Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 111 of 335
Found at i:34306618 original size:25 final size:25
Alignment explanation
Indices: 34306586--34306633 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34306576 ATACATAAAC
* * *
34306586 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
34306611 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34306634 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:34308552 original size:34 final size:34
Alignment explanation
Indices: 34308505--34308572 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
34308495 TCAAACAATC
* *
34308505 TTGGGCCTAAGCCCCTTTCAGTATCAGTAACAGT
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
* *
34308539 TTGGGCCTTAGCCCATCTCAGTATCAGTATCAGT
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
34308573 CATACAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
Found at i:34311568 original size:43 final size:43
Alignment explanation
Indices: 34311512--34311756 Score: 174
Period size: 43 Copynumber: 5.7 Consensus size: 43
34311502 TTTGCAGCGG
* * **
34311512 TTAGTGGCGCTTTCCCTACAAACACCACTAAAGAACAAGACCT
1 TTAGCGGCGCTTTCCCTAAAAACACCACTAAAGAACGTGACCT
* *
34311555 TTAGCGGTGCTTT-CCTAAAAAAAGCCACTAAAGAACGTGACCT
1 TTAGCGGCGCTTTCCCTAAAAACA-CCACTAAAGAACGTGACCT
* * * *
34311598 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAATGTGACCT
1 TTAGCGGCGCTTTCCCTAAAAACACCACTAAAGAACGTGACCT
* * ** ** * * *
34311641 TTAGCGGCACTTTTCC-AAAAATGCTGCTACATAACATGACCT
1 TTAGCGGCGCTTTCCCTAAAAACACCACTAAAGAACGTGACCT
** * * * * * *
34311683 TTAGCGGTACTCTCTCC-AGAAACGCCGCTAAAGAACCTGACTT
1 TTAGCGGCGCTTTC-CCTAAAAACACCACTAAAGAACGTGACCT
* * *
34311726 TTAACGACGCTTTCCC-AAAAACGCCACTAAA
1 TTAGCGGCGCTTTCCCTAAAAACACCACTAAA
34311757 AGTCATGTTC
Statistics
Matches: 162, Mismatches: 37, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
42 54 0.33
43 101 0.62
44 7 0.04
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
TTAGCGGCGCTTTCCCTAAAAACACCACTAAAGAACGTGACCT
Found at i:34311643 original size:86 final size:85
Alignment explanation
Indices: 34311512--34311799 Score: 204
Period size: 85 Copynumber: 3.4 Consensus size: 85
34311502 TTTGCAGCGG
* * * * * **
34311512 TTAGTGGCGCTTTCCCTACAAACACCACTAAAGAACAAGACCTTTAGCGGTGC-TTTCCTAAAAA
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCC--AAAA
*
34311576 AAGCCACTAAAGAACGTGACCT
64 AAGCCACTAAAGAACATGACCT
*** *
34311598 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAATGTGACCTTTAGCGGCACTTTTCCAAAAAT
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCAAAAAA
** * *
34311663 GCTGCTACATAACATGACCT
66 GCCACTAAAGAACATGACCT
** * * * ** * * * * * *
34311683 TTAGCGGTACTCTCTCCAGAAACGCCGCTAAAGAACCTGACTTTTAACGACGCTTTCCCAAAAAC
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCAAAAAA
* **
34311748 GCCACTAAA-AGTCATGTTCT
66 GCCACTAAAGA-ACATGACCT
* * * *
34311768 TTAACAGCGCTTTTCCCAAAAA-GCCACTAAAG
1 TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAG
34311800 GTCATGAAAA
Statistics
Matches: 156, Mismatches: 44, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
84 10 0.06
85 98 0.63
86 43 0.28
87 5 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (85 bp):
TTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTTTCCAAAAAA
GCCACTAAAGAACATGACCT
Found at i:34312516 original size:70 final size:70
Alignment explanation
Indices: 34312435--34312773 Score: 349
Period size: 70 Copynumber: 4.9 Consensus size: 70
34312425 TTTCAGCAAC
* *
34312435 TAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTATA
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTACA
*
34312500 GCATT
66 ACATT
** * * *
34312505 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACA--ACATTTATACTCCTCAA-TTA
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTGCAGCACTTTTA-ACACTTCAATTTA
*
34312566 CAGCGA-T
64 CAAC-ATT
* * * *
34312573 AAAACA-TCTCAATTT-CTAGCAAC-TAAACACTTCAATTTGCAGTAC-TTAAACACTTCAATTT
1 TAAACACT-TCAATTTGC-AGC-ACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTT
*
34312634 ACAAAAATT
63 AC-AACATT
* * *
34312643 TAAACACTTCAATTTACAACA-TTCAAACACTTCAATTTGCAGCA-TTTTAACACTTCAATTTAC
1 TAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTAC
34312706 AACATT
65 AACATT
* * *
34312712 TAAACACTTCAATTTGTAGCACTTTAACACTTTAATTTGCAGCACTTTAAACACTTCAATTT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTT
34312774 GCCGCACCTT
Statistics
Matches: 223, Mismatches: 27, Indels: 38
0.77 0.09 0.13
Matches are distributed among these distances:
67 2 0.01
68 48 0.22
69 63 0.28
70 108 0.48
71 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.35
Consensus pattern (70 bp):
TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTACA
ACATT
Found at i:34312694 original size:161 final size:160
Alignment explanation
Indices: 34312423--34312713 Score: 440
Period size: 161 Copynumber: 1.8 Consensus size: 160
34312413 ACATAAACTA
* * ** * *
34312423 AATTTCAGCAACTAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACA
1 AATTTCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACAAAAATTTAAACA
* * *
34312488 CTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTT
66 CTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTAACAACATTT
34312552 ATACTCCTCAATTACAGCGATAAAACATCTC
130 ATACTCCTCAATTACAGCGATAAAACATCTC
* *
34312583 AATTTCTAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAAAAATTTAAAC
1 AATTTC-AGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACAAAAATTTAAAC
* *
34312648 ACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCATTTTAACACTTCAATTTACAACATTT
65 ACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAACATTT
34312713 A
130 A
34312714 AACACTTCAA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
160 6 0.05
161 109 0.94
162 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (160 bp):
AATTTCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACAAAAATTTAAACA
CTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAACATTTA
TACTCCTCAATTACAGCGATAAAACATCTC
Found at i:34312795 original size:70 final size:70
Alignment explanation
Indices: 34312435--34313273 Score: 428
Period size: 69 Copynumber: 12.2 Consensus size: 70
34312425 TTTCAGCAAC
* * *
34312435 TAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTATA
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAACACTTCAATTTACA
34312500 GCATT
66 GCATT
** * * * *
34312505 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACA-TTTATACTCCTCAA-TTAC
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTGCAGCACTTTAAACACTTCAATTTAC
34312567 AGCGA-T
65 AGC-ATT
* * *
34312573 AAAACA-TCTCAATTT-CTAGCAAC-TAAACACTTCAATTTGCAGTAC-TTAAACACTTCAATTT
1 TAAACACT-TCAATTTGC-AGC-ACTTTAACACTTCAATTTGCAGCACTTTAAACACTTCAATTT
**
34312634 ACAAAAATT
63 AC-AGCATT
* * * *
34312643 TAAACACTTCAATTTACAACA-TTCAAACACTTCAATTTGCAGCA-TTTTAACACTTCAATTTAC
1 TAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTGCAGCACTTTAAACACTTCAATTTAC
*
34312706 AACATT
65 AGCATT
* * * *
34312712 TAAACACTTCAATTTGTAGCACTTTAACACTTTAATTTGCAGCACTTTAAACACTTCAATTTGCC
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAACACTTCAATTTACA
*
34312777 GCACCT
66 GCA-TT
* * ** * *
34312783 T-AACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAAC--TAAACACTTTAATTT
1 TAAACACTTCAATTTGCAGC-ACTTTAACACT-TCAATTTGCAGC-ACTTTAAACACTTCAATTT
* * *
34312842 GCAGTACT
63 ACAGCATT
* * * * * *
34312850 TAAACACTTCAATTTACAACA-TTTAATCACTTCAATTTACAACA-TTTAAGCACTTCAATTTGC
1 TAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTGCAGCACTTTAAACACTTCAATTTAC
**
34312913 TTCACTT
65 AGCA-TT
** * * * *
34312920 T-AACA-TCTCAATTAACAACA-TTTATACACCTCAATTAT--AGTGA--TAAAACA-TCTCAAT
1 TAAACACT-TCAATTTGCAGCACTTTA-ACACTTCAATT-TGCAG-CACTTTAAACACT-TCAAT
* **
34312977 TTCCAGCAAC
61 TTACAGCATT
* * * * * *
34312987 TATACACTTCAATTTACAACA-TTTAAGCACTTCAATTTACAACA-TTTAAACACTTCAATTTGC
1 TAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTGCAGCACTTTAAACACTTCAATTTAC
**
34313050 TTCACTT
65 AGCA-TT
* * * *
34313057 T-AACA-TCTCAA-TT-AAGAACATTTATACACCTCAATTAT--AGCGA--TAAAACA-TCTCAA
1 TAAACACT-TCAATTTGCAGCAC-TTTA-ACACTTCAATT-TGCAGC-ACTTTAAACACT-TCAA
* **
34313113 TTTCCAGCAAC
60 TTTACAGCATT
* * * * * * * * *
34313124 TATACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACA-TTTAAGCAGTTCAATTTAAA
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAACACTTCAATTTACA
34313188 GCATT
66 GCATT
* * *
34313193 TAAACACTTCAATTTACAACA-TTTAAACACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAA
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTTTAAACACT-TCAATTTA
*
34313255 CAACATT
64 CAGCATT
*
34313262 TGAACACTTCAA
1 TAAACACTTCAA
34313274 GTTGTATTCA
Statistics
Matches: 594, Mismatches: 116, Indels: 119
0.72 0.14 0.14
Matches are distributed among these distances:
67 14 0.02
68 167 0.28
69 269 0.45
70 140 0.24
71 4 0.01
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (70 bp):
TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAACACTTCAATTTACA
GCATT
Found at i:34312952 original size:23 final size:22
Alignment explanation
Indices: 34312437--34313273 Score: 369
Period size: 23 Copynumber: 36.5 Consensus size: 22
34312427 TCAGCAACTA
* * *
34312437 AACAATTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAACA-TTT
* *
34312460 AACACTTCAATTTGCAGCACTTTT
1 AACACTTCAATTTACA--ACATTT
* *
34312484 AACACTTCAATTTATAGCATTT
1 AACACTTCAATTTACAACATTT
* *
34312506 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTACAACA-TTT
*
34312530 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTACAACATTT
* * * **
34312552 ATACTCCTCAA-TTACAGCGATAA
1 A-ACACTTCAATTTACAAC-ATTT
*
34312575 AACA-TCTCAATTTCTAGCAAC--TA
1 AACACT-TCAA-TT-TA-CAACATTT
* *
34312598 AACACTTCAATTTGCAGTAC-TTA
1 AACACTTCAATTTACA--ACATTT
*
34312621 AACACTTCAATTTACAAAAATTT
1 AACACTTCAATTTAC-AACATTT
*
34312644 AAACACTTCAATTTACAACATTCA
1 -AACACTTCAATTTACAACATT-T
* *
34312668 AACACTTCAATTTGCAGCATTTT
1 AACACTTCAATTTACAACA-TTT
34312691 AACACTTCAATTTACAACATTT
1 AACACTTCAATTTACAACATTT
** *
34312713 AAACACTTCAATTTGTAGCACTTT
1 -AACACTTCAATTTACAACA-TTT
* * *
34312737 AACACTTTAATTTGCAGCACTTT
1 AACACTTCAATTTACAACA-TTT
* ** *
34312760 AAACACTTCAATTTGCCGCACCTT
1 -AACACTTCAATTTACAACA-TTT
* * **
34312784 AACACCTCAA-TTACAGCGATAA
1 AACACTTCAATTTACAAC-ATTT
* * * *
34312806 AACA-TCTCAATTTCCAGCAACTA
1 AACACT-TCAATTTACAAC-ATTT
* * *
34312829 AACACTTTAATTTGCAGTAC-TTA
1 AACACTTCAATTTACA--ACATTT
34312852 AACACTTCAATTTACAACATTT
1 AACACTTCAATTTACAACATTT
34312874 AATCACTTCAATTTACAACATTT
1 AA-CACTTCAATTTACAACATTT
* **
34312897 AAGCACTTCAATTTGCTTCACTTT
1 AA-CACTTCAATTTACAACA-TTT
*
34312921 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTACAACATTT
* *** **
34312943 ATACACCTCAATTATA-GTGATAA
1 A-ACACTTCAATT-TACAACATTT
* * **
34312966 AACA-TCTCAATTTCCAGCAACT
1 AACACT-TCAATTTACAACATTT
34312988 ATACACTTCAATTTACAACATTT
1 A-ACACTTCAATTTACAACATTT
34313011 AAGCACTTCAATTTACAACATTT
1 AA-CACTTCAATTTACAACATTT
* **
34313034 AAACACTTCAATTTGCTTCACTTT
1 -AACACTTCAATTTACAACA-TTT
* *
34313058 AACA-TCTCAATTAAGAACATTT
1 AACACT-TCAATTTACAACATTT
* * * **
34313080 ATACACCTCAA-TTATAGCGATAA
1 A-ACACTTCAATTTACAAC-ATTT
* * **
34313103 AACA-TCTCAATTTCCAGCAACT
1 AACACT-TCAATTTACAACATTT
** *
34313125 ATACACTTCAATTTGTAGTAC-TTA
1 A-ACACTTCAA-TT-TACAACATTT
34313149 AACACTTCAATTTACAACATTT
1 AACACTTCAATTTACAACATTT
*
34313171 AAGCAGTTCAATTTA-AAGCATTT
1 AA-CACTTCAATTTACAA-CATTT
34313194 AAACACTTCAATTTACAACATTT
1 -AACACTTCAATTTACAACATTT
* *
34313217 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTACAACA-TTT
*
34313241 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTACAACATTT
34313263 GAACACTTCAA
1 -AACACTTCAA
34313274 GTTGTATTCA
Statistics
Matches: 627, Mismatches: 123, Indels: 128
0.71 0.14 0.15
Matches are distributed among these distances:
20 2 0.00
21 8 0.01
22 92 0.15
23 428 0.68
24 88 0.14
25 6 0.01
26 3 0.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (22 bp):
AACACTTCAATTTACAACATTT
Found at i:34312978 original size:137 final size:137
Alignment explanation
Indices: 34312853--34313184 Score: 565
Period size: 137 Copynumber: 2.4 Consensus size: 137
34312843 CAGTACTTAA
*
34312853 ACACTTCAATTTACAACATTTAATCACTTCAATTTACAACATTTAAGCACTTCAATTTGCTTCAC
1 ACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTGCTTCAC
*
34312918 TTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGTGATAAAACATCTCAATTTCCAG
66 TTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATAAAACATCTCAATTTCCAG
34312983 CAACTAT
131 CAACTAT
* *
34312990 ACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTGCTTCAC
1 ACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTGCTTCAC
*
34313055 TTTAACATCTCAATTAAGAACATTTATACACCTCAATTATAGCGATAAAACATCTCAATTTCCAG
66 TTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATAAAACATCTCAATTTCCAG
34313120 CAACTAT
131 CAACTAT
** ** * *
34313127 ACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATTTAAGCAGTTCAATTT
1 ACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTT
34313185 AAAGCATTTA
Statistics
Matches: 183, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 183 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (137 bp):
ACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTGCTTCAC
TTTAACATCTCAATTAACAACATTTATACACCTCAATTATAGCGATAAAACATCTCAATTTCCAG
CAACTAT
Found at i:34313006 original size:68 final size:68
Alignment explanation
Indices: 34312927--34313137 Score: 225
Period size: 68 Copynumber: 3.1 Consensus size: 68
34312917 CTTTAACATC
*
34312927 TCAATTAACAACATTTATACACCTCAATTATAGTGATAAAACATCTCAATTTCCAGCAACTATAC
1 TCAATTAACAACATTTATACACCTCAATTATAGAGATAAAACATCTCAATTTCCAGCAACTATAC
34312992 ACT
66 ACT
* * * * * * **
34312995 TCAATTTACAACATTTA-AGCACTTCAATT-TACAACATTTAAACA-CTTCAATTTGCTTC-ACT
1 TCAATTAACAACATTTATA-CACCTCAATTATA-GAGA-TAAAACATC-TCAATTTCCAGCAACT
*
34313056 TTA-ACAT
62 ATACAC-T
* *
34313063 CTCAATTAAGAACATTTATACACCTCAATTATAGCGATAAAACATCTCAATTTCCAGCAACTATA
1 -TCAATTAACAACATTTATACACCTCAATTATAGAGATAAAACATCTCAATTTCCAGCAACTATA
34313128 CACT
65 CACT
34313132 TCAATT
1 TCAATT
34313138 TGTAGTACTT
Statistics
Matches: 111, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
67 5 0.05
68 54 0.49
69 47 0.42
70 5 0.05
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.33
Consensus pattern (68 bp):
TCAATTAACAACATTTATACACCTCAATTATAGAGATAAAACATCTCAATTTCCAGCAACTATAC
ACT
Found at i:34313258 original size:46 final size:46
Alignment explanation
Indices: 34312435--34313273 Score: 517
Period size: 46 Copynumber: 18.3 Consensus size: 46
34312425 TTTCAGCAAC
* * *
34312435 TAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACA-TT
* ** * *
34312482 TTAACACTTCAATTTATAGCA-TTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACA-TT
** * * * *
34312529 T-AACA-TCTCAATTAACAACA-TTTATACTCCTCAA-TTACAGCGA-T
1 TAAACACT-TCAATTTGCAGCACTTTA-ACACTTCAATTTACAAC-ATT
* * * ** *
34312573 AAAACA-TCTCAATTT-CTAGCAAC-TAAACACTTCAATTTGCAGTACT
1 TAAACACT-TCAATTTGC-AGC-ACTTTAACACTTCAATTTACAACATT
* ** *
34312619 TAAACACTTCAATTTACAAAAATTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATT
* *
34312666 CAAACACTTCAATTTGCAGCATTTTAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * * *
34312712 TAAACACTTCAATTTGTAGCACTTTAACACTTTAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACA-TT
* * * *
34312759 TAAACACTTCAATTTGCCGCACCTTAACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAAC-ATT
* * * * * ** *
34312804 AAAACA-TCTCAATTTCCAGCAAC-TAAACACTTTAATTTGCAGTACT
1 TAAACACT-TCAATTTGCAGC-ACTTTAACACTTCAATTTACAACATT
* *
34312850 TAAACACTTCAATTTACAACA-TTTAATCACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAACATT
* ** *
34312896 TAAGCACTTCAATTTGCTTCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATT
* * * ** * * **
34312942 TATACACCTCAATTAT--AGTGA-TAAAACA-TCTCAATTTCCAGCAAC
1 TAAACACTTCAATT-TGCAG-CACTTTAACACT-TCAATTTACAACATT
* * *
34312987 TATACACTTCAATTTACAACA-TTTAAGCACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAACATT
** * *
34313033 TAAACACTTCAATTTGCTTCACTTTAACA-TCTCAATTAAGAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATT
* * ** * * **
34313079 TATACACCTCAATTAT--AGCGA-TAAAACA-TCTCAATTTCCAGCAAC
1 TAAACACTTCAATT-TGCAGC-ACTTTAACACT-TCAATTTACAACATT
* * * *
34313124 TATACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * **
34313170 TAAGCAGTTCAATTTAAAGCA-TTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATT
*
34313216 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATT
*
34313262 TGAACACTTCAA
1 TAAACACTTCAA
34313274 GTTGTATTCA
Statistics
Matches: 624, Mismatches: 126, Indels: 85
0.75 0.15 0.10
Matches are distributed among these distances:
44 5 0.01
45 131 0.21
46 358 0.57
47 130 0.21
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (46 bp):
TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
Found at i:34315914 original size:20 final size:19
Alignment explanation
Indices: 34315874--34315913 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34315864 GGAAAAAAAA
34315874 TTAGGGATTTGGGGAAATT
1 TTAGGGATTTGGGGAAATT
* *
34315893 TTAGGTATTTGGGGGAATT
1 TTAGGGATTTGGGGAAATT
34315912 TT
1 TT
34315914 TTAGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (19 bp):
TTAGGGATTTGGGGAAATT
Found at i:34316808 original size:7 final size:7
Alignment explanation
Indices: 34316798--34316853 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
34316788 ATAAACTCTA
34316798 AACCCTT
1 AACCCTT
34316805 AACCCTT
1 AACCCTT
34316812 AACCCTT
1 AACCCTT
*
34316819 AACCCCT
1 AACCCTT
34316826 AACACC-T
1 AAC-CCTT
*
34316833 AAACCTT
1 AACCCTT
*
34316840 CACCC--
1 AACCCTT
34316845 AACCCTT
1 AACCCTT
34316852 AA
1 AA
34316854 ACCATAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
5 4 0.10
6 2 0.05
7 32 0.80
8 2 0.05
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCTT
Found at i:34316828 original size:21 final size:21
Alignment explanation
Indices: 34316789--34316856 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
34316779 TCATAAAATA
* *
34316789 TAAACTCTAAACCCTTAACCCT
1 TAAAC-CTTAACCCCTAACCCT
*
34316811 TAACCCTTAACCCCTAACACC-
1 TAAACCTTAACCCCTAAC-CCT
*
34316832 TAAACCTTCA-CCC-AACCCT
1 TAAACCTTAACCCCTAACCCT
34316851 TAAACC
1 TAAACC
34316857 ATAAATCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.05
19 9 0.23
20 3 0.08
21 19 0.49
22 6 0.15
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCTTAACCCCTAACCCT
Found at i:34316866 original size:7 final size:7
Alignment explanation
Indices: 34316851--34316967 Score: 58
Period size: 7 Copynumber: 16.4 Consensus size: 7
34316841 ACCCAACCCT
34316851 TAAACCA
1 TAAACCA
*
34316858 TAAATCA
1 TAAACCA
34316865 TAAACCA
1 TAAACCA
* *
34316872 TAATCCC
1 TAAACCA
34316879 TAAACCCA
1 TAAA-CCA
* *
34316887 TAATCTA
1 TAAACCA
*
34316894 TAAACCT
1 TAAACCA
*
34316901 TAAACTA
1 TAAACCA
*
34316908 GT-AACTCC
1 -TAAAC-CA
*
34316916 TAAACCT
1 TAAACCA
*
34316923 TAAACCC
1 TAAACCA
*
34316930 CAAACCA
1 TAAACCA
*
34316937 TATACTC-
1 TAAAC-CA
34316944 TAAACCA
1 TAAACCA
*
34316951 TAAACCC
1 TAAACCA
*
34316958 TAAACTA
1 TAAACCA
34316965 TAA
1 TAA
34316968 TGATAATTAA
Statistics
Matches: 79, Mismatches: 25, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
6 1 0.01
7 68 0.86
8 10 0.13
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:34316948 original size:14 final size:14
Alignment explanation
Indices: 34316851--34316967 Score: 74
Period size: 14 Copynumber: 8.2 Consensus size: 14
34316841 ACCCAACCCT
* *
34316851 TAAACCATAAATCA
1 TAAACCCTAAACCA
* * *
34316865 TAAACCATAATCCC
1 TAAACCCTAAACCA
* *
34316879 TAAACCCATAATCTA
1 TAAACCC-TAAACCA
* *
34316894 TAAACCTTAAACTA
1 TAAACCCTAAACCA
*
34316908 GT-AACTCCTAAACCT
1 -TAAAC-CCTAAACCA
*
34316923 TAAACCCCAAACCA
1 TAAACCCTAAACCA
* *
34316937 TATACTCTAAACCA
1 TAAACCCTAAACCA
*
34316951 TAAACCCTAAACTA
1 TAAACCCTAAACCA
34316965 TAA
1 TAA
34316968 TGATAATTAA
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
14 59 0.74
15 21 0.26
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:34317329 original size:40 final size:40
Alignment explanation
Indices: 34317274--34317359 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
34317264 TTTTTGTGGG
*
34317274 GTTTTTCAAAAAGCGCAGCTAATGCAT-TATCTATAGCAGC
1 GTTTTTCAAAAAGCGCAGCTAATGC-TCGATCTATAGCAGC
* *
34317314 GTTTTTCAAAAAGCGCCGCTACTGCTCGATCTATAGCAGC
1 GTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGCAGC
34317354 GTTTTT
1 GTTTTT
34317360 TGAAAAACAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (40 bp):
GTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGCAGC
Found at i:34317504 original size:40 final size:39
Alignment explanation
Indices: 34317459--34317554 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
34317449 AATAGTTGAC
* *
34317459 CTATAGTAGCGTTTTTCAAAAAGCGCTGCTAATGCTCGAT
1 CTATAGT-GCGTTTTTCAAAAAGCACCGCTAATGCTCGAT
* * *
34317499 TTATAGTGACATTTTTCAAAAAGCACCGTTAATGCTCGAT
1 CTATAGTG-CGTTTTTCAAAAAGCACCGCTAATGCTCGAT
*
34317539 CTACAGTGGCGTTTTT
1 CTATAGT-GCGTTTTT
34317555 TATCCAAACG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.02
40 44 0.96
41 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (39 bp):
CTATAGTGCGTTTTTCAAAAAGCACCGCTAATGCTCGAT
Found at i:34328733 original size:175 final size:173
Alignment explanation
Indices: 34328446--34329129 Score: 696
Period size: 175 Copynumber: 4.0 Consensus size: 173
34328436 AAAGTAGCAA
* *
34328446 GAGTCTTATCTTTCTAAGGTAGCAAGAAAGC---AGACTGAAGATCTTATCTCCGTGAAGTTGCA
1 GAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAAGAGACTGAAGATCTTATCTCCCTAAAGTTGCA
** * * * * *
34328508 ATGGAGTAGATCGAAGATGGTGAATCTTATCTCCATGTATCGAAAATGGAGTAGATTTTA-CCAC
66 GCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCAC
* * *
34328572 CAG-CTTATCTCTTTGAGGTAGTAAGAGAGTAGGTTGAAGAAT
131 CAGACTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
*
34328614 GAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGATTGATGATTGAAGATCTTATCTCCCTAAAGT
1 GAGTCTTATCTTTCTAAGGTAGCAAGAAAGCA-A--GA-GACTGAAGATCTTATCTCCCTAAAGT
* * *
34328679 TGCAGCGGAGCAGATCCAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCTGATTTAAA
62 TGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAG
*
34328744 CCACCA-ACCTTATCTCTCTGAGGTAGCAAGAGAGCATGTTGAAGAAT
127 CCACCAGA-CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
* * * *
34328791 AAGTCTTTTCTTTCTGAGGTAGCAAG-AA--AACAGACTGAAGATCTTATCTCCCTAAAGTTGCA
1 GAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAAGAGACTGAAGATCTTATCTCCCTAAAGTTGCA
* * **
34328853 GTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGGAATGGAGCAGATTTAAGCCAC
66 GCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCAC
* * *
34328918 CAGCCTTATCTCTCTGCGATAGCAAGAGAGCAGGTTGAAGAATT
131 CAGACTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAA-T
* * * * * * * *
34328962 GAGTTTTATC-TTCTTGAGGAAGCAAGGAAGCAAACTGAAGATTAAAGATTTTATCT-CCTTAAG
1 GAGTCTTATCTTTC-TAAGGTAGCAAGAAAGC-AA--G-AGACTGAAGATCTTATCTCCCTAAAG
** * * * * * *
34329025 CAGTAGCGGAGCAGATTGAA-A-GGCGGATCTTATGTCCATGTAT-AAGCAATGGAGCAGATTTT
61 TTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGA-CAATGGAGCAGATTTA
* * * * * *
34329087 AGCCACTAGATTTATCTTTTTGAGG-ATGTAAGAAAGCAGGTTG
125 AGCCACCAGACTTATCTCTCTGAGGTA-GCAAGAGAGCAGGTTG
34329130 GCAATTGTAG
Statistics
Matches: 432, Mismatches: 62, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
168 31 0.07
170 127 0.29
171 20 0.05
172 2 0.00
173 1 0.00
174 3 0.01
175 145 0.34
176 9 0.02
177 79 0.18
178 15 0.03
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (173 bp):
GAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAAGAGACTGAAGATCTTATCTCCCTAAAGTTGCA
GCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCAC
CAGACTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
Found at i:34328882 original size:170 final size:170
Alignment explanation
Indices: 34328446--34328973 Score: 693
Period size: 170 Copynumber: 3.1 Consensus size: 170
34328436 AAAGTAGCAA
* * * *
34328446 GAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGATCTTATCTCCGTGAAGTTGCAATG
1 GAGTCTTATCTTTCTAAGGTAGCAAGAAAACAGACTGAAGATCTTATCTCCCTAAAGTTGCAGTG
* * *
34328511 GAGTAGATCGAAGATGGTGAATCTTATCTCCATGTATCGAAAATGGAG-TAGATTT-TACCACC-
66 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCT-GATTTAAACCACCA
* * * *
34328573 AGCTTATCTCTTTGAGGTAGTAAGAGAGTAGGTTGAAGAAT
130 ACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
* *
34328614 GAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGATTGATGATTGAAGATCTTATCTCCCTAAAGT
1 GAGTCTTATCTTTCTAAGGTAGCAAG-AA--A-A--CA-GACTGAAGATCTTATCTCCCTAAAGT
* * *
34328679 TGCAGCGGAGCAGATCCAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAGCTGATTTAAA
59 TGCAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCTGATTTAAA
*
34328744 CCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCATGTTGAAGAAT
124 CCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
* * *
34328791 AAGTCTTTTCTTTCTGAGGTAGCAAGAAAACAGACTGAAGATCTTATCTCCCTAAAGTTGCAGTG
1 GAGTCTTATCTTTCTAAGGTAGCAAGAAAACAGACTGAAGATCTTATCTCCCTAAAGTTGCAGTG
* ** * * *
34328856 GAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGGAATGGAGCAGATTTAAGCCACCAG
66 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCTGATTTAAACCACCAA
* *
34328921 CCTTATCTCTCTGCGATAGCAAGAGAGCAGGTTGAAGAATT
131 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAA-T
*
34328962 GAGTTTTATCTT
1 GAGTCTTATCTT
34328974 CTTGAGGAAG
Statistics
Matches: 313, Mismatches: 36, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
168 26 0.08
169 2 0.01
170 125 0.40
171 12 0.04
173 1 0.00
174 2 0.01
175 77 0.25
176 9 0.03
177 59 0.19
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (170 bp):
GAGTCTTATCTTTCTAAGGTAGCAAGAAAACAGACTGAAGATCTTATCTCCCTAAAGTTGCAGTG
GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGAAAATGGAGCTGATTTAAACCACCAA
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
Found at i:34335618 original size:40 final size:40
Alignment explanation
Indices: 34335573--34335739 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34335563 CGGAATACAA
34335573 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
34335613 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
34335653 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
34335693 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
34335732 CCGGATAT
1 CCGGATAT
34335740 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:34343651 original size:40 final size:40
Alignment explanation
Indices: 34343606--34343773 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
34343596 CGGAATACAA
34343606 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34343646 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34343686 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
34343726 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
34343766 CCGGATAT
1 CCGGATAT
34343774 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34353378 original size:25 final size:25
Alignment explanation
Indices: 34353344--34353434 Score: 137
Period size: 25 Copynumber: 3.6 Consensus size: 25
34353334 TTTAATAACC
*
34353344 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
* *
34353369 GGGGCAAAGCCCTTTTCAATAAACC
1 GGGGCAAAGCCCTTTTCGATAAACT
*
34353394 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
*
34353419 GGGGCATAGCCCTTTT
1 GGGGCAAAGCCCTTTT
34353435 AGCACTTCCT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACT
Found at i:34353405 original size:50 final size:48
Alignment explanation
Indices: 34353327--34353435 Score: 164
Period size: 50 Copynumber: 2.2 Consensus size: 48
34353317 CTAGAGACCT
*
34353327 AGCCTCTTTTAATAACCGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTAATAACCGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
* *
34353376 AGCCCTTTTCAATAAACCGGGGCAAAGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AAT-AACCGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
34353426 AGCCCTTTTA
1 AGCCCTTTTA
34353436 GCACTTCCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
48 5 0.09
49 8 0.15
50 42 0.76
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (48 bp):
AGCCCTTTTAATAACCGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
Found at i:34353667 original size:27 final size:27
Alignment explanation
Indices: 34353637--34353933 Score: 400
Period size: 27 Copynumber: 11.0 Consensus size: 27
34353627 GGGGCAAAAT
* * *
34353637 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34353664 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34353691 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34353718 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
34353745 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34353772 GGTAATTCTACCCTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
34353799 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34353826 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34353853 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34353880 GATAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
34353907 GGTAATTCTACCCTACTAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34353934 AATATTTTAC
Statistics
Matches: 244, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
26 6 0.02
27 230 0.94
28 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34353983 original size:27 final size:27
Alignment explanation
Indices: 34353953--34354131 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
34353943 CAAATCGAGA
* * * **
34353953 GTATTTCGATAATTTCACAAATTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
34353980 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
34354007 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
34354034 GTATTTTAGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** * **
34354061 GTATTTTGGTAATTTTACTGATCAAAG
1 GTATTTTGGTAATTTTACAAACCAGGG
** ** *
34354088 GTATTTTTTTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
34354115 GTATTTTAGTAATTTTA
1 GTATTTTGGTAATTTTA
34354132 TAAATCGAGG
Statistics
Matches: 125, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:34354130 original size:81 final size:81
Alignment explanation
Indices: 34353962--34354131 Score: 225
Period size: 81 Copynumber: 2.1 Consensus size: 81
34353952 AGTATTTCGA
* * **
34353962 TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAA
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGCCAAAGGTATTTTGGTAATTTTACAA
*
34354027 ACCAGGGGTATTTTAG
66 ACCAAGGGTATTTTAG
* * ** **
34354043 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC-TGATCAAAGGTATTTTTTTAATTTTGTA
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAG-CCAAAGGTATTTTGGTAATTTTACA
34354107 AACCAAGGGTATTTTAG
65 AACCAAGGGTATTTTAG
34354124 TAATTTTA
1 TAATTTTA
34354132 TAAATCGAGG
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 76 0.99
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGCCAAAGGTATTTTGGTAATTTTACAA
ACCAAGGGTATTTTAG
Found at i:34354154 original size:27 final size:27
Alignment explanation
Indices: 34354123--34354414 Score: 359
Period size: 27 Copynumber: 10.8 Consensus size: 27
34354113 GGGTATTTTA
* *
34354123 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * **
34354150 ATAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
*
34354177 GTAATTCTATAAGTCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
34354204 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
34354231 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
34354258 GTAATTTTGTAAATCGAGAGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
34354285 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
34354312 TTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
34354339 GTAACTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * ***
34354366 GTAATTCTGTAAATCGATGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
34354393 GTAATTTTACAAATTGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
34354415 TTTCAGTAAT
Statistics
Matches: 229, Mismatches: 36, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 229 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:34354155 original size:81 final size:81
Alignment explanation
Indices: 34354006--34354155 Score: 176
Period size: 81 Copynumber: 1.9 Consensus size: 81
34353996 ACAAGCCAGG
* * **** *
34354006 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAACGAT
34354071 AATTTTACTGATCAAA
66 AATTTTACTGATCAAA
** ** *
34354087 GGTATTTTTTTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAACGA
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-CGAGGGGTAAAACGA
34354151 TAATT
65 TAATT
34354156 CTGTAAATCG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 54 0.96
82 2 0.04
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAACGAT
AATTTTACTGATCAAA
Found at i:34358471 original size:27 final size:27
Alignment explanation
Indices: 34358441--34358504 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
34358431 GAATTACCGT
*
34358441 AGAATTACTATTTTACCATTGATTTAC
1 AGAATTACTATTTTACCATGGATTTAC
*
34358468 AGAATTACTATTTTACCCTGGATTTAC
1 AGAATTACTATTTTACCATGGATTTAC
*
34358495 AAAATTACTA
1 AGAATTACTA
34358505 AAATACCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.41
Consensus pattern (27 bp):
AGAATTACTATTTTACCATGGATTTAC
Found at i:34358605 original size:80 final size:81
Alignment explanation
Indices: 34358495--34358701 Score: 260
Period size: 80 Copynumber: 2.6 Consensus size: 81
34358485 CTGGATTTAC
* * *
34358495 AAAATTACTAAAATA-CCATTGGTTTATAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACC
1 AAAATTACCAAAATACCCA-TAGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACC
*
34358558 AAAATACC-CTGGTCTGT
64 AAAATACCACTAGTCTGT
* * **
34358575 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
34358640 AATACCACTAGTTTGT
66 AATACCACTAGTCTGT
* *
34358656 GAAATTACCAAAATA-CCATCACTTTGTAAAATTACCAAAATACCCC
1 AAAATTACCAAAATACCCAT-AGTTTGTAAAATTACCAAAATACCCC
34358702 TAATTTACAA
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
79 2 0.02
80 61 0.55
81 48 0.43
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (81 bp):
AAAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTAGTCTGT
Found at i:34358812 original size:27 final size:27
Alignment explanation
Indices: 34358495--34358813 Score: 275
Period size: 27 Copynumber: 11.8 Consensus size: 27
34358485 CTGGATTTAC
* * *
34358495 AAAATTACTAAAATACCATTGGTTTAT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
34358522 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
34358549 AAAATTACCAAAATACCC-TGGTCTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
34358575 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
34358602 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
34358629 AAAATTACCAAAATACCAC-TAGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTGT
* * ***
34358656 GAAATTACCAAAATACCATCACTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* ** **
34358683 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
34358710 AAAATTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTG-GTTTGT
* * **
34358738 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
**
34358766 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
34358793 AAATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
34358814 TAGGATGAAA
Statistics
Matches: 243, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.09
27 194 0.80
28 9 0.04
29 17 0.07
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:34358874 original size:27 final size:27
Alignment explanation
Indices: 34358844--34358935 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
34358834 ACCCCTATTA
*
34358844 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
34358871 GGTAAAGTGACTGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* ** *
34358898 GGTAAAGTGACCGTAATTCCCCTGTAT
1 GGTAAAATGACCGTAAAGCCCCTGTAG
34358925 GGTAAAATGAC
1 GGTAAAATGAC
34358936 GAATATGCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:34359772 original size:25 final size:25
Alignment explanation
Indices: 34359744--34359813 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
34359734 AGAAAATGCT
* *
34359744 AAAAGGG-TTATGCCCTAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTACCA
*
34359769 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
34359794 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34359814 GTTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:34359826 original size:24 final size:25
Alignment explanation
Indices: 34359760--34359826 Score: 61
Period size: 25 Copynumber: 2.7 Consensus size: 25
34359750 GTTATGCCCT
* *
34359760 AGTTTACCGAAAAG-GGCTTTGCCCC
1 AGTTTATC-AAAAGAGGCTTTACCCC
34359785 AGTTTATCAAAA-AGGGCTTTACCCC
1 AGTTTATCAAAAGA-GGCTTTACCCC
34359810 AGTTGT-T-AAAAGAGGCT
1 AGTT-TATCAAAAGAGGCT
34359827 AGGCCTCCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 12 0.33
25 23 0.64
26 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
AGTTTATCAAAAGAGGCTTTACCCC
Found at i:34360026 original size:42 final size:42
Alignment explanation
Indices: 34359961--34360048 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
34359951 TAGTCTCCCT
* * ** *
34359961 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
34360003 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
34360045 AAAT
1 AAAT
34360049 GGGCCTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:34360114 original size:31 final size:31
Alignment explanation
Indices: 34360076--34360185 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
34360066 CGTTTACAGT
*
34360076 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
34360107 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
34360138 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
34360169 AAAGGCTTCGGCCCAAT
1 AAAGGCTTCGGCCCAAT
34360186 AACTGTTAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:34363635 original size:61 final size:66
Alignment explanation
Indices: 34363535--34363702 Score: 215
Period size: 61 Copynumber: 2.6 Consensus size: 66
34363525 TAATGAGGGG
* * * *
34363535 AAGA-AGCCAAAGTGAAAACTCGCAAAGGGCACTTTGAGACCT-AATAAAAATG-GAAAAG-ATA
1 AAGAGAGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACCTCAATAAAAATGAAAAAAGAAAA
34363596 A
66 A
*
34363597 AAG-G-GCCAAAGTGAAAACCCGCAGAGGGCGCTTTGAGA-CTCAATAAAAATGAAAAAAGAAAA
1 AAGAGAGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACCTCAATAAAAATGAAAAAAGAAAA
34363659 A
66 A
* *
34363660 AAGAGATGCCAAGGTGAAAACCCGTAAAGGGCGCTTTGAGACC
1 AAGAGA-GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACC
34363703 AAAGGGGATT
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
60 2 0.02
61 41 0.46
62 8 0.09
63 6 0.07
64 1 0.01
66 31 0.34
67 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (66 bp):
AAGAGAGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACCTCAATAAAAATGAAAAAAGAAAA
A
Found at i:34365189 original size:177 final size:172
Alignment explanation
Indices: 34364812--34365479 Score: 823
Period size: 170 Copynumber: 3.9 Consensus size: 172
34364802 AAGGTAGCAA
34364812 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACT--GAAGATCTTATCTCCCTA
1 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAGAAGATCTTATCTCCCTA
* * * *
34364875 AAGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTCATCTCCATGTACCGGCAATGGAGCATATT
66 AAGTTGCAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
* *
34364940 TGA-CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGG
131 TAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* *
34364981 TTTAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTAAAGATCTTATCT
1 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACT-AAG----AAGATCTTATCT
* * *
34365046 CCCTAAAGTTGCAGTGGAGTAGATCAAAGATGGCGAATCTTATCTCCATGTATCAGCAATGGAGC
61 CCCTAAAGTTGCAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGC
*
34365111 AGATTTAAGCCACCAGCTTTATCTCTCTGAGGTAGCAAGAGAGCAGG
126 AGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * * *
34365158 TTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAAACTAAG--GATCTTATCTCCTTG
1 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAGAAGATCTTATCTCCCTA
* *
34365221 AAGTTGCAGCGGAGCAGAT-AGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGAG
66 AAGTTGCAGCGGAGCAGATCA-AAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
*
34365285 TTAAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAGG
130 TTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * * * * *
34365328 TTGAAGAATTGAGTTTTATCTTCCTAAGGTAACAAGGAAGCAGACAGAAGATTAAAGATTTTATC
1 TTGAAGAA-TGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGAC-TAAG----AAGATCTTATC
** * * ** * * *
34365393 TCCCT-AAGCAGTAGCGGAGTAGATTGAA-A-GGCGGATCTTATCTCCATGTATTGGTAATGGAG
60 TCCCTAAAGTTGCAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAG
* * * *
34365455 TAGATTTTAGCCACTAGACTTATCT
125 CAGATTTAAGCCACCAGCCTTATCT
34365480 TTTTCAGGAA
Statistics
Matches: 435, Mismatches: 46, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
169 44 0.10
170 119 0.27
171 30 0.07
172 4 0.01
175 49 0.11
176 81 0.19
177 96 0.22
178 12 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (172 bp):
TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTAAGAAGATCTTATCTCCCTA
AAGTTGCAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
TAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
Found at i:34365293 original size:170 final size:171
Alignment explanation
Indices: 34364812--34365377 Score: 825
Period size: 170 Copynumber: 3.3 Consensus size: 171
34364802 AAGGTAGCAA
34364812 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAA-GATCTTATCTCCCTAA
1 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGGATCTTATCTCCCTAA
* * *
34364876 AGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTCATCTCCATGTACCGGCAATGGAGCATATTT
66 AGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* *
34364941 GA-CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGG
131 AAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* *
34364981 TTTAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTAAAGATCTTATCT
1 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAG------GATCTTATCT
* * * *
34365046 CCCTAAAGTTGCAGTGGAGTAGATCAAAGATGGCGAATCTTATCTCCATGTATCAGCAATGGAGC
60 CCCTAAAGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGC
*
34365111 AGATTTAAGCCACCAGCTTTATCTCTCTGAGGTAGCAAGAGAGCAGG
125 AGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * * *
34365158 TTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAAACT-AAGGATCTTATCTCCTTGA
1 TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGGATCTTATCTCCCTAA
*
34365222 AGTTGCAGCGGAGCAGAT-AGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGAGT
66 AGTTGCAGCGGAGCAGATCA-AAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
*
34365286 TAAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAGG
130 TAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * * * *
34365328 TTGAAGAATTGAGTTTTATCTTCCTAAGGTAACAAGGAAGCAGACAGAAG
1 TTGAAGAA-TGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAG
34365378 ATTAAAGATT
Statistics
Matches: 356, Mismatches: 30, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
169 47 0.13
170 119 0.33
171 30 0.08
172 3 0.01
176 78 0.22
177 79 0.22
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (171 bp):
TTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGGATCTTATCTCCCTAA
AGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
AAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
Found at i:34365537 original size:346 final size:345
Alignment explanation
Indices: 34364807--34365544 Score: 936
Period size: 346 Copynumber: 2.1 Consensus size: 345
34364797 TCTCTAAGGT
*
34364807 AGCA-ATTGAAGAATGAGTCTTATCTTTCT-AAGGTAGCAAGAAAGCAGACTGAAGATCTTATCT
1 AGCAGATT-AAGAATGAGTCTTATCTTTCTGAA-GTAGCAAGAAAGCAAACTGAAGATCTTATCT
34364870 CCCTAAAGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTCATCTCCATGTACCGGCAATGGAGC
64 CCCTAAAGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTCATCTCCATGTACCGGCAATGGAGC
* * * * *
34364935 ATATTTGACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGGTTTAAGAATGAGTCTTATC
129 AGAGTTAACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAACAGGTTGAAGAATGAGTCTTATC
* * * * ** *
34365000 TTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAAGTTGCAGTGGAG
194 TTCCTAAGGTAACAAGAAAGCAGACAGAAGATTAAAGATCTTATCTCCCTAAAGCAGCAGCGGAG
34365065 TAGATCAAAGATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAGCTT
259 TAGATCAAAGATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAGCTT
* * *
34365130 TATCTCTCTGAGGTAGCAAGAG
324 TATCTCTCTCAGGAAGCAAGAA
* *
34365152 AGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAAACT-AAGGATCTTATCT
1 AGCAGATT-AAGAATGAGTCTTATCTTTCTGAAGTAGCAAGAAAGCAAACTGAA-GATCTTATCT
* * * *
34365216 CCTTGAAGTTGCAGCGGAGCAGAT-AGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAG
64 CCCTAAAGTTGCAGCGGAGCAGATCA-AAGATGGTGAATCTCATCTCCATGTACCGGCAATGGAG
* *
34365280 CAGAGTTAAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGAAGAATTGAGTTTT
128 CAGAGTTAA-CCACCAGCCTTATCTCTCTGAGATAGCAAGAGAACAGGTTGAAGAA-TGAGTCTT
* * *
34365345 ATCTTCCTAAGGTAACAAGGAAGCAGACAGAAGATTAAAGATTTTATCTCCCT-AAGCAGTAGCG
191 ATCTTCCTAAGGTAACAAGAAAGCAGACAGAAGATTAAAGATCTTATCTCCCTAAAGCAGCAGCG
** * ** * * * *
34365409 GAGTAGATTGAA-A-GGCGGATCTTATCTCCATGTATTGGTAATGGAGTAGATTTTAGCCACTAG
256 GAGTAGATCAAAGATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAG
* *
34365472 AC-TTATCTTTTTCAGGAAGCAAGAA
321 -CTTTATCTCTCTCAGGAAGCAAGAA
* * * *
34365497 AGCTGATT-AGCAATTGTAGTCTCATCTTCCTGAAGTAGCAAGGAAGCA
1 AGCAGATTAAG-AA-TG-AGTCTTATCTTTCTGAAGTAGCAAGAAAGCA
34365545 GGCTGATTGT
Statistics
Matches: 339, Mismatches: 44, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
343 2 0.01
344 2 0.01
345 76 0.22
346 144 0.42
347 61 0.18
348 54 0.16
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (345 bp):
AGCAGATTAAGAATGAGTCTTATCTTTCTGAAGTAGCAAGAAAGCAAACTGAAGATCTTATCTCC
CTAAAGTTGCAGCGGAGCAGATCAAAGATGGTGAATCTCATCTCCATGTACCGGCAATGGAGCAG
AGTTAACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAACAGGTTGAAGAATGAGTCTTATCTT
CCTAAGGTAACAAGAAAGCAGACAGAAGATTAAAGATCTTATCTCCCTAAAGCAGCAGCGGAGTA
GATCAAAGATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAGCTTTA
TCTCTCTCAGGAAGCAAGAA
Found at i:34367363 original size:2 final size:2
Alignment explanation
Indices: 34367351--34367385 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
34367341 AAATTATTAT
*
34367351 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34367386 TTGATCTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:34371174 original size:21 final size:22
Alignment explanation
Indices: 34371150--34371197 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
34371140 CCATAAGGGT
*
34371150 GTGTAG-GGCCTTCACACAGGC
1 GTGTAGTGGCCTCCACACAGGC
**
34371171 GTGT-GTGGCCTCCACATGGGC
1 GTGTAGTGGCCTCCACACAGGC
34371192 GTGTAG
1 GTGTAG
34371198 ACACCCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.91
22 1 0.05
ACGTcount: A:0.15, C:0.25, G:0.38, T:0.23
Consensus pattern (22 bp):
GTGTAGTGGCCTCCACACAGGC
Found at i:34373985 original size:39 final size:39
Alignment explanation
Indices: 34373931--34374023 Score: 161
Period size: 39 Copynumber: 2.4 Consensus size: 39
34373921 TGCATGATAT
34373931 TTGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTG
1 TTGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTG
34373970 TTGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTG
1 TTGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTG
* *
34374009 CTGG-AATATATCCGG
1 TTGGAAACATATCCGG
34374024 GCCTAAAGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
38 10 0.19
39 42 0.81
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (39 bp):
TTGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTG
Found at i:34374038 original size:39 final size:39
Alignment explanation
Indices: 34373932--34374042 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
34373922 GCATGATATT
* * * *
34373932 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGT
1 TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
* * *
34373971 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
* *
34374010 TGG-AATATATCCGGGCCTAAAGTCCCGCAGGCT
1 TGGAAACATATCCGGACCTAAAGT-CCGCAGGCT
34374043 TTGTGCTAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.23
39 50 0.77
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (39 bp):
TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
Found at i:34377874 original size:21 final size:22
Alignment explanation
Indices: 34377837--34377897 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
34377827 GCGTGTGCCC
* *
34377837 CCTCCACACAGGTGTGTAG-GG
1 CCTCCACACGGGCGTGTAGTGG
*
34377858 CCTTCACACGGGCGTGT-GTGG
1 CCTCCACACGGGCGTGTAGTGG
*
34377879 CCTCCACATGGGCGTGTAG
1 CCTCCACACGGGCGTGTAG
34377898 ACACCCACAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.30, G:0.34, T:0.21
Consensus pattern (22 bp):
CCTCCACACGGGCGTGTAGTGG
Found at i:34381432 original size:30 final size:30
Alignment explanation
Indices: 34381360--34381434 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
34381350 TATAAGGATG
* *
34381360 TTCAAAAGCTTGAGAAGACTCGATATCTCA
1 TTCAAGAGCTTGGGAAGACTCGATATCTCA
*
34381390 TTCAAGAGCTTGGGAAGACTCGATATCTCC
1 TTCAAGAGCTTGGGAAGACTCGATATCTCA
*
34381420 TTCAAGATCTTGGGA
1 TTCAAGAGCTTGGGA
34381435 TTGGGAAGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (30 bp):
TTCAAGAGCTTGGGAAGACTCGATATCTCA
Found at i:34381452 original size:36 final size:36
Alignment explanation
Indices: 34381399--34381470 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
34381389 ATTCAAGAGC
* *
34381399 TTGGGAAGACTCGATATCTCC-TTCAAGATCTTGGGA
1 TTGGGAAGACTCAATATC-CCATTCAAGAGCTTGGGA
* *
34381435 TTGGGAAGACTTAATATCCCATTCAGGAGCTTGGGA
1 TTGGGAAGACTCAATATCCCATTCAAGAGCTTGGGA
34381471 AGGCTCGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (36 bp):
TTGGGAAGACTCAATATCCCATTCAAGAGCTTGGGA
Found at i:34381471 original size:30 final size:30
Alignment explanation
Indices: 34381366--34381500 Score: 83
Period size: 30 Copynumber: 4.3 Consensus size: 30
34381356 GATGTTCAAA
* * * *
34381366 AGCTTGAGAAGACTCGATATCTCATTCAAG
1 AGCTTGGGAAGACTCAATATCCCATTCAGG
*
34381396 AGCTTGGGAAGACTCGATATCTCC-TTCAAGATCTTG
1 AGCTTGGGAAGACTCAATATC-CCATTC-AG-----G
* * *
34381432 GGATTGGGAAGACTTAATATCCCATTCAGG
1 AGCTTGGGAAGACTCAATATCCCATTCAGG
* * ** *
34381462 AGCTTGGGAAGGCTCGATATTGCGTTCAGG
1 AGCTTGGGAAGACTCAATATCCCATTCAGG
34381492 AGCTTGGGA
1 AGCTTGGGA
34381501 TTGAGAAGAC
Statistics
Matches: 82, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
30 55 0.67
31 2 0.02
35 4 0.05
36 21 0.26
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (30 bp):
AGCTTGGGAAGACTCAATATCCCATTCAGG
Found at i:34381479 original size:66 final size:66
Alignment explanation
Indices: 34381369--34381548 Score: 211
Period size: 66 Copynumber: 2.7 Consensus size: 66
34381359 GTTCAAAAGC
* * *
34381369 TTGAGAAGACTCGATATCTCATTCAAGAGCTTGGGAAGACTCGATATCT-CCTTCAAGATCTTGG
1 TTGAGAAGACTTGATATCCCATTCAAGAGCTTGGGAAGACTCGATAT-TGCCTTCAAGAGCTTGG
34381433 GA
65 GA
* * * * * *
34381435 TTGGGAAGACTTAATATCCCATTCAGGAGCTTGGGAAGGCTCGATATTGCGTTCAGGAGCTTGGG
1 TTGAGAAGACTTGATATCCCATTCAAGAGCTTGGGAAGACTCGATATTGCCTTCAAGAGCTTGGG
34381500 A
66 A
*** *
34381501 TTGAGAAGACTTGATATCTTGTTCAAGAGATTGGGAAGA-TCTGATATT
1 TTGAGAAGACTTGATATCCCATTCAAGAGCTTGGGAAGACTC-GATATT
34381549 TTATTTTTCT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
65 3 0.03
66 92 0.97
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (66 bp):
TTGAGAAGACTTGATATCCCATTCAAGAGCTTGGGAAGACTCGATATTGCCTTCAAGAGCTTGGG
A
Found at i:34393723 original size:26 final size:26
Alignment explanation
Indices: 34393694--34393801 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34393684 TGGTAAAAAT
34393694 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34393720 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34393746 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34393772 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34393798 TGAT
1 TGAT
34393802 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34395459 original size:27 final size:27
Alignment explanation
Indices: 34395416--34395583 Score: 216
Period size: 27 Copynumber: 6.2 Consensus size: 27
34395406 AGGAAGCGTC
* *
34395416 CTGGTGGCTATGTCACAGT-TATCTGAT
1 CTGGTGGCTCTGCCACA-TATATCTGAT
*
34395443 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
34395470 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
34395497 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
34395524 ATGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
34395551 CTGGTGGCTCTGCCATA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
34395578 CTGGTG
1 CTGGTG
34395584 ACTTCGTGAC
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
26 9 0.07
27 116 0.92
28 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:34395498 original size:54 final size:54
Alignment explanation
Indices: 34395416--34395583 Score: 250
Period size: 54 Copynumber: 3.1 Consensus size: 54
34395406 AGGAAGCGTC
* *
34395416 CTGGTGGCTATGTCACAGTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
34395470 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * *
34395524 ATGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCATA-ATATCTGTAT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-T
34395578 CTGGTG
1 CTGGTG
34395584 ACTTCGTGAC
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 10 0.10
54 95 0.90
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:34395551 original size:81 final size:81
Alignment explanation
Indices: 34395416--34395583 Score: 250
Period size: 81 Copynumber: 2.1 Consensus size: 81
34395406 AGGAAGCGTC
* *
34395416 CTGGTGGCTATGTCACAGTTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAGTTATCTGATATGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
34395481 GCCACAATTATCTG-AT
66 GCCACAA-TATCTGTAT
* * *
34395497 CTGGTGGCTCTGCCACA-TATATCTGTTATGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTC
1 CTGGTGGCTATGCCACAGT-TATCTGATATGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTA
*
34395561 TGCCATAATATCTGTAT
65 TGCCACAATATCTGTAT
34395578 CTGGTG
1 CTGGTG
34395584 ACTTCGTGAC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
80 7 0.09
81 72 0.91
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAGTTATCTGATATGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
GCCACAATATCTGTAT
Found at i:34397567 original size:12 final size:12
Alignment explanation
Indices: 34397550--34397577 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34397540 CATATAACAA
34397550 TAGTTATCAATC
1 TAGTTATCAATC
34397562 TAGTTATCAATC
1 TAGTTATCAATC
34397574 TAGT
1 TAGT
34397578 ACAAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (12 bp):
TAGTTATCAATC
Found at i:34399699 original size:21 final size:21
Alignment explanation
Indices: 34399664--34399793 Score: 82
Period size: 21 Copynumber: 6.2 Consensus size: 21
34399654 AGTCAACTCA
* *
34399664 TATGAGTTTCAGTTTAACCCT
1 TATGGGTTTCCGTTTAACCCT
* * *
34399685 AATGGGTTTCCGTTTAGCTCT
1 TATGGGTTTCCGTTTAACCCT
* *
34399706 TTTGAGGTTT-TGTTTAACCCT
1 TATG-GGTTTCCGTTTAACCCT
* * *
34399727 TATGGGTTTCCGTTCAGCTCT
1 TATGGGTTTCCGTTTAACCCT
* * * **
34399748 TATGAGCTTCTGTCCAACCCT
1 TATGGGTTTCCGTTTAACCCT
* * *
34399769 TACGGGTTTCCGTTTAGCACT
1 TATGGGTTTCCGTTTAACCCT
34399790 TATG
1 TATG
34399794 TGCTTTTTTG
Statistics
Matches: 77, Mismatches: 30, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
20 5 0.06
21 67 0.87
22 5 0.06
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (21 bp):
TATGGGTTTCCGTTTAACCCT
Found at i:34399734 original size:42 final size:42
Alignment explanation
Indices: 34399664--34399798 Score: 162
Period size: 42 Copynumber: 3.2 Consensus size: 42
34399654 AGTCAACTCA
* * *
34399664 TATGAGTTTCAGTTTAACCCTAATGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* * * *
34399706 TTTGAGGTTTTGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
** * *
34399748 TATGAGCTTCTGTCCAACCCTTACGGGTTTCCGTTTAGCACT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
*
34399790 TATGTGCTT
1 TATGAGCTT
34399799 TTTTGCAGCC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:34404013 original size:52 final size:52
Alignment explanation
Indices: 34403951--34404050 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
34403941 GGATAGATTA
* *
34403951 TTTATATGTTTATATCGGCTGTTACATAGTACTTCTAATTTTAGCTTAACTG
1 TTTATATGTTTATATCGACTGTTACATAGCACTTCTAATTTTAGCTTAACTG
*
34404003 TTTATATGTTTATATCGACTGTTACTTAGCACTTCTAATTTTAGCTTA
1 TTTATATGTTTATATCGACTGTTACATAGCACTTCTAATTTTAGCTTA
34404051 GCCTCCCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (52 bp):
TTTATATGTTTATATCGACTGTTACATAGCACTTCTAATTTTAGCTTAACTG
Found at i:34404432 original size:34 final size:34
Alignment explanation
Indices: 34404389--34404456 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
34404379 GAAAAATATT
34404389 ATATTAAACAAATTATATCACATTTATTCGCTTA
1 ATATTAAACAAATTATATCACATTTATTCGCTTA
*
34404423 ATATTAAACAAATTATATTACATTTATTCGCTTA
1 ATATTAAACAAATTATATCACATTTATTCGCTTA
34404457 CTTCATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (34 bp):
ATATTAAACAAATTATATCACATTTATTCGCTTA
Found at i:34410544 original size:39 final size:39
Alignment explanation
Indices: 34410501--34410610 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
34410491 TATGGTAGCC
* *
34410501 CGCACAA-TGCCTTCGGGACTTAACCTGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
34410540 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
34410579 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
34410611 TACCCAAACA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 58 0.85
40 10 0.15
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:34418712 original size:39 final size:39
Alignment explanation
Indices: 34418669--34418778 Score: 195
Period size: 39 Copynumber: 2.8 Consensus size: 39
34418659 TATGGTAGCC
*
34418669 CGCACAA-TGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
34418708 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
34418747 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
34418779 TACCCAAACA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
39 59 0.86
40 10 0.14
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:34421407 original size:61 final size:61
Alignment explanation
Indices: 34421339--34421463 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 61
34421329 TTGAAGGCTA
* * * *
34421339 GAATAGCAGAACTAGAAAAATCGCTTCATTAGTATCGTAGTCATAACTCTGCAATGGAGCT
1 GAATAGCAGAACTAGAAAAATCACTTCATCAATATCGTAGTCACAACTCTGCAATGGAGCT
*
34421400 GAATAGCAGAACTAGAAAAATCACTTCATCAATATCGTAGTCACAACTCTGTAATGGAGCT
1 GAATAGCAGAACTAGAAAAATCACTTCATCAATATCGTAGTCACAACTCTGCAATGGAGCT
34421461 GAA
1 GAA
34421464 GGTGAGTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (61 bp):
GAATAGCAGAACTAGAAAAATCACTTCATCAATATCGTAGTCACAACTCTGCAATGGAGCT
Found at i:34421977 original size:13 final size:13
Alignment explanation
Indices: 34421959--34421984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34421949 AATTAAAAAT
34421959 TATGGTCAATGCC
1 TATGGTCAATGCC
34421972 TATGGTCAATGCC
1 TATGGTCAATGCC
34421985 GGAGATGATA
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:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TATGGTCAATGCC
Found at i:34425554 original size:4 final size:4
Alignment explanation
Indices: 34425537--34425579 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
34425527 TTACTACCAA
* *
34425537 TATG TATA TATG TATG TATG TACG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
34425580 ATTTTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:34425606 original size:22 final size:23
Alignment explanation
Indices: 34425575--34425619 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34425565 TATGTATGTA
34425575 TGTATA-TTTTTTTCTTTTTTTT
1 TGTATATTTTTTTTCTTTTTTTT
*
34425597 TGTATGTTTTTTTTCTTTTTTTT
1 TGTATATTTTTTTTCTTTTTTTT
34425620 CTTTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (23 bp):
TGTATATTTTTTTTCTTTTTTTT
Found at i:34426631 original size:6 final size:6
Alignment explanation
Indices: 34426605--34426645 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
34426595 ATAAGCCTTC
*
34426605 AAAAAT AAATAAG AGAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAA-AAT A-AAAAT AAAAAT AAAAAT AAAAAT AAA
34426646 GGGACTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 23 0.74
7 6 0.19
8 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:34428184 original size:22 final size:20
Alignment explanation
Indices: 34428134--34428188 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
34428124 AATGAGAATA
*
34428134 AAGTAATTAAAAATAATAATT
1 AAGTAA-TAAAAATAAAAATT
*
34428155 ATAATAATAAATAATAAAAAATT
1 A-AGTAATAAA-AAT-AAAAATT
34428178 AAGTAATAAAA
1 AAGTAATAAAA
34428189 GAATATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.21
22 15 0.54
23 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
AAGTAATAAAAATAAAAATT
Found at i:34428617 original size:247 final size:248
Alignment explanation
Indices: 34428173--34428646 Score: 799
Period size: 247 Copynumber: 1.9 Consensus size: 248
34428163 AAATAATAAA
*
34428173 AAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATAAAGGTTCAAAAGGGAATAAAG
1 AAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATAAAGGTTAAAAAGGGAATAAAG
* *
34428238 GGGAACCGATGGTGGTTGGTGGTGGGTTGAAGTGTAACGGCGGTGGAAGGGGTCGGTCAGCTGGC
66 GGGAACCGATGGTGGTTGGTGGGGGGTTGAAGTGTAACAGCGGTGGAAGGGGTCGGTCAGCTGGC
*
34428303 GAGGCGACGGTGGCAAGGGAGGTGGGTTGGACAGACGGGGAGTGCGGCTTTTGGTGGCTAAGGAG
131 GAGGCGACGGTGGCAAGAGAGGTGGGTTGGACAGACGGGGAGTGCGGCTTTTGGTGGCTAAGGAG
*
34428368 AGGGGCAAGGTGTGGGAAGGAAAGAAAGGGAGGGGGAAGGAAAGATTAAAAAT
196 AGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAGGGGGAAGGAAAGATTAAAAAT
* * * *
34428421 AAATTAAGTAATAAAAGAATATAATAAA-ATACTAAATAAAAATGAAGTTTAAAAAGGGAATAAG
1 AAATTAAGTAATAAAAGAATATAATAAAGA-ACTAAAGAAAAATAAAGGTTAAAAAGGGAATAAA
* **
34428485 GGGGAATCGATGGTGGTTGGTGGGGGGTTGAAGTGTAACAGCGGTGG-AGGGGTCGGTTGGCTGG
65 GGGGAACCGATGGTGGTTGGTGGGGGGTTGAAGTGTAACAGCGGTGGAAGGGGTCGGTCAGCTGG
* *
34428549 CGAGGCGACGGTGGCGAGAGAGGTGGGTTGGACGGACGGGGAGTGCGGCTTTTGGTGGCTAAGGA
130 CGAGGCGACGGTGGCAAGAGAGGTGGGTTGGACAGACGGGGAGTGCGGCTTTTGGTGGCTAAGGA
34428614 GAGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAG
195 GAGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAG
34428647 AAGGTCGATT
Statistics
Matches: 211, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
247 110 0.52
248 101 0.48
ACGTcount: A:0.34, C:0.07, G:0.41, T:0.18
Consensus pattern (248 bp):
AAATTAAGTAATAAAAGAATATAATAAAGAACTAAAGAAAAATAAAGGTTAAAAAGGGAATAAAG
GGGAACCGATGGTGGTTGGTGGGGGGTTGAAGTGTAACAGCGGTGGAAGGGGTCGGTCAGCTGGC
GAGGCGACGGTGGCAAGAGAGGTGGGTTGGACAGACGGGGAGTGCGGCTTTTGGTGGCTAAGGAG
AGGGGCAAGGTGTGGAAAGGAAAGAAAGGGAGGGGGAAGGAAAGATTAAAAAT
Found at i:34438855 original size:2 final size:2
Alignment explanation
Indices: 34438844--34438879 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
34438834 AATTATAGAT
34438844 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34438880 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34438884 original size:2 final size:2
Alignment explanation
Indices: 34438879--34438926 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
34438869 TATATATATA
34438879 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
34438921 TG TG TG
1 TG TG TG
34438927 AATGAGATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:34439101 original size:15 final size:15
Alignment explanation
Indices: 34439081--34439137 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
34439071 TATCTGTTTT
34439081 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
34439096 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
34439111 ATTGAATTTATATTG
1 ATTGAATTTATATTG
34439126 ATTGAA-TTATAT
1 ATTGAATTTATAT
34439138 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:34439117 original size:30 final size:28
Alignment explanation
Indices: 34439077--34439135 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
34439067 TGAATATCTG
34439077 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
34439106 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
34439135 T
1 T
34439136 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:34439713 original size:18 final size:19
Alignment explanation
Indices: 34439692--34439732 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34439682 AATGAAATGA
34439692 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
34439710 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
34439729 GAAA
1 GAAA
34439733 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:34440973 original size:5 final size:5
Alignment explanation
Indices: 34440963--34440988 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34440953 TTTTTCTTGC
34440963 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
34440989 TTATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:34454931 original size:27 final size:28
Alignment explanation
Indices: 34454843--34454944 Score: 134
Period size: 27 Copynumber: 3.6 Consensus size: 28
34454833 ATCATGAGAT
* * *
34454843 TAGCACTAAGTGTGCGGGTTTAAAATTTGTA
1 TAGCACTAAGTGTGCGAGTTT--GA-TTATA
*
34454874 CAGCACTAAGTGTGCGAGTTTGATTATA
1 TAGCACTAAGTGTGCGAGTTTGATTATA
34454902 TAGCACTAAGTGTGCGAG-TTGATTATA
1 TAGCACTAAGTGTGCGAGTTTGATTATA
34454929 TAGCACTAAGTGTGCG
1 TAGCACTAAGTGTGCG
34454945 GATTCACTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 25 0.38
28 21 0.32
29 1 0.02
31 19 0.29
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
TAGCACTAAGTGTGCGAGTTTGATTATA
Found at i:34459587 original size:26 final size:26
Alignment explanation
Indices: 34459556--34459663 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34459546 ATGAAATGCC
*
34459556 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
34459582 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34459608 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34459634 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34459660 ATCA
1 ATCA
34459664 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34465201 original size:19 final size:19
Alignment explanation
Indices: 34465177--34465223 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
34465167 ATTGGGCCCG
34465177 TTGGCCCATCATTCCAATT
1 TTGGCCCATCATTCCAATT
34465196 TTGGCCCATCATTCCAATT
1 TTGGCCCATCATTCCAATT
34465215 TTGGCCCAT
1 TTGGCCCAT
34465224 TAAGCCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (19 bp):
TTGGCCCATCATTCCAATT
Found at i:34466586 original size:26 final size:26
Alignment explanation
Indices: 34466555--34466662 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34466545 TGAAATGCCC
*
34466555 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
34466581 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34466607 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34466633 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34466659 ATCA
1 ATCA
34466663 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34476352 original size:29 final size:29
Alignment explanation
Indices: 34476286--34476400 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 29
34476276 TACATAGGTG
* *
34476286 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
34476314 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * **
34476343 CTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
34476372 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
34476401 ATACTCATGC
Statistics
Matches: 69, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
28 17 0.25
29 52 0.75
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:34476398 original size:58 final size:57
Alignment explanation
Indices: 34476288--34476400 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
34476278 CATAGGTGCA
* * **
34476288 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCT
*
34476345 TATGGCCCACTAGGCCCAAT-TCACCTTCATATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATTAGGCCCAAATCATATT
34476401 ATACTCATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 2 0.04
57 20 0.41
58 27 0.55
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCT
Found at i:34477291 original size:26 final size:26
Alignment explanation
Indices: 34477257--34477366 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
34477247 TTGATACAAT
34477257 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
34477283 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
34477309 TTATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
34477335 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
34477361 TGATAA
1 TGATAA
34477367 GAATTTTATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:34479024 original size:27 final size:27
Alignment explanation
Indices: 34478984--34479124 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
34478974 AGGAAGCGTC
*
34478984 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
34479011 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
34479037 CCTGGTGGCTATGCCACAATTATCTAAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
34479065 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
34479092 CTGGTGCCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
34479119 CTGGTG
1 CTGGTG
34479125 ACTTCGTTAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:34479067 original size:54 final size:54
Alignment explanation
Indices: 34478981--34479124 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
34478971 TGGAGGAAGC
*
34478981 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
34479035 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
* * * *
34479089 GTTCTGGTGCCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-AATCTGGTG
34479125 ACTTCGTTAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
Found at i:34483172 original size:26 final size:26
Alignment explanation
Indices: 34483110--34483218 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
34483100 TGATACAAAT
34483110 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
34483135 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
34483161 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
34483187 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
34483213 TGATAA
1 TGATAA
34483219 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:34484873 original size:27 final size:27
Alignment explanation
Indices: 34484833--34484973 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
34484823 AGGAAGCGTC
*
34484833 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
34484860 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
34484886 CCTGGTGGCTATGCCACAATTATCTAAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
34484914 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
34484941 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
34484968 CTGGTG
1 CTGGTG
34484974 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:34484916 original size:54 final size:54
Alignment explanation
Indices: 34484830--34484973 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
34484820 TGGAGGAAGC
*
34484830 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
34484884 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
* * *
34484938 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-AATCTGGTG
34484974 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
Found at i:34484984 original size:27 final size:26
Alignment explanation
Indices: 34484833--34484991 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 26
34484823 AGGAAGCGTC
* * *
34484833 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
34484860 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * **
34484887 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
34484914 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
34484941 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
34484968 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
34484992 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:34484985 original size:81 final size:80
Alignment explanation
Indices: 34484833--34484990 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
34484823 AGGAAGCGTC
*
34484833 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
34484898 GCCACAATTATCTAAT
66 GCCACAA-TATCTAAT
* * *
34484914 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
34484977 -TCGTCACAATATCT
64 AT-GCCACAATATCT
34484991 GGCAGCCTCG
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTAAT
Found at i:34490547 original size:21 final size:20
Alignment explanation
Indices: 34490522--34490590 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
34490512 TAATAAAATT
34490522 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
*
34490543 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
34490566 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
34490584 TAGTAAA
1 TA-TAAA
34490591 ATGTATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
21 10 0.24
22 2 0.05
23 7 0.17
24 8 0.20
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:34490621 original size:10 final size:10
Alignment explanation
Indices: 34490531--34490641 Score: 61
Period size: 10 Copynumber: 10.6 Consensus size: 10
34490521 TTATAAACAA
34490531 AATATATAAT
1 AATATATAAT
* *
34490541 GATATA-AAC
1 AATATATAAT
34490550 AATATGATAGAT
1 AATAT-ATA-AT
34490562 AATATATAA-
1 AATATATAAT
34490571 AATA-AT-AT
1 AATATATAAT
34490579 ATATATAGTAA-
1 A-ATATA-TAAT
*
34490590 AATGTATGTAATAT
1 AA--TATAT-A-AT
34490604 AATATATAAT
1 AATATATAAT
*
34490614 AATGTATAAT
1 AATATATAAT
34490624 AATATAATAAAT
1 AATAT-AT-AAT
34490636 AATATA
1 AATATA
34490642 CAAAGATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 13 0.17
10 24 0.31
11 11 0.14
12 23 0.29
13 1 0.01
14 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:34492268 original size:44 final size:44
Alignment explanation
Indices: 34492188--34493000 Score: 891
Period size: 44 Copynumber: 18.4 Consensus size: 44
34492178 CACCCTACCT
** * * * *
34492188 AATACAGAGACGCCAAATCCGCTACCCTCGATCTGCTCTTTAAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
** * * *
34492232 AATACAGAGGTGCCAAATCTACCATTTTCGACCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * * * *
34492276 AATACAGAGATGCCAAATCTGCTATCTTCGATTTGCTCTCTTAT
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * *
34492320 AATATAGAGACGTC-AATCCTACTATCTTCGATCTGCTCTCTTAC
1 AATACAGAGACGCCAAAT-CTACTATCTTCGATCTGCTCTCTGAC
34492364 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * *
34492408 AATACAGTGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* *
34492452 AATACAGAGACGCCAAATCTACTATCTTTGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* *
34492496 AATACAGGGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * * *
34492540 AATATAGGGGCGCCAAATCTACTATCTTCGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* ** *
34492584 AATACAGGGACGCCAAATCTGTTATCTTCGATCTGCTCTCTAAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* *
34492628 AATACAGGGACGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* ** *
34492672 AATGCAGAGACATCAAATCTACTAATCTTCGATATGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACT-ATCTTCGATCTGCTCTCTGAC
** * * *
34492717 AATACAGAGACGATAAATCTGCTAATC-TCTGATCTGCTCTCTAAT
1 AATACAGAGACGCCAAATCTACT-ATCTTC-GATCTGCTCTCTGAC
* ** * *
34492762 AATATAGAGACAACAAATCTGCTAT-TGCTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTC-GATCTGCTCTCTGAC
* * * * * * *
34492806 CATACAGGGATGCCAAA-CCAGCTATTTTCAATCTGCTCTTTGAC
1 AATACAGAGACGCCAAATCTA-CTATCTTCGATCTGCTCTCTGAC
* * * *
34492850 AATACAGAGATC-CCAAATCTGCTATCTTCGATATGCTCTTTGGC
1 AATACAGAGA-CGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * *
34492894 AATACAGAGACGCCAAATCTGCTATATTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
* * * *
34492938 AATACAGAGACACCAAATCTGCCATCTTTC-ATCTGCCCTCTGAC
1 AATACAGAGACGCCAAATCTACTATC-TTCGATCTGCTCTCTGAC
*
34492982 AATATAGAGACGCCAAATC
1 AATACAGAGACGCCAAATC
34493001 AGCTATCGGT
Statistics
Matches: 654, Mismatches: 104, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
43 5 0.01
44 567 0.87
45 82 0.13
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGAC
Found at i:34499207 original size:76 final size:76
Alignment explanation
Indices: 34499115--34499260 Score: 283
Period size: 76 Copynumber: 1.9 Consensus size: 76
34499105 ATGAATAATG
*
34499115 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCG
1 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCA
34499180 GTTTTGAAGAA
66 GTTTTGAAGAA
34499191 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCA
1 ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCA
34499256 GTTTT
66 GTTTT
34499261 AATTCTTCAG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (76 bp):
ACTTTCGGTACCATTGGCATTTCAACTTCATTATTTCTTGGTAAAGAAATAATGATCTTTGGTCA
GTTTTGAAGAA
Found at i:34504808 original size:5 final size:5
Alignment explanation
Indices: 34504789--34504835 Score: 76
Period size: 5 Copynumber: 9.0 Consensus size: 5
34504779 TTATAAACAT
34504789 ATAAA ATATAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAAA ATAAA
1 ATAAA ATA-AA ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA
34504836 GATATTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 30 0.75
6 10 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:34505149 original size:12 final size:12
Alignment explanation
Indices: 34505134--34505219 Score: 53
Period size: 12 Copynumber: 7.7 Consensus size: 12
34505124 AATATGATAG
34505134 ATAATATATAAA
1 ATAATATATAAA
*
34505146 ATAATATAT-AT
1 ATAATATATAAA
34505157 AT-ATATAGTAAA
1 ATAATATA-TAAA
* * *
34505169 AT-GTATGTAAT
1 ATAATATATAAA
34505180 ATAATATAT--A
1 ATAATATATAAA
*
34505190 ATAATGTAT--A
1 ATAATATATAAA
34505200 ATAATATA-ATAA
1 ATAATATATA-AA
34505212 ATAATATA
1 ATAATATA
34505220 CAAAGATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
10 21 0.36
11 9 0.16
12 28 0.48
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (12 bp):
ATAATATATAAA
Found at i:34505199 original size:10 final size:10
Alignment explanation
Indices: 34505105--34505219 Score: 56
Period size: 10 Copynumber: 10.6 Consensus size: 10
34505095 TTATAAACAA
*
34505105 AATATGTAAT
1 AATATATAAT
* *
34505115 GATATA-AAC
1 AATATATAAT
34505124 AATATGATAGAT
1 AATAT-ATA-AT
34505136 AATATATAA-
1 AATATATAAT
34505145 AATAATATATAT
1 AAT-ATATA-AT
34505157 ATATATAGTAA-
1 A-ATATA-TAAT
*
34505168 AATGTATGTAATAT
1 AA--TATAT-A-AT
34505182 AATATATAAT
1 AATATATAAT
*
34505192 AATGTATAAT
1 AATATATAAT
34505202 AATATAATAAAT
1 AATAT-AT-AAT
34505214 AATATA
1 AATATA
34505220 CAAAGATAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
9 9 0.11
10 27 0.33
11 11 0.14
12 27 0.33
13 5 0.06
14 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.37
Consensus pattern (10 bp):
AATATATAAT
Found at i:34505204 original size:25 final size:25
Alignment explanation
Indices: 34505146--34505217 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
34505136 AATATATAAA
34505146 ATAATATATATATATATAGTAA-AATGT
1 ATAATA-ATATA-ATATA-TAATAATGT
*
34505173 AT-GTAATATAATATATAATAATGT
1 ATAATAATATAATATATAATAATGT
*
34505197 ATAATAATATAATAAATAATA
1 ATAATAATATAATATATAATA
34505218 TACAAAGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 3 0.08
24 12 0.30
25 21 0.52
26 2 0.05
27 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (25 bp):
ATAATAATATAATATATAATAATGT
Found at i:34507113 original size:29 final size:30
Alignment explanation
Indices: 34507052--34507166 Score: 109
Period size: 29 Copynumber: 4.0 Consensus size: 30
34507042 CATACGTGCA
*
34507052 TATGGCCCAT-TAGGCCCAA-TCTTATTCA-
1 TATGGCCCATCTAGGCCCAATTCATATT-AT
* *
34507080 AATGGGCCATCT-GGCCCAATTCATATTAT
1 TATGGCCCATCTAGGCCCAATTCATATTAT
**
34507109 TATGGCCCA-CTAGGCCCAATTCACCTTCA-
1 TATGGCCCATCTAGGCCCAATTCATATT-AT
*
34507138 TATGGCCCAT-TAGGCCCAAATCATATTAT
1 TATGGCCCATCTAGGCCCAATTCATATTAT
34507167 ACTCATGCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
28 19 0.27
29 50 0.71
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (30 bp):
TATGGCCCATCTAGGCCCAATTCATATTAT
Found at i:34507270 original size:19 final size:18
Alignment explanation
Indices: 34507237--34507273 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
34507227 TGGGCCCAAC
34507237 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
34507255 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
34507274 GGCCAATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:34507418 original size:24 final size:24
Alignment explanation
Indices: 34507389--34507441 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
34507379 CTTTCGATGG
* *
34507389 CTTTTTGGCTTTTCAGCATTTCGA
1 CTTTTTGACTTTTCAGCATTTCAA
*
34507413 CTTTTTGACTTTTCGGCATTTCAA
1 CTTTTTGACTTTTCAGCATTTCAA
34507437 CTTTT
1 CTTTT
34507442 GCCGATTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.21, G:0.13, T:0.53
Consensus pattern (24 bp):
CTTTTTGACTTTTCAGCATTTCAA
Found at i:34521032 original size:22 final size:22
Alignment explanation
Indices: 34521004--34521046 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
34520994 CAGGTTGTTG
34521004 CTATATATCACAGAGTTTTCTA
1 CTATATATCACAGAGTTTTCTA
34521026 CTATATATCACAGAGTTTTCT
1 CTATATATCACAGAGTTTTCT
34521047 CTTGCTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (22 bp):
CTATATATCACAGAGTTTTCTA
Found at i:34522804 original size:18 final size:18
Alignment explanation
Indices: 34522765--34522897 Score: 200
Period size: 18 Copynumber: 7.5 Consensus size: 18
34522755 AATGATATGT
34522765 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
34522782 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
34522800 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
34522817 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
34522835 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
34522852 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
34522870 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
34522889 AATCTTAGA
1 AATCTTAGA
34522898 AGATATGATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 45 0.43
18 48 0.46
19 11 0.11
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:34522805 original size:35 final size:35
Alignment explanation
Indices: 34522756--34522897 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
34522746 ATAATCTTCA
* *
34522756 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
34522792 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
34522827 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
34522862 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
34522898 AGATATGATT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 84 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:34523217 original size:12 final size:11
Alignment explanation
Indices: 34523202--34523235 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
34523192 TATTTTTAAT
34523202 TTATTATATATA
1 TTATT-TATATA
34523214 TTATTTATTATA
1 TTATTTA-TATA
34523226 TTATTTATAT
1 TTATTTATAT
34523236 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:34523233 original size:16 final size:16
Alignment explanation
Indices: 34523200--34523230 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34523190 CTTATTTTTA
34523200 ATTTATTATATATATT
1 ATTTATTATATATATT
34523216 ATTTATTATAT-TATT
1 ATTTATTATATATATT
34523231 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:34523267 original size:30 final size:30
Alignment explanation
Indices: 34523224--34523296 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
34523214 TTATTTATTA
34523224 TATTATT-TATATTTTCAAAATTTTTAAAT
1 TATTATTATATATTTTCAAAATTTTTAAAT
34523253 TATTATTATATATTTTCAAAATTTTTAAAT
1 TATTATTATATATTTTCAAAATTTTTAAAT
34523283 TATTATTATATATT
1 TATTATTATATATT
34523297 ATATTTTAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 7 0.16
30 36 0.84
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
TATTATTATATATTTTCAAAATTTTTAAAT
Found at i:34523298 original size:7 final size:7
Alignment explanation
Indices: 34523281--34523387 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
34523271 AAATTTTTAA
34523281 ATTAT-T
1 ATTATAT
34523287 ATTATAT
1 ATTATAT
34523294 ATTATAT
1 ATTATAT
34523301 -TT-TA-
1 ATTATAT
34523305 ACTTATAT
1 A-TTATAT
34523313 ATCTTATAT
1 A--TTATAT
*
34523322 ATTTATTT
1 A-TTATAT
34523330 ATT-TAT
1 ATTATAT
*
34523336 ATTATAC
1 ATTATAT
34523343 ATTAT-T
1 ATTATAT
* *
34523349 -TTAAAA
1 ATTATAT
*
34523355 ACTTACAT
1 A-TTATAT
*
34523363 -TTTTAT
1 ATTATAT
34523369 ATTATAT
1 ATTATAT
*
34523376 ATTATAA
1 ATTATAT
34523383 ATTAT
1 ATTAT
34523388 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:34523310 original size:25 final size:26
Alignment explanation
Indices: 34523275--34523329 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
34523265 TTTTCAAAAT
34523275 TTTTAAATTAT-TA-TTATATATTATA
1 TTTTAAATTATATACTTATATATT-TA
*
34523300 TTTTAACTTATATATCTTATATATTTA
1 TTTTAAATTATATA-CTTATATATTTA
34523327 TTT
1 TTT
34523330 ATTTATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 10 0.38
26 2 0.08
27 5 0.19
28 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTAAATTATATACTTATATATTTA
Found at i:34523331 original size:21 final size:21
Alignment explanation
Indices: 34523289--34523423 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
34523279 AAATTATTAT
*
34523289 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
34523310 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
34523331 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
34523350 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
34523371 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
34523392 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
*
34523408 TATACTATCATATATT
1 TATA-TATTATATATT
34523424 ATCTATTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 2 0.02
19 20 0.24
20 17 0.20
21 36 0.43
22 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:34529060 original size:14 final size:14
Alignment explanation
Indices: 34529041--34529092 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
34529031 ACTTCTATTT
*
34529041 AAAAAAAAAACAGA
1 AAAAAAAAAAGAGA
34529055 AAAAAAAAAAGAGA
1 AAAAAAAAAAGAGA
*
34529069 AAAAAATAAAGAGA
1 AAAAAAAAAAGAGA
34529083 AAAAAAAAAA
1 AAAAAAAAAA
34529093 AATGGAGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.87, C:0.02, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAGAGA
Found at i:34530347 original size:119 final size:119
Alignment explanation
Indices: 34530136--34530616 Score: 782
Period size: 119 Copynumber: 4.0 Consensus size: 119
34530126 AGAGAACAGA
*
34530136 TCAAAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
34530201 TTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
* *
34530255 TCAAATATAGCAGATCTAACCTCCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* * *
34530320 TTGTGTTTACAAGGAACAAATCGAGGACATAGCAAATTTGACTCTTAGACGTTC
66 TTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
* * * *
34530374 TCAAATATAACATATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
*
34530439 TTGTGTTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
66 TTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
* * *
34530493 TCAAATATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCC
1 TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
* * * * * *
34530558 TTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTC
66 TTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
34530612 TCAAA
1 TCAAA
34530617 CAGACTCAAG
Statistics
Matches: 335, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 335 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (119 bp):
TCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC
TTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTC
Found at i:34530768 original size:83 final size:83
Alignment explanation
Indices: 34530540--34530888 Score: 562
Period size: 83 Copynumber: 4.2 Consensus size: 83
34530530 GAAGCAGATC
34530540 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
34530605 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
34530623 CAAGA----ATGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
34530684 AATGTTCTCAATCAGACT
66 AATGTTCTCAAACAGACT
* * *
34530702 CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
34530767 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * *
34530785 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGAACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
34530850 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* *
34530869 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
34530889 ACAAATCGAA
Statistics
Matches: 247, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
79 77 0.31
83 93 0.38
84 77 0.31
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:34530888 original size:167 final size:162
Alignment explanation
Indices: 34530540--34530889 Score: 556
Period size: 167 Copynumber: 2.1 Consensus size: 162
34530530 GAAGCAGATC
* *
34530540 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAGGACATTGCAGACATGACTCTCA
*
34530605 AATGTTCTCAAACAGACTCAAGAATGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGC
66 AATGTTCTCAAACAGACTCAAGAATGGCATCCTTGTGCTTACAAGGAACAAATCGAGAACATTGC
*
34530670 AGATATGACTCTCAAATGTTCTCAATCAGACT
131 AGATATGACTCTCAAATGTTCTCAAACAGACT
*
34530702 CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAGGACATTGCAGACATGACTCTCA
* *
34530767 AATGTTCTCAAACAGACTCAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGAAC
66 AATGTTCTCAAACAGACTCAAGA----AT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGAAC
* *
34530832 CTTGCAGATATGATTCTCAAATGTTCTCAAACAGACT
126 ATTGCAGATATGACTCTCAAATGTTCTCAAACAGACT
* *
34530869 CAAGATGATTTGACATCCTTA
1 CAAGATGGTTTGGCATCCTTA
34530890 CAAATCGAAG
Statistics
Matches: 172, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
162 85 0.49
166 1 0.01
167 86 0.50
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (162 bp):
CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAGGACATTGCAGACATGACTCTCA
AATGTTCTCAAACAGACTCAAGAATGGCATCCTTGTGCTTACAAGGAACAAATCGAGAACATTGC
AGATATGACTCTCAAATGTTCTCAAACAGACT
Found at i:34531321 original size:18 final size:18
Alignment explanation
Indices: 34531282--34531397 Score: 164
Period size: 18 Copynumber: 6.5 Consensus size: 18
34531272 AATGATATGT
34531282 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
34531299 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
34531317 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
34531334 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
34531352 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
34531370 AATTTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
34531389 AATCTTAGA
1 AATCTTAGA
34531398 AGATATGATT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
17 29 0.33
18 49 0.56
19 10 0.11
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:34531322 original size:35 final size:36
Alignment explanation
Indices: 34531273--34531397 Score: 182
Period size: 35 Copynumber: 3.5 Consensus size: 36
34531263 ATAATCTTCA
* *
34531273 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
34531309 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
* *
34531344 ATGAT-TGCAATCTTAGATATGATTGCAATTTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
*
34531380 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
34531398 AGATATGATT
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
35 50 0.61
36 21 0.26
37 11 0.13
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:34531372 original size:53 final size:53
Alignment explanation
Indices: 34531282--34531397 Score: 180
Period size: 53 Copynumber: 2.2 Consensus size: 53
34531272 AATGATATGT
34531282 AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATG-ATAC
1 AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGAATAC
* * *
34531334 AATCTTAGATATGATTGCAATCTTAGATATGATTGCAATTTTAGATATGATATAC
1 AATCTTAGATATGA-TACAATCTTAAATATGATTGCAATCTTAGATATGA-ATAC
34531389 AATCTTAGA
1 AATCTTAGA
34531398 AGATATGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
52 14 0.24
53 31 0.53
55 13 0.22
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (53 bp):
AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGAATAC
Found at i:34531723 original size:12 final size:13
Alignment explanation
Indices: 34531703--34531733 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
34531693 TTTTAATTTA
34531703 TTATATATATTAT
1 TTATATATATTAT
34531716 TTAT-TATATTAT
1 TTATATATATTAT
34531728 TTATAT
1 TTATAT
34531734 TTTCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATATATTAT
Found at i:34531725 original size:21 final size:21
Alignment explanation
Indices: 34531701--34531812 Score: 67
Period size: 21 Copynumber: 5.5 Consensus size: 21
34531691 TATTTTAATT
34531701 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
34531722 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
34531740 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
34531759 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
34531782 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
34531803 TATTATATAT
1 TATTATATAT
34531813 TATTTTAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.07
19 2 0.03
20 8 0.12
21 28 0.41
22 7 0.10
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:34531731 original size:16 final size:16
Alignment explanation
Indices: 34531698--34531728 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34531688 ACTTATTTTA
34531698 ATTTATTATATATATT
1 ATTTATTATATATATT
34531714 ATTTATTATAT-TATT
1 ATTTATTATATATATT
34531729 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:34531766 original size:7 final size:7
Alignment explanation
Indices: 34531749--34531855 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
34531739 AAATTTGTAA
34531749 ATTAT-T
1 ATTATAT
34531755 ATTATAT
1 ATTATAT
34531762 ATTATAT
1 ATTATAT
34531769 -TT-TA-
1 ATTATAT
34531773 ACTTATAT
1 A-TTATAT
34531781 ATCTTATAT
1 A--TTATAT
*
34531790 ATTTATTT
1 A-TTATAT
34531798 ATT-TAT
1 ATTATAT
34531804 ATTATAT
1 ATTATAT
34531811 ATTAT-T
1 ATTATAT
* *
34531817 -TTAAAA
1 ATTATAT
*
34531823 ACTTACAT
1 A-TTATAT
*
34531831 -TTTTAT
1 ATTATAT
34531837 ATTATAT
1 ATTATAT
*
34531844 ATTATAA
1 ATTATAT
34531851 ATTAT
1 ATTAT
34531856 TTCATTTATT
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.06
6 19 0.24
7 36 0.46
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATAT
Found at i:34531813 original size:21 final size:21
Alignment explanation
Indices: 34531753--34531817 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
34531743 TTGTAAATTA
*
34531753 TTATTATATATTATAT-TTTAAC
1 TTATT-TATATTATATATTT-AT
* *
34531775 TTATATATCTTATATATTTAT
1 TTATTTATATTATATATTTAT
34531796 TTATTTATATTATATA-TTAT
1 TTATTTATATTATATATTTAT
34531816 TT
1 TT
34531818 TAAAAACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.16
21 24 0.65
22 7 0.19
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTATATTATATATTTAT
Done.