explanation
Indices: 1595137--1595289 Score: 182
Period size: 60 Copynumber: 2.6 Consensus size: 57
1595127 AGCAAGGCGT
*
1595137 CAATGTGATGATTCAAGGCCAACGACATTAGGCTTTGGAAAAAAAGTTTGATAAGTGC
1 CAATGTGATGATTCAAGGCCAACGACATTAGGCTTT-GAAAAAAAGTTTGACAAGTGC
* * * * *
1595195 TAATATGTTGATTCAAGGCCAATGACATTGGGCTTT-AAAAAGATATGGTTTGACAAGTGC
1 CAATGTGATGATTCAAGGCCAACGACATTAGGCTTTGAAAAA-A-A--GTTTGACAAGTGC
* *
1595255 CAATGTGATAATTCAAGGCCAACGATATTAGGCTT
1 CAATGTGATGATTCAAGGCCAACGACATTAGGCTT
1595290 AGAAGAAGAT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
56 5 0.06
57 1 0.01
58 32 0.41
60 40 0.51
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (57 bp):
CAATGTGATGATTCAAGGCCAACGACATTAGGCTTTGAAAAAAAGTTTGACAAGTGC
Found at i:1595412 original size:64 final size:65
Alignment explanation
Indices: 1595344--1595500 Score: 217
Period size: 64 Copynumber: 2.4 Consensus size: 65
1595334 CACCAACTCA
* ** *
1595344 TGTGGGCTTTGAAAAGGGTTGTCACCAACTTGTGTGGGCTTTGAAAGGGATTGAC-ACCGACTTC
1 TGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAAAAGAATGACTACCGACTTC
* * * * *
1595408 TGTGGGCTTTGAAAATGGTTGCCACCAACTTGTGTGGGCTTTGAAAAAGAATGGCTAGCGATTTG
1 TGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAAAAGAATGACTACCGACTTC
1595473 TGTGGGCTTTTGAAAAGGGTTGCCACCA
1 TGTGGGC-TTTGAAAAGGGTTGCCACCA
1595501 GCTCATGTGG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 49 0.60
65 13 0.16
66 19 0.23
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (65 bp):
TGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAAAAGAATGACTACCGACTTC
Found at i:1595510 original size:33 final size:32
Alignment explanation
Indices: 1595330--1595510 Score: 159
Period size: 32 Copynumber: 5.6 Consensus size: 32
1595320 TTAGAGAAGC
*
1595330 TTGCCACCAACTCATGTGGGCTTTGAAAAGGG
1 TTGCCACCAACTCGTGTGGGCTTTGAAAAGGG
* *
1595362 TTGTCACCAACTTGTGTGGGCTTTG-AAAGGG
1 TTGCCACCAACTCGTGTGGGCTTTGAAAAGGG
* * *
1595393 ATTGACACCGACTTC-TGTGGGCTTTGAAAATGG
1 -TTGCCACCAAC-TCGTGTGGGCTTTGAAAAGGG
* **
1595426 TTGCCACCAACTTGTGTGGGCTTTGAAAAAGAA
1 TTGCCACCAACTCGTGTGGGCTTTG-AAAAGGG
* * * * * *
1595459 TGGCTAGCGATTTGTGTGGGCTTTTGAAAAGGG
1 TTGCCACCAACTCGTGTGGGC-TTTGAAAAGGG
* *
1595492 TTGCCACCAGCTCATGTGG
1 TTGCCACCAACTCGTGTGG
1595511 ATTTTGAGAA
Statistics
Matches: 115, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
31 7 0.06
32 62 0.54
33 42 0.37
34 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (32 bp):
TTGCCACCAACTCGTGTGGGCTTTGAAAAGGG
Found at i:1597169 original size:13 final size:13
Alignment explanation
Indices: 1597151--1597190 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
1597141 TGACTATTCA
*
1597151 TGTATCGATACAT
1 TGTATCGATACAC
1597164 TGTATCGATACAC
1 TGTATCGATACAC
1597177 TGTATCGATACAC
1 TGTATCGATACAC
1597190 T
1 T
1597191 ATAAATAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1597573 original size:14 final size:14
Alignment explanation
Indices: 1597554--1597581 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1597544 AACACCAACC
1597554 TTGTAGAGGTATAT
1 TTGTAGAGGTATAT
1597568 TTGTAGAGGTATAT
1 TTGTAGAGGTATAT
1597582 CTAGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
TTGTAGAGGTATAT
Found at i:1600893 original size:13 final size:13
Alignment explanation
Indices: 1600875--1600899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1600865 TTTTCCAGAT
1600875 TGTATCGATACAA
1 TGTATCGATACAA
1600888 TGTATCGATACA
1 TGTATCGATACA
1600900 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1601805 original size:46 final size:46
Alignment explanation
Indices: 1601748--1601850 Score: 179
Period size: 46 Copynumber: 2.2 Consensus size: 46
1601738 TTATAACAAA
* *
1601748 AAGGGGAAGAGATTATTGTTTATTGGTTTAAGGGTGACAACGTATT
1 AAGGGGGAGAGATTATTATTTATTGGTTTAAGGGTGACAACGTATT
*
1601794 AAGGGGGAGAGATTATTATTTATTGGTTTAAGGGTGACAATGTATT
1 AAGGGGGAGAGATTATTATTTATTGGTTTAAGGGTGACAACGTATT
1601840 AAGGGGGAGAG
1 AAGGGGGAGAG
1601851 TTTGTATAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.32
Consensus pattern (46 bp):
AAGGGGGAGAGATTATTATTTATTGGTTTAAGGGTGACAACGTATT
Found at i:1611721 original size:13 final size:13
Alignment explanation
Indices: 1611703--1611727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1611693 ACACAAAGTA
1611703 TGTATCGATACAT
1 TGTATCGATACAT
1611716 TGTATCGATACA
1 TGTATCGATACA
1611728 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1611724 original size:32 final size:33
Alignment explanation
Indices: 1611683--1611750 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1611673 ATAGCCAAAC
*
1611683 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
1611715 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1611748 TTG
1 TTG
1611751 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:1613359 original size:21 final size:21
Alignment explanation
Indices: 1613333--1613374 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1613323 AATCAACCAT
* *
1613333 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
1613354 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
1613375 AGAAATAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:1616985 original size:13 final size:13
Alignment explanation
Indices: 1616967--1616991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1616957 ACACAAAGTA
1616967 TGTATCGATACAT
1 TGTATCGATACAT
1616980 TGTATCGATACA
1 TGTATCGATACA
1616992 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1616988 original size:32 final size:33
Alignment explanation
Indices: 1616947--1617014 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1616937 ATAGCCAAAC
*
1616947 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
1616979 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1617012 TTG
1 TTG
1617015 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:1617087 original size:149 final size:149
Alignment explanation
Indices: 1616903--1617214 Score: 624
Period size: 149 Copynumber: 2.1 Consensus size: 149
1616893 CATGAAAAAG
1616903 ATGTATCGATACATGTCATTGGGATTTCTTGGCAATAGCCAAACTTGTATCGATACACAAAGTAT
1 ATGTATCGATACATGTCATTGGGATTTCTTGGCAATAGCCAAACTTGTATCGATACACAAAGTAT
1616968 GTATCGATACATTGTATCGATACACCATAAAATGTATCGATACATTGGCTTGTAACGGCTAGTAA
66 GTATCGATACATTGTATCGATACACCATAAAATGTATCGATACATTGGCTTGTAACGGCTAGTAA
1617033 CGACTATATTTTCAAATGC
131 CGACTATATTTTCAAATGC
1617052 ATGTATCGATACATGTCATTGGGATTTCTTGGCAATAGCCAAACTTGTATCGATACACAAAGTAT
1 ATGTATCGATACATGTCATTGGGATTTCTTGGCAATAGCCAAACTTGTATCGATACACAAAGTAT
1617117 GTATCGATACATTGTATCGATACACCATAAAATGTATCGATACATTGGCTTGTAACGGCTAGTAA
66 GTATCGATACATTGTATCGATACACCATAAAATGTATCGATACATTGGCTTGTAACGGCTAGTAA
1617182 CGACTATATTTTCAAATGC
131 CGACTATATTTTCAAATGC
1617201 ATGTATCGATACAT
1 ATGTATCGATACAT
1617215 CAAAAATTGT
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 163 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (149 bp):
ATGTATCGATACATGTCATTGGGATTTCTTGGCAATAGCCAAACTTGTATCGATACACAAAGTAT
GTATCGATACATTGTATCGATACACCATAAAATGTATCGATACATTGGCTTGTAACGGCTAGTAA
CGACTATATTTTCAAATGC
Done.