Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 13 of 35
Found at i:1943117 original size:50 final size:51
Alignment explanation
Indices: 1943063--1943189 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 51
1943053 GTCTTTGAGG
* *
1943063 GGATACTCCAACACCACTTTTATTTCCAAAATATCGATTTTCCA-CATC-AA
1 GGATACTCCAAC-CCACTTTTATTTCCAAAACACCGATTTTCCACCATCGAA
* *
1943113 GGATACTCCAACCCCAATTTTATTTCTAAAACACCGATTTTCCACCATCGAA
1 GGATACTCCAA-CCCACTTTTATTTCCAAAACACCGATTTTCCACCATCGAA
*
1943165 -GATACTCCAACCTTACTTTTATTTC
1 GGATACTCCAACC-CACTTTTATTTC
1943190 TTCGATGGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
50 40 0.60
51 25 0.37
52 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCACTTTTATTTCCAAAACACCGATTTTCCACCATCGAA
Found at i:1943339 original size:79 final size:79
Alignment explanation
Indices: 1943192--1943612 Score: 417
Period size: 79 Copynumber: 5.4 Consensus size: 79
1943182 TTTATTTCTT
* * * * * ** *
1943192 CGATGGTGAAAAGTCGATATTTT-GAAAACAAAATCAGGGTCGGAGTATCCCCTC-AAAACTAAC
1 CGATGGTGAAAAATTGATGTTTTAG-AAATAAAATCGGGGTTAGAGTATCCCCTCGAAAA-TAAT
* *
1943255 AGGGTTGAAGTATCTC
64 GGGGTTGGAGTATCTC
* * *
1943271 CGATGGTGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAATACCCCCTCGAAAATAATGG
1 CGATGGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAATGG
1943336 GGTTGGAGTATC-C
66 GGTTGGAGTATCTC
* * ** *
1943349 CTAATGGT-AAAAATTGATGTTTTAGACATAAAATCGGGGTTAGAGTATCCCCTTAAAAATAACG
1 C-GATGGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAATG
*
1943413 GGGCTGGAGTATCT-
65 GGGTTGGAGTATCTC
* * * * * * *
1943427 CGATGGCG-AAAA-TCAGTGTCTTAGAAATAAAA-CAGAGGTTGGAGTATCCCCTTGAAAATAAG
1 CGATGGTGAAAAATTGA-TGTTTTAGAAATAAAATC-GGGGTTAGAGTATCCCCTCGAAAATAAT
*
1943489 GGGGTTGGAGTATCCC
64 GGGGTTGGAGTATCTC
* ** * * *
1943505 CGATGGTGAAAAATTGGTGTTTTAGAAATAAAATTAGGGTTGGAGTTTCCCCTCGAAAATAATGA
1 CGATGGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAATGG
* *
1943570 GGTTAGAGTGTCTC
66 GGTTGGAGTATCTC
*
1943584 CGATTGTGAAAAATTGATGTTTTAGAAAT
1 CGATGGTGAAAAATTGATGTTTTAGAAAT
1943613 GTCGTGACGT
Statistics
Matches: 282, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
76 3 0.01
77 59 0.21
78 71 0.25
79 143 0.51
80 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
CGATGGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAATGG
GGTTGGAGTATCTC
Found at i:1947947 original size:28 final size:28
Alignment explanation
Indices: 1947805--1950451 Score: 2627
Period size: 28 Copynumber: 93.1 Consensus size: 28
1947795 TTTTTTAAAA
* *
1947805 AAAAAGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGGTGCCACTGAC-T-TGTGGGCTTTG
*
1947835 AAAAGAGTTGCCACCGACTTGTGTAGGCTTTG
1 AAAAG-G-TGCCACTGACTTGTG--GGCTTTG
*
1947867 AAAAGAGCTACCACT-AGCTTGTGGGCTTTG
1 AAAAG-G-TGCCACTGA-CTTGTGGGCTTTG
* *
1947897 AAAAGAGTGTCACTGACTTGTGGGTTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1947926 AAAAGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
1947954 AAAAGGTGCCACTAACTTATGGGCATTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** *
1947982 AAAAGAGTGCCACCAACTTGTGAGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1948011 AAATA-GTGCTACTGACTTGTGGGCTTTG
1 AAA-AGGTGCCACTGACTTGTGGGCTTTG
* ** *
1948039 --AAGGATGCCACTAACTTGTACGCATT-
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
1948065 AAAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* *
1948094 AAAAGGTGCCACTTACGTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** * *
1948122 -AAAGGAAACCAATAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
1948150 AAAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* * * * *
1948179 AAAGGGTGCCACTAACTTATGGGCTCTA
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
1948207 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1948236 AAACGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
1948266 -AAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1948294 AAAATAGTGCCACTGACTTGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* *
1948323 -AAAGGATGCCATTGACTTGGGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
1948351 -AAAGGATGCCACTGACTTGTAGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
** * *
1948379 AAAAGAGTGTTACTAACTTGTGGGATTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1948408 AAAAGATGCCACTGACTTAG-GGGCTTTG
1 AAAAGGTGCCACTGACTT-GTGGGCTTTG
* *
1948436 -AAAGGATGCCACTAACTTGTGAGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* * *
1948464 AAAAGAGTGTCACTAAATTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1948493 AAAGGGTGCTACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
1948521 AAAGGGTGCCATTGACTTGTGAGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** * * *
1948549 AAAAGGGTAACTCTAACATGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
1948578 -AAAGGTTGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* * * *
1948606 -AAAGGATGCCTCTAACTTATGGGCATT-
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
1948633 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1948662 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * * * *
1948690 AAAGGGTGCTACTAACTTATAGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1948718 AAAAGAGTGCCACTAACTTGTGAGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1948747 AGAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1948775 AAAAGAGCGCCACCGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1948804 -AAAGGATGCCACTGACTTGTGCGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
1948832 AAAGGGTGCCACTGACTTGTGCGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1948860 AAAGGGTGCCACTTACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** * * *
1948888 AAAAGAAGCCACTAACTTATAGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1948916 AAAAGGGTGCCACTGACTTGTGCGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* * *
1948945 AAAGGGTGCCACAGACCTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1948973 GAAAGAGTGCCACTGACTTATGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * * *
1949002 AAAGGGTGCCACTAACCTGCGCGGGCTTTG
1 AAAAGGTGCCACTGA-CT-TGTGGGCTTTG
* * *
1949032 AAAGGGTGCCACTAACTTGTATGG-TTTG
1 AAAAGGTGCCACTGACTTGT-GGGCTTTG
* *
1949060 AAAAGAGTGCCACTAACTGGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1949089 -AAAGGATGCCATTGACTTAG-GCGCTTTG
1 AAAAGG-TGCCACTGACTT-GTGGGCTTTG
* * *
1949117 -AAAGGATGCCACTAACTTCTAGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
1949145 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * **
1949174 AAAGGGTGTCGTTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1949202 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1949230 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
1949258 AAAGGGTTCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** *
1949286 AAGGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1949314 AAAAGGGTGCCACTGACTTGAGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* * * *
1949343 AAAGGGTGCTAGTGACTTGTGGGCATT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1949370 AAAAGGGTGCCACTGACTTGCGTGGGCTCTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
*
1949401 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1949429 AAAAGAGTGCCACCGACTTGGGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1949458 AAAAGAGTGCCACTGATTTGTGGACTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * **
1949487 AAAGGGTGTCGTTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1949515 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1949544 -AAAGGATGCCATTGACTTATGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* * *
1949572 GAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
1949600 AAAGGGTGCCATTGACTTGCGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
1949628 -AGAGGATGCCACTAACTTGTGGGCTTTA
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
1949656 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * *
1949685 AAATGGGGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1949713 AAAAGAGTGCCATTAACTTGTGGGCTTT-
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
***
1949741 AAAAGGGTGCCACTGACTTGCATGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* * *
1949770 CAAAGAGTGTCACTGACTTATGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1949799 -AAAGGATGCCACT-AGCTTGCGTGGGCTTTG
1 AAAAGG-TGCCACTGA-CTT--GTGGGCTTTG
* * * *
1949829 AAAGGGTGTCACTAACTTGTTGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1949857 -AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
1949885 -AAAGGATGCCTCTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
1949913 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1949942 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1949970 AAAAGAGTGCCACTGACTTATGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1949999 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
1950027 AAAGGGTGCCACTGAATTGT--G--TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1950051 AAAGGGTGCCGCTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1950079 -AAAGTATGCCACTAACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1950107 AAAAAAGTGCCACTGACTTGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1950136 AAAGGGTGCCACTGACTTGCGTGGGCTATG
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
* * * *
1950166 AAAAGATACCACTGACTTATGGGTTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1950194 -AAAGGATGCCACTGGCTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
1950222 AAAAGAGTGCCACTGACTTATGGG-TGTTG
1 AAAAG-GTGCCACTGACTTGTGGGCT-TTG
*
1950251 AAAGGGTGCCACT-AGCTTGTGGGCTTTG
1 AAAAGGTGCCACTGA-CTTGTGGGCTTTG
* * *
1950279 AAAGGGTGCCACTGATTTGTGGGTTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1950307 -AAAGGATACCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
1950335 -AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
1950363 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1950391 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
1950419 AAAACAGTGTCACTAACTTGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
1950448 AAAA
1 AAAA
1950452 TATGAACGTT
Statistics
Matches: 2195, Mismatches: 322, Indels: 201
0.81 0.12 0.07
Matches are distributed among these distances:
24 21 0.01
25 1 0.00
26 4 0.00
27 57 0.03
28 1280 0.58
29 645 0.29
30 143 0.07
31 11 0.01
32 33 0.02
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:1947954 original size:57 final size:57
Alignment explanation
Indices: 1947805--1950451 Score: 2674
Period size: 57 Copynumber: 46.6 Consensus size: 57
1947795 TTTTTTAAAA
* *
1947805 AAAAAGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTAGGCTTTG
1 AAAAGGTGCCACTAAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTG--GGCTTTG
* * * *
1947867 AAAAGAGCTACCACTAGCTTGTGGGCTTTGAAAAGAGTGTCACTGACTTGTGGGTTTTG
1 AAAAG-G-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
1947926 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTAACTTATGGGCATTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
1947982 AAAAGAGTGCCACCAACTTGTGAGCTTTG-AAATAGTGCTACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
** * * *
1948039 --AAGGATGCCACTAACTTGTACGCATT-AAAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * ** * *
1948094 AAAAGGTGCCACTTACGTGTGGGCTTTGAAAGGA-AACCAATAACTTGTGGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
1948150 AAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTATGGGCTCTA
1 AAAA-GGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1948207 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAACG-GTGCCACTGACTTGCGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTG
*
1948266 -AAAGAGTGCCACTAACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
1948323 -AAAGGATGCCATTGACTTGGGGGCTTTGAAAGGA-TGCCACTGACTTGTAGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
** *
1948379 AAAAGAGTGTTACTAACTTGTGGGATTTGAAAAGA-TGCCACTGACTTAG-GGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-GTGGGCTTTG
* * * *
1948436 -AAAGGATGCCACTAACTTGTGAGCTTTGAAAAGAGTGTCACTAAATTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * * *
1948493 AAAGGGTGCTACTGACTTGTGGGCTTTG-AAAGGGTGCCATTGACTTGTGAGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
** * *
1948549 AAAAGGGTAACTCTAACATGTGGGCTTTG-AAAG-GTTGCCACTGACTTGTGGGCTTTG
1 AAAA-GGTGCCACTAACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTG
* * * *
1948606 -AAAGGATGCCTCTAACTTATGGGCATT-AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * * * *
1948662 AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCTACTAACTTATAGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1948718 AAAAGAGTGCCACTAACTTGTGAGCTTTG-AGAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* ** * *
1948775 AAAAGAGCGCCACCGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGCGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
1948832 AAAGGGTGCCACTGACTTGTGCGCTTTG-AAAGGGTGCCACTTACTTGTGGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
** * * * *
1948888 AAAAGAAGCCACTAACTTATAGGCTTTGAAAAGGGTGCCACTGACTTGTGCGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
1948945 AAAGGGTGCCAC-AGACCTGTGGGCTTTGGAAAGAGTGCCACTGACTTATGGGCTTTG
1 AAAAGGTGCCACTA-ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * * *
1949002 AAAGGGTGCCACTAACCTGCGCGGGCTTTG-AAAGGGTGCCACTAACTTGTATGG-TTTG
1 AAAAGGTGCCACTAA-CT-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGT-GGGCTTTG
* * * *
1949060 AAAAGAGTGCCACTAACTGGTGGGCTTTGAAAGGA-TGCCATTGACTTAG-GCGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-GTGGGCTTTG
* *
1949117 -AAAGGATGCCACTAACTTCTAGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * ** * *
1949174 AAAGGGTGTCGTTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
1949230 AAAAGATGCCACTGACTTGTGGGCTTTG-AAAGGGTTCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
** * *
1949286 AAGGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGAGGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * * * *
1949343 AAAGGGTGCTAGTGACTTGTGGGCATT-AAAAGGGTGCCACTGACTTGCGTGGGCTCTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTG
* * * *
1949401 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACCGACTTGGGGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * * **
1949458 AAAAGAGTGCCACTGATTTGTGGACTTTG-AAAGGGTGTCGTTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1949515 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCATTGACTTATGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
1949572 GAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCATTGACTTGCGGGCTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1949628 -AGAGGATGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
1949685 AAATGGGGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATTAACTTGTGGGCTTT-
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *** * * *
1949741 AAAAGGGTGCCACTGACTTGCATGCTTTGCAAAGAGTGTCACTGACTTATGGGCTTTG
1 AAAA-GGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
1949799 -AAAGGATGCCACTAGCTTGCGTGGGCTTTG-AAAGGGTGTCACTAACTTGTTGGCTTTG
1 AAAAGG-TGCCACTAACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1949857 -AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCTCTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1949913 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1949970 AAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1950027 AAAGGGTGCCACTGAA-TTGT--G--TTG-AAAGGGTGCCGCTGACTTGTGGGCTTTG
1 AAAAGGTGCCACT-AACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1950079 -AAAGTATGCCACTAACTTGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * * *
1950136 AAAGGGTGCCACTGACTTGCGTGGGCTATGAAAAGA-TACCACTGACTTATGGGTTTTG
1 AAAAGGTGCCACTAACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
** *
1950194 -AAAGGATGCCACTGGCTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGG-TGTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT-TTG
* * * * *
1950251 AAAGGGTGCCACTAGCTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGTTTTG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
1950307 -AAAGGATACCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1950363 -AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1950419 AAAACAGTGTCACTAACTTGTGGGCTTTGAAAA
1 AAAA-GGTGCCACTAACTTGTGGGCTTTGAAAA
1950452 TATGAACGTT
Statistics
Matches: 2163, Mismatches: 330, Indels: 188
0.81 0.12 0.07
Matches are distributed among these distances:
51 8 0.00
52 35 0.02
54 3 0.00
55 64 0.03
56 682 0.32
57 1013 0.47
58 223 0.10
59 90 0.04
61 13 0.01
62 22 0.01
63 2 0.00
64 8 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (57 bp):
AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:1947987 original size:85 final size:85
Alignment explanation
Indices: 1947810--1950451 Score: 2706
Period size: 85 Copynumber: 31.0 Consensus size: 85
1947800 TAAAAAAAAA
* *
1947810 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTAGGCTTTGAAAAGAGC
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACTGACTTGTG--GGCTTTGAAAAG-G-
* * *
1947875 TACCACTAGCTTGTGGGCTTTGAAAAGA
58 TGCCACTAACTTGTGGGCTTTGAAAAGG
* *
1947903 GTGTCACTGACTTGTGGGTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTA
* * *
1947968 ACTTATGGGCATTGAAAAGA
66 ACTTGTGGGCTTTGAAAAGG
** * *
1947988 GTGCCACCAACTTGTGAGCTTTGAAATA-GTGCTACTGACTTGTGGGCTTTG--AAGGATGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCAC
** *
1948050 TAACTTGTACGCATT-AAAAGG
64 TAACTTGTGGGCTTTGAAAAGG
* * * ** *
1948071 GTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTTACGTGTGGGCTTTG-AAAGGAAACCAAT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACT
1948135 AACTTGTGGGCTTTGAAAAGG
65 AACTTGTGGGCTTTGAAAAGG
* * * * * *
1948156 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTCTAAAAAGAGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
* *
1948221 GACTTGTGGGCTTTG-AAACG
65 AACTTGTGGGCTTTGAAAAGG
* *
1948241 GTGCCACTGACTTGCGTGGGCTTTG-AAAGAGTGCCACTAACTTGTGGGCTTTGAAAATAGTGCC
1 GTGCCACTGACTT--GTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCC
*
1948305 ACTGACTTGTGGGCTTTG-AAAGG
62 ACTAACTTGTGGGCTTTGAAAAGG
* * * * **
1948328 ATGCCATTGACTTGGGGGCTTTG-AAAGGATGCCACTGACTTGTAGGCTTTGAAAAGAGTGTTAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCAC
*
1948392 TAACTTGTGGGATTTGAAAA-G
64 TAACTTGTGGGCTTTGAAAAGG
* * * *
1948413 ATGCCACTGACTTAG-GGGCTTTG-AAAGGATGCCACTAACTTGTGAGCTTTGAAAAGAGTGTCA
1 GTGCCACTGACTT-GTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCA
*
1948476 CTAAATTGTGGGCTTTG-AAAGG
63 CTAACTTGTGGGCTTTGAAAAGG
* * * * ** *
1948498 GTGCTACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGAGCTTTGAAAAGGGTAACTCT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACT
*
1948563 AACATGTGGGCTTTG-AAAGG
65 AACTTGTGGGCTTTGAAAAGG
* * * * *
1948583 TTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCTCTAACTTATGGGCATT-AAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCAC
1948646 TAACTTGTGGGCTTTG-AAAGG
64 TAACTTGTGGGCTTTGAAAAGG
* * * * *
1948667 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCTACTAACTTATAGGCTTTGAAAAGAGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
* *
1948732 AACTTGTGAGCTTTG-AGAGG
65 AACTTGTGGGCTTTGAAAAGG
* *
1948752 GTGCCACTGACTTGTGGGCTTTGAAAAGAGCGCCACCGACTTGTGGGCTTTG-AAAGGATGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCAC
* *
1948816 TGACTTGTGCGCTTTG-AAAGG
64 TAACTTGTGGGCTTTGAAAAGG
* * * **
1948837 GTGCCACTGACTTGTGCGCTTTGAAAGGGTGCCACTTACTTGTGGGCTTTGAAAAGAAGCCACTA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTA
* *
1948902 ACTTATAGGCTTTGAAAAGG
66 ACTTGTGGGCTTTGAAAAGG
* * * * *
1948922 GTGCCACTGACTTGTGCGCTTTGAAAGGGTGCCACAGACCTGTGGGCTTTGGAAAGAGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
* *
1948987 GACTTATGGGCTTTG-AAAGG
65 AACTTGTGGGCTTTGAAAAGG
* * * * * *
1949007 GTGCCACTAACCTGCGCGGGCTTTGAAAGGGTGCCACTAACTTGTATGG-TTTGAAAAGAGTGCC
1 GTGCCACTGA-CT-TGTGGGCTTTGAAAAGGTGCCACTGACTTGT-GGGCTTTGAAAAG-GTGCC
*
1949071 ACTAACTGGTGGGCTTTG-AAAGG
62 ACTAACTTGTGGGCTTTGAAAAGG
* * * * * *
1949094 ATGCCATTGACTTAG-GCGCTTTG-AAAGGATGCCACTAACTTCTAGGCTTTGAAAAGAGTGCCA
1 GTGCCACTGACTT-GTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCA
*
1949157 CTGACTTGTGGGCTTTG-AAAGG
63 CTAACTTGTGGGCTTTGAAAAGG
* ** * * *
1949179 GTGTCGTTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTA
1949244 ACTTGTGGGCTTTG-AAAGG
66 ACTTGTGGGCTTTGAAAAGG
* * ** *
1949263 GTTCCACTAACTTGTGGGCTTTGAAGGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACT
* *
1949328 GACTTGAGGGCTTTG-AAAGG
65 AACTTGTGGGCTTTGAAAAGG
* * * * *
1949348 GTGCTAGTGACTTGTGGGCATT-AAAAGGGTGCCACTGACTTGCGTGGGCTCTGAAAGGGTGCCA
1 GTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTT--GTGGGCTTTGAAAAGGTGCCA
* *
1949412 CTGACTTGTGGGCTTTGAAAAGA
63 CTAACTTGTGGGCTTTGAAAAGG
* * * * * * **
1949435 GTGCCACCGACTTGGGGGCTTTGAAAAGAGTGCCACTGATTTGTGGACTTTGAAAGGGTGTCGTT
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACT
* *
1949500 GACTTGTGGGCTTTGAAAAGA
65 AACTTGTGGGCTTTGAAAAGG
* * * * *
1949521 GTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCATTGACTTATGGGCTTTGGAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACT
1949585 AACTTGTGGGCTTTG-AAAGG
65 AACTTGTGGGCTTTGAAAAGG
* * * * *
1949605 GTGCCATTGACTTGCGGGCTTTG-AGAGGATGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCAC
* *
1949669 TGACTTGTGGGCTTTGAAATGG
64 TAACTTGTGGGCTTTGAAAAGG
* * *
1949691 G-GCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATTAACTTGTGGGCTTT-AAAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCAC
* *** * *
1949754 TGACTTGCATGCTTTGCAAAGA
64 TAACTTGTGGGCTTTGAAAAGG
* * * *
1949776 GTGTCACTGACTTATGGGCTTTG-AAAGGATGCCACT-AGCTTGCGTGGGCTTTGAAAGGGTGTC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGA-CTT--GTGGGCTTTGAAAAGGTGCC
*
1949839 ACTAACTTGTTGGCTTTG-AAAGG
62 ACTAACTTGTGGGCTTTGAAAAGG
* * * *
1949862 ATGCCACTAACTTGTGGGCTTTG-AAAGGATGCCTCTAACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCAC
1949926 TAACTTGTGGGCTTTG-AAAGG
64 TAACTTGTGGGCTTTGAAAAGG
*
1949947 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTG-AAAGGATGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCAC
*
1950011 TGACTTGTGGGCTTTG-AAAGG
64 TAACTTGTGGGCTTTGAAAAGG
* * * *
1950032 GTGCCACTGAATTGT--G--TTGAAAGGGTGCCGCTGACTTGTGGGCTTTG-AAAGTATGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACT
**
1950092 AACTTGTGGGCTTTGAAAAAA
65 AACTTGTGGGCTTTGAAAAGG
* * * *
1950113 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGTGGGCTATGAAAAGATACCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTT--GTGGGCTTTGAAAAGGTGCCAC
* * *
1950178 TGACTTATGGGTTTTG-AAAGG
64 TAACTTGTGGGCTTTGAAAAGG
* * * *
1950199 ATGCCACTGGCTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGG-TGTTGAAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCT-TTGAAAAGGTGCCAC
*
1950263 TAGCTTGTGGGCTTTG-AAAGG
64 TAACTTGTGGGCTTTGAAAAGG
* * *
1950284 GTGCCACTGATTTGTGGGTTTTG-AAAGGATACCACTGACTTGTGGGCTTTG-AAAGGATGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCAC
*
1950347 TAACTTGTGGGCTTTG-AAAGA
64 TAACTTGTGGGCTTTGAAAAGG
* * *
1950368 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAACAGTGTCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACT
1950433 AACTTGTGGGCTTTGAAAA
65 AACTTGTGGGCTTTGAAAA
1950452 TATGAACGTT
Statistics
Matches: 2175, Mismatches: 296, Indels: 163
0.83 0.11 0.06
Matches are distributed among these distances:
80 46 0.02
81 24 0.01
82 1 0.00
83 59 0.03
84 394 0.18
85 1026 0.47
86 303 0.14
87 257 0.12
88 25 0.01
89 14 0.01
90 1 0.00
91 15 0.01
92 1 0.00
93 9 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (85 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTA
ACTTGTGGGCTTTGAAAAGG
Found at i:1954595 original size:29 final size:29
Alignment explanation
Indices: 1954553--1954611 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1954543 ATGAAGGAGA
1954553 AAAAATAATTTTTGGCCGTGTTGTCCACT
1 AAAAATAATTTTTGGCCGTGTTGTCCACT
1954582 AAAAATAATTTTTGGCCGTGTTGTCCACT
1 AAAAATAATTTTTGGCCGTGTTGTCCACT
1954611 A
1 A
1954612 GAGTGTCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (29 bp):
AAAAATAATTTTTGGCCGTGTTGTCCACT
Found at i:1958929 original size:48 final size:49
Alignment explanation
Indices: 1958813--1959048 Score: 298
Period size: 48 Copynumber: 4.9 Consensus size: 49
1958803 ATGTTAAAGA
* * * *
1958813 TGCCAATATGCTGATTCAAGGCCAACGATATCGAAT-TTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTG-GTCTTAAAGATCAAGG
* *
1958862 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATCAAGG
* * * *
1958910 TACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATCAAGG
* * * *
1958959 TGCCAATGTGCCGATTCAAGGCCAGCAACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATCAAGG
* *
1959007 TGCCAATATGCTGATACAAGGCCAGCGATATTGGGCTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAG
1959049 GTGCCATGGA
Statistics
Matches: 159, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
48 83 0.52
49 76 0.48
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATCAAGG
Found at i:1958940 original size:97 final size:97
Alignment explanation
Indices: 1958761--1959037 Score: 367
Period size: 97 Copynumber: 2.8 Consensus size: 97
1958751 TGAAGAAAAA
** * * *
1958761 TGCCAATGTGCTGAGACAAAGCCAGCGACATTGGGCTTAGGAATGTTA-AAGATGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA--AA-G--ACAAGGTGCCAATATGCT
* * *
1958825 GATTCAAGGCCAACGATATCGAATTTAAAGATGAAGG
61 GATTCAAGGCCAGCGATATCGAACTTAAAAATGAAGG
*
1958862 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTACCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* **
1958927 AAGGCCAGCGATATTGGGCTTAAAAATGAAGG
66 AAGGCCAGCGATATCGAACTTAAAAATGAAGG
* * *
1958959 TGCCAATGTGCCGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATAC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1959024 AAGGCCAGCGATAT
66 AAGGCCAGCGATAT
1959038 TGGGCTTAAA
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
96 1 0.01
97 120 0.75
98 1 0.01
99 2 0.01
101 35 0.22
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (97 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATCGAACTTAAAAATGAAGG
Found at i:1959038 original size:97 final size:97
Alignment explanation
Indices: 1958813--1959047 Score: 380
Period size: 97 Copynumber: 2.4 Consensus size: 97
1958803 ATGTTAAAGA
* * *** * *
1958813 TGCCAATATGCTGATTCAAGGCCAACGATATCGAATTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCCAATGTGCCGATT
*
1958878 CAAGGCCAGCGACATTGGTCTTAAAGACAAGG
66 CAAGGCCAGCAACATTGGTCTTAAAGACAAGG
*
1958910 TACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCCAATGTGCCGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCCAATGTGCCGATT
1958975 CAAGGCCAGCAACATTGGTCTTAAAGACAAGG
66 CAAGGCCAGCAACATTGGTCTTAAAGACAAGG
*
1959007 TGCCAATATGCTGATACAAGGCCAGCGATATTGGGCTTAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1959048 GGTGCCATGG
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 127 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (97 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCCAATGTGCCGATT
CAAGGCCAGCAACATTGGTCTTAAAGACAAGG
Found at i:1959174 original size:33 final size:33
Alignment explanation
Indices: 1959045--1959238 Score: 162
Period size: 34 Copynumber: 5.8 Consensus size: 33
1959035 TATTGGGCTT
* * *
1959045 AAAGGTGCCATGGAGTTATGGACTTATAGGAAA-A
1 AAAGGTGCCACGGAGTTGTGGACTT-TA-AAAAGA
* * *
1959079 AAAGGATGCCACGGAGGTGTGG-GTTTAAAAGGGA
1 AAAGG-TGCCACGGAGTTGTGGACTTTAAAA-AGA
*
1959113 AAAGGGTGCCACGGAGTCGTGGAC-TTAAAAAGA
1 AAA-GGTGCCACGGAGTTGTGGACTTTAAAAAGA
* *
1959146 AAAGGTGCCATGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAG-A
* * *
1959180 AAATGTGCCATGGAGTTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAAG-A
* * *
1959213 AAAGATGCCACGGACTTGTGGGCTTT
1 AAAGGTGCCACGGAGTTGTGGACTTT
1959239 CGAAGGTTGC
Statistics
Matches: 131, Mismatches: 21, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
32 19 0.15
33 42 0.32
34 55 0.42
35 15 0.11
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAAGA
Found at i:1959188 original size:66 final size:68
Alignment explanation
Indices: 1959045--1959238 Score: 207
Period size: 66 Copynumber: 2.9 Consensus size: 68
1959035 TATTGGGCTT
* ** * *
1959045 AAAGGTGCCATGGAGTTATGGACTTATAGGAA-AAAAAGGATGCCACGGAGGTGTGGG-TTTAAA
1 AAAGGTGCCACGGAGTCGTGGACTTA-A-AAAGAAAAAGG-TGCCACGGAGTTGTGGGCTTTAAA
*
1959108 AGGGAA
63 AGAGAA
* *
1959114 AAGGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAAGGTGCCATGGAGTTGTGGGCTTTAAAA-A
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
1959177 GAA
66 GAA
* * * * * *
1959180 AAATGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGACTTGTGGGCTTT
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1959239 CGAAGGTTGC
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
66 44 0.42
67 39 0.37
68 1 0.01
69 22 0.21
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (68 bp):
AAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
GAA
Found at i:1959289 original size:29 final size:29
Alignment explanation
Indices: 1959210--1959498 Score: 338
Period size: 29 Copynumber: 10.0 Consensus size: 29
1959200 GACTTAAAAG
*
1959210 GAAAAAGATGCCACGGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
1959239 CG--AAGGTTGCCACTGACTTGTGGGCTTT
1 -GAAAAAGATGCCACTGACTTGTGGGCTTT
*
1959267 GAAAAAGATGCCACTGACCTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
*
1959297 GAAAAAAATGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * *
1959327 G--AAGGTTGCCACGGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
1959354 GGAAAAGATGCCATTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
1959383 GAAAAAGATGCCACTGACCTATGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
1959413 GAAAAAGATGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* *
1959443 G--AAAGTTGCCACTGACTTATGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
1959470 GGAAAAGATGCCACTCACTTGTGAGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
1959499 TAAAGGGTGA
Statistics
Matches: 223, Mismatches: 28, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
27 9 0.04
28 63 0.28
29 86 0.39
30 65 0.29
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:1959316 original size:87 final size:85
Alignment explanation
Indices: 1959210--1959504 Score: 385
Period size: 87 Copynumber: 3.4 Consensus size: 85
1959200 GACTTAAAAG
* *
1959210 GAAAAAGATGCCACGGACTTGTGGGCTTTCGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGA
1 GAAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG-AAAAGA
*
1959275 TGCCACTGACCTGTGGGCTTTT
65 TGCCACTGACTTGTGGGC-TTT
* *
1959297 GAAAAAAATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACGGACTTGTGGGCTTTGGAAAAGA
1 GAAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT-GAAAAGA
*
1959362 TGCCATTGACTTGTGGGCTTT
65 TGCCACTGACTTGTGGGCTTT
* * * *
1959383 GAAAAAGATGCCACTGACCTATGGGCTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTG-AAA
1 GAAAAAGATGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGGC-TTTGAAAA
* *
1959447 GTTGCCACTGACTTATGGGCTTT
63 GATGCCACTGACTTGTGGGCTTT
* * * *
1959470 GGAAAAGATGCCACTCACTTGTGAGCTTTTAAAGG
1 GAAAAAGATGCCACTGACTTGTGGGCTTTTGAAGG
1959505 GTGAGGAATG
Statistics
Matches: 182, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
85 3 0.02
86 31 0.17
87 123 0.68
88 22 0.12
89 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (85 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGAT
GCCACTGACTTGTGGGCTTT
Found at i:1959385 original size:116 final size:116
Alignment explanation
Indices: 1959213--1959498 Score: 457
Period size: 116 Copynumber: 2.5 Consensus size: 116
1959203 TTAAAAGGAA
* * * *
1959213 AAAGATGCCACGGACTTGTGGGCTTTCG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATG
1 AAAGTTGCCACGGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATG
*
1959277 CCACTGACCTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTTG
66 CCACTGACCTATGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTTG
* *
1959328 AAGGTTGCCACGGACTTGTGGGCTTTGGAAAAGATGCCATTGACTTGTGGGCTTTGAAAAAGATG
1 AAAGTTGCCACGGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATG
*
1959393 CCACTGACCTATGGGCTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTG
66 CCACTGACCTATGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTTG
* * * *
1959444 AAAGTTGCCACTGACTTATGGGCTTTGGAAAAGATGCCACTCACTTGTGAGCTTT
1 AAAGTTGCCACGGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTT
1959499 TAAAGGGTGA
Statistics
Matches: 156, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
115 25 0.16
116 131 0.84
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (116 bp):
AAAGTTGCCACGGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATG
CCACTGACCTATGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTTG
Found at i:1960973 original size:13 final size:12
Alignment explanation
Indices: 1960940--1960982 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
1960930 ATCCGGACCC
1960940 TTTTTTTTGTTT
1 TTTTTTTTGTTT
*
1960952 GTTTGTTTTGTTT
1 -TTTTTTTTGTTT
*
1960965 TTTATTTTTATTT
1 TTT-TTTTTGTTT
1960978 TTTTT
1 TTTTT
1960983 ACGGAGGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:1981109 original size:122 final size:122
Alignment explanation
Indices: 1980887--1981118 Score: 299
Period size: 122 Copynumber: 1.9 Consensus size: 122
1980877 AATAAAAATT
* *
1980887 GGGGTTTGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCTCATTATAGAAAATTAGTATT
1 GGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTCATTATAGAAAATTAGTATT
* * * *
1980952 TTGAAAATAAAATCGGAGTTTGAGTATCCCTGATTGTGGAAAATTAGTAATAAAGTC
66 TTGAAAATAAAACCAGAGTTGGAATATCCCTGATTGTGGAAAATTAGTAATAAAGTC
** * * * *
1981009 GGGGTTGGAGTATCCCCTCCGAAATAACGGGGTTGGAGTATCCC-CGATTGT-GAGAAATTGGTG
1 GGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTC-ATTATAGA-AAATTAGTA
*
1981072 TTTTGGAAATAAAACCAGAGTTGGAATATCTCC-GATTGTGGAAAATT
64 TTTTGAAAATAAAACCAGAGTTGGAATATC-CCTGATTGTGGAAAATT
1981119 GTTATTTTAG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
121 3 0.03
122 89 0.95
123 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (122 bp):
GGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTCATTATAGAAAATTAGTATT
TTGAAAATAAAACCAGAGTTGGAATATCCCTGATTGTGGAAAATTAGTAATAAAGTC
Found at i:1981198 original size:51 final size:51
Alignment explanation
Indices: 1981040--1981187 Score: 233
Period size: 51 Copynumber: 2.9 Consensus size: 51
1981030 AAATAACGGG
* * * * *
1981040 GTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAACCAGA
1 GTTGGAATATCTCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCAGA
* *
1981091 GTTGGAATATCTCCGATTGTGGAAAATTGTTATTTTAGAAATAAAACCAGA
1 GTTGGAATATCTCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCAGA
1981142 GTTGGAATATCTCCGATTGTGAAAAATTGGTATTTTAGAAATAAAA
1 GTTGGAATATCTCCGATTGTGAAAAATTGGTATTTTAGAAATAAAA
1981188 TCGGGGTTGG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 88 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (51 bp):
GTTGGAATATCTCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCAGA
Found at i:1981274 original size:79 final size:79
Alignment explanation
Indices: 1981143--1981316 Score: 249
Period size: 79 Copynumber: 2.2 Consensus size: 79
1981133 AAAACCAGAG
* * * * * *
1981143 TTGGAATATCTCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCTT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGCAGTATCCCCT
*
1981208 CGGAAAAAACGGGT
66 CGGAAAAAACGGGA
* * *
1981222 TTGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTGGGAATAAAATCAGGGTTGCAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGCAGTATCCCCT
*
1981287 CGGAAATAACGGGA
66 CGGAAAAAACGGGA
1981301 TTGGAGTATCCCCGAT
1 TTGGAGTATCCCCGAT
1981317 GACATAACGG
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCAGGGTTGCAGTATCCCCT
CGGAAAAAACGGGA
Found at i:1983748 original size:19 final size:20
Alignment explanation
Indices: 1983717--1983775 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
1983707 AAAAATGCCT
*
1983717 AAATGTATCGATACATTGTA
1 AAATGTATCGATACAATGTA
1983737 AAATGTAT-GATACAATG-A
1 AAATGTATCGATACAATGTA
1983755 ACAATGTATCGATACAATGTA
1 A-AATGTATCGATACAATGTA
1983776 TCGATACAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 2 0.06
19 15 0.43
20 17 0.49
21 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
AAATGTATCGATACAATGTA
Found at i:1983773 original size:13 final size:13
Alignment explanation
Indices: 1983755--1983786 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1983745 GATACAATGA
1983755 ACAATGTATCGAT
1 ACAATGTATCGAT
1983768 ACAATGTATCGAT
1 ACAATGTATCGAT
1983781 ACAATG
1 ACAATG
1983787 AGGAATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:1983779 original size:52 final size:51
Alignment explanation
Indices: 1983718--1983821 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 51
1983708 AAAATGCCTA
*
1983718 AATGTATCGATACATTGTA-AAATGTAT-GATACAATG-AACAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGAT--AATGCAA-AATGTATCGATAC
*
1983770 AATGTATCGATACAATGAGGAATGTATCGATAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATAATGCAAAATGTATCGATAC
1983821 A
1 A
1983822 TCTGGGTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
51 19 0.40
52 25 0.53
53 3 0.06
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (51 bp):
AATGTATCGATACAATGAGAAATGTATCGATAATGCAAAATGTATCGATAC
Found at i:1983784 original size:33 final size:32
Alignment explanation
Indices: 1983738--1983801 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1983728 TACATTGTAA
1983738 AATGTATGATACAATGAACAATGTATCGATAC
1 AATGTATGATACAATGAACAATGTATCGATAC
**
1983770 AATGTATCGATACAATGAGGAATGTATCGATA
1 AATGTAT-GATACAATGAACAATGTATCGATA
1983802 ATGCAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (32 bp):
AATGTATGATACAATGAACAATGTATCGATAC
Found at i:1983795 original size:20 final size:20
Alignment explanation
Indices: 1983770--1983821 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
1983760 GTATCGATAC
*
1983770 AATGTATCGATACAATG-AGG
1 AATGTATCGATACAATGCA-A
1983790 AATGTATCGAT--AATGCAA
1 AATGTATCGATACAATGCAA
1983808 AATGTATCGATACA
1 AATGTATCGATACA
1983822 TCTGGGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 15 0.54
19 1 0.04
20 12 0.43
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:1983905 original size:20 final size:20
Alignment explanation
Indices: 1983848--1983906 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
1983838 ATGTATTGAT
*
1983848 ACAATGTATCGATACAAGGA
1 ACAATGTATCGATACAATGA
* * *
1983868 GCAGTGTATTGATACAATGA
1 ACAATGTATCGATACAATGA
1983888 ACAATGTATCGATACAATG
1 ACAATGTATCGATACAATG
1983907 TATTGATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1985189 original size:51 final size:51
Alignment explanation
Indices: 1985122--1985269 Score: 163
Period size: 51 Copynumber: 2.9 Consensus size: 51
1985112 AAATAACGGG
* * * *
1985122 GTTGGAGTATCCCCGATTATGAGAAA-TTGATGTTTTGGAAATAAAACCGGA
1 GTTGGAATATCTCCGATTATG-GAAATTTGATATTTTAGAAATAAAACCGGA
* *
1985173 GTTGGAATATCTCCGATTGTGGAAATTTGGTATTTTAGAAATAAAACCGGA
1 GTTGGAATATCTCCGATTATGGAAATTTGATATTTTAGAAATAAAACCGGA
** * * * * *
1985224 GTTGGAATATCTCTAATTGTGGAAAATTGGTATTTCAAAAATAAAA
1 GTTGGAATATCTCCGATTATGGAAATTTGATATTTTAGAAATAAAA
1985270 TCGGGGTTAG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 4 0.05
51 81 0.95
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (51 bp):
GTTGGAATATCTCCGATTATGGAAATTTGATATTTTAGAAATAAAACCGGA
Found at i:1985189 original size:122 final size:122
Alignment explanation
Indices: 1984967--1985204 Score: 336
Period size: 122 Copynumber: 2.0 Consensus size: 122
1984957 GAAATAAAAA
* * * *
1984967 TCGGGGTTTGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATAGAAAATCGGTA
1 TCGGGGTTGGACTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCGATA
* *
1985032 TTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAAAATTGGTAATAAAG
66 TTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAATTGGTAATAAAG
* *
1985089 TCGGGGTTGGACTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTAT-GAGAAATTGA
1 TCGGGGTTGGACTATCCCCTCGA-AAATAACAGGGTTGGAGTATCCCCGATTATAGA-AAATCGA
* * * *
1985152 TGTTTTGGAAATAAAACCGGAGTTGGAATATCTCCGATTGTGGAAATTTGGTA
64 TATTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAATTGGTA
1985205 TTTTAGAAAT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
121 3 0.03
122 99 0.97
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (122 bp):
TCGGGGTTGGACTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCGATA
TTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAATTGGTAATAAAG
Found at i:1985433 original size:107 final size:107
Alignment explanation
Indices: 1985304--1985502 Score: 244
Period size: 107 Copynumber: 1.9 Consensus size: 107
1985294 AATTACGAGA
* * * * **
1985304 TTGGAGTATCCCTGATTGTGAAAAA-CTAGTGTTTTGGGA-ATAAAATTGGGGTTGCAGTATCCC
1 TTGGAGTATCCCTGATTATGAAAAATC-AATATTTT-AGATATAAAACCGGGGTTGCAGTATCCC
*
1985367 CTCAGAAATAAC-GGGATTTGAGTATCCCCGATGACATAACGGGG
64 CTCAGAAATAACAGGG-TTGGAGTATCCCCGATGACATAACGGGG
* *
1985411 TTGGAGTA-CCCTCGATTATGAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCT-GATTATGAAAAATCAATATTTTAGATATAAAACCGGGGTTGCAGTATCCCC
*
1985475 TCGGAAATAACAGGGTTGGAGTATCCCC
65 TCAGAAATAACAGGGTTGGAGTATCCCC
1985503 TCGATGAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
106 6 0.08
107 68 0.87
108 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (107 bp):
TTGGAGTATCCCTGATTATGAAAAATCAATATTTTAGATATAAAACCGGGGTTGCAGTATCCCCT
CAGAAATAACAGGGTTGGAGTATCCCCGATGACATAACGGGG
Found at i:1991473 original size:13 final size:13
Alignment explanation
Indices: 1991455--1991480 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1991445 CACCTTCAGA
1991455 TGTATCGATACAT
1 TGTATCGATACAT
1991468 TGTATCGATACAT
1 TGTATCGATACAT
1991481 GACCACTGTA
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:1991587 original size:13 final size:13
Alignment explanation
Indices: 1991569--1991627 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
1991559 ACATACAAGA
1991569 TGTATCGATACAT
1 TGTATCGATACAT
1991582 TGTATCGATACA-
1 TGTATCGATACAT
*
1991594 TG-A-CCA-A-A-
1 TGTATCGATACAT
*
1991602 TGTATCAATACAT
1 TGTATCGATACAT
1991615 TGTATCGATACAT
1 TGTATCGATACAT
1991628 GACCAAATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 4 0.11
11 2 0.05
12 3 0.08
13 24 0.63
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1991607 original size:20 final size:20
Alignment explanation
Indices: 1991582--1991647 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1991572 ATCGATACAT
1991582 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
*
1991602 TGTATC---A-AT-A-C-AT
1 TGTATCGATACATGACCAAA
1991615 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
1991635 TGTATCGATACAT
1 TGTATCGATACAT
1991648 TGGCTTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.19
14 1 0.03
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
19 1 0.03
20 20 0.54
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:1991613 original size:33 final size:33
Alignment explanation
Indices: 1991549--1991649 Score: 170
Period size: 33 Copynumber: 3.1 Consensus size: 33
1991539 CCTTAACTGT
1991549 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1 TTGTATCGATACATGACCAA-ATGTATCGATACA
*
1991581 TTGTATCGATACATGACCAAATGTATCAATACA
1 TTGTATCGATACATGACCAAATGTATCGATACA
1991614 TTGTATCGATACATGACCAAATGTATCGATACA
1 TTGTATCGATACATGACCAAATGTATCGATACA
1991647 TTG
1 TTG
1991650 GCTTGTAACG
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
32 14 0.22
33 48 0.74
34 3 0.05
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAATGTATCGATACA
Found at i:2003523 original size:52 final size:52
Alignment explanation
Indices: 2003445--2003572 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2003435 CGAAATATGA
*
2003445 AAATTTGCCTTCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
2003497 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
2003549 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2003573 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 21 0.28
52 54 0.72
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2003583 original size:51 final size:51
Alignment explanation
Indices: 2003445--2003592 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
2003435 CGAAATATGA
*
2003445 AAATTTGCCTTCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
2003497 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
2003549 AAA-TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2003593 ATGTATCGAT
Statistics
Matches: 92, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
51 35 0.38
52 54 0.59
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:2003599 original size:13 final size:13
Alignment explanation
Indices: 2003581--2003605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2003571 CAAAGATCAG
2003581 TGTATCGATACAA
1 TGTATCGATACAA
2003594 TGTATCGATACA
1 TGTATCGATACA
2003606 TTTGAGTAAT
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:2003673 original size:20 final size:20
Alignment explanation
Indices: 2003644--2003701 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2003634 GCAGTAGCTT
2003644 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
2003663 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
2003683 TTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
2003702 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:2005070 original size:21 final size:22
Alignment explanation
Indices: 2005037--2005078 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2005027 AAAAAACATT
2005037 AAATATTTCATTAAGGGGGAGA
1 AAATATTTCATTAAGGGGGAGA
*
2005059 AAAT-TTTTATTAAGGGGGAG
1 AAATATTTCATTAAGGGGGAG
2005079 TCTGAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.02, G:0.29, T:0.31
Consensus pattern (22 bp):
AAATATTTCATTAAGGGGGAGA
Found at i:2005755 original size:33 final size:32
Alignment explanation
Indices: 2005718--2005781 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2005708 CATACCTAGA
*
2005718 TGTATCGATACATATTGCTTTGTATCAATACAT
1 TGTATCGATACATATT-CATTGTATCAATACAT
* *
2005751 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATATTCATTGTATCAATACA
2005782 CACTGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCAATACAT
Found at i:2007153 original size:13 final size:13
Alignment explanation
Indices: 2007130--2007167 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2007120 TCTTCTATTT
2007130 TCTCT-TTTTTTC
1 TCTCTCTTTTTTC
*
2007142 TCTTTCTTTTTTC
1 TCTCTCTTTTTTC
*
2007155 TCTCTCTTCTTTC
1 TCTCTCTTTTTTC
2007168 AGCTGAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTCTCTTTTTTC
Found at i:2007158 original size:15 final size:15
Alignment explanation
Indices: 2007132--2007166 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
2007122 TTCTATTTTC
2007132 TCTTTTTTTCTCT-T
1 TCTTTTTTTCTCTCT
2007146 TCTTTTTTCTCTCTCT
1 TCTTTTTT-TCTCTCT
2007162 TCTTT
1 TCTTT
2007167 CAGCTGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 5 0.26
16 6 0.32
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTTTTTTCTCTCT
Found at i:2007740 original size:166 final size:160
Alignment explanation
Indices: 2007507--2008060 Score: 480
Period size: 166 Copynumber: 3.4 Consensus size: 160
2007497 GTTCAATGAC
* * ** * * *
2007507 AATATTAGATGAATTCTAAAAATTTTAAATCAAGAAAAATCTCCCCCAAAAAATTAACAGAGAAG
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CTCCGAAAAAATT-ACAGAGAAG
2007572 AAAACT-CGATTTCTTAGAAAAAGGAGAATTTTAAGAAAAAAATTAAAATTTATGGAAATGAATG
64 AAAACTCCGATTTCTTAGAAAAAGGAGAATTTTAAG-AAAAAATTAAAA--TA--GAAATGAATG
* *
2007636 AATTTTTTGAAAAATGAATTAATGTGAAATAAATAAT
124 AATTTTTTGAAAACTGATTTAATGTGAAATAAATAAT
2007673 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCAGAAAAAATATACA-ATGAA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCC-GAAAAAAT-TACAGA-GAA
* *
2007737 GAAAACTCCGTATTTC--A-AAAACGGAAGAATTTT-AGAAAAAA-T--GA-A-AAATGAATGAA
63 GAAAACTCCG-ATTTCTTAGAAAAAGG-AGAATTTTAAGAAAAAATTAAAATAGAAATGAATGAA
* * *
2007793 TTTTTT-AAAACTGATTTAGTATGAATTAAATAAT
126 TTTTTTGAAAACTGATTTAATGTGAAATAAATAAT
*
2007827 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATTCCTCCGAAAAAATTTACAGAGTAA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAA-TCCTCCGAAAAAA-TTACAGAG-AA
* * * * *
2007892 G-AAACTCCG-TTT-TTCGGGAACATGG-GAATTTGAAGGAAAAAATCCAAAAACTCAAGAAATG
63 GAAAACTCCGATTTCTT--AGAAAAAGGAGAATTTTAA-GAAAAAAT--TAAAA-T--AGAAATG
* *
2007953 AAGGAA-TTTTTGAAAACTGATTTAATGTGATATAAATAAT
120 AATGAATTTTTTGAAAACTGATTTAATGTGAAATAAATAAT
* * ** * * *
2007993 GATATTTTATGAATTTTAAAAATTTTAAACTGATG-AAAATCCTCCCGAAAAAATTTA-GGAGAA
1 AATATTTGATGAATTTTAAAAATTAAAAAC-CAAGAAAAATCCT-CCGAAAAAA-TTACAGAGAA
2008056 GAAAA
63 GAAAA
2008061 TCCCGTAATT
Statistics
Matches: 324, Mismatches: 33, Indels: 63
0.77 0.08 0.15
Matches are distributed among these distances:
152 3 0.01
154 87 0.27
155 29 0.09
156 12 0.04
158 1 0.00
161 2 0.01
163 1 0.00
164 9 0.03
165 28 0.09
166 142 0.44
167 5 0.02
168 5 0.02
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (160 bp):
AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCGAAAAAATTACAGAGAAGAA
AACTCCGATTTCTTAGAAAAAGGAGAATTTTAAGAAAAAATTAAAATAGAAATGAATGAATTTTT
TGAAAACTGATTTAATGTGAAATAAATAAT
Found at i:2007921 original size:154 final size:155
Alignment explanation
Indices: 2007627--2008049 Score: 439
Period size: 154 Copynumber: 2.7 Consensus size: 155
2007617 AAATTTATGG
* * *
2007627 AAATGAATGAATTTTTTGAAAAATGAATTAATGTGAAATAAATAATAATATTTGATGAATTTTAA
1 AAATGAATGAATTTTTT-AAAACTGATTTAATGTGAATTAAATAATAATATTTGATGAATTTTAA
* *
2007692 AAATTAAAAACCAAGAAAAATCCTCCAGAAAAAATATACAATGAAGAAAACTCCGTATTTCAAAA
65 AAATTAAAAACTAAGAAAAATCCTCC-GAAAAAATTTACAATGAAGAAAACTCCGTATTTCAAAA
* *
2007757 ACGGAAGAATTT-TA-GAAAAAAT-GAA
129 ACGG-AGAATTTGAAGGAAAAAATCCAA
* *
2007782 AAATGAATGAATTTTTTAAAACTGATTTAGTATGAATTAAATAATAATATTTGATGAATTTTAAA
1 AAATGAATGAATTTTTTAAAACTGATTTAATGTGAATTAAATAATAATATTTGATGAATTTTAAA
* *
2007847 AATTAAAAACTAAGAAAAATTCCTCCGAAAAAATTTACAGA-GTAAG-AAACTCCGTTTTTCGGG
66 AATTAAAAACTAAGAAAAA-TCCTCCGAAAAAATTTACA-ATG-AAGAAAACTCCGTATTTC--A
* *
2007910 AACATGG-GAATTTGAAGGAAAAAATCCAA
126 AAAACGGAGAATTTGAAGGAAAAAATCCAA
* * *
2007939 AAACTCAAGAAATGAAGGAATTTTTGAAAACTGATTTAATGTG-ATATAAATAATGATATTTTAT
1 AAA-T---G-AAT----GAATTTTTTAAAACTGATTTAATGTGAAT-TAAATAATAATATTTGAT
** *
2008003 GAATTTTAAAAATTTTAAACTGATG-AAAATCCTCCCGAAAAAATTTA
56 GAATTTTAAAAATTAAAAACT-AAGAAAAATCCT-CCGAAAAAATTTA
2008050 GGAGAAGAAA
Statistics
Matches: 227, Mismatches: 21, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
154 93 0.41
155 28 0.12
156 13 0.06
157 5 0.02
158 1 0.00
161 1 0.00
162 3 0.01
165 6 0.03
166 75 0.33
167 2 0.01
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (155 bp):
AAATGAATGAATTTTTTAAAACTGATTTAATGTGAATTAAATAATAATATTTGATGAATTTTAAA
AATTAAAAACTAAGAAAAATCCTCCGAAAAAATTTACAATGAAGAAAACTCCGTATTTCAAAAAC
GGAGAATTTGAAGGAAAAAATCCAA
Found at i:2009867 original size:33 final size:33
Alignment explanation
Indices: 2009830--2009912 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
2009820 AACAAAATTG
* *
2009830 TATCACCTTTCTTGTTAGAAATAAACCAAATCA
1 TATCACCTTTCTTGTCAGAAATAAACCAAACCA
* * * * *
2009863 TATCACCTATCTTATCATAAATAAATCAAACCG
1 TATCACCTTTCTTGTCAGAAATAAACCAAACCA
*
2009896 TATCACCCTTCTTGTCA
1 TATCACCTTTCTTGTCA
2009913 AATACCCTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (33 bp):
TATCACCTTTCTTGTCAGAAATAAACCAAACCA
Found at i:2009927 original size:15 final size:16
Alignment explanation
Indices: 2009900--2009929 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2009890 AAACCGTATC
2009900 ACCCTTCTTGTCAAAT
1 ACCCTTCTTGTCAAAT
2009916 ACCCTT-TTGTCAAA
1 ACCCTTCTTGTCAAA
2009930 AATGAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.37
Consensus pattern (16 bp):
ACCCTTCTTGTCAAAT
Found at i:2010765 original size:29 final size:28
Alignment explanation
Indices: 2010716--2010771 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
2010706 TATTAAAGTA
*
2010716 ACCTTTTTGAAATCCACGACTTTGTGGT
1 ACCTTTTTGAAATCCACGACTTAGTGGT
* * *
2010744 ACCTTCTTTGAAGTCTATGACTTAGTGG
1 ACCTT-TTTGAAATCCACGACTTAGTGG
2010772 CATCCTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (28 bp):
ACCTTTTTGAAATCCACGACTTAGTGGT
Found at i:2010788 original size:30 final size:30
Alignment explanation
Indices: 2010754--2010820 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
2010744 ACCTTCTTTG
*
2010754 AAGTCTATGACTTAGTGGCATCCTTCCTCA
1 AAGTCTATGACTCAGTGGCATCCTTCCTCA
* * * *
2010784 AAGTCCATGACTCGGTGGCATCTTTTCTCA
1 AAGTCTATGACTCAGTGGCATCCTTCCTCA
2010814 AAGTCTA
1 AAGTCTA
2010821 CAACCTAGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (30 bp):
AAGTCTATGACTCAGTGGCATCCTTCCTCA
Found at i:2010921 original size:31 final size:31
Alignment explanation
Indices: 2010849--2011655 Score: 316
Period size: 31 Copynumber: 26.7 Consensus size: 31
2010839 TTCATAGTTC
* * *
2010849 CTTC-TCAAAGTCCACGACTCAATGGCATCCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCA-CCT
* *
2010880 -TTC-TCAAAGTCCACGACTTAGTGGCACCC
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
** * *
2010909 CTTCTTCAAAGTCCATGACTTAATGGCAACT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
* *
2010940 CTTC-TCAAAGTCCACAACTCCA-TGGTATCCT
1 CTTCTTCAAAGTCCACAACT-TAGTGGCA-CCT
* * *
2010971 ATTC-TCAAAGTCTATAACTTAGTGGCATCC-
1 CTTCTTCAAAGTCCACAACTTAGTGGCA-CCT
* ** * *
2011001 CTTCTTCAAAGTTCATGACTCAGTGGCATCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
* * * **
2011032 CTTCTTGAAAGTCCACGACTCAGTGGCGTCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
* * * *
2011063 CTT-ATCAAAGTTCACAACTCCA-TGGCATCCA
1 CTTCTTCAAAGTCCACAACT-TAGTGGCA-CCT
* *
2011094 CTT-TTTAAAGTCCACAACTTCGTGGCACCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
* * * * *
2011124 TTTCTTCGAAGTCTACAACTTCGTGGCATCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
* * **
2011155 CTT-TT-AAAGTTCATAACTCGGTGGCACCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
* *
2011184 TTTCCTTCAAAGTCTACAACTCTA-TGGCATCC-
1 CTT-CTTCAAAGTCCACAACT-TAGTGGCA-CCT
* * *
2011216 CTTTTTTAAAGTCCACAACTTCGTGGCACCTT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACC-T
* * *
2011248 TTTCTTCAAAATCTACAACTCT-GTGGCACC-
1 CTTCTTCAAAGTCCACAACT-TAGTGGCACCT
*** *
2011278 C-T-TTCAAAGTCCACAACTCCTTGGCATCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
*
2011307 CTT-TT-AAAGTCCACAACTTCGTGGCACCTT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACC-T
* * *
2011337 TTTCTTCAAAGTCCATAACTTTGTGGCACCCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCA-CCT
*
2011369 CTT-TT-AAAGTCCATAACTCT-GTGGCA--T
1 CTTCTTCAAAGTCCACAACT-TAGTGGCACCT
* ** *
2011396 CTTTTTTGAAGTCCACAACTGCA-TGGCA--T
1 CTTCTTCAAAGTCCACAACT-TAGTGGCACCT
* * **
2011425 CTTTTTTAAAGTCCGTAACTCTA-TGGCACCTT
1 CTTCTTCAAAGTCCACAACT-TAGTGGCACC-T
* * * *
2011457 TTTTTTCAAAGTCCACAACTCCA-TGACACC-
1 CTTCTTCAAAGTCCACAACT-TAGTGGCACCT
** **
2011487 CTT-TT--AAGTCCATGACTCCGTGGCACCCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCA-CCT
* *
2011516 CTT-TT-AAAGTCCACAAATTTGTGGCACCT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACCT
* *
2011545 -TT-TTCTGAAGTCCACAACTCTA-T-GCATCT
1 CTTCTTC-AAAGTCCACAACT-TAGTGGCACCT
* * * **
2011574 -TTTTTTAAAGTCGACAACTCCGTGGCACCTTT
1 CTTCTTCAAAGTCCACAACTTAGTGGCACC--T
* * * *
2011606 TTTTTTCAAAGTTCACAACTCCA-TGGCACCT
1 CTTCTTCAAAGTCCACAACT-TAGTGGCACCT
*
2011637 CTT-TT-AAAGTCCGCAACTT
1 CTTCTTCAAAGTCCACAACTT
2011656 TTTGGCATCC
Statistics
Matches: 603, Mismatches: 125, Indels: 99
0.73 0.15 0.12
Matches are distributed among these distances:
26 1 0.00
27 18 0.03
28 28 0.05
29 123 0.20
30 136 0.23
31 180 0.30
32 88 0.15
33 28 0.05
34 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (31 bp):
CTTCTTCAAAGTCCACAACTTAGTGGCACCT
Found at i:2011005 original size:92 final size:91
Alignment explanation
Indices: 2010849--2011081 Score: 288
Period size: 92 Copynumber: 2.5 Consensus size: 91
2010839 TTCATAGTTC
*
2010849 CTTCTCAAAGTCCACGACTCAATGGCATCCTTTCTCAAAGTCCACGACTTAGTGGCACCCCTTCT
1 CTTCTCAAAGTCCACGACTCAATGGCATCCTTTCTCAAAGTCCACAACTTAGTGGCACCCCTTCT
*
2010914 TCAAAGTCCATGACTTAATGGCAACT
66 TCAAAGTCCATGACTCAATGGCAACT
* * * * * *
2010940 CTTCTCAAAGTCCACAACTCCATGGTATCCTATTCTCAAAGTCTATAACTTAGTGGCATCCCTTC
1 CTTCTCAAAGTCCACGACTCAATGGCATCCT-TTCTCAAAGTCCACAACTTAGTGGCACCCCTTC
* * *
2011005 TTCAAAGTTCATGACTCAGTGGCATCT
65 TTCAAAGTCCATGACTCAATGGCAACT
* * * * *
2011032 CTTCTTGAAAGTCCACGACTCAGTGGCGT-CTCTTATCAAAGTTCACAACT
1 CTTC-TCAAAGTCCACGACTCAATGGCATCCT-TTCTCAAAGTCCACAACT
2011082 CCATGGCATC
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
91 28 0.24
92 72 0.61
93 18 0.15
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (91 bp):
CTTCTCAAAGTCCACGACTCAATGGCATCCTTTCTCAAAGTCCACAACTTAGTGGCACCCCTTCT
TCAAAGTCCATGACTCAATGGCAACT
Found at i:2011089 original size:92 final size:90
Alignment explanation
Indices: 2010849--2011107 Score: 265
Period size: 92 Copynumber: 2.8 Consensus size: 90
2010839 TTCATAGTTC
* * *
2010849 CTTCTCAAAGTCCACGACTCAATGGCATC-CTTTCTCAAAGTCCACGACTTAGTGGCACCCCTTC
1 CTTCTCAAAGTCCACGACTC-ATGGCATCTC-TTCTCAAAGTTCACAACTTAGTGGCATCCCTTC
*
2010913 TTCAAAGTCCATGACTTAATGGCAACT
64 TTCAAAGTCCATGACTCAATGGCAACT
* * * *
2010940 CTTCTCAAAGTCCACAACTCCATGGTATCCTATTCTCAAAG-TCTATAACTTAGTGGCATCCCTT
1 CTTCTCAAAGTCCACGACT-CATGGCAT-CTCTTCTCAAAGTTC-ACAACTTAGTGGCATCCCTT
* * *
2011004 CTTCAAAGTTCATGACTCAGTGGCATCT
63 CTTCAAAGTCCATGACTCAATGGCAACT
* * * *
2011032 CTTCTTGAAAGTCCACGACTCAGTGGCGTCTCTTATCAAAGTTCACAACTCCA-TGGCATCCACT
1 CTTC-TCAAAGTCCACGACTCA-TGGCATCTCTTCTCAAAGTTCACAACT-TAGTGGCATCC-CT
*
2011096 T-TTTAAAGTCCA
62 TCTTCAAAGTCCA
2011108 CAACTTCGTG
Statistics
Matches: 138, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
91 25 0.18
92 90 0.65
93 23 0.17
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (90 bp):
CTTCTCAAAGTCCACGACTCATGGCATCTCTTCTCAAAGTTCACAACTTAGTGGCATCCCTTCTT
CAAAGTCCATGACTCAATGGCAACT
Found at i:2011129 original size:123 final size:121
Alignment explanation
Indices: 2010871--2011257 Score: 342
Period size: 123 Copynumber: 3.1 Consensus size: 121
2010861 CACGACTCAA
* * * * * *
2010871 TGGCATCCTTTC-TCAAAGTCCACGACTTAGTGGCACCCCTTCTTCAAAGTCCATGACTTAATGG
1 TGGCATCCTTTCTTCAAAGTTCA-GACTCAGTGGCATCTCTTCTT-AAAGTCCATGACTCAGTGG
* * * * * * * *
2010935 CAACTCTTCTCAAAGTCCACAACTCCATGGTATCCTA-TTCTCAAAGTCTATAACTTAG
64 CAACTCTTATCAAAGTTCACAACTCCATGGCATCC-ACTTTTTAAAGTCCACAACTTCG
* *
2010993 TGGCATCCCTTCTTCAAAGTTCATGACTCAGTGGCATCTCTTCTTGAAAGTCCACGACTCAGTGG
1 TGGCATCCTTTCTTCAAAGTTCA-GACTCAGTGGCATCTCTTCTT-AAAGTCCATGACTCAGTGG
**
2011058 CGTCTCTTATCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCG
64 CAACTCTTATCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCG
* * * *
2011116 TGGCA-CCTTTTCTTCGAAGTCTACA-ACTTC-GTGGCATCTCTT-TTAAAGTTCATAACTCGGT
1 TGGCATCC-TTTCTTCAAAGT-T-CAGAC-TCAGTGGCATCTCTTCTTAAAGTCCATGACTCAGT
* * * *
2011177 GGCACCTTTTCCTTCAAAG-TCTACAACTCTATGGCATCC-CTTTTTTAAAGTCCACAACTTCG
62 GGCAACTCTT--ATCAAAGTTC-ACAACTCCATGGCATCCAC-TTTTTAAAGTCCACAACTTCG
2011239 TGGCA-CCTTTTTCTTCAAA
1 TGGCATCC--TTTCTTCAAA
2011258 ATCTACAACT
Statistics
Matches: 222, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
121 20 0.09
122 19 0.09
123 168 0.76
124 13 0.06
125 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (121 bp):
TGGCATCCTTTCTTCAAAGTTCAGACTCAGTGGCATCTCTTCTTAAAGTCCATGACTCAGTGGCA
ACTCTTATCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCG
Found at i:2011179 original size:60 final size:60
Alignment explanation
Indices: 2011002--2011669 Score: 338
Period size: 61 Copynumber: 11.0 Consensus size: 60
2010992 GTGGCATCCC
* * ** *
2011002 TTCTTCAAAGT-T-CATGACTCAGTGGCATCTCTTCTTGAAAGTCCACGAC-TCAGTGGCGTCTC
1 TTCTTCAAAGTCTACA--ACTCTGTGGCATCTCTT-TT-AAAGTCCACAACTTC-GTGGCACCTT
* ** *
2011064 TT-ATCAAAGT-TCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCGTGGCACCTT
1 TTCTTCAAAGTCT-ACAACTCTGTGGCAT-CTC-TTTTAAAGTCCACAACTTCGTGGCACCTT
* * *
2011125 TTCTTCGAAGTCTACAACT-TCGTGGCATCTCTTTTAAAGTTCATAAC-TCGGTGGCACCTT
1 TTCTTCAAAGTCTACAACTCT-GTGGCATCTCTTTTAAAGTCCACAACTTC-GTGGCACCTT
* *
2011185 TTCCTTCAAAGTCTACAACTCTATGGCATCCCTTTTTTAAAGTCCACAACTTCGTGGCACCTTT
1 TT-CTTCAAAGTCTACAACTCTGTGGCAT--CTCTTTTAAAGTCCACAACTTCGTGGCACC-TT
* * * * * * *
2011249 TTCTTCAAAATCTACAACTCTGTGGCA-CCCTTTCAAAGTCCACAACTCCTTGGCATCTC
1 TTCTTCAAAGTCTACAACTCTGTGGCATCTCTTTTAAAGTCCACAACTTCGTGGCACCTT
* * * * * *
2011308 TT-TT-AAAGTCCACAACT-TCGTGGCACCTTTTTCTTCAAAGTCCATAACTTTGTGGCACCCTC
1 TTCTTCAAAGTCTACAACTCT-GTGGCATC-TCTT-TT-AAAGTCCACAACTTCGTGGCA-CCTT
* * * * * * *
2011370 TT-TT-AAAGTCCATAACTCTGTGGCATCTTTTTTGAAGTCCACAACTGCATGGCATCTT
1 TTCTTCAAAGTCTACAACTCTGTGGCATCTCTTTTAAAGTCCACAACTTCGTGGCACCTT
*** * * * * * * *
2011428 TT-TT-AAAGTCCGTAACTCTATGGCACCTTTTTTTTCAAAGTCCACAACTCCATGACACC-C
1 TTCTTCAAAGTCTACAACTCTGTGGCA--TCTCTTTT-AAAGTCCACAACTTCGTGGCACCTT
* ** * * * *
2011488 TT-TT--AAGTCCATGACTCCGTGGCACCCTCTTTTAAAGTCCACAAATTTGTGGCACC-T
1 TTCTTCAAAGTCTACAACTCTGTGGCA-TCTCTTTTAAAGTCCACAACTTCGTGGCACCTT
* * * * * *
2011545 TT-TTCTGAAGTCCACAACTCTAT-GCATCTTTTTTTAAAGTCGACAACTCCGTGGCACCTTTT
1 TTCTTC-AAAGTCTACAACTCTGTGGCATC-TCTTTTAAAGTCCACAACTTCGTGGCACC--TT
* ** * * **
2011607 TTTTTCAAAGT-TCACAACTCCATGGCACCTCTTTTAAAGTCCGCAACTTTTTGGCATCCTT
1 TTCTTCAAAGTCT-ACAACTCTGTGGCATCTCTTTTAAAGTCCACAACTTCGTGGCA-CCTT
2011668 TT
1 TT
2011670 AAGTCCACAA
Statistics
Matches: 481, Mismatches: 89, Indels: 73
0.75 0.14 0.11
Matches are distributed among these distances:
56 1 0.00
57 39 0.08
58 35 0.07
59 66 0.14
60 76 0.16
61 106 0.22
62 90 0.19
63 62 0.13
64 6 0.01
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (60 bp):
TTCTTCAAAGTCTACAACTCTGTGGCATCTCTTTTAAAGTCCACAACTTCGTGGCACCTT
Found at i:2011287 original size:123 final size:123
Alignment explanation
Indices: 2011067--2011296 Score: 333
Period size: 123 Copynumber: 1.9 Consensus size: 123
2011057 GCGTCTCTTA
*
2011067 TCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCGTGGCACCTTTTCTTCG
1 TCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCGTGGCACCTTTTCTTCA
* * * * *
2011132 AAGTCTACAACTTCGTGGCATCTCTTTTAAAGTTCATAACTCGGTGGCACCTTTTCCT
66 AAATCTACAACTTCGTGGCATCCCTTTCAAAGTCCACAACTCGGTGGCACCTTTTCCT
*
2011190 TCAAAG-TCTACAACTCTATGGCATCC-CTTTTTTAAAGTCCACAACTTCGTGGCACCTTTTTCT
1 TCAAAGTTC-ACAACTCCATGGCATCCAC-TTTTTAAAGTCCACAACTTCGTGGCACC-TTTTCT
2011253 TCAAAATCTACAAC-TCTGTGGCA-CCCTTTCAAAGTCCACAACTC
63 TCAAAATCTACAACTTC-GTGGCATCCCTTTCAAAGTCCACAACTC
2011297 CTTGGCATCT
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
122 3 0.03
123 69 0.72
124 24 0.25
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (123 bp):
TCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCGTGGCACCTTTTCTTCA
AAATCTACAACTTCGTGGCATCCCTTTCAAAGTCCACAACTCGGTGGCACCTTTTCCT
Found at i:2011335 original size:89 final size:89
Alignment explanation
Indices: 2010883--2011679 Score: 446
Period size: 92 Copynumber: 8.8 Consensus size: 89
2010873 GCATCCTTTC
* * ** * *
2010883 TCAAAGTCCACGACT-TAGTGGCACCCCTTCTTCAAAGTCCATGACT-TAATGGCAACTCTTCTC
1 TCAAAGTCCACAACTCT-GTGGCACCTC-T-TTCAAAGTCCACAACTCT-ATGGCATCTCTT-TT
* * * *
2010946 AAAGTCCACAACTCCATGGTATCC-TATTC
61 AAAGTCCACAACTCCGTGGCA-CCTTTTTT
* * * **
2010975 TCAAAGTCTATAACT-TAGTGGCATCC-CTTCTTCAAAGTTCATGACTC-AGTGGCATCTCTTCT
1 TCAAAGTCCACAACTCT-GTGGCA-CCTC-T-TTCAAAGTCCACAACTCTA-TGGCATCTCTT-T
* * ** * *
2011037 TGAAAGTCCACGACTCAGTGGCGTC-TCTTA
60 T-AAAGTCCACAACTCCGTGGCACCTTTTTT
* ** * * * * *
2011067 TCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACT-TCGTGGCACCTTTTCTTC
1 TCAAAGTCCACAACTCTGTGGCA-CCTC-TTTCAAAGTCCACAACTCT-ATGGCATCTCTT-TT-
* * * * *
2011131 GAAGTCTACAACTTCGTGGCATC-TCTTT
61 AAAGTCCACAACTCCGTGGCACCTTTTTT
* * * * * *
2011159 T-AAAGTTCATAACTCGGTGGCACCTTTTCCTTCAAAGTCTACAACTCTATGGCATCCCTTTTTT
1 TCAAAGTCCACAACTCTGTGGCACC---TCTTTCAAAGTCCACAACTCTATGGCAT--CTCTTTT
*
2011223 AAAGTCCACAACTTCGTGGCACCTTTTTCT
61 AAAGTCCACAACTCCGTGGCACCTTTTT-T
* *
2011253 TCAAAATCTACAACTCTGTGGCACC-CTTTCAAAGTCCACAACTCCT-TGGCATCTCTTTTAAAG
1 TCAAAGTCCACAACTCTGTGGCACCTCTTTCAAAGTCCACAACT-CTATGGCATCTCTTTTAAAG
*
2011316 TCCACAACTTCGTGGCACCTTTTTCT
65 TCCACAACTCCGTGGCACCTTTTT-T
* * * * * * *
2011342 TCAAAGTCCATAACTTTGTGGCACCCTCTTTTAAAGTCCATAACTCTGTGGCATCTTTTTTGAAG
1 TCAAAGTCCACAACTCTGTGGCA-CCTCTTTCAAAGTCCACAACTCTATGGCATCTCTTTTAAAG
* * *
2011407 TCCACAACTGCATGGCATC-TTTTT
65 TCCACAACTCCGTGGCACCTTTTTT
** * * * * *
2011431 T-AAAGTCCGTAACTCTATGGCACCTTTTTTTTCAAAGTCCACAACTCCATGACA-CCCTTTT-A
1 TCAAAGTCCACAACTCTGTGGCACC---TCTTTCAAAGTCCACAACTCTATGGCATCTCTTTTAA
** * *
2011493 AGTCCATGACTCCGTGGCACCCTCTTT
63 AGTCCACAACTCCGTGGCACCTTTTTT
* * * * *
2011520 T-AAAGTCCACAAATTTGTGGCACCTTTTTCTGAAGTCCACAACTCTAT-GCATCTTTTTTTAAA
1 TCAAAGTCCACAACTCTGTGGCACCTCTTTC-AAAGTCCACAACTCTATGGCATC-TCTTTTAAA
*
2011583 GTCGACAACTCCGTGGCACCTTTTTTTT
64 GTCCACAACTCCGTGGCACC--TTTTTT
* ** * * * *
2011611 TCAAAGTTCACAACTCCATGGCACCTCTTTTAAAGTCCGCAACTTTTTGGCATC-CTTTT-AAGT
1 TCAAAGTCCACAACTCTGTGGCACCTCTTTCAAAGTCCACAACTCTATGGCATCTCTTTTAAAGT
2011674 CCACAA
66 CCACAA
2011680 GTCAGTGGAA
Statistics
Matches: 561, Mismatches: 111, Indels: 69
0.76 0.15 0.09
Matches are distributed among these distances:
86 8 0.01
87 18 0.03
88 39 0.07
89 113 0.20
90 35 0.06
91 106 0.19
92 189 0.34
93 28 0.05
94 7 0.01
95 18 0.03
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (89 bp):
TCAAAGTCCACAACTCTGTGGCACCTCTTTCAAAGTCCACAACTCTATGGCATCTCTTTTAAAGT
CCACAACTCCGTGGCACCTTTTTT
Found at i:2011364 original size:61 final size:59
Alignment explanation
Indices: 2010871--2011679 Score: 321
Period size: 61 Copynumber: 13.4 Consensus size: 59
2010861 CACGACTCAA
* * * * * ** **
2010871 TGGCATCCT-TTCTCAAAGTCCACGACTTAGTGGCACCCCTTCTTCAAAGTCCATGACTTAA
1 TGGCA-CCTCTTCTTAAAGTCCACAACTTCGTGGCA--CCTTTTTTAAAGTCCACAACTTCG
* * * * * * * * * *
2010932 TGGCAACTCTTCTCAAAGTCCACAACTCCATGGTATCCTATTCTCAAAGTCTATAACTTAG
1 TGGCACCTCTTCTTAAAGTCCACAACTTCGTGGCA-CCT-TTTTTAAAGTCCACAACTTCG
* ** * * *
2010993 TGGCATCC-CTTCTTCAAAGTTCATGAC-TCAGTGGCATCTCTTCTTGAAAGTCCACGAC-TCAG
1 TGGCA-CCTCTTCTT-AAAGTCCACAACTTC-GTGGCA-C-CTTTTTTAAAGTCCACAACTTC-G
** * * * * * *
2011055 TGGCGTCTCTTATCAAAGTTCACAACTCCATGGCATCCACTTTTTAAAGTCCACAACTTCG
1 TGGCACCTCTTCTTAAAGTCCACAACTTCGTGGCA-CC-TTTTTTAAAGTCCACAACTTCG
* * * * * * *
2011116 TGGCACCTTTTCTTCGAAGTCTACAACTTCGTGGCATCTCTTTTAAAGTTCATAAC-TCGG
1 TGGCACCTCTTCTT-AAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTTC-G
* * *
2011176 TGGCACCTTTTCCTTCAAAGTCTACAAC-TCTATGGCATCCCTTTTTTAAAGTCCACAACTTCG
1 TGGCACCTCTT-CTT-AAAGTCCACAACTTC-GTGGCA--CCTTTTTTAAAGTCCACAACTTCG
* * * * * * *
2011239 TGGCACCTTTTTCTTCAAAATCTACAAC-TCTGTGGCACC-CTTTCAAAGTCCACAACTCCT
1 TGGCACC-TCTTCTT-AAAGTCCACAACTTC-GTGGCACCTTTTTTAAAGTCCACAACTTCG
* * *
2011299 TGGCATCTCTT-TTAAAGTCCACAACTTCGTGGCACCTTTTTCTTCAAAGTCCATAACTTTG
1 TGGCACCTCTTCTTAAAGTCCACAACTTCGTGGCACC-TTTT-TT-AAAGTCCACAACTTCG
* * * * *
2011360 TGGCACCCTCTT-TTAAAGTCCATAAC-TCTGTGGCATCTTTTTTGAAGTCCACAACTGCA
1 TGGCA-CCTCTTCTTAAAGTCCACAACTTC-GTGGCACCTTTTTTAAAGTCCACAACTTCG
* * ** * * *
2011419 TGGCATCT-TTTTTAAAGTCCGTAAC-TCTATGGCACCTTTTTTTTCAAAGTCCACAACTCCA
1 TGGCACCTCTTCTTAAAGTCCACAACTTC-GTGGCACC--TTTTTT-AAAGTCCACAACTTCG
* ** * * * *
2011480 TGACACC-CTT-TT-AAGTCCATGACTCCGTGGCACCCTCTTTTAAAGTCCACAAATTTG
1 TGGCACCTCTTCTTAAAGTCCACAACTTCGTGGCA-CCTTTTTTAAAGTCCACAACTTCG
* * * * * *
2011537 TGGCACCT-TTTTCTGAAGTCCACAAC-TC-TATGCATCTTTTTTTAAAGTCGACAACTCCG
1 TGGCACCTCTTCT-TAAAGTCCACAACTTCGT-GGCA-CCTTTTTTAAAGTCCACAACTTCG
* * * * * * * **
2011596 TGGCACCTTTTTTTTTCAAAGTTCACAACTCCATGGCACCTCTTTTAAAGTCCGCAACTTTT
1 TGGCACC--TCTTCTT-AAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTTCG
*
2011658 TGGCATC-CTT-TT-AAGTCCACAA
1 TGGCACCTCTTCTTAAAGTCCACAA
2011680 GTCAGTGGAA
Statistics
Matches: 577, Mismatches: 127, Indels: 93
0.72 0.16 0.12
Matches are distributed among these distances:
56 9 0.02
57 40 0.07
58 37 0.06
59 69 0.12
60 80 0.14
61 165 0.29
62 117 0.20
63 53 0.09
64 7 0.01
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (59 bp):
TGGCACCTCTTCTTAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTTCG
Found at i:2011519 original size:120 final size:118
Alignment explanation
Indices: 2011140--2011679 Score: 328
Period size: 120 Copynumber: 4.5 Consensus size: 118
2011130 CGAAGTCTAC
* * * ** * *
2011140 AACTTCGTGGCATCTCTTTTAAAGTTCATAACTCGGTGGCACCTTTTCCTTCAAAGTCTACAACT
1 AACTCCGTGGCA--TCTTTTAAAGTCCACAACTCCATGGCATCTTTT--TT-AAAGTCCACAACT
* * * * * * * * *
2011205 CTATGGCATCC-CTTTTTT-AAAGTCCACAACTTCGTGGCACCTTTTTCTTCAAAATCTAC
61 CTATGGCA-CCTTTTTTTTCAAAGTCCACAACTCCATGACACCCTCTT-TT-AAAGTCCAT
* * * * * *
2011264 AACTCTGTGGCACCCTTTCAAAGTCCACAACTCCTTGGCATCTCTTTTAAAGTCCACAACT-TCG
1 AACTCCGTGGCA-TCTTTTAAAGTCCACAACTCCATGGCATCTTTTTTAAAGTCCACAACTCT-A
* * *** *
2011328 TGGCACCTTTTTCTTCAAAGTCCATAACTTTGTGGCACCCTCTTTTAAAGTCCAT
64 TGGCACCTTTTTTTTCAAAGTCCACAACTCCATGACACCCTCTTTTAAAGTCCAT
* * * **
2011383 AACTCTGTGGCATCTTTTTTGAAGTCCACAACTGCATGGCATCTTTTTTAAAGTCCGTAACTCTA
1 AACTCCGTGGCATC--TTTTAAAGTCCACAACTCCATGGCATCTTTTTTAAAGTCCACAACTCTA
2011448 TGGCACCTTTTTTTTCAAAGTCCACAACTCCATGACA-CC-CTTTT-AAGTCCAT
64 TGGCACCTTTTTTTTCAAAGTCCACAACTCCATGACACCCTCTTTTAAAGTCCAT
* * *** * *
2011500 GACTCCGTGGCACCCTCTTTTAAAGTCCACAAATTTGTGGCACCTTTTTCTGAAGTCCACAACTC
1 AACTCCGTGGCA---TCTTTTAAAGTCCACAACTCCATGGCATCTTTTT-TAAAGTCCACAACTC
* * * * * * * *
2011565 TAT-GCATC-TTTTTTT-AAAGTCGACAACTCCGTGGCACCTTTTTTTTTCAAAGTTCAC
62 TATGGCACCTTTTTTTTCAAAGTCCACAACTCCATGACACC--CTCTTTT-AAAGTCCAT
* * *** *
2011622 AACTCCATGGCACCTCTTTTAAAGTCCGCAACTTTTTGGCATC-CTTTT-AAGTCCACAA
1 AACTCCGTGGCA--TCTTTTAAAGTCCACAACTCCATGGCATCTTTTTTAAAGTCCACAA
2011680 GTCAGTGGAA
Statistics
Matches: 338, Mismatches: 62, Indels: 38
0.77 0.14 0.09
Matches are distributed among these distances:
116 18 0.05
117 26 0.08
118 46 0.14
119 39 0.12
120 103 0.30
121 54 0.16
122 16 0.05
123 26 0.08
124 10 0.03
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (118 bp):
AACTCCGTGGCATCTTTTAAAGTCCACAACTCCATGGCATCTTTTTTAAAGTCCACAACTCTATG
GCACCTTTTTTTTCAAAGTCCACAACTCCATGACACCCTCTTTTAAAGTCCAT
Found at i:2011661 original size:29 final size:29
Alignment explanation
Indices: 2011018--2011679 Score: 364
Period size: 29 Copynumber: 22.0 Consensus size: 29
2011008 AAAGTTCATG
* * *
2011018 ACTCAGTGGCATCTCTTCTTGAAAGTCCACG
1 ACTCCGTGGCACCTCTT-TT-AAAGTCCACA
* ** * *
2011049 ACTCAGTGGCGTCTCTTATCAAAGTTCACA
1 ACTCCGTGGCACCTCTT-TTAAAGTCCACA
* *
2011079 ACTCCATGGCATCCACTTTTTAAAGTCCACA
1 ACTCCGTGGCA-CCTC-TTTTAAAGTCCACA
* * * *
2011110 ACTTCGTGGCACCTTTTCTTCGAAGTCTACA
1 ACTCCGTGGCACCTCTT-TT-AAAGTCCACA
* * * *
2011141 ACTTCGTGGCATCTCTTTTAAAGTTCATA
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
* * *
2011170 ACTCGGTGGCACCTTTTCCTTCAAAGTCTACA
1 ACTCCGTGGCACCTCTT--TT-AAAGTCCACA
** *
2011202 ACTCTATGGCATCCCTTTTTTAAAGTCCACA
1 ACTCCGTGGCA--CCTCTTTTAAAGTCCACA
* * * *
2011233 ACTTCGTGGCACCTTTTTCTTCAAAATCTACA
1 ACTCCGTGGCACC-TCTT-TT-AAAGTCCACA
* *
2011265 ACTCTGTGGCACC-CTTTCAAAGTCCACA
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
* *
2011293 ACTCCTTGGCATCTCTTTTAAAGTCCACA
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
* * *
2011322 ACTTCGTGGCACCTTTTTCTTCAAAGTCCATA
1 ACTCCGTGGCACC-TCTT-TT-AAAGTCCACA
** *
2011354 ACTTTGTGGCACCCTCTTTTAAAGTCCATA
1 ACTCCGTGGCA-CCTCTTTTAAAGTCCACA
* * * *
2011384 ACTCTGTGGCATCTTTTTTGAAGTCCACA
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
* * * * **
2011413 ACTGCATGGCATCTTTTTTAAAGTCCGTA
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
** *
2011442 ACTCTATGGCACCTTTTTTTTCAAAGTCCACA
1 ACTCCGTGGCACC--TCTTTT-AAAGTCCACA
* * **
2011474 ACTCCATGACACC-CTTTT-AAGTCCATG
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
2011501 ACTCCGTGGCACCCTCTTTTAAAGTCCACA
1 ACTCCGTGGCA-CCTCTTTTAAAGTCCACA
* ** * *
2011531 AATTTGTGGCACCTTTTTCTGAAGTCCACA
1 ACTCCGTGGCACCTCTTT-TAAAGTCCACA
** * * *
2011561 ACTCTAT-GCATCTTTTTTTAAAGTCGACA
1 ACTCCGTGGCA-CCTCTTTTAAAGTCCACA
* *
2011590 ACTCCGTGGCACCTTTTTTTTTCAAAGTTCACA
1 ACTCCGTGGCACC---TCTTTT-AAAGTCCACA
* *
2011623 ACTCCATGGCACCTCTTTTAAAGTCCGCA
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
*** *
2011652 ACTTTTTGGCATC-CTTTT-AAGTCCACA
1 ACTCCGTGGCACCTCTTTTAAAGTCCACA
2011679 A
1 A
2011680 GTCAGTGGAA
Statistics
Matches: 495, Mismatches: 106, Indels: 64
0.74 0.16 0.10
Matches are distributed among these distances:
27 25 0.05
28 25 0.05
29 145 0.29
30 94 0.19
31 92 0.19
32 86 0.17
33 22 0.04
34 6 0.01
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (29 bp):
ACTCCGTGGCACCTCTTTTAAAGTCCACA
Found at i:2011679 original size:148 final size:147
Alignment explanation
Indices: 2011345--2011654 Score: 401
Period size: 147 Copynumber: 2.1 Consensus size: 147
2011335 TTTTTCTTCA
* ** * * *
2011345 AAGTCCATAACTTTGTGGCACCCTCTTTTAAAGTCCATAACTCTGTGGCATCTTTTTTGAAGTCC
1 AAGTCCACAACTCCGTGGCACCCTCTTTTAAAGTCCACAAATCTGTGGCACCTTTTTTGAAGTCC
* *
2011410 ACAACTGCATGGCATCTTTTTTAAAGTCCGTAACTCTATGGCACCTTTTTTTTCAAAGTCCACAA
66 ACAACTGCATGGCATCTTTTTTAAAGTCCGCAACTCCATGGCACCTTTTTTTTCAAAGTCCACAA
2011475 CTCCATGACACCCTTTT
131 CTCCATGACACCCTTTT
** *
2011492 AAGTCCATGACTCCGTGGCACCCTCTTTTAAAGTCCACAAATTTGTGGCACCTTTTTCTGAAGTC
1 AAGTCCACAACTCCGTGGCACCCTCTTTTAAAGTCCACAAATCTGTGGCACCTTTTT-TGAAGTC
* *
2011557 CACAACT-CTAT-GCATCTTTTTTTAAAGT-CGACAACTCCGTGGCACCTTTTTTTTTCAAAGTT
65 CACAACTGC-ATGGCATC-TTTTTTAAAGTCCG-CAACTCCATGGCACC-TTTTTTTTCAAAGTC
*
2011619 CACAACTCCATGGCACCTCTTTT
126 CACAACTCCATGACACC-CTTTT
*
2011642 AAAGTCCGCAACT
1 -AAGTCCACAACT
2011655 TTTTGGCATC
Statistics
Matches: 141, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
147 58 0.41
148 39 0.28
149 30 0.21
150 5 0.04
151 9 0.06
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (147 bp):
AAGTCCACAACTCCGTGGCACCCTCTTTTAAAGTCCACAAATCTGTGGCACCTTTTTTGAAGTCC
ACAACTGCATGGCATCTTTTTTAAAGTCCGCAACTCCATGGCACCTTTTTTTTCAAAGTCCACAA
CTCCATGACACCCTTTT
Found at i:2011737 original size:33 final size:32
Alignment explanation
Indices: 2011675--2011957 Score: 247
Period size: 31 Copynumber: 9.0 Consensus size: 32
2011665 CTTTTAAGTC
* * *
2011675 CACAAGTCAGTGGAAATCCTTTC-AAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
* *
2011706 TACAAGTCGGTGGTAACCCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTT-TCTAAAGCCCA
* * *
2011739 CACAAGTCGGTGACAACCC-TTCTAAAACCTA
1 CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
* *
2011770 CACAAGTTGGTGACAACCCTTTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCC-TTTCTAAAGCCCA
* *
2011803 CACAAGTTGATGGCAA-CCTTT-TAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
* * * * *
2011833 CACAAGTTGATAGCAA-CCTTTCCAAAGCCTA
1 CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
* *
2011864 CACAAGTCGGTGGCAA-CCTTTTTAAAGCCTA
1 CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
* ** **
2011895 CATAAGTTAGTATCAACCC-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
* * * *
2011926 CACTAGTCGGTGGCAATCCTCTCAAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
2011958 ATGTCGTTAG
Statistics
Matches: 207, Mismatches: 38, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
30 29 0.14
31 113 0.55
32 17 0.08
33 48 0.23
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCTTTCTAAAGCCCA
Found at i:2011954 original size:94 final size:92
Alignment explanation
Indices: 2011728--2011955 Score: 248
Period size: 94 Copynumber: 2.4 Consensus size: 92
2011718 GTAACCCTTC
* *
2011728 TCTAAAGCCCACACAAGTCGGTGACAACCCTTCTAAAA-CCTACACAAGTTGGTGACAACCCTTT
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCTTC-AAAAGCCTACACAAGTCGGTGACAACCCTTT
2011792 TCTAAAGCCCACACAAGTTGATGGCAACCT
64 TCTAAAGCCCACACAAGTTGAT-GCAACCT
* * * * * *
2011822 TTTAAAGCCCACACAAGTTGATAGCAACCTTTCCAAAGCCTACACAAGTCGGTGGCAA-CCTTTT
1 TCTAAAGCCCACACAAGTCGGTGGCAACC-TTCAAAAGCCTACACAAGTCGGTGACAACCCTTTT
* *
2011886 -TAAAGCCTACATAAGTTAGTAT-CAACCCT
65 CTAAAGCCCACACAAGTT-G-ATGCAA-CCT
*
2011915 TCTAAAGCCCACACTAGTCGGTGGCAATCCTCTCAAAAGCC
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCT-TCAAAAGCC
2011956 CAATGTCGTT
Statistics
Matches: 111, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
92 18 0.16
93 38 0.34
94 55 0.50
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (92 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCTTCAAAAGCCTACACAAGTCGGTGACAACCCTTTTC
TAAAGCCCACACAAGTTGATGCAACCT
Found at i:2011954 original size:125 final size:124
Alignment explanation
Indices: 2011731--2011957 Score: 296
Period size: 125 Copynumber: 1.8 Consensus size: 124
2011721 ACCCTTCTCT
*
2011731 AAAGCCCACACAAGTCGGTGACAACCCTTCTAAAACCTACACAAGTTGGTGACAACCCTTTTCTA
1 AAAGCCCACACAAGTCGGTGACAACCCTTCTAAAACCTACACAAGTTAGTGACAACCC-TTTCTA
* **
2011796 AAGCCCACACAAGTTGATGGCAACCTTTTAAAGCCCACACAAGTTGATAGCAACCTTTCC
65 AAGCCCACACAAGTCGATGGCAACCTTCAAAAGCCCACACAAGTTGATAGCAACCTTTCC
* * * * * *
2011856 AAAGCCTACACAAGTCGGTGGCAACCTTTTTAAAGCCTACATAAGTTAGT-ATCAACCC-TTCTA
1 AAAGCCCACACAAGTCGGTGACAACCCTTCTAAAACCTACACAAGTTAGTGA-CAACCCTTTCTA
* *
2011919 AAGCCCACACTAGTCGGTGGCAATCCTCTCAAAAGCCCA
65 AAGCCCACACAAGTCGATGGCAA-CCT-TCAAAAGCCCA
2011958 ATGTCGTTAG
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
123 25 0.29
124 4 0.05
125 58 0.67
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (124 bp):
AAAGCCCACACAAGTCGGTGACAACCCTTCTAAAACCTACACAAGTTAGTGACAACCCTTTCTAA
AGCCCACACAAGTCGATGGCAACCTTCAAAAGCCCACACAAGTTGATAGCAACCTTTCC
Found at i:2012205 original size:52 final size:52
Alignment explanation
Indices: 2012107--2012266 Score: 133
Period size: 52 Copynumber: 3.1 Consensus size: 52
2012097 ACACCTTTAC
* * * * * * * *
2012107 CATTTTTAAGCCCAATGTAGCTAGCCTTAAATCAGCACA-TAGGCATTCTTTT
1 CATTTTCAAGTCCAATGTCGCTGGCCGTGAATCAACACATTA-GCATTCTTAT
* ** * * * *
2012159 CATTTTTAAGTTTAATGTCGCTGGCCTTGAATCAATACATTAGCATTATTCT
1 CATTTTCAAGTCCAATGTCGCTGGCCGTGAATCAACACATTAGCATTCTTAT
* * * *
2012211 CATCTTCAAGTCCAATGTCGTTGGCCGTGAATCAACACATTGGCACTCTTAT
1 CATTTTCAAGTCCAATGTCGCTGGCCGTGAATCAACACATTAGCATTCTTAT
2012263 CATT
1 CATT
2012267 GAGTTCGGTG
Statistics
Matches: 85, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
52 83 0.98
53 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
CATTTTCAAGTCCAATGTCGCTGGCCGTGAATCAACACATTAGCATTCTTAT
Found at i:2013383 original size:50 final size:52
Alignment explanation
Indices: 2013329--2013428 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 52
2013319 TCAAGTATTC
* * * *
2013329 TCGATTATGGAAAATAGATGTTTGGAAAATAAAACT-G-GGTTAGAGTATCT
1 TCGATTATAGAAAATAGATATTTGAAAAATAAAAATCGAGGTTAGAGTATCT
* * *
2013379 TCGATTGTAGAAAATTGATATTTTAAAAATAAAAATCGAGGTTAGAGTAT
1 TCGATTATAGAAAATAGATATTTGAAAAATAAAAATCGAGGTTAGAGTAT
2013429 TTTATCAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 29 0.71
51 1 0.02
52 11 0.27
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (52 bp):
TCGATTATAGAAAATAGATATTTGAAAAATAAAAATCGAGGTTAGAGTATCT
Found at i:2013534 original size:79 final size:79
Alignment explanation
Indices: 2013433--2013808 Score: 400
Period size: 79 Copynumber: 4.8 Consensus size: 79
2013423 GAGTATTTTA
* * * *
2013433 TCAAAAATAATG-GGATTGGAGTATCCCTGATAGTGAAAAATTAGTGTTTTAGAAATAAAACC-A
1 TCAAAAATAACGAGG-TTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACCGA
*
2013496 GGGTTGGAGTATCTCT
65 -GGTTGGAGTATCCCT
* * *
2013512 TCAAAAATAACGGGGTTAGAGTATCCCCGATGGTGGAAAATCTA-TG-TTTAGAAATAAAATCGA
1 TCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAAT-TAGTGTTTTAGAAATAAAACCGA
** *
2013575 GGTCAGAGTTATACCT
65 GGTTGGAG-TATCCCT
** * * * * *
2013591 TTGAAATTAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTGGAAATAAAACCGAT
1 TCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACCGAG
2013656 GTTGGAGTATCCCT
66 GTTGGAGTATCCCT
* * * *
2013670 TCAGAAATAACGAGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGAG
1 TCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACCGAG
* * * *
2013735 ATTGAAGGATCCCC
66 GTTGGAGTATCCCT
* ** * **
2013749 TCAAAAATAACAAGGTTGGAGTATCCATGATGGTGGAAAATCAGAATTTTAGAAATAAAA
1 TCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAA
2013809 ACATGAATGA
Statistics
Matches: 244, Mismatches: 47, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
78 21 0.09
79 199 0.82
80 24 0.10
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
TCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACCGAG
GTTGGAGTATCCCT
Found at i:2013611 original size:158 final size:159
Alignment explanation
Indices: 2013366--2013734 Score: 437
Period size: 158 Copynumber: 2.3 Consensus size: 159
2013356 AATAAAACTG
** * * * * *
2013366 GGTTAGAGTATCTTCGATTGTAGAAAATTGATATTTTAAAAATAAAAATCGAGGTTAGAG-TAT-
1 GGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAAT-AAAATCGAGGTCAGAGTTATA
* * * * * *
2013429 -TTTATCAAAAATAATG-GGATTGGAGTATCCCTGATAGTGAAAAATTAGTGTTTTAGAAATAAA
65 CCTT-T-GAAATTAACGAGG-TTGGAGTATCCCCGATAGTGAAAAATCAGTGTTTTAGAAATAAA
* *
2013492 ACC-AGGGTTGGAGTATCTCTTCAAAAATAACGG
127 ACCGA-GGTTGGAGTATCCCTTCAAAAATAACGA
2013525 GGTTAGAGTATCCCCGATGGTGGAAAATCT-ATG-TTTAGAAATAAAATCGAGGTCAGAGTTATA
1 GGTTAGAGTATCCCCGATGGTGGAAAAT-TGATGTTTTAGAAATAAAATCGAGGTCAGAGTTATA
* *
2013588 CCTTTGAAATTAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTGGAAATAAAACC
65 CCTTTGAAATTAACGAGGTTGGAGTATCCCCGATAGTGAAAAATCAGTGTTTTAGAAATAAAACC
* *
2013653 GATGTTGGAGTATCCCTTCAGAAATAACGA
130 GAGGTTGGAGTATCCCTTCAAAAATAACGA
* * *
2013683 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGAG
1 GGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAATCGAG
2013735 ATTGAAGGAT
Statistics
Matches: 180, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
157 16 0.09
158 113 0.63
159 48 0.27
160 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (159 bp):
GGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAATCGAGGTCAGAGTTATAC
CTTTGAAATTAACGAGGTTGGAGTATCCCCGATAGTGAAAAATCAGTGTTTTAGAAATAAAACCG
AGGTTGGAGTATCCCTTCAAAAATAACGA
Found at i:2013765 original size:158 final size:158
Alignment explanation
Indices: 2013448--2013808 Score: 442
Period size: 158 Copynumber: 2.3 Consensus size: 158
2013438 AATAATGGGA
* * *
2013448 TTGGAGTATCCCTGATAGTGAAAAATTAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCTCTT
1 TTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCTT
*
2013513 CAAAAATAACGGGGTTAGAGTATCCCCGATGGTGGAAAATCTATGTTTAGAAATAAAATCGAGGT
66 CAAAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCTATGTTTAGAAATAAAATCGAGGT
* * ** * *
2013578 CAGAGTTATACCTTTGAAATTAACGAGG
131 CAGAGTGATACCCTCAAAAATAACAAGG
* * *
2013606 TTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTGGAAATAAAACC-GATGTTGGAGTATCCCT
1 TTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTAGAAATAAAACCAG-GGTTGGAGTATCCCT
* * * *
2013670 TCAGAAATAACGAGGTTGGAGTATCCCCGATTGTGGAAAAT-TGGTGTTTTAGAAATAAAATCGA
65 TCAAAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCT-ATG-TTTAGAAATAAAATCGA
* * *
2013734 GAT-TGAAG-GATCCCCTCAAAAATAACAAGG
128 GGTCAG-AGTGATACCCTCAAAAATAACAAGG
* * **
2013764 TTGGAGTATCCATGATGGTGGAAAATCAGAATTTTAGAAATAAAA
1 TTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTAGAAATAAAA
2013809 ACATGAATGA
Statistics
Matches: 173, Mismatches: 26, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
157 2 0.01
158 150 0.87
159 21 0.12
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (158 bp):
TTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCTT
CAAAAATAACGAGGTTAGAGTATCCCCGATGGTGGAAAATCTATGTTTAGAAATAAAATCGAGGT
CAGAGTGATACCCTCAAAAATAACAAGG
Found at i:2016192 original size:50 final size:50
Alignment explanation
Indices: 2016138--2016251 Score: 165
Period size: 50 Copynumber: 2.3 Consensus size: 50
2016128 TACATTTAGA
* * * * *
2016138 AATGTATTGATACATCTGGGTTAAACCCCGAATGTATCGATATAATAAAG
1 AATGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATAAAG
* *
2016188 AATGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATGCAATGAAG
1 AATGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATAAAG
2016238 AATGTATCGATACA
1 AATGTATCGATACA
2016252 AATTGTGGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (50 bp):
AATGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATAAAG
Found at i:2016945 original size:61 final size:60
Alignment explanation
Indices: 2016848--2017419 Score: 381
Period size: 61 Copynumber: 9.3 Consensus size: 60
2016838 AGAAGTGTCA
* * * **
2016848 TGCTCTTTGAGGACTAGTAGGTGCCACCAACTTGTGTGAGCTTTGCAAGGATAAAGCGTCC
1 TGCTCTTTGAGGACTAGAAAGTACCACCAACTTGTGTGAGCTTTAAAAGGA-AAAGCGTCC
* * * *
2016909 TACTCTTTGAGGACTAAAAAGTACCACCAACTTGTGTGAGCTTTGAAAGG-AAAGTGTCC
1 TGCTCTTTGAGGACTAGAAAGTACCACCAACTTGTGTGAGCTTTAAAAGGAAAAGCGTCC
* * *
2016968 TGCTCTTTGAGGACT-GCAAAGTGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGACGTCC
1 TGCTCTTTGAGGACTAG-AAAGTACCACCAACTTGTGTGAGCTTTAAAAGGAAAAG-CGTCC
* * * * * *
2017029 TACTCTTTGATGA-TTGAAAGTTGCCACCAACTTGTAT-AGGCTTTAAAAGGAAAAGATGTCC
1 TGCTCTTTGAGGACTAGAAAG-TACCACCAACTTGTGTGA-GCTTTAAAAGGAAAAG-CGTCC
* * * *
2017090 TGCTCTTTGAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCATCT
1 TGCTCTTTGAGGACTAGAAAGTACCACCAACTTGTGTGAGCTTTAAAAGG-AAAA-GCGTCC
* * * *
2017152 TGTTCTTTGAGGACT-GAATGGTAGCACCAACTTGTGT-AGGCTTTTTTTTTAGAAA-AAAAGAG
1 TGCTCTTTGAGGACTAGAA-AGTACCACCAACTTGTGTGA-GC------TTTA-AAAGGAAA-AG
* *
2017214 TGTCT
56 CGTCC
* * * * * * * * * *
2017219 TGCTCTTTGGGGACTATAAGGTGCCACCAACTTATAT-AGGCTTTGCAATGAAAAAGCGTTC
1 TGCTCTTTGAGGACTAGAAAGTACCACCAACTTGTGTGA-GCTTT-AAAAGGAAAAGCGTCC
* * * * * * * *
2017280 TGCTCTTTGAGGATTAGAAGGTGCCACCAACTTTTATGGGCTTTGAAAGG-AAAGCATCC
1 TGCTCTTTGAGGACTAGAAAGTACCACCAACTTGTGTGAGCTTTAAAAGGAAAAGCGTCC
* * * * * * * * *
2017339 TACTCTTTGAAGACTGGAAGGTGCGACCAACTTGTGTGGGCTTCAAAAGGAAAAGACATCC
1 TGCTCTTTGAGGACTAGAAAGTACCACCAACTTGTGTGAGCTTTAAAAGGAAAAG-CGTCC
*
2017400 TGCTCTTTGAGGGCT-GAAAG
1 TGCTCTTTGAGGACTAGAAAG
2017420 GATAAAAGGT
Statistics
Matches: 414, Mismatches: 71, Indels: 53
0.77 0.13 0.10
Matches are distributed among these distances:
59 99 0.24
60 20 0.05
61 198 0.48
62 48 0.12
63 1 0.00
67 38 0.09
68 7 0.02
69 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (60 bp):
TGCTCTTTGAGGACTAGAAAGTACCACCAACTTGTGTGAGCTTTAAAAGGAAAAGCGTCC
Found at i:2017056 original size:120 final size:119
Alignment explanation
Indices: 2016840--2017411 Score: 490
Period size: 120 Copynumber: 4.7 Consensus size: 119
2016830 AAAAAAAAAG
* * * **
2016840 AAGTGTCATGCTCTTTGAGGACTAGTAGGTGCCACCAACTTGTGTGAGCTTTGCAAGGATAAAG-
1 AAGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGA
* ** * *
2016904 CGTCCTACTCTTTGAGGACTAAAAAG-TACCACCAACTTGTGT-GAGCTTTGAAAGGA
64 CGTCCTGCTCTTTGAGGA-TTGAAAGTTGCCACCAACTTGTATAG-GCTTTGAAAGGA
* *
2016960 AAGTGTCCTGCTCTTTGAGGACTGCAAAGTGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGAC
1 AAGTGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * *
2017025 GTCCTACTCTTTGATGATTGAAAGTTGCCACCAACTTGTATAGGCTTTAAAAGGAA
65 GTCCTGCTCTTTGAGGATTGAAAGTTGCCACCAACTTGTATAGGCTTTGAAAGG-A
*
2017081 AAGATGTCCTGCTCTTTGAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAAG
1 AAG-TGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAG
* * * * * * * * **
2017146 GCATCTTGTTCTTTGAGGACTGAATGGTAG-CACCAACTTGTGTAGGCTTTTTTTTTAGAAAAAA
63 ACGTCCTGCTCTTTGAGGATTGAA-AGTTGCCACCAACTTGTATAGGC------TTT-GAAAGGA
* * * * * * ** *
2017210 AGAGTGTCTTGCTCTTTGGGGACTATAAGGTGCCACCAACTTATATAGGCTTTGCAATGAAAA-A
1 A-AGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
* * * *
2017274 GCGTTCTGCTCTTTGAGGATT-AGAAGGTGCCACCAACTTTTATGGGCTTTGAAAGGA
64 -CGTCCTGCTCTTTGAGGATTGA-AAGTTGCCACCAACTTGTATAGGCTTTGAAAGGA
** * * * *
2017331 AAGCATCCTACTCTTTGAAGACTGGAAGGTGCGACCAACTTGTGTGGGCTTCAAAAGGAAAAGAC
1 AAGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
*
2017396 ATCCTGCTCTTTGAGG
65 GTCCTGCTCTTTGAGG
2017412 GCTGAAAGGA
Statistics
Matches: 360, Mismatches: 71, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
119 10 0.03
120 151 0.42
121 12 0.03
122 53 0.15
123 39 0.11
124 3 0.01
127 3 0.01
128 34 0.09
129 50 0.14
130 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (119 bp):
AAGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
TCCTGCTCTTTGAGGATTGAAAGTTGCCACCAACTTGTATAGGCTTTGAAAGGA
Found at i:2020366 original size:16 final size:16
Alignment explanation
Indices: 2020345--2020377 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2020335 TGCCTTAACT
2020345 TTCAGGCTGTCCAAGC
1 TTCAGGCTGTCCAAGC
2020361 TTCAGGCTGTCCAAGC
1 TTCAGGCTGTCCAAGC
2020377 T
1 T
2020378 AAAGCACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.24, T:0.27
Consensus pattern (16 bp):
TTCAGGCTGTCCAAGC
Found at i:2027785 original size:80 final size:78
Alignment explanation
Indices: 2027423--2028185 Score: 536
Period size: 79 Copynumber: 9.7 Consensus size: 78
2027413 TATTTTGGAG
* * * **
2027423 ATAAAAA-CGGGGTTGGAGTATCCTCTCGGAAATAACGAGGTTGGAGTATCCCTGATGGAAAAAA
1 ATAAAAATC-GGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCC-GATTGTGAAAA
* *
2027487 ATCAATGTTTTGGAA
64 ATCGATGTTTTGAAA
* * * * *
2027502 AT-AAAACCAGGGTTGGAGTATCCTCTCGGAAATAA-TAGGGTTGGAGTATCCTTGATTGTG-AA
1 ATAAAAATC-GGGTTGGAGTATCCCCTCAGAAATAACGA-GGTTGGAGTATCC-CGATTGTGAAA
*
2027564 AATCGATGCTTT-AGAA
63 AATCGATGTTTTGA-AA
* *
2027580 AT-AAAATCGGGGTTGGAGTATCCCGC-C-GAAAATAACGAGGTTGGAGTATCCCTGATTATGGA
1 ATAAAAATC-GGGTTGGAGTATCCC-CTCAG-AAATAACGAGGTTGGAGTATCCC-GATTGTGAA
* *
2027642 AAATTGATGTTTTGGAA
62 AAATCGATGTTTTGAAA
* *
2027659 ATAAACCAA---GGTTAGAGTATCCCCTCAGAAATAA-TAGTGTTGGAGTATCTCCGATTGTGAA
1 ATAAA--AATCGGGTTGGAGTATCCCCTCAGAAATAACGAG-GTTGGAGTATC-CCGATTGTGAA
* * *
2027720 AAATTGGTGTTTTAAAA
62 AAATCGATGTTTTGAAA
* * * * *
2027737 ATAAAAATTGAGATTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCTCCAATTGTGAAAA
1 ATAAAAATCG-GGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATC-CCGATTGTGAAAA
*
2027802 ATCGATGTTTTAAAA
64 ATCGATGTTTTGAAA
* * * * *
2027817 ATAAGAATCGAGGTTGGAGTATCCCTTCAGAAATAATGGGGTTGGAGTATCCTCGATTATGAAAA
1 ATAAAAATCG-GGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCC-CGATTGTGAAAA
*
2027882 ATCGGTGTTTT-AGAA
64 ATCGATGTTTTGA-AA
* * *
2027897 ATAAAACTAGGGTTGGAGTAT-CCCTGC-GAAAATAAC-AGGGTTGGAGTATCCCCGATGGTGAA
1 ATAAAAATCGGGTTGGAGTATCCCCT-CAG-AAATAACGA-GGTTGGAGTAT-CCCGATTGTGAA
* *
2027959 AAATCGGTGTTTTGGAA
62 AAATCGATGTTTTGAAA
** * * * * **** * ** * *
2027976 ATAAAACCCGGGTTAGAGTATCCCTTTAGAAATAACGGGGTTATTCTATCCTTGATTGTTTATAG
1 ATAAAAATCGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCC-CGATTGTGAAAAA
2028041 TCGATGTTTTGAAA
65 TCGATGTTTTGAAA
* * ** * * *
2028055 ATAAAACT-GGGATTGGAGTATCCCTTTGGAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAA
1 ATAAAAATCGGG-TTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCC-CGATTGTGAAAA
*
2028119 ATTGATGTTTTGAAA
64 ATCGATGTTTTGAAA
* * * * * * *
2028134 ATAAAACTGGGGTTTGAGTATTCCTTC-GAAAATAACGGGGTTGAAGTATCCC
1 ATAAAAATCGGGTTGGAGTATCCCCTCAG-AAATAACGAGGTTGGAGTATCCC
2028186 CATGAATGAA
Statistics
Matches: 558, Mismatches: 90, Indels: 73
0.77 0.12 0.10
Matches are distributed among these distances:
76 2 0.00
77 4 0.01
78 134 0.24
79 273 0.49
80 141 0.25
81 2 0.00
82 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (78 bp):
ATAAAAATCGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCGATTGTGAAAAAT
CGATGTTTTGAAA
Found at i:2028071 original size:158 final size:157
Alignment explanation
Indices: 2027426--2028184 Score: 696
Period size: 158 Copynumber: 4.8 Consensus size: 157
2027416 TTTGGAGATA
* * * * **
2027426 AAAAC-GGGGTTGGAGTATCCTCTCGGAAATAACGAGGTTGGAGTATCCCTGATGGAAAAAAATC
1 AAAACTGGGATTGGAGTATCC-CTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATC
* * * * *
2027490 AATGTTTTGGAAATAAAACCAGGGTTGGAGTAT-CCTCTCGGAAATAATAGGGTTGGAGTATCCT
65 GATGTTTTGGAAATAAAACCAGGGTTAGAGTATCCCT-TCAGAAATAATGGGGTTAGAGTATCCT
*
2027554 TGATTGTG-AAAATCGATGCTTTAGAAAT
129 TGATTGTGAAAAATCGATGTTTTAGAAAT
* * * * *
2027582 AAAA-TCGGGGTTGGAGTATCCCGCCGAAAATAACGAGGTTGGAGTATCCCTGATTATGGAAAAT
1 AAAACT-GGGATTGGAGTATCCC-TCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAAT
* * * * * *
2027646 TGATGTTTTGGAAAT-AAACCAAGGTTAGAGTATCCCCTCAGAAATAATAGTGTTGGAGTAT-CT
64 CGATGTTTTGGAAATAAAACCAGGGTTAGAGTATCCCTTCAGAAATAATGGGGTTAGAGTATCCT
* * * *
2027709 CCGATTGTGAAAAATTGGTGTTTTAAAAAT
129 -TGATTGTGAAAAATCGATGTTTTAGAAAT
* * * * * *
2027739 AAAAATTGAGATTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCTCCAATTGTGAAAAAT
1 -AAAACTGGGATTGGAGTAT-CCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAAT
** * * *
2027804 CGATGTTTTAAAAATAAGAATC-GAGGTTGGAGTATCCCTTCAGAAATAATGGGGTTGGAGTATC
64 CGATGTTTTGGAAATAA-AACCAG-GGTTAGAGTATCCCTTCAGAAATAATGGGGTTAGAGTATC
* * *
2027868 CTCGATTATGAAAAATCGGTGTTTTAGAAAT
127 CTTGATTGTGAAAAATCGATGTTTTAGAAAT
*
2027899 AAAACTAGGG-TTGGAGTATCCCTGCGAAAATAAC-AGGGTTGGAGTATCCCCGATGGTGAAAAA
1 AAAACT-GGGATTGGAGTATCCCT-CGAAAATAACGA-GGTTGGAGTATCCCCGATTGTGAAAAA
* * * * ***
2027962 TCGGTGTTTTGGAAATAAAACCCGGGTTAGAGTATCCCTTTAGAAATAACGGGGTTATTCTATCC
63 TCGATGTTTTGGAAATAAAACCAGGGTTAGAGTATCCCTTCAGAAATAATGGGGTTAGAGTATCC
** * *
2028027 TTGATTGTTTATAGTCGATGTTTT-GAAAAT
128 TTGATTGTGAAAAATCGATGTTTTAG-AAAT
* * * * * * *
2028057 AAAACTGGGATTGGAGTATCCCTTTGGAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAATT
1 AAAACTGGGATTGGAGTATCCC-TCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATC
* ** * * *
2028122 GATGTTTTGAAAATAAAACTGGGGTTTGAGTATTCCTTC-GAAAATAACGGGGTT-GAAGTATCC
65 GATGTTTTGGAAATAAAACCAGGGTTAGAGTATCCCTTCAG-AAATAATGGGGTTAG-AGTATCC
2028185 CCATGAATGA
Statistics
Matches: 496, Mismatches: 84, Indels: 44
0.79 0.13 0.07
Matches are distributed among these distances:
155 2 0.00
156 50 0.10
157 85 0.17
158 223 0.45
159 68 0.14
160 66 0.13
161 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (157 bp):
AAAACTGGGATTGGAGTATCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCG
ATGTTTTGGAAATAAAACCAGGGTTAGAGTATCCCTTCAGAAATAATGGGGTTAGAGTATCCTTG
ATTGTGAAAAATCGATGTTTTAGAAAT
Found at i:2034554 original size:21 final size:20
Alignment explanation
Indices: 2034514--2034560 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
2034504 GACATGTGTT
*
2034514 GATACATTTACTTATGTATC
1 GATACATTCACTTATGTATC
2034534 GATACATTCACTTATTGTATC
1 GATACATTCACTTA-TGTATC
2034555 GATACA
1 GATACA
2034561 AATTATAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (20 bp):
GATACATTCACTTATGTATC
Found at i:2036564 original size:110 final size:110
Alignment explanation
Indices: 2036439--2036660 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 110
2036429 TCATTTTTTA
*
2036439 AAGGCAAGCAAGCATGCAATTTAGATAAGGAAAACATGATGAACATGCAAGAAAATAATGAGTGA
1 AAGGCAAGCAAGCATGCAATTTAGACAAGGAAAACATGATGAACATGCAAGAAAATAATGAGTGA
2036504 CATTCATGGACATGTTGGCTATCTAAATGACATTATGGTCATGAC
66 CATTCATGGACATGTTGGCTATCTAAATGACATTATGGTCATGAC
***
2036549 AAGGCAAGCAAGCATGTGTTTTAGACAAGGAAAACATGATGAACATGCAAGAAAATAATGAGTGA
1 AAGGCAAGCAAGCATGCAATTTAGACAAGGAAAACATGATGAACATGCAAGAAAATAATGAGTGA
*
2036614 CATTCATGGACATGTTGGCTATCTAAATGACATTATGTTCATGAC
66 CATTCATGGACATGTTGGCTATCTAAATGACATTATGGTCATGAC
2036659 AA
1 AA
2036661 AAGAATGGAT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (110 bp):
AAGGCAAGCAAGCATGCAATTTAGACAAGGAAAACATGATGAACATGCAAGAAAATAATGAGTGA
CATTCATGGACATGTTGGCTATCTAAATGACATTATGGTCATGAC
Found at i:2037796 original size:21 final size:20
Alignment explanation
Indices: 2037751--2037802 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
2037741 TCCTAAATTA
* *
2037751 TATCGATACAATGAATGACG
1 TATCGATACATTGAATCACG
*
2037771 TATCGATACATTGCAATCATG
1 TATCGATACATTG-AATCACG
2037792 TATCGATACAT
1 TATCGATACAT
2037803 CTACTTATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
TATCGATACATTGAATCACG
Found at i:2038251 original size:20 final size:20
Alignment explanation
Indices: 2038226--2038279 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2038216 GTATCGATAC
**
2038226 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
2038246 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
2038266 AATGTATCGATACA
1 AATGTATCGATACA
2038280 AGTCATTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:2038349 original size:13 final size:13
Alignment explanation
Indices: 2038331--2038422 Score: 64
Period size: 13 Copynumber: 8.0 Consensus size: 13
2038321 ACACACAATA
2038331 TGTATCGATACAT
1 TGTATCGATACAT
2038344 TGTATCGATACA-
1 TGTATCGATACAT
* *
2038356 T-CA-C-A-A-AA
1 TGTATCGATACAT
2038364 TGTATCGATACAT
1 TGTATCGATACAT
2038377 TGTATCGATACA-
1 TGTATCGATACAT
* *
2038389 T-CA-C-A-A-AA
1 TGTATCGATACAT
2038397 TGTATCGATACAT
1 TGTATCGATACAT
2038410 TGTATCGATACAT
1 TGTATCGATACAT
2038423 CACAAAATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
9 4 0.07
10 4 0.07
11 4 0.07
12 4 0.07
13 39 0.64
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2038367 original size:33 final size:33
Alignment explanation
Indices: 2038311--2038444 Score: 243
Period size: 33 Copynumber: 4.1 Consensus size: 33
2038301 GTAGCTAAAT
* *
2038311 TTGTATCAATACA-CACAATATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
2038343 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
2038376 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
2038409 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
2038442 TTG
1 TTG
2038445 GCTTTAACGG
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 12 0.12
33 87 0.88
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:2038369 original size:20 final size:20
Alignment explanation
Indices: 2038344--2038442 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 20
2038334 ATCGATACAT
2038344 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
2038364 TGTATCGATACAT-------
1 TGTATCGATACATCACAAAA
2038377 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
2038397 TGTATCGATACAT-------
1 TGTATCGATACATCACAAAA
2038410 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
2038430 TGTATCGATACAT
1 TGTATCGATACAT
2038443 TGGCTTTAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 26 0.40
20 39 0.60
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:2044373 original size:8 final size:8
Alignment explanation
Indices: 2044360--2044385 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2044350 ATTTGATTAA
2044360 ATTTTGTG
1 ATTTTGTG
2044368 ATTTTGTG
1 ATTTTGTG
2044376 ATTTTGTG
1 ATTTTGTG
2044384 AT
1 AT
2044386 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:2044606 original size:13 final size:13
Alignment explanation
Indices: 2044588--2044638 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
2044578 CAGCATTCTC
2044588 TGTATCGATACAT
1 TGTATCGATACAT
*
2044601 TGTATCGATACAG
1 TGTATCGATACAT
2044614 TGTATCGATACAT
1 TGTATCGATACAT
*
2044627 TATATCGATACA
1 TGTATCGATACA
2044639 AAGGGTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2044624 original size:26 final size:26
Alignment explanation
Indices: 2044588--2044638 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
2044578 CAGCATTCTC
*
2044588 TGTATCGATACATTGTATCGATACAG
1 TGTATCGATACATTATATCGATACAG
2044614 TGTATCGATACATTATATCGATACA
1 TGTATCGATACATTATATCGATACA
2044639 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (26 bp):
TGTATCGATACATTATATCGATACAG
Found at i:2047165 original size:20 final size:20
Alignment explanation
Indices: 2047140--2047186 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2047130 GTATCAATAC
**
2047140 AATGTATCAATACATGACTA
1 AATGTATCAATACATGAAAA
* *
2047160 AATGTATCGATACTTGAAAA
1 AATGTATCAATACATGAAAA
2047180 AATGTAT
1 AATGTAT
2047187 TGATACAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCAATACATGAAAA
Found at i:2047243 original size:13 final size:13
Alignment explanation
Indices: 2047225--2047251 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2047215 GTAGCTAAAT
2047225 TTGTATCGATACA
1 TTGTATCGATACA
2047238 TTGTATCGATACA
1 TTGTATCGATACA
2047251 T
1 T
2047252 CACAAAATGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2049109 original size:80 final size:79
Alignment explanation
Indices: 2048943--2049120 Score: 203
Period size: 80 Copynumber: 2.2 Consensus size: 79
2048933 CAATGTGCTA
* ** * * ** * *
2048943 ATTCAAGGCCAGCAACATTAGGCTTGAGAAAGAAGGTTTGACTGATGCCGCATGACTAGGGAAAA
1 ATTCAAGGCTAGTGACATTAGACTTGAGAAAAAAGGTTTGACAAATGCCGAATGACTAAGGAAAA
*
2049008 ATGCCAATGTATTG
66 ATGCCAATCTATTG
* * * *
2049022 ATTCAAGGCTAGTGACATTAGACTTGAGAAAAAAGATTTTGACAAATGTCGAATGACTAAGGCAG
1 ATTCAAGGCTAGTGACATTAGACTTGAGAAAAAAG-GTTTGACAAATGCCGAATGACTAAGGAAA
* *
2049087 AATGGCAATCTGTTG
65 AATGCCAATCTATTG
2049102 ATTCAAGGCTAGTGACATT
1 ATTCAAGGCTAGTGACATT
2049121 GGGTTTGAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
79 30 0.37
80 52 0.63
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (79 bp):
ATTCAAGGCTAGTGACATTAGACTTGAGAAAAAAGGTTTGACAAATGCCGAATGACTAAGGAAAA
ATGCCAATCTATTG
Found at i:2049624 original size:29 final size:29
Alignment explanation
Indices: 2049582--2049668 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
2049572 CATGGGTTTT
*
2049582 AAAAGGGTGTCATTAACTTGTGGACTTTG
1 AAAAGGGTGCCATTAACTTGTGGACTTTG
* * *
2049611 AAAAGGGTGCCATTGACTCGTGGGCTTTG
1 AAAAGGGTGCCATTAACTTGTGGACTTTG
* *
2049640 AAAAGGTTGCCATCAACTCTTGTGGACTT
1 AAAAGGGTGCCATTAA--CTTGTGGACTT
2049669 CAAAAAGGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 38 0.81
31 9 0.19
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (29 bp):
AAAAGGGTGCCATTAACTTGTGGACTTTG
Found at i:2049675 original size:60 final size:58
Alignment explanation
Indices: 2049560--2049701 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 58
2049550 CTTTAAAGAA
* * * * * **
2049560 GTGCCACTGACTCATGGG-TTTTAAAAGGGTGTCATTAACTTGTGGACTTTGAAAAGG
1 GTGCCATTGACTCGTGGGCTTTGAAAAGGGTGCCATCAACTTGTGGACTTCAAAAAGG
*
2049617 GTGCCATTGACTCGTGGGCTTTGAAAAGGTTGCCATCAACTCTTGTGGACTTCAAAAAGG
1 GTGCCATTGACTCGTGGGCTTTGAAAAGGGTGCCATCAA--CTTGTGGACTTCAAAAAGG
*
2049677 TTGCC-TTCGACTCGTGTGGACTTTG
1 GTGCCATT-GACTCGTG-GG-CTTTG
2049702 GCTAGAGTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
57 16 0.23
58 16 0.23
59 2 0.03
60 29 0.41
61 2 0.03
62 5 0.07
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (58 bp):
GTGCCATTGACTCGTGGGCTTTGAAAAGGGTGCCATCAACTTGTGGACTTCAAAAAGG
Found at i:2049678 original size:31 final size:31
Alignment explanation
Indices: 2049600--2049699 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
2049590 GTCATTAACT
** * **
2049600 TGTGGACTTTGAAAAGGGTGCCATTGACTCG
1 TGTGGACTTCAAAAAGGTTGCCATCAACTCG
** *
2049631 TG-GG-CTTTGAAAAGGTTGCCATCAACTCT
1 TGTGGACTTCAAAAAGGTTGCCATCAACTCG
* *
2049660 TGTGGACTTCAAAAAGGTTGCCTTCGACTCG
1 TGTGGACTTCAAAAAGGTTGCCATCAACTCG
2049691 TGTGGACTT
1 TGTGGACTT
2049700 TGGCTAGAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
29 23 0.40
30 4 0.07
31 31 0.53
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (31 bp):
TGTGGACTTCAAAAAGGTTGCCATCAACTCG
Found at i:2049762 original size:31 final size:30
Alignment explanation
Indices: 2049727--2050742 Score: 278
Period size: 31 Copynumber: 32.4 Consensus size: 30
2049717 GCTTATGCGA
*
2049727 ACTTTAACTATGGTGCCACCAACTCGTGTGG
1 ACTTTAA-TAGGGTGCCACCAACTCGTGTGG
* * * *
2049758 ACTTTGAAAAAGTTGCCACCAACTTGTGTGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* *
2049789 ACTTTGAATAGGGTACCACCAACTCGTATGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
** * * *
2049820 ACTTTGACGAGGGTGCCACCAGCTCATGCGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* *
2049851 ACTTTGACTATGGTGCCACCAACTCGTGTGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* * * * * *
2049882 ACTTTGAAAAGGCTACTACCAACTCGTATAG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* *
2049913 ACTTTGAATGGGGTGCCACCAACTCGTGTAG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* * * **
2049944 ACTTTAATTGGGGTGCCAACAAGTCACGTGG
1 ACTTTAA-TAGGGTGCCACCAACTCGTGTGG
** * *
2049975 ACTTTAACTACAGTGGCACCAACTTGTGTGG
1 ACTTTAA-TAGGGTGCCACCAACTCGTGTGG
* ** * * **
2050006 ACTTTAATTGGGGTGCTGCCAGCTCATGCAG
1 ACTTTAA-TAGGGTGCCACCAACTCGTGTGG
* * * * *
2050037 ACTTTGAAAAGGGTGCCACTAA-T-TTATAG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* * **
2050066 ATTTTTCAA-AAGGTGCCACTGACT--TGTAGG
1 A-CTTT-AATAGGGTGCCACCAACTCGTGT-GG
* *
2050096 -CTTTGAAAAGGGTGCCATCAACTCGTG-GG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
** *
2050125 -CTTTCAA-AAAGTGATCACCAACTCGTGTGG
1 ACTTT-AATAGGGTG-CCACCAACTCGTGTGG
* * * * * *
2050155 ACTTCAAAAAGGTTACCACCAACTCATGTAG
1 ACTT-TAATAGGGTGCCACCAACTCGTGTGG
* * * *
2050186 ACTTTGACTATGGTGCCACCAACTTGTATGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* * ***
2050217 ACTTAGAAAAGGCAACCACCAACTCGTGTGG
1 ACTT-TAATAGGGTGCCACCAACTCGTGTGG
* * *
2050248 ACTTTAAAAAGGCTACCACCAACTCGTGTGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* * * * *
2050279 A-TTT-TTA-GCTACCACCAACTGGTGTAG
1 ACTTTAATAGGGTGCCACCAACTCGTGTGG
* *
2050306 ACTTTGAAT-GAGGTGCCACCAAGTAGTGTGG
1 ACTTT-AATAG-GGTGCCACCAACTCGTGTGG
*** * * * **
2050337 ACTTTAACTATTATGCCACTAGCTTGTGCAG
1 ACTTTAA-TAGGGTGCCACCAACTCGTGTGG
* * *** *
2050368 ACTTTGAAAAGGATTGGATGTCATTGACTTGTGTGG
1 ACTTT-AATA-G---GG-TGCCACCAACTCGTGTGG
* *
2050404 ACTTTGAATGGGGTGCCACCAACTCATGTGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* ** * * ***
2050435 ACTTTGACTAGGGTGCTGCTAGCTCGTGCAA
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* *** *
2050466 ACTTTGAAAAGGATTGGTTGCCATTGACTTGTGTGG
1 ACTTT-AATA-G---GG-TGCCACCAACTCGTGTGG
*
2050502 ACTTTGAATGGGGTGCCACCAACTCGTGTGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* * * * * **
2050533 ACCTTAACTGGGGTACCACCAGCTTGTACGG
1 ACTTTAA-TAGGGTGCCACCAACTCGTGTGG
* * *
2050564 ACTTTGAAAAAAATTGGTTGCCACCAACTTGTGTGG
1 ACTTT------AATAGGGTGCCACCAACTCGTGTGG
*
2050600 ACTTTGAATGGGGTGCCACCAACTCGTGTGG
1 ACTTT-AATAGGGTGCCACCAACTCGTGTGG
* *
2050631 ACTTTAACTAGGGTGCC-GCAAGCTCGTGCGG
1 ACTTTAA-TAGGGTGCCACCAA-CTCGTGTGG
* * * *
2050662 ACTTTGAAAAGGATTGGTTGCCCCCGACTTGTGTGG
1 ACTTT-AATA-G---GG-TGCCACCAACTCGTGTGG
* * *
2050698 ACTTTTAATGGGGTACCACCAACTCCTGTGG
1 AC-TTTAATAGGGTGCCACCAACTCGTGTGG
2050729 ACTTTAACTAGGGT
1 ACTTTAA-TAGGGT
2050743 ACCGCCAGTT
Statistics
Matches: 717, Mismatches: 215, Indels: 106
0.69 0.21 0.10
Matches are distributed among these distances:
27 19 0.03
28 13 0.02
29 47 0.07
30 30 0.04
31 502 0.70
32 18 0.03
35 7 0.01
36 74 0.10
37 7 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (30 bp):
ACTTTAATAGGGTGCCACCAACTCGTGTGG
Found at i:2049824 original size:93 final size:93
Alignment explanation
Indices: 2049727--2050341 Score: 323
Period size: 93 Copynumber: 6.7 Consensus size: 93
2049717 GCTTATGCGA
* * *
2049727 ACTTTAACTATGGTGCCACCAACTCGTGTGGACTTTGAAAAAGTTGCCACCAACTTGTGTGGACT
1 ACTTTAACTAGGGTGCCACCAACTCGTGTGGACTTTGAAAAAGGTGCCACCAACTCGTGTGGACT
* * *
2049792 TTGAATAGGGTACCACCAACTCGTATGG
66 TTGAAAAGGCTACCACCAACTCGTATAG
* * * * * ** *
2049820 ACTTTGACGAGGGTGCCACCAGCTCATGCGGACTTTGACTATGGTGCCACCAACTCGTGTGGACT
1 ACTTTAACTAGGGTGCCACCAACTCGTGTGGACTTTGAAAAAGGTGCCACCAACTCGTGTGGACT
*
2049885 TTGAAAAGGCTACTACCAACTCGTATAG
66 TTGAAAAGGCTACCACCAACTCGTATAG
* * *** * * **
2049913 ACTTTGAA-TGGGGTGCCACCAACTCGTGTAGACTTT-AATTGGGGTGCCAACAAGTCACGTGGA
1 ACTTT-AACTAGGGTGCCACCAACTCGTGTGGACTTTGAA-AAAGGTGCCACCAACTCGTGTGGA
** * * *
2049976 CTTT-AACTACA-G-TGGCACCAACTTGTGTGG
64 CTTTGAA--A-AGGCTACCACCAACTCGTATAG
* * ** * * ** * * * * * *
2050006 ACTTTAATTGGGGTGCTGCCAGCTCATGCAGACTTTGAAAAGGGTGCCACTAA-T-TTATAGATT
1 ACTTTAACTAGGGTGCCACCAACTCGTGTGGACTTTGAAAAAGGTGCCACCAACTCGTGTGGA-C
* * ** *
2050069 TTTCAAAAGG-TGCCACTGACT--TGTAG
65 TTTGAAAAGGCTACCACCAACTCGTATAG
* * * * *
2050095 GCTTTGAA-AAGGGTGCCATCAACTCGTG-GG-CTTTCAAAAA-GTGATCACCAACTCGTGTGGA
1 ACTTT-AACTAGGGTGCCACCAACTCGTGTGGACTTTGAAAAAGGTG-CCACCAACTCGTGTGGA
** * * *
2050156 CTTCAAAAAGGTTACCACCAACTCATGTAG
64 CTTTGAAAAGGCTACCACCAACTCGTATAG
* * * * * **
2050186 ACTTTGACTATGGTGCCACCAACTTGTATGGACTTAG-AAAAGGCAACCACCAACTCGTGTGGAC
1 ACTTTAACTAGGGTGCCACCAACTCGTGTGGACTTTGAAAAAGG-TGCCACCAACTCGTGTGGAC
* * *
2050250 TTTAAAAAGGCTACCACCAACTCGTGTGG
65 TTTGAAAAGGCTACCACCAACTCGTATAG
* * * * * ** * *
2050279 A-TTT--TTA-GCTACCACCAACTGGTGTAGACTTTGAATGAGGTGCCACCAAGTAGTGTGGACT
1 ACTTTAACTAGGGTGCCACCAACTCGTGTGGACTTTGAAAAAGGTGCCACCAACTCGTGTGGACT
2050340 TT
66 TT
2050342 AACTATTATG
Statistics
Matches: 395, Mismatches: 104, Indels: 50
0.72 0.19 0.09
Matches are distributed among these distances:
86 3 0.01
87 13 0.03
88 10 0.03
89 72 0.18
90 10 0.03
91 37 0.09
92 18 0.05
93 226 0.57
94 5 0.01
95 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (93 bp):
ACTTTAACTAGGGTGCCACCAACTCGTGTGGACTTTGAAAAAGGTGCCACCAACTCGTGTGGACT
TTGAAAAGGCTACCACCAACTCGTATAG
Found at i:2049888 original size:62 final size:62
Alignment explanation
Indices: 2049686--2050055 Score: 237
Period size: 62 Copynumber: 6.0 Consensus size: 62
2049676 GTTGCCTTCG
*** * * * * * * *
2049686 ACTCGTGTGGACTTTGGCTAGAGTGTCGCCAGCTTATGCGAACTTTAACTATGGTGCCACCA
1 ACTCGTGTGGACTTTGAAGAGGGTGCCACCAGCTCATGCGGACTTTGACTAGGGTGCCACCA
* * * * ** * * *
2049748 ACTCGTGTGGACTTTGAAAAAGTTGCCACCAACTTGTGTGGACTTTGAATAGGGTACCACCA
1 ACTCGTGTGGACTTTGAAGAGGGTGCCACCAGCTCATGCGGACTTTGACTAGGGTGCCACCA
* * *
2049810 ACTCGTATGGACTTTGACGAGGGTGCCACCAGCTCATGCGGACTTTGACTATGGTGCCACCA
1 ACTCGTGTGGACTTTGAAGAGGGTGCCACCAGCTCATGCGGACTTTGACTAGGGTGCCACCA
* * * * * * *** * *
2049872 ACTCGTGTGGACTTTGAAAAGGCTACTACCAACTCGTATAGACTTTGAATGGGGTGCCACCA
1 ACTCGTGTGGACTTTGAAGAGGGTGCCACCAGCTCATGCGGACTTTGACTAGGGTGCCACCA
* * * * * ** *
2049934 ACTCGTGTAGACTTT-AATTG-GGGTGCCAACAAG-TCACGTGGACTTTAACTACAGTGGCACCA
1 ACTCGTGTGGACTTTGAA--GAGGGTGCC-ACCAGCTCATGCGGACTTTGACTAGGGTGCCACCA
* ** * **
2049996 ACTTGTGTGGACTTT-AATTG-GGGTGCTGCCAGCTCATGCAGACTTTGAAAAGGGTGCCAC
1 ACTCGTGTGGACTTTGAA--GAGGGTGCCACCAGCTCATGCGGACTTTGACTAGGGTGCCAC
2050056 TAATTTATAG
Statistics
Matches: 231, Mismatches: 73, Indels: 8
0.74 0.23 0.03
Matches are distributed among these distances:
61 5 0.02
62 223 0.97
63 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (62 bp):
ACTCGTGTGGACTTTGAAGAGGGTGCCACCAGCTCATGCGGACTTTGACTAGGGTGCCACCA
Found at i:2049958 original size:124 final size:125
Alignment explanation
Indices: 2049714--2050010 Score: 357
Period size: 124 Copynumber: 2.4 Consensus size: 125
2049704 TAGAGTGTCG
* * * *
2049714 CCAGCTTATGCGAACTTTAACTATGGTGCCACCAACTCGTGTGGACTTTGAAAAAGTTGCCACCA
1 CCAGCTCATGCGGACTTTAACTATGGTGCCACCAACTCGTGTGGACTTTGAAAAAGCTACCACCA
* * * * *
2049779 ACTTGTGTGGACTTTGAATAGGGTACCACCAACTCGTATGGACTTTGACGAGGGTGCC-A
66 ACTCGTATAGACTTTGAATAGGGTACCACCAACTCGTATAGACTTTAACGAGGGTGCCAA
* * *
2049838 CCAGCTCATGCGGACTTTGACTATGGTGCCACCAACTCGTGTGGACTTTGAAAAGGCTACTACCA
1 CCAGCTCATGCGGACTTTAACTATGGTGCCACCAACTCGTGTGGACTTTGAAAAAGCTACCACCA
* * * *
2049903 ACTCGTATAGACTTTGAATGGGGTGCCACCAACTCGTGTAGACTTTAATTG-GGGTGCCAA
66 ACTCGTATAGACTTTGAATAGGGTACCACCAACTCGTATAGACTTTAA-CGAGGGTGCCAA
* * * ** * *
2049963 CAAG-TCACGTGGACTTTAACTACAGTGGCACCAACTTGTGTGGACTTT
1 CCAGCTCATGCGGACTTTAACTATGGTGCCACCAACTCGTGTGGACTTT
2050011 AATTGGGGTG
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
124 142 0.97
125 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (125 bp):
CCAGCTCATGCGGACTTTAACTATGGTGCCACCAACTCGTGTGGACTTTGAAAAAGCTACCACCA
ACTCGTATAGACTTTGAATAGGGTACCACCAACTCGTATAGACTTTAACGAGGGTGCCAA
Found at i:2050109 original size:29 final size:30
Alignment explanation
Indices: 2050038--2050112 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 30
2050028 CTCATGCAGA
* *
2050038 CTTTGAAAAGGGTGCCACTAATTTATAGAT
1 CTTTGAAAAGGGTGCCACTAACTTATAGAG
* * * *
2050068 TTTTCAAAA-GGTGCCACTGACTTGTAG-G
1 CTTTGAAAAGGGTGCCACTAACTTATAGAG
2050096 CTTTGAAAAGGGTGCCA
1 CTTTGAAAAGGGTGCCA
2050113 TCAACTCGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 7 0.19
29 22 0.61
30 7 0.19
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (30 bp):
CTTTGAAAAGGGTGCCACTAACTTATAGAG
Found at i:2050474 original size:98 final size:98
Alignment explanation
Indices: 2050290--2050803 Score: 571
Period size: 98 Copynumber: 5.2 Consensus size: 98
2050280 TTTTTAGCTA
* * * * * ***
2050290 CCACCAACTGGTGTAGACTTTGAATGAGGTGCCACCAAGT-AGTGTGGACTTTAACTATTATGCC
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCA-TGTGGACTTTAACTAGGGTGCC
* *
2050354 ACTAGCTTGTGCAGACTTTGAAAAGGATTGGATG
65 ACTAGCTCGTGCAGACTTTGAAAAGGATTGGTTG
* ** * **
2050388 TCATTGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCATGTGGACTTTGACTAGGGTGCTG
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCATGTGGACTTTAACTAGGGTGCCA
*
2050453 CTAGCTCGTGCAAACTTTGAAAAGGATTGGTTG
66 CTAGCTCGTGCAGACTTTGAAAAGGATTGGTTG
** * * * *
2050486 CCATTGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCGTGTGGACCTTAACTGGGGTACCA
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCATGTGGACTTTAACTAGGGTGCCA
* * * * **
2050551 CCAGCTTGTACGGACTTTGAAAAAAATTGGTTG
66 CTAGCTCGTGCAGACTTTGAAAAGGATTGGTTG
* * *
2050584 CCACCAACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCGTGTGGACTTTAACTAGGGTGCCG
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCATGTGGACTTTAACTAGGGTGCCA
* *
2050649 CAAGCTCGTGCGGACTTTGAAAAGGATTGGTTG
66 CTAGCTCGTGCAGACTTTGAAAAGGATTGGTTG
* * * * * *
2050682 CCCCCGACTTGTGTGGACTTTTAATGGGGTACCACCAACTCCTGTGGACTTTAACTAGGGTACCG
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCATGTGGACTTTAACTAGGGTGCCA
* * ** * *
2050747 CCAGTTTATGCGGACTTTGAAAATGATTGGTTG
66 CTAGCTCGTGCAGACTTTGAAAAGGATTGGTTG
* * *
2050780 CCACTGACTTGTATAGACTTTGAA
1 CCACCGACTTGTGTGGACTTTGAA
2050804 AAAGATTTTC
Statistics
Matches: 355, Mismatches: 60, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
98 354 1.00
99 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (98 bp):
CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCATGTGGACTTTAACTAGGGTGCCA
CTAGCTCGTGCAGACTTTGAAAAGGATTGGTTG
Found at i:2050559 original size:196 final size:196
Alignment explanation
Indices: 2050290--2050803 Score: 668
Period size: 196 Copynumber: 2.6 Consensus size: 196
2050280 TTTTTAGCTA
* * * * * * *** *
2050290 CCACCAACTGGTGTAGACTTTGAATGAGGTGCCACCAAGTAGTGTGGACTTTAACTATTATGCCA
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCGTGTGGACTTTAACTAGGGTACCA
* * * * * *
2050355 CTAGCTTGTGCAGACTTTGAAAAGGATTGGATGTCATTGACTTGTGTGGACTTTGAATGGGGTGC
66 CCAGCTTGTGCGGACTTTGAAAAAGATTGGTTGCCACTGACTTGTGTGGACTTTGAATGGGGTGC
* * *
2050420 CACCAACTCATGTGGACTTTGACTAGGGTGCTGCTAGCTCGTGCAAACTTTGAAAAGGATTGGTT
131 CACCAACTCATGTGGACTTTAACTAGGGTGCCGCAAGCTCGTGCAAACTTTGAAAAGGATTGGTT
2050485 G
196 G
** * *
2050486 CCATTGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCGTGTGGACCTTAACTGGGGTACCA
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCGTGTGGACTTTAACTAGGGTACCA
* * **
2050551 CCAGCTTGTACGGACTTTGAAAAAAATTGGTTGCCACCAACTTGTGTGGACTTTGAATGGGGTGC
66 CCAGCTTGTGCGGACTTTGAAAAAGATTGGTTGCCACTGACTTGTGTGGACTTTGAATGGGGTGC
* **
2050616 CACCAACTCGTGTGGACTTTAACTAGGGTGCCGCAAGCTCGTGCGGACTTTGAAAAGGATTGGTT
131 CACCAACTCATGTGGACTTTAACTAGGGTGCCGCAAGCTCGTGCAAACTTTGAAAAGGATTGGTT
2050681 G
196 G
* * * * *
2050682 CCCCCGACTTGTGTGGACTTTTAATGGGGTACCACCAACTCCTGTGGACTTTAACTAGGGTACCG
1 CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCGTGTGGACTTTAACTAGGGTACCA
* * * * *
2050747 CCAGTTTATGCGGACTTTGAAAATGATTGGTTGCCACTGACTTGTATAGACTTTGAA
66 CCAGCTTGTGCGGACTTTGAAAAAGATTGGTTGCCACTGACTTGTGTGGACTTTGAA
2050804 AAAGATTTTC
Statistics
Matches: 270, Mismatches: 48, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
196 270 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (196 bp):
CCACCGACTTGTGTGGACTTTGAATGGGGTGCCACCAACTCGTGTGGACTTTAACTAGGGTACCA
CCAGCTTGTGCGGACTTTGAAAAAGATTGGTTGCCACTGACTTGTGTGGACTTTGAATGGGGTGC
CACCAACTCATGTGGACTTTAACTAGGGTGCCGCAAGCTCGTGCAAACTTTGAAAAGGATTGGTT
G
Found at i:2050932 original size:24 final size:25
Alignment explanation
Indices: 2050890--2050936 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
2050880 GATGAAAAGG
2050890 TCTTAACATAAGTTATTGACAAAAT
1 TCTTAACATAAGTTATTGACAAAAT
*
2050915 TCTTAACA-AAGTTTTTGACAAA
1 TCTTAACATAAGTTATTGACAAA
2050937 CGTTCTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (25 bp):
TCTTAACATAAGTTATTGACAAAAT
Found at i:2050948 original size:25 final size:24
Alignment explanation
Indices: 2050894--2050949 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
2050884 AAAAGGTCTT
*
2050894 AACATAAGTTATTGACAAAATTCTT
1 AACA-AAGTTATTGACAAAATTCTC
* *
2050919 AACAAAGTTTTTGACAAACGTTCTC
1 AACAAAGTTATTGACAAA-ATTCTC
2050944 AACAAA
1 AACAAA
2050950 AGTCCTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (24 bp):
AACAAAGTTATTGACAAAATTCTC
Found at i:2053973 original size:20 final size:21
Alignment explanation
Indices: 2053937--2053975 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2053927 TGGACATGTT
*
2053937 AAAATGCATGGAACATGGGAC
1 AAAATGCATGAAACATGGGAC
2053958 AAAATGCAT-AAACATGGG
1 AAAATGCATGAAACATGGG
2053976 TTGTTGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.13, G:0.26, T:0.15
Consensus pattern (21 bp):
AAAATGCATGAAACATGGGAC
Found at i:2055521 original size:20 final size:20
Alignment explanation
Indices: 2055493--2055567 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
2055483 TTTTTTCCAT
2055493 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2055513 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2055533 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
2055553 ATGTATCGATACATT
1 ATGTATCGATACATT
2055568 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2055553 original size:40 final size:39
Alignment explanation
Indices: 2055493--2055570 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
2055483 TTTTTTCCAT
*
2055493 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
2055533 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
2055571 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:2069545 original size:11 final size:11
Alignment explanation
Indices: 2069518--2069576 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 11
2069508 CCTTTACACC
2069518 CAAAAAAAATAA
1 CAAAAAAAA-AA
* *
2069530 TAAAAACAAAA
1 CAAAAAAAAAA
2069541 CAAAAAAAAAA
1 CAAAAAAAAAA
2069552 CCAAGAAAAAAATA
1 -CAA-AAAAAAA-A
2069566 GCAAAAAAAAA
1 -CAAAAAAAAA
2069577 GAAAGGGGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 11 0.28
12 10 0.26
13 14 0.36
14 4 0.10
ACGTcount: A:0.81, C:0.10, G:0.03, T:0.05
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:2070918 original size:28 final size:28
Alignment explanation
Indices: 2070792--2071599 Score: 823
Period size: 28 Copynumber: 28.4 Consensus size: 28
2070782 TGTTCATCCC
2070792 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
*
2070821 TTTCAAAGCCCACAAGTCAATGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * * *
2070850 TTT--AAGCCCACGAGTTAGTGACACCG
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
2070876 TTTC-AAGCCCACGAGTCAGAGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
2070903 TTTCAAAGCCCACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
2070930 CTTTCAAAGCCCACAAGTCAATGGCA-CT
1 -TTTCAAAGCCCACAAGTCAGTGGCACCT
2070958 CTTTCAAAGCCCACAAGTCAGTGGCATCC-
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCT
2070987 TTTCAAAGCCCAAGCAAGTCAGTGGCACCCT
1 TTTCAAAGCCC-A-CAAGTCAGTGGCA-CCT
2071018 TTT-AAAGCCCACGCAAGTCAGTGGCACCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCT
* *
2071047 TTTC-AAGCCAACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
2071073 CTTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CT
*
2071106 TTTCAAAGCCCACAAGTCGGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
2071135 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
2071163 TTTC-AAGCCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
2071190 TTTC-AAGCCCACGAGTAAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
** *
2071217 TTTCAAAGCCCATGAGTCAGTGGCATGC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
2071245 TTTCAACGCCCACAAGTTAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
2071272 CTTTCAAAGCCCATAAGTCAGTGGCATCC-
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCT
*
2071301 TTTCAAAGCCCACGCAAGTTAGTGGCACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCA-CCT
*
2071332 TTT-AAAGCCCACACAAGTTAGTGGCACCT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCT
2071361 TTTC-AAGCCCACAAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
2071387 CTTTCAAAGCCCACAAGTCAATGGCATCC-
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCT
*
2071416 TTTCAAAGCCAATGCAAGTCAGTGGCACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCA-CCT
* *
2071447 TTT-AAAGCCCATGCAAGTCAATGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCT
** *
2071476 TTTC-AAGCCCAGGAGTCAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
2071503 TTTCAAAGCCCACAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
2071531 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
2071559 TTTCAGAGCCCACAAGGT-AGTGGCACTCT
1 TTTCAAAGCCCACAA-GTCAGTGGCAC-CT
2071588 TTTCAAAGCCCA
1 TTTCAAAGCCCA
2071600 TACGTGTCGG
Statistics
Matches: 674, Mismatches: 62, Indels: 86
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.01
27 141 0.21
28 258 0.38
29 110 0.16
30 130 0.19
31 14 0.02
32 10 0.01
33 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:2071361 original size:314 final size:308
Alignment explanation
Indices: 2070792--2071601 Score: 1156
Period size: 314 Copynumber: 2.6 Consensus size: 308
2070782 TGTTCATCCC
*
2070792 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTTAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAGC
* * * * *
2070857 CCACGAGTTAGTGACACCGTTTCAAGCCCACGAGTCAGAGGCACCTTTTCAAAGCCCACGAGTCA
66 CCACGAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGCACTTTTTCAAAGCCCACGAGTCA
* * *
2070922 GTGGCACTCTTTCAAAGCCCACAAGTCAATGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCC
131 GTGGCA-TCTTTC-AAGCCCACAAGTTAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGGCATCC
*
2070987 TTTCAAAGCCCAAGCAAGTCAGTGGCACCCTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCA
194 TTTCAAAGCCCAAGCAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCA
* **
2071052 AGCCAACGAGTCAGTGGCACTCTTTCAAAGCCCACACAAGTCGGTGGCAACTCA
259 AGCCAACAAGTCAGTGGCACTCTTTCAAAG-CC-CACAAGTCAATGGC-A-TCA
* * *
2071106 TTTCAAAGCCCACAAGTCGGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAGC
* *
2071171 CCACGAGTCAGTGGCACCCTTTCAAGCCCACGAGTAAGTGGCACTTTTTCAAAGCCCATGAGTCA
66 CCACGAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGCACTTTTTCAAAGCCCACGAGTCA
2071236 GTGGCATGCTTTCAACGCCCACAAGTTAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGGCATCC
131 GTGGCAT-CTTTCAA-GCCCACAAGTTAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGGCATCC
* * *
2071301 TTTCAAAGCCCACGCAAGTTAGTGGCACCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTCA
194 TTTCAAAGCCCAAGCAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCA
* *
2071366 AGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCATCC
259 AGCCAACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCATCA
* *
2071416 TTTCAAAGCCAATGCAAGTCAGTGGCACCCTTTT-AAAGCCCATGCAAGTCAATGGCACCCTTTC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAATGGCACCCTTTC
* ** * *
2071480 AAGCCCAGGAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCAC
62 AAGCCCACGAGTCAGTGGCACCCTTTC-AAGCCCACGAGTCAGTGGCACT-TTTTCAAAGCCCAC
* * *
2071544 AAGTCAGTGGCACCTTTTCAGAGCCCACAAGGTAGTGGCACTCTTTTCAAAGCCCATA
125 GAGTCAGTGGCATC-TTTCA-AGCCCACAAGTTAGTGGCACTC-TTTCAAAGCCCATA
2071602 CGTGTCGGTG
Statistics
Matches: 447, Mismatches: 38, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
310 13 0.03
311 9 0.02
312 30 0.07
313 49 0.11
314 331 0.74
315 15 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (308 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAGC
CCACGAGTCAGTGGCACCCTTTCAAGCCCACGAGTCAGTGGCACTTTTTCAAAGCCCACGAGTCA
GTGGCATCTTTCAAGCCCACAAGTTAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGGCATCCTT
TCAAAGCCCAAGCAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACCTTTTCAAG
CCAACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCATCA
Found at i:2071613 original size:115 final size:113
Alignment explanation
Indices: 2070792--2071638 Score: 840
Period size: 115 Copynumber: 7.4 Consensus size: 113
2070782 TGTTCATCCC
* * * *
2070792 TTTCAAAGCCC-ACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTT-TAA
1 TTTCAAAGCCCAACGAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* * * * * *
2070855 GCCCACGAGTTAGTGACACCGTTTC-AAGCCCACGAGTCAGAGGCACCT
65 GCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCT
*
2070903 TTTCAAAGCCC-ACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCA-CTCTTTCAAA
1 TTTCAAAGCCCAACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAA
2070966 GCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCAAGCAAGTCAGTGGCACCCT
65 GCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCC-A-CAAGTCAGTGGCA-CCT
* *
2071018 TTT-AAAGCCC-ACGCAAGTCAGTGGCAC-CTTTTC-AAGCCAACGAGTCAGTGGCA-CTCTTTC
1 TTTCAAAGCCCAACG--AGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTC
* * *
2071078 AAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAGTCGGTGGCACTCT
62 AAAG-CC-CACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * * * *
2071135 TTTCAAAGCCC-ACAAGTTAGTGGCACCCTTTC-AAGCCCACGAGTCAGTGGCACCCTTTC-AAG
1 TTTCAAAGCCCAACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* * * ** *
2071197 CCCACGAGTAAGTGGCACTTTTTCAAAGCCCATGAGTCAGTGGCATGC-
66 CCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * * *
2071245 TTTCAACGCCC-ACAAGTTAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCAACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* *
2071309 CCCACGCAAGTTAGTGGCACCCTTTT-AAAGCCCACACAAGTTAGTGGCACCT
66 CCCA--CAAGTCAGTGGCA-CCTTTTCAAAG-CC-CACAAGTCAGTGGCACCT
* *
2071361 TTTC-AAGCCC-ACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAG
1 TTTCAAAGCCCAACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* * *
2071424 CCAATGCAAGTCAGTGGCACCCTTTT-AAAGCCCATGCAAGTCAATGGCACCC
66 CCCA--CAAGTCAGTGGCA-CCTTTTCAAAGCCCA--CAAGTCAGTGGCACCT
* *
2071476 TTTC-AAGCCC-AGGAGTCAGTGGCACTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCAACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
*
2071539 CCCACAAGTCAGTGGCACCTTTTCAGAGCCCACAAGGT-AGTGGCACTCT
66 CCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAA-GTCAGTGGCAC-CT
* * *
2071588 TTTCAAAGCCCATACGTGTCGGTGGCAACTTTTTTCAAAGCCTACACAAGT
1 TTTCAAAGCCCA-ACGAGTCAGTGGC-AC-TCTTTCAAAGCC--CACAAGT
2071639 TAATGGCACA
Statistics
Matches: 639, Mismatches: 57, Indels: 72
0.83 0.07 0.09
Matches are distributed among these distances:
109 1 0.00
110 59 0.09
111 105 0.16
112 30 0.05
113 40 0.06
114 40 0.06
115 213 0.33
116 76 0.12
117 45 0.07
118 12 0.02
119 18 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (113 bp):
TTTCAAAGCCCAACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
CCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:2072232 original size:20 final size:20
Alignment explanation
Indices: 2072206--2072278 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2072196 TTACCCAGAA
2072206 GTATCGATACATTTTTCAAT
1 GTATCGATACATTTTTCAAT
* * * *
2072226 ATATCGATACATGTATGAAT
1 GTATCGATACATTTTTCAAT
* * *
2072246 GTATCGATATATTCTTCAAC
1 GTATCGATACATTTTTCAAT
2072266 GTATCGATACATT
1 GTATCGATACATT
2072279 ATGTCTTTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
GTATCGATACATTTTTCAAT
Found at i:2072264 original size:40 final size:39
Alignment explanation
Indices: 2072206--2072281 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
2072196 TTACCCAGAA
* *
2072206 GTATCGATACATTTTTCAATATATCGATACATGTATGAAT
1 GTATCGATACATTCTTCAACATATCGATACAT-TATGAAT
* *
2072246 GTATCGATATATTCTTCAACGTATCGATACATTATG
1 GTATCGATACATTCTTCAACATATCGATACATTATG
2072282 TCTTTTTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (39 bp):
GTATCGATACATTCTTCAACATATCGATACATTATGAAT
Found at i:2078190 original size:13 final size:14
Alignment explanation
Indices: 2078174--2078205 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2078164 AGCCTTTAAT
2078174 CTCAGCCACC-CTA
1 CTCAGCCACCACTA
2078187 CTCAGCCACCACTA
1 CTCAGCCACCACTA
2078201 C-CAGC
1 CTCAGC
2078206 AAATTCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.25, C:0.53, G:0.09, T:0.12
Consensus pattern (14 bp):
CTCAGCCACCACTA
Found at i:2084526 original size:20 final size:19
Alignment explanation
Indices: 2084483--2084535 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
2084473 TATCGATACC
* * *
2084483 TTGTATCGATGCATATTCA
1 TTGTATCGATACATAATAA
2084502 TTGTATCGATACATACATAA
1 TTGTATCGATACATA-ATAA
*
2084522 TTGTATTGATACAT
1 TTGTATCGATACAT
2084536 GAAACTGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACATAATAA
Found at i:2084700 original size:20 final size:20
Alignment explanation
Indices: 2084671--2084723 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2084661 TTCAAATGCA
2084671 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
* *
2084691 TGTATTGATACATTATGGAT
1 TGTATCGATACATTATGAAT
*
2084711 TATATCGATACAT
1 TGTATCGATACAT
2084724 AGCAACGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:2093390 original size:13 final size:13
Alignment explanation
Indices: 2093372--2093396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2093362 ACATTATGCT
2093372 TTGTATCGATACC
1 TTGTATCGATACC
2093385 TTGTATCGATAC
1 TTGTATCGATAC
2093397 ATGTTCATTG
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:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACC
Found at i:2093409 original size:19 final size:19
Alignment explanation
Indices: 2093385--2093438 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
2093375 TATCGATACC
* *
2093385 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGATAA
* **
2093404 TTGTATTGATACAACATAA
1 TTGTATCGATACATGATAA
2093423 TTGTATCGATACATGA
1 TTGTATCGATACATGA
2093439 AACTGGCAGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATGATAA
Found at i:2093503 original size:33 final size:32
Alignment explanation
Indices: 2093466--2093540 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
2093456 CTACCACTAT
2093466 TTGTATCAATACATG-GCATATTGTATCGAGACA
1 TTGTATCAATACATGAG-A-ATTGTATCGAGACA
** *
2093499 TTGTATGGATACATGAAGAATTGTATCGATACA
1 TTGTATCAATACATG-AGAATTGTATCGAGACA
*
2093532 TTGTCTCAA
1 TTGTATCAA
2093541 ATGGCTATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TTGTATCAATACATGAGAATTGTATCGAGACA
Found at i:2095633 original size:2 final size:2
Alignment explanation
Indices: 2095626--2095652 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2095616 TGGTGCAAGA
2095626 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 A
2095653 CACACACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2095752 original size:18 final size:17
Alignment explanation
Indices: 2095708--2095764 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
2095698 TTAAAATACT
*
2095708 ATATAAAAGATA-ATATA
1 ATATAAAAAATATATA-A
2095725 ATATAAAAAA-ACTATAA
1 ATATAAAAAATA-TATAA
2095742 ATATAACAAAATATATAA
1 ATATAA-AAAATATATAA
2095760 ATATA
1 ATATA
2095765 TTAGAAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 1 0.03
17 16 0.46
18 17 0.49
19 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (17 bp):
ATATAAAAAATATATAA
Found at i:2095756 original size:16 final size:16
Alignment explanation
Indices: 2095708--2095764 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 16
2095698 TTAAAATACT
2095708 ATATAAAAGATAATAT-A
1 ATATAAAA-A-AATATAA
2095725 ATATAAAAAAACTATAA
1 ATATAAAAAAA-TATAA
2095742 ATATAACAAAATATATAA
1 ATATAA-AAAA-ATATAA
2095760 ATATA
1 ATATA
2095765 TTAGAAAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.06
16 4 0.11
17 15 0.42
18 14 0.39
19 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (16 bp):
ATATAAAAAAATATAA
Found at i:2095837 original size:21 final size:20
Alignment explanation
Indices: 2095789--2095837 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2095779 CATTGACAAG
* *
2095789 CTATCAAAATTTGTTTATAA
1 CTATAAAAATTTGTTAATAA
2095809 CTATTAAAAATTTGTTAATAA
1 CTA-TAAAAATTTGTTAATAA
2095830 CCTATAAA
1 -CTATAAA
2095838 CGTAAGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (20 bp):
CTATAAAAATTTGTTAATAA
Found at i:2100449 original size:167 final size:166
Alignment explanation
Indices: 2100147--2100693 Score: 483
Period size: 167 Copynumber: 3.3 Consensus size: 166
2100137 TTCAATCTTG
* * * * *
2100147 TTAAATCAGTTTTTAAAAATTCTTTTTATTTT-TTGAGTTATTGATTTTTTTCA--G-AAT-TCC
1 TTAAATCAG-GTTTAAAAATTC-ATTTATTTTCATGAGTTTTTGAATTTTTTCATTGAAATCTCC
** * *
2100207 TCATGTTTTCAAATTACAGGA-TTTTTTTCTCCGTAAATTTTTTCGGGAAGATTTTCATGGGTTT
64 T--TGTTTTCAAAAAAC-GGAGTTTTTTACTCCGTAAATTTTTTCGGGAAGATTTTCATGAGTTT
* *
2100271 AAAATTTTTAAAATTTATCAAATATTATTATTTAATTCATA
126 AAAATTTTTAAAACTTATCAAATATTATTATTTAATTCAGA
* * *
2100312 TTAAATCAGGTTTACAAATTC-TTTCATTTTCATGGGTTTTTGAATTTTTTCCTTGAAA-CTCCC
1 TTAAATCAGGTTTAAAAATTCATTT-ATTTTCATGAGTTTTTGAATTTTTTCATTGAAATCT-CC
* * *
2100375 TTGTTTTCAAAAAACGGAGTTTTTTACTCCGTAAATTTTTTTCGGGGAGATTTTTC-TTAGTTTT
64 TTGTTTTCAAAAAACGGAGTTTTTTACTCCGTAAA-TTTTTTCGGGAAGA-TTTTCATGAGTTTA
*
2100439 TAATTTTTAAAACTTATCAAATATTATTATTTAATTCAGA
127 AAATTTTTAAAACTTATCAAATATTATTATTTAATTCAGA
**** * *
2100479 TTAAATTTTTTTTAAAAATTCATTTATTTTCATGAGTTTTTTATTTTTTTCATTGAAATCTCCTT
1 TTAAATCAGGTTTAAAAATTCATTTATTTTCATGAGTTTTTGAATTTTTTCATTGAAATCTCCTT
* * * * * * ** * * *
2100544 -TTTCTCAAAAAACCGAGTTTTCTAATCCATAAATATTTCCCAGAGGATGTTCTTTG-GTTTAAA
66 GTTT-TCAAAAAACGGAGTTTTTTACTCCGTAAATTTTTTCGGGAAGATTTTC-ATGAGTTTAAA
* * * * * **
2100607 ATTTTTAGAATTTATCTAATATTGTCATTTAATTCCCA
129 ATTTTTAAAACTTATCAAATATTATTATTTAATTCAGA
* *
2100645 TTAAATCAGTTTTGAAAAA-TCAATTTATTTT-ATGAG-TTTTGAGTTTTTT
1 TTAAATCAGGTTT-AAAAATTC-ATTTATTTTCATGAGTTTTTGAATTTTTT
2100694 TTTGTATTTA
Statistics
Matches: 313, Mismatches: 52, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
162 3 0.01
163 5 0.02
164 26 0.08
165 27 0.09
166 92 0.29
167 147 0.47
168 13 0.04
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (166 bp):
TTAAATCAGGTTTAAAAATTCATTTATTTTCATGAGTTTTTGAATTTTTTCATTGAAATCTCCTT
GTTTTCAAAAAACGGAGTTTTTTACTCCGTAAATTTTTTCGGGAAGATTTTCATGAGTTTAAAAT
TTTTAAAACTTATCAAATATTATTATTTAATTCAGA
Found at i:2101063 original size:10 final size:10
Alignment explanation
Indices: 2101048--2101087 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
2101038 AATGGCATAG
2101048 AAGAAATAAA
1 AAGAAATAAA
2101058 AAG-AA-AAA
1 AAGAAATAAA
2101066 AA-AAATAAA
1 AAGAAATAAA
*
2101075 AAGAAAAAAA
1 AAGAAATAAA
2101085 AAG
1 AAG
2101088 CTTTCGGGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 7 0.27
9 7 0.27
10 12 0.46
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (10 bp):
AAGAAATAAA
Found at i:2101073 original size:17 final size:17
Alignment explanation
Indices: 2101051--2101086 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2101041 GGCATAGAAG
2101051 AAATAAAAAGAAAAAAA
1 AAATAAAAAGAAAAAAA
2101068 AAATAAAAAGAAAAAAA
1 AAATAAAAAGAAAAAAA
2101085 AA
1 AA
2101087 GCTTTCGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.06, T:0.06
Consensus pattern (17 bp):
AAATAAAAAGAAAAAAA
Found at i:2101193 original size:11 final size:11
Alignment explanation
Indices: 2101179--2101222 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
2101169 AGTGAAAAGG
2101179 AAAAGAAAAAA
1 AAAAGAAAAAA
*
2101190 AAAAGAAAGAA
1 AAAAGAAAAAA
*
2101201 AATAGAGAAAAA
1 AAAAGA-AAAAA
*
2101213 ACAAGAAAAA
1 AAAAGAAAAA
2101223 TAGCAAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:2102253 original size:13 final size:13
Alignment explanation
Indices: 2102229--2102262 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2102219 ATTTTTGAAG
2102229 ATAAAA-AAAATA
1 ATAAAATAAAATA
2102241 ATAAAATAAAATA
1 ATAAAATAAAATA
2102254 AT-AAATAAA
1 ATAAAATAAA
2102263 CATTTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
ATAAAATAAAATA
Found at i:2102259 original size:12 final size:12
Alignment explanation
Indices: 2102229--2102262 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
2102219 ATTTTTGAAG
*
2102229 ATAAAAAAAATA
1 ATAAATAAAATA
2102241 ATAAAATAAAATA
1 AT-AAATAAAATA
2102254 ATAAATAAA
1 ATAAATAAA
2102263 CATTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAATAAAATA
Done.