Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 37 of 204
Found at i:10709801 original size:32 final size:32
Alignment explanation
Indices: 10709761--10709836 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 32
10709751 ACTTTTCCGA
* *
10709761 AAAATATTTTCA-GGAAATCAATCAAACAGCAG
1 AAAATATTTTCACAG-AATCAATCAAACACCAG
*
10709793 AAAATATTTTACACAGATTCAATCAAACACCAG
1 AAAATATTTT-CACAGAATCAATCAAACACCAG
10709826 AAAATATTTTC
1 AAAATATTTTC
10709837 CAGTAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 11 0.28
33 27 0.69
34 1 0.03
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (32 bp):
AAAATATTTTCACAGAATCAATCAAACACCAG
Found at i:10709892 original size:34 final size:35
Alignment explanation
Indices: 10709826--10709892 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10709816 CAAACACCAG
* *
10709826 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
10709861 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
10709893 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10710256 original size:17 final size:17
Alignment explanation
Indices: 10710226--10710259 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10710216 TTTTATATTT
*
10710226 TATAAATATTATAATAA
1 TATAAATATAATAATAA
*
10710243 TATAATTATAATAATAA
1 TATAAATATAATAATAA
10710260 CATTATTTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAATATAATAATAA
Found at i:10711434 original size:11 final size:11
Alignment explanation
Indices: 10711417--10711456 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
10711407 TAATAACTAT
10711417 AAAATAATAGC
1 AAAATAATAGC
*
10711428 AATATAATAGC
1 AAAATAATAGC
* *
10711439 AAAATAACAAC
1 AAAATAATAGC
10711450 AAAATAA
1 AAAATAA
10711457 CATCAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:10711456 original size:22 final size:22
Alignment explanation
Indices: 10711417--10711479 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
10711407 TAATAACTAT
* * *
10711417 AAAATAATAGCAATATAATAGC
1 AAAATAACAACAAAATAATAGC
* *
10711439 AAAATAACAACAAAATAACATC
1 AAAATAACAACAAAATAATAGC
* *
10711461 -AAATAACAATAAAAAAATA
1 AAAATAACAACAAAATAATA
10711480 ACATCACCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.17
Consensus pattern (22 bp):
AAAATAACAACAAAATAATAGC
Found at i:10712808 original size:15 final size:17
Alignment explanation
Indices: 10712778--10712810 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10712768 TGTTAGCACT
10712778 TAAAATATATTATATAG
1 TAAAATATATTATATAG
10712795 TAAAATA-ATATATATA
1 TAAAATATAT-TATATA
10712811 CAAAAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAAATATATTATATAG
Found at i:10713303 original size:9 final size:9
Alignment explanation
Indices: 10713289--10713316 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10713279 TGAGTTTTCG
10713289 AATTCGAAT
1 AATTCGAAT
10713298 AATTCGAAT
1 AATTCGAAT
10713307 AATTCGAAT
1 AATTCGAAT
10713316 A
1 A
10713317 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10715698 original size:100 final size:101
Alignment explanation
Indices: 10715513--10716387 Score: 1030
Period size: 100 Copynumber: 8.7 Consensus size: 101
10715503 AACTCGTAAA
* * *
10715513 TTTAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCTCTGTTGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
*
10715578 TGCACCGCCTGGGGAA-TAAGATTCGCTGTTGTAGC
66 TGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
* **
10715613 TTTAATCTTTTTAACTGCAATGTCGGGGCAGCAAGATTTGCCGTTGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
** * *
10715678 TGCATTG-CTAGGGAAGTAAGATTCGCCGTTGTGGC
66 TGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
* *
10715713 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
* * *
10715778 TGCATCGCCTAGGG-AGTAAGATTCACTGTTGTAGT
66 TGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
* ** ** * *
10715813 TTTAATCTTTTTAACTGCAATGTCGGGGCAGCAAGATTTGCTATTGTGGCTTTAATCTATTCCAT
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
* ** *
10715878 TACACCGCC-AGGGAAGTAAGATTCGCCATTTTAGC
66 TGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
* ** *
10715913 TTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCTAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
* * *
10715978 TGCATCGCCTAGAG-AGTAAGATTCG-TCGTTGTGGC
66 TGCACCGCCTAGGGAAGTAAGATTCGCT-GTTGTAGC
* * * * * * *
10716013 TTTAATCATTTTAACTGCAATGTCAGGGAGGCGAGATTCACTGATGTGGCTTTAATCTGTTCCTC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
* * * * *
10716078 TGCACCGCC-AGTGAAGTAGGATTCACCGTTGTGGC
66 TGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
* * * * ** *
10716113 TTTAATCTTTTTTTAACTGCAATGTCAGAGAAGCGAGATTCACCGATGTTACTTTAATTTGTTCC
1 TTTAATC--TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
** * *
10716178 ACTGCACTACC-AGGGAGGTAAGATTCGCTGCTGTAGC
64 ACTGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
* * * * * *
10716215 TTTAATCTTTCTAACTACAATGTCGAGGAAGCGAGATTCACCGTTGTGGCTTTAATCTGTTTCGC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
* *
10716280 TGCATCGCCTA-GGAAGTAAGATTCGCTGCTGTAGC
66 TGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
* * * *
10716315 TTTAATCTTTTAAACTACAATGTCGGGGAAGCAAGATTCACCATTGTGGTTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
*
10716380 TACACCGC
66 TGCACCGC
10716388 TTGGGAGATG
Statistics
Matches: 661, Mismatches: 104, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
99 14 0.02
100 554 0.84
101 10 0.02
102 83 0.13
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (101 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCAC
TGCACCGCCTAGGGAAGTAAGATTCGCTGTTGTAGC
Found at i:10716383 original size:50 final size:50
Alignment explanation
Indices: 10715513--10716376 Score: 524
Period size: 50 Copynumber: 17.2 Consensus size: 50
10715503 AACTCGTAAA
* * * * *
10715513 TTTAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCTCTGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* ** * * * *
10715563 TTTAATCTGTTCCACTGCACCGCCTGGGGAA-TAAGATTCGCTGTTGTAGC
1 TTTAATCTGTTCAACTGCAATGTC-GGGGAAGCAAGATTCGCCGTTGTGGC
* * * *
10715613 TTTAATCTTTTTAACTGCAATGTCGGGGCAGCAAGATTTGCCGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * *
10715663 TTTAATCTGTTCCACTGCATTG-CTAGGGAAGTAAGATTCGCCGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTC-GGGGAAGCAAGATTCGCCGTTGTGGC
* *
10715713 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * * * * * * *
10715763 TTTAATCTATTCCACTGC-ATCGCCTAGGG-AGTAAGATTCACTGTTGTAGT
1 TTTAATCTGTTCAACTGCAAT-GTC-GGGGAAGCAAGATTCGCCGTTGTGGC
* * * * **
10715813 TTTAATCTTTTTAACTGCAATGTCGGGGCAGCAAGATTTGCTATTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * * ** * * * * * *
10715863 TTTAATCTATTCCATTACACCGCCAGGGAAGTAAGATTCGCCATTTTAGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * *
10715913 TTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCGTCGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* *** * *
10715963 TTTAATCTGTTCTACTGC-ATCG-CCTAGAGAGTAAGATTCGTCGTTGTGGC
1 TTTAATCTGTTCAACTGCAAT-GTCGGGGA-AGCAAGATTCGCCGTTGTGGC
* * * * * * *
10716013 TTTAATCAT-TTTAACTGCAATGTCAGGGAGGCGAGATTCACTGATGTGGC
1 TTTAATC-TGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
** ** * * * * * *
10716063 TTTAATCTGTTCCTCTGCACCGCCAGTGAAGTAGGATTCACCGTTGTGGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * * * * * **
10716113 TTTAATCTTTTTTTAACTGCAATGTCAGAGAAGCGAGATTCACCGATGTTAC
1 TTTAATC--TGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * ** * * * * * *
10716165 TTTAATTTGTTCCACTGCACTACCAGGGAGGTAAGATTCGCTGCTGTAGC
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * *
10716215 TTTAATCT-TTCTAACTACAATGTCGAGGAAGCGAGATTCACCGTTGTGGC
1 TTTAATCTGTTC-AACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * ** * * * *
10716265 TTTAATCTGTTTC-GCTGC-ATCGCCTAGGAAGTAAGATTCGCTGCTGTAGC
1 TTTAATCTG-TTCAACTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * * * * *
10716315 TTTAATCTTTTAAACTACAATGTCGGGGAAGCAAGATTCACCATTGTGGT
1 TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
10716365 TTTAATCTGTTC
1 TTTAATCTGTTC
10716377 CACTACACCG
Statistics
Matches: 602, Mismatches: 190, Indels: 44
0.72 0.23 0.05
Matches are distributed among these distances:
49 23 0.04
50 521 0.87
51 20 0.03
52 38 0.06
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (50 bp):
TTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
Found at i:10716573 original size:39 final size:41
Alignment explanation
Indices: 10716512--10716622 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 41
10716502 ATGTGATTTA
* *
10716512 CTCTACTGTAA-CTTCAGAGAGATAAGAT-C-CTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATACACTTCAATCCG
* *
10716551 CTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
1 CTCTACTGTAATCTCAGGGAGATAAGA-TAC-A-CTTCAATCCG
*
10716595 CTCCACTGTAATCTCAGGGAGATAAGAT
1 CTCTACTGTAATCTCAGGGAGATAAGAT
10716623 TTTCGGCTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 23 0.38
40 2 0.03
41 1 0.02
43 1 0.02
44 33 0.55
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (41 bp):
CTCTACTGTAATCTCAGGGAGATAAGATACACTTCAATCCG
Found at i:10716618 original size:44 final size:43
Alignment explanation
Indices: 10716545--10716952 Score: 227
Period size: 44 Copynumber: 8.8 Consensus size: 43
10716535 AAGATCCTTT
* * *
10716545 AATCCGCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTAGCTTC
* *
10716589 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTCGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCT-AGCTTC
* * * *
10716633 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGACCTTTTA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGA--TTCTAGCTTC
* * *
10716687 AATCCGCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTAGCTTC
* * *
10716731 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTCTAGCTTC
** * *
10716775 AATCTAATGCGATCTACTCTACTGTAA-CTTCAGACAGATAAGACCCTT-TA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGA---TTCTAGCTTC
** *
10716829 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTAGCTTC
* *
10716873 AATCTG-TACCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCT-CCACTGTAATCTCAGGGAGATAAGA-TTCTAGCTTC
*
10716917 AATTTGCTCCACTGTAA-CATCAGGGAGATAAGATTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTC
10716953 ACCATTTTCG
Statistics
Matches: 281, Mismatches: 44, Indels: 79
0.70 0.11 0.20
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 10 0.04
44 182 0.65
45 8 0.03
46 2 0.01
47 6 0.02
49 3 0.01
51 4 0.01
52 2 0.01
53 4 0.01
54 49 0.17
55 1 0.00
56 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTAGCTTC
Found at i:10716746 original size:142 final size:141
Alignment explanation
Indices: 10716421--10716919 Score: 736
Period size: 142 Copynumber: 3.6 Consensus size: 141
10716411 TTCGGTCTAT
* * * * *
10716421 TCTACTGAAATCTCAGGGAAATAGGATTATTGGCTTCAATCTGCTCCGCTATAATCTCAGGGAGA
1 TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
* * *
10716486 TAAG------GGCTTTAATCTGATGTGATTTACTCTACTGTAACTTCAGAGAGATAAGATCC---
66 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA-CCTTT
10716542 --TTTAATCCGC
130 ATTTTAATCCGC
*
10716552 TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGA
1 TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
10716617 TAAGATTT-TCGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGACCTTT
66 TAAGATTTCT-GGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGACC-TT
10716681 TATTTTAATCCGC
129 TATTTTAATCCGC
10716694 TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
1 TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
* * *
10716759 TAAGATTTCTGGCATCAATCTAATGCGATCTACTCTACTGTAACTTCAGACAGATAAGACCCTTT
66 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA-CCTTT
*
10716824 ATTTTAATCCAC
130 ATTTTAATCCGC
*
10716836 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG-TACCGCTGTAATCTCAGGGAG
1 TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCT-CCGCTGTAATCTCAGGGAG
10716900 ATAAGATTTCTGGCTTCAAT
65 ATAAGATTTCTGGCTTCAAT
10716920 TTGCTCCACT
Statistics
Matches: 337, Mismatches: 16, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
131 63 0.19
136 2 0.01
137 46 0.14
141 1 0.00
142 222 0.66
143 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (141 bp):
TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGACCTTTA
TTTTAATCCGC
Found at i:10718335 original size:7 final size:8
Alignment explanation
Indices: 10718325--10718353 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10718315 CTATTTTTAC
10718325 TTTTTT-A
1 TTTTTTCA
10718332 TTTTTTCA
1 TTTTTTCA
10718340 TTTTTTCA
1 TTTTTTCA
10718348 TTTTTT
1 TTTTTT
10718354 TGACTCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10724417 original size:3 final size:3
Alignment explanation
Indices: 10724409--10724466 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
10724399 AACTAATACA
* * * * * *
10724409 AAT AAT AAT ACT AAT AAT TAT AGT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10724457 AAT AAA AAT A
1 AAT AAT AAT A
10724467 GTTAAGTAAT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10724421 original size:18 final size:18
Alignment explanation
Indices: 10724390--10724424 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10724380 AAATGTAAAT
10724390 AAATATATAAACTAATAC
1 AAATATATAAACTAATAC
10724408 AAATA-ATAATACTAATA
1 AAATATATAA-ACTAATA
10724425 ATTATAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATATAAACTAATAC
Found at i:10729012 original size:25 final size:24
Alignment explanation
Indices: 10728984--10729033 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
10728974 CGGTTCAATT
*
10728984 ATTACAAAATAAAAAAATACAAATA
1 ATTAAAAAAT-AAAAAATACAAATA
10729009 ATTAAAAAATAAAAAATACAAATA
1 ATTAAAAAATAAAAAATACAAATA
10729033 A
1 A
10729034 ATAATAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (24 bp):
ATTAAAAAATAAAAAATACAAATA
Found at i:10729016 original size:24 final size:25
Alignment explanation
Indices: 10728984--10729042 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
10728974 CGGTTCAATT
10728984 ATTACAAAATA-AAAAAATACAAATA
1 ATTA-AAAATATAAAAAATACAAATA
10729009 ATTAAAAA-ATAAAAAATACAAATA
1 ATTAAAAATATAAAAAATACAAATA
* *
10729033 AATAATAATA
1 ATTAAAAATA
10729043 GAATTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 24 0.80
25 5 0.17
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (25 bp):
ATTAAAAATATAAAAAATACAAATA
Found at i:10730211 original size:18 final size:18
Alignment explanation
Indices: 10730172--10730214 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10730162 ACGAGAGTTT
*
10730172 AAAAAATATATTAAAACT
1 AAAAAATATATTAAAACA
*
10730190 AAAAAATA-ATTTTAAACA
1 AAAAAATATA-TTAAAACA
10730208 AAAAAAT
1 AAAAAAT
10730215 TTAAGTTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATATATTAAAACA
Found at i:10732542 original size:24 final size:22
Alignment explanation
Indices: 10732510--10732724 Score: 125
Period size: 23 Copynumber: 9.4 Consensus size: 22
10732500 GATAATTCTA
*
10732510 AAAATAATAATACGTGATAAATT
1 AAAATAATAATA-ATGATAAATT
10732533 CAAAATAAT-ATAATATGATAAATT
1 -AAAATAATAAT-A-ATGATAAATT
* * *
10732557 TAAA-AATATTAATGATAATTT
1 AAAATAATAATAATGATAAATT
*
10732578 AAGATAA-ATATACATGATAAATT
1 AAAATAATA-ATA-ATGATAAATT
* ** *
10732601 TAAATAATGTTAATGATGAATTT
1 AAAATAATAATAATGAT-AAATT
*
10732624 AAAATAATAATATTGATAAATT
1 AAAATAATAATAATGATAAATT
*
10732646 ACAAATAATAATGCATGATAAATCT
1 A-AAATAATAAT-AATGATAAAT-T
* * **
10732671 AAGATAATAATGTACAATAAATT
1 AAAATAATAAT-AATGATAAATT
* *
10732694 AGACAATATTAATAAT-A-AAACT
1 A-A-AATAATAATAATGATAAATT
10732716 AAAATAATA
1 AAAATAATA
10732725 TTAAGTTTAA
Statistics
Matches: 148, Mismatches: 31, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
20 6 0.04
21 13 0.09
22 23 0.16
23 52 0.35
24 45 0.30
25 9 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (22 bp):
AAAATAATAATAATGATAAATT
Found at i:10732545 original size:26 final size:24
Alignment explanation
Indices: 10732498--10732562 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 24
10732488 AAAAATTTTG
*
10732498 ATGAT-AATTCTAAAAATAATAAT
1 ATGATAAATTCAAAAAATAATAAT
10732521 ACGTGATAAATTCAAAATAAT-ATAAT
1 A--TGATAAATTCAAAA-AATAATAAT
*
10732547 ATGATAAATTTAAAAA
1 ATGATAAATTCAAAAA
10732563 TATTAATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 2 0.06
24 13 0.36
25 4 0.11
26 14 0.39
27 3 0.08
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (24 bp):
ATGATAAATTCAAAAAATAATAAT
Found at i:10732589 original size:45 final size:44
Alignment explanation
Indices: 10732524--10732663 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 44
10732514 TAATAATACG
* *
10732524 TGATAAATTCAAAATAATATAATATGATAAATTTAAAAATATTAA
1 TGATGAATTTAAAA-AATATAATATGATAAATTTAAAAATATTAA
* *
10732569 TGAT-AATTTAAGATAAATAT-ACATGATAAATTTAAATAATGTTAA
1 TGATGAATTTAA-A-AAATATAATATGATAAATTTAAA-AATATTAA
* * *
10732614 TGATGAATTTAAAATA-ATAATATTGATAAA-TTACAAATAATAA
1 TGATGAATTTAAAAAATATAATA-TGATAAATTTAAAAATATTAA
10732657 TGCATGA
1 TG-ATGA
10732664 TAAATCTAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 15
0.78 0.08 0.15
Matches are distributed among these distances:
43 10 0.12
44 33 0.41
45 29 0.36
46 8 0.10
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (44 bp):
TGATGAATTTAAAAAATATAATATGATAAATTTAAAAATATTAA
Found at i:10733998 original size:10 final size:10
Alignment explanation
Indices: 10733983--10734017 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
10733973 CCTATGGTTT
10733983 AAAAAAAATC
1 AAAAAAAATC
10733993 --AAAAAATC
1 AAAAAAAATC
10734001 AAAAAAAATC
1 AAAAAAAATC
10734011 AAAAAAA
1 AAAAAAA
10734018 TGAAAATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.35
10 15 0.65
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:10734051 original size:5 final size:5
Alignment explanation
Indices: 10734043--10734088 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
10734033 AAATGATGGA
*
10734043 AAAAG AAAAG AAAAGG AAAAAG AAAAA AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAA-G -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
10734089 AGGAGAGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 31 0.84
6 2 0.05
7 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:10734060 original size:17 final size:17
Alignment explanation
Indices: 10734040--10734088 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
10734030 TAAAAATGAT
10734040 GGAAAAAGAAAAGAAAA
1 GGAAAAAGAAAAGAAAA
10734057 GGAAAAAGAAAA-AAAA
1 GGAAAAAGAAAAGAAAA
*
10734073 AG-AAAAGAAAAGAAAA
1 GGAAAAAGAAAAGAAAA
10734089 AGGAGAGGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 9 0.30
16 9 0.30
17 12 0.40
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAGAAAA
Found at i:10736490 original size:45 final size:45
Alignment explanation
Indices: 10736396--10736588 Score: 176
Period size: 45 Copynumber: 4.3 Consensus size: 45
10736386 CATCCAGTCT
* * * * * *
10736396 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAATA-AGCCAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCA
* ** *
10736440 TATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCA
* * * *
10736485 TATCTCCCTGAAGTTACAGTGGAACGGATTGAAGATGGCGAATCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCA
* * * ** *
10736530 AATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCA--ATAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCA-AATCA
10736574 TATCTCCCTGAAGTT
1 TATCTCCCTGAAGTT
10736589 GTAGTGCACC
Statistics
Matches: 123, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
44 48 0.39
45 75 0.61
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCA
Found at i:10736589 original size:44 final size:43
Alignment explanation
Indices: 10736305--10737164 Score: 325
Period size: 44 Copynumber: 19.8 Consensus size: 43
10736295 GTGACACCAC
* * * * *
10736305 AAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAACCA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * * * *** *
10736348 CAGATCTTATCTCTCTAAAGTTTCAGTAGAGCAGATCGCATCC-
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * *
10736391 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAATAAGCC-
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TA-AAGCCA
* * ** * **
10736435 -AATCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * * *
10736477 GCAAATCCTATCTCCCTGAAGTTACAGTGGAACGGATTGAAGATGGC-
1 --AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-GCCA
* ** * *
10736524 GAATCAAATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * * *
10736567 ATAATCTTATCTCCCTGAAGTTGTAGTGCACCAGATTAAAACTA
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * * *** *
10736611 CAGATCTCATCTCACTGAAGTTGCAG-AGAGCAGATCGCATCC-
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * * * *
10736653 -AATCTGATCCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGC-
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCA
* ** * * *
10736697 GAATCTTATCTCTTTTAAGTTGCAGCGGAGCAGATTGAAGCCA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * ** **
10736740 ATAATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAGTGA
1 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * * * *** *
10736784 TAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCA-TC-
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
** * ** **
10736826 AGGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACCAAA-TAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * *
10736868 ACCAATCTGATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCAA
1 A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-A
* * * **
10736914 AAATCCTATCTCTCTGAAGTTGCAGTGGAG-TGAATTAAAGTTA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCCA
* * * * * * *
10736957 CAAGTCTTATTTCTCTAAAGTTGCAGCGGAACAGACTTAATAAACC-
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TT-A-AAGCCA
* *
10737003 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
* * ***
10737044 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGA
1 A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
** * * * *** *
10737089 TGGATCTTATCTCTCTGAAGTTGCAATAGAGCAGA-TCGTGTC-
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
** *
10737131 AGGTGTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
10737165 CTGAAGATAG
Statistics
Matches: 600, Mismatches: 178, Indels: 79
0.70 0.21 0.09
Matches are distributed among these distances:
40 19 0.03
41 97 0.16
42 7 0.01
43 19 0.03
44 358 0.60
45 92 0.15
46 4 0.01
47 3 0.00
48 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA
Found at i:10736941 original size:173 final size:170
Alignment explanation
Indices: 10736531--10737113 Score: 553
Period size: 173 Copynumber: 3.4 Consensus size: 170
10736521 GGCGAATCAA
* * * * * *
10736531 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCTTATCTCCCTGAAGTTGTAGTGC
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAACCAATAATCCTATCTCTCTGAAGTTGCAGTGG
*** * * * * *
10736596 ACCAGATTAAAACTACAGATCTCATCTCACTGAAGTTGCAGAGAGCAGATCGCATCCAATCTGAT
66 AGTGGATT-AAAGTACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATACAATCTTAT
* * * ** *
10736661 CCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCGAATCTT
130 CTCCCTGAAGTTGCAGTGGAGCAGACTAAAGA-AACCAATC-T
** * * *
10736704 ATCTCTTTTAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATCTCTCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAACCAATAATCCTATCTCTCTGAAGTTGCAGTGG
* * *
10736769 AGTGGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCAT-CAGGTCTT
66 AGTGGATTAAAGT-ACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATACA-ATCTT
* * *
10736833 ATCTTCCTGAAGTTGCAGTGGAGCAGACCAAATAAACCAATCT
128 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACCAATCT
* * *
10736876 GATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCAAAAATCCTATCTCTCTGAAGTTGCAGTG
1 -ATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAACCAATAATCCTATCTCTCTGAAGTTGCAGTG
* * * * * **
10736941 GAGTGAATTAAAGTTACA-AGTCTTATTTCTCTAAAGTTGCAGCGGAACAGA-CTTAATAAACCA
65 GAGTGGATTAAAG-TACAGA-TCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC-GCAT--A-CA
* *
10737004 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCT
123 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACCAAT-CT
* * ** * *
10737053 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-TGATGGATCTTATCTCTCTGAAGTTGCA
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAACCAAT-AATCCTATCTCTCTGAAGTTGCA
10737114 ATAGAGCAGA
Statistics
Matches: 340, Mismatches: 57, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
172 7 0.02
173 190 0.56
174 46 0.14
175 1 0.00
176 92 0.27
177 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (170 bp):
ATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAACCAATAATCCTATCTCTCTGAAGTTGCAGTGG
AGTGGATTAAAGTACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATACAATCTTATC
TCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACCAATCT
Found at i:10737015 original size:132 final size:131
Alignment explanation
Indices: 10736828--10737084 Score: 358
Period size: 132 Copynumber: 1.9 Consensus size: 131
10736818 ATCGCATCAG
* * *
10736828 GTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACCAAATAAACCAATCTGATCTCCCTGAAGTTGC
1 GTCTTATCTTCCTAAAGTTGCAGCGGAACAGACCAAATAAACCAATCTGATCTCCCTGAAGTTGC
* * *
10736893 AGTGGAGTAGATT-A-AAACCAAAAATCCTATCTCTCTGAAGTTGCAGTGGAGTGAATTAAAGTT
66 AGTGGAGCAGATTAAGAAACC---AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAGTT
10736956 ACAA
128 ACAA
** *
10736960 GTCTTAT-TTCTCTAAAGTTGCAGCGGAACAGACTTAATAAACCAATCTTATCTCCCTGAAGTTG
1 GTCTTATCTTC-CTAAAGTTGCAGCGGAACAGACCAAATAAACCAATCTGATCTCCCTGAAGTTG
*
10737024 CAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
65 CAGTGGAGCAGATT-AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAA
10737085 ATGATGGATC
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
131 3 0.03
132 102 0.92
134 1 0.01
135 5 0.05
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (131 bp):
GTCTTATCTTCCTAAAGTTGCAGCGGAACAGACCAAATAAACCAATCTGATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAGTTACA
A
Found at i:10738630 original size:23 final size:24
Alignment explanation
Indices: 10738568--10738618 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
10738558 TTTTATTTAA
*
10738568 TTTTAAA-TCTAATATTATTTTGGT
1 TTTTAAACT-TAATATTATTTTAGT
10738592 TTTTAAACTTAATATTATTTTAGT
1 TTTTAAACTTAATATTATTTTAGT
10738616 TTT
1 TTT
10738619 ATTATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTTAAACTTAATATTATTTTAGT
Found at i:10738733 original size:69 final size:67
Alignment explanation
Indices: 10738650--10738818 Score: 171
Period size: 69 Copynumber: 2.4 Consensus size: 67
10738640 ATTGTACATT
* * * *
10738650 ATTATCTTAGATTTATCATGCATTATTATTTGTAATTTATCAATATTATTATTTTAAATTCATCA
1 ATTAT-TTAAATTTATCATGTATTATTATTT-AAATTTATCAATAATA-T-TTTTAAATTCATCA
10738715 T-TAAC
62 TATAAC
* *
10738720 ATTATTTAAATTTATCATGTA-TATTTATCTTAAATTTATCATTAATATTTTTAAATTTATCATA
1 ATTATTTAAATTTATCATGTATTA-TTAT-TTAAATTTATCAATAATATTTTTAAATTCATCATA
**
10738784 TATT
64 TAAC
* *
10738788 ATTATTTTGAATTTATCACGTATTATTATTT
1 ATTA-TTTAAATTTATCATGTATTATTATTT
10738819 TTAGAATTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
67 14 0.17
68 11 0.13
69 50 0.60
70 9 0.11
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (67 bp):
ATTATTTAAATTTATCATGTATTATTATTTAAATTTATCAATAATATTTTTAAATTCATCATATA
AC
Found at i:10738747 original size:13 final size:12
Alignment explanation
Indices: 10738703--10738769 Score: 61
Period size: 13 Copynumber: 5.7 Consensus size: 12
10738693 TATTATTATT
*
10738703 TTAAATTCATCA
1 TTAAATTTATCA
10738715 TTAACA-TTAT--
1 TTAA-ATTTATCA
10738725 TTAAATTTATCA
1 TTAAATTTATCA
*
10738737 TGTATATTTATC-
1 T-TAAATTTATCA
10738749 TTAAATTTATCA
1 TTAAATTTATCA
10738761 TTAATATTT
1 TTAA-ATTT
10738770 TTAAATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
9 1 0.02
10 8 0.18
11 9 0.20
12 13 0.29
13 14 0.31
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.52
Consensus pattern (12 bp):
TTAAATTTATCA
Found at i:10738773 original size:45 final size:46
Alignment explanation
Indices: 10738647--10738805 Score: 171
Period size: 45 Copynumber: 3.5 Consensus size: 46
10738637 TTTATTGTAC
* * * ** *
10738647 ATTATTATCTTAGATTTATCATGCATTATTATTTGTAATTTATCA-AT
1 ATTATTATTTTAAATTTATCAT-TAACATTATTT-AAATTTATCATAT
* *
10738694 ATTATTATTTTAAATTCATCATTAACATTATTTAAATTTATCATGT
1 ATTATTATTTTAAATTTATCATTAACATTATTTAAATTTATCATAT
* *
10738740 A-TATTTATCTTAAATTTATCATTAATATT-TTTAAATTTATCATAT
1 ATTA-TTATTTTAAATTTATCATTAACATTATTTAAATTTATCATAT
*
10738785 ATTATTATTTTGAATTTATCA
1 ATTATTATTTTAAATTTATCA
10738806 CGTATTATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
45 42 0.44
46 34 0.36
47 19 0.20
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (46 bp):
ATTATTATTTTAAATTTATCATTAACATTATTTAAATTTATCATAT
Found at i:10738843 original size:70 final size:68
Alignment explanation
Indices: 10738700--10738873 Score: 183
Period size: 70 Copynumber: 2.5 Consensus size: 68
10738690 CAATATTATT
* ** * *
10738700 ATTTTAAATTCATCATTAACATTA-TTTAAATTTATCATGTATATTTATCTTAAATTTATCATTA
1 ATTTTAAATTTATCATTATTATTATTTTAAATTTATCACGTATATTTATCTTAAATTTATCATCA
*
10738764 ATA
66 AAA
* * *
10738767 TTTTTAAATTTATCATATATTATTATTTTGAATTTATCACGTAT-TATTATTTTTAGAA-TTATC
1 ATTTTAAATTTATCAT-TATTATTATTTTAAATTTATCACGTATAT-TTA-TCTTA-AATTTATC
10738830 ATCAAAA
62 ATCAAAA
* *
10738837 ATTTTAAATTTATTATGTATTATTATTTCAAATTTAT
1 ATTTTAAATTTATCAT-TATTATTATTTTAAATTTAT
10738874 TATATATTGT
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
67 14 0.16
68 7 0.08
69 19 0.22
70 46 0.52
71 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (68 bp):
ATTTTAAATTTATCATTATTATTATTTTAAATTTATCACGTATATTTATCTTAAATTTATCATCA
AAA
Found at i:10738876 original size:24 final size:23
Alignment explanation
Indices: 10738647--10738873 Score: 164
Period size: 24 Copynumber: 9.8 Consensus size: 23
10738637 TTTATTGTAC
* *
10738647 ATTATTATCTTAGATTTATCATGC
1 ATTATTAT-TTAAATTTATCATGT
* *
10738671 ATTATTATTTGTAATTTATCA-AT
1 ATTATTATTT-AAATTTATCATGT
*
10738694 ATTATTATTTTAAATTCATCAT-T
1 ATTATTA-TTTAAATTTATCATGT
**
10738717 AACATTATTTAAATTTATCATGT
1 ATTATTATTTAAATTTATCATGT
10738740 A-TATTTATCTTAAATTTATCAT-T
1 ATTA-TTAT-TTAAATTTATCATGT
* *
10738763 AATATT-TTTAAATTTATCATAT
1 ATTATTATTTAAATTTATCATGT
* *
10738785 ATTATTATTTTGAATTTATCACGT
1 ATTATTA-TTTAAATTTATCATGT
*
10738809 ATTATTATTTTTAGAA-TTATCAT-C
1 ATTATTA--TTTA-AATTTATCATGT
** * *
10738833 AAAAAT-TTTAAATTTATTATGT
1 ATTATTATTTAAATTTATCATGT
10738855 ATTATTATTTCAAATTTAT
1 ATTATTATTT-AAATTTAT
10738874 TATATATTGT
Statistics
Matches: 162, Mismatches: 25, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.01
21 23 0.14
22 24 0.15
23 36 0.22
24 65 0.40
25 10 0.06
26 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTATTATTTAAATTTATCATGT
Found at i:10739751 original size:13 final size:13
Alignment explanation
Indices: 10739733--10739758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10739723 AAATCATTTA
10739733 GGTACCAATTTTG
1 GGTACCAATTTTG
10739746 GGTACCAATTTTG
1 GGTACCAATTTTG
10739759 TCATTCGACT
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:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
GGTACCAATTTTG
Found at i:10742119 original size:16 final size:16
Alignment explanation
Indices: 10742098--10742141 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10742088 ATGTGCAGAC
10742098 CCATGTTATATGCGAA
1 CCATGTTATATGCGAA
**
10742114 CCATGTCGTATGCGAA
1 CCATGTTATATGCGAA
*
10742130 CCTGTGTTATAT
1 CC-ATGTTATAT
10742142 ACTAACCCTG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (16 bp):
CCATGTTATATGCGAA
Found at i:10742207 original size:17 final size:17
Alignment explanation
Indices: 10742181--10742258 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 17
10742171 TGTTATAACC
*
10742181 ATGTGTGAACCCATAAT
1 ATGTGCGAACCCATAAT
**
10742198 ATGTGCGAACCCATACC
1 ATGTGCGAACCCATAAT
* * **
10742215 ATGTGAGAACTCATGTT
1 ATGTGCGAACCCATAAT
* * *
10742232 GTATGCGAACCCATGAT
1 ATGTGCGAACCCATAAT
*
10742249 ATATGCGAAC
1 ATGTGCGAAC
10742259 TTATGTTATA
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 47 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (17 bp):
ATGTGCGAACCCATAAT
Found at i:10742268 original size:17 final size:17
Alignment explanation
Indices: 10742221--10742270 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
10742211 TACCATGTGA
*
10742221 GAACTCATGTTGTATGC
1 GAACTCATGTTATATGC
* *
10742238 GAACCCATGATATATGC
1 GAACTCATGTTATATGC
*
10742255 GAACTTATGTTATATG
1 GAACTCATGTTATATG
10742271 TGAGCTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (17 bp):
GAACTCATGTTATATGC
Found at i:10742412 original size:17 final size:18
Alignment explanation
Indices: 10742372--10742414 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10742362 GTGAACTGTG
*
10742372 TTATATTATGCGAGCTCTA
1 TTATATTA-GCGAGCCCTA
*
10742391 CTATATTA-CGAGCCCTA
1 TTATATTAGCGAGCCCTA
10742408 TTATATT
1 TTATATT
10742415 GTGTACTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
19 7 0.33
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (18 bp):
TTATATTAGCGAGCCCTA
Found at i:10743644 original size:18 final size:18
Alignment explanation
Indices: 10743621--10743657 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10743611 GTCCAATTGA
10743621 GTAGATGCTTTGTCTTGG
1 GTAGATGCTTTGTCTTGG
10743639 GTAGATGCTTTGTCTTGG
1 GTAGATGCTTTGTCTTGG
10743657 G
1 G
10743658 CATCGAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.35, T:0.43
Consensus pattern (18 bp):
GTAGATGCTTTGTCTTGG
Found at i:10747318 original size:25 final size:25
Alignment explanation
Indices: 10747300--10747347 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10747290 TCAGGTCGCT
10747300 TGAGCTTCCCGTTATTCAGCTCACA
1 TGAGCTTCCCGTTATTCAGCTCACA
* * *
10747325 TGAGCTTCTCATTATTCAACTCA
1 TGAGCTTCCCGTTATTCAGCTCA
10747348 GAGGATCTTA
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:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (25 bp):
TGAGCTTCCCGTTATTCAGCTCACA
Found at i:10753866 original size:23 final size:23
Alignment explanation
Indices: 10753815--10753859 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10753805 ATGTTATTGA
10753815 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
10753838 TCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
10753860 ATTAGTGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:10755591 original size:41 final size:39
Alignment explanation
Indices: 10755471--10755606 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 39
10755461 ACTAGTTTGG
*
10755471 CACCCAGTGCCTCATCGAATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAAT-AATTGA
* * ** * *
10755511 CACCTAGTGTCTCATCGGCTAAACTGAAGT-A-AATTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAATAATTGA
10755548 CACCCAGTGCCTCATCGAATTAATCCGAAGTAAATAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGT-AATAATTGA
* *
10755589 CACACAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
10755607 CTCGAAGTCG
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 21 0.27
38 9 0.12
39 1 0.01
40 24 0.31
41 22 0.29
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTAATAATTGA
Found at i:10756442 original size:10 final size:10
Alignment explanation
Indices: 10756419--10756484 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 10
10756409 TAGTTTTTCC
10756419 TTTCTTTC-T
1 TTTCTTTCTT
10756428 TTTCTTTCTT
1 TTTCTTTCTT
*
10756438 TTTCTTTCTA
1 TTTCTTTCTT
10756448 TTTCGTTTAACCTT
1 TTTC-TTT---CTT
*
10756462 CTATCTTTCTT
1 -TTTCTTTCTT
*
10756473 TTTGTTTCTT
1 TTTCTTTCTT
10756483 TT
1 TT
10756485 ATTTATTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
9 8 0.17
10 24 0.52
11 6 0.13
14 5 0.11
15 3 0.07
ACGTcount: A:0.06, C:0.20, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:10756533 original size:14 final size:14
Alignment explanation
Indices: 10756482--10756561 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 14
10756472 TTTTGTTTCT
*
10756482 TTTATTTAT-TATA
1 TTTACTTATATATA
10756495 TTTACTT-TAT-TA
1 TTTACTTATATATA
10756507 TTATA-TTATATATA
1 TT-TACTTATATATA
10756521 TTTACTTA-A-ATA
1 TTTACTTATATATA
* * *
10756533 TTAAGTAATATATA
1 TTTACTTATATATA
*
10756547 -TTA-TAATATATA
1 TTTACTTATATATA
10756559 TTT
1 TTT
10756562 TTAACTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
12 24 0.44
13 20 0.37
14 10 0.19
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (14 bp):
TTTACTTATATATA
Found at i:10756534 original size:26 final size:26
Alignment explanation
Indices: 10756483--10756548 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
10756473 TTTGTTTCTT
* *
10756483 TTAT-TTAT-TATATTTACTTTATTA
1 TTATATTATATATATTTACTTAAATA
10756507 TTATATTATATATATTTACTTAAATA
1 TTATATTATATATATTTACTTAAATA
*
10756533 TTA-AGTAATATATATT
1 TTATA-TTATATATATT
10756549 ATAATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 4 0.11
25 5 0.14
26 27 0.75
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (26 bp):
TTATATTATATATATTTACTTAAATA
Found at i:10762419 original size:30 final size:30
Alignment explanation
Indices: 10762383--10762446 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
10762373 AATTTAAGGG
10762383 ACATAATTTCCTAACTGGGGGAGAGTTGTA
1 ACATAATTTCCTAACTGGGGGAGAGTTGTA
*
10762413 ACATAATTTCCTAAGTGGGGGAGAGTTGTA
1 ACATAATTTCCTAACTGGGGGAGAGTTGTA
10762443 ACAT
1 ACAT
10762447 CTCGTCCGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (30 bp):
ACATAATTTCCTAACTGGGGGAGAGTTGTA
Found at i:10763959 original size:27 final size:29
Alignment explanation
Indices: 10763921--10763998 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 29
10763911 CTGGAAGGGT
*
10763921 AAGCCTTCGTGGTGAAG-CTCTT-AAAGG-
1 AAGCCTTTGTGGTGAAGACT-TTAAAAGGA
* *
10763948 ATGCCTTTGTGGCG-AGACTTTAAAAGGA
1 AAGCCTTTGTGGTGAAGACTTTAAAAGGA
10763976 AAGCCTTTGTGGTG-AGTACTTTA
1 AAGCCTTTGTGGTGAAG-ACTTTA
10763999 TGAAAAGGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 4 0.10
27 18 0.43
28 14 0.33
29 6 0.14
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (29 bp):
AAGCCTTTGTGGTGAAGACTTTAAAAGGA
Found at i:10765938 original size:18 final size:19
Alignment explanation
Indices: 10765915--10765953 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10765905 CTAAATCATG
10765915 AATTAA-AATAAAAAATAA
1 AATTAATAATAAAAAATAA
**
10765933 AATTAATTTTAAAAAATAA
1 AATTAATAATAAAAAATAA
10765952 AA
1 AA
10765954 CAATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTAATAATAAAAAATAA
Found at i:10770949 original size:29 final size:29
Alignment explanation
Indices: 10770906--10770996 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
10770896 ATAATTTATA
*
10770906 AAAATTAAATTAAATTAAAATTTATGTAT
1 AAAATTAAATAAAATTAAAATTTATGTAT
* *
10770935 AAAATTACATAAAATTAAAATTTATATAT
1 AAAATTAAATAAAATTAAAATTTATGTAT
* * * *
10770964 ATAATTATATATTAAATTATAATTAATGTAT
1 AAAATTA-A-ATAAAATTAAAATTTATGTAT
10770995 AA
1 AA
10770997 TTTTGATATT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 32 0.64
31 18 0.36
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (29 bp):
AAAATTAAATAAAATTAAAATTTATGTAT
Found at i:10779440 original size:1 final size:1
Alignment explanation
Indices: 10779436--10779467 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
10779426 TTTTTTGGGA
10779436 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
10779468 AGGTTGCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:10782042 original size:18 final size:18
Alignment explanation
Indices: 10782019--10782060 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
10782009 CACCACCACT
*
10782019 CCACCTTCAACTT-CGCCA
1 CCACCTACAACTTCCG-CA
10782037 CCACCTACAACTTCCGCA
1 CCACCTACAACTTCCGCA
10782055 CCACCT
1 CCACCT
10782061 CCTTCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.24, C:0.52, G:0.05, T:0.19
Consensus pattern (18 bp):
CCACCTACAACTTCCGCA
Found at i:10786638 original size:18 final size:18
Alignment explanation
Indices: 10786609--10786659 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
10786599 TTTAAGTTTA
10786609 TAATTTTT-TATATTATG
1 TAATTTTTATATATTATG
*
10786626 TTATTTTTATATATTATG
1 TAATTTTTATATATTATG
*
10786644 TAATTTATAATATATT
1 TAATTT-TTATATATT
10786660 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 7 0.24
18 14 0.48
19 8 0.28
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (18 bp):
TAATTTTTATATATTATG
Found at i:10794063 original size:3 final size:3
Alignment explanation
Indices: 10794046--10794110 Score: 60
Period size: 3 Copynumber: 22.0 Consensus size: 3
10794036 AGGTTAGATC
* * * * * *
10794046 AAT AAA AAT -AT AAT AAT AGT AGT AGT AAT AAT AAT AAT AAT ATT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10794093 AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT
10794111 GAAGCTCAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10795787 original size:51 final size:51
Alignment explanation
Indices: 10795692--10795806 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 51
10795682 GAGAGGTGAG
* * ** * *
10795692 ATTCGTTGCCTTCAACTTTAATCTGTTCCGTTACAATGCCAGGGAAATAAG
1 ATTCGCTGCCTTCAACTTTAATCCGTTCCACTACAACGCCAGGGAAATAAA
* * * *
10795743 ATTTGCTGCCTTCAGCTTTAATCCGTTCCACTGCAACGCTAGGGAAATAAA
1 ATTCGCTGCCTTCAACTTTAATCCGTTCCACTACAACGCCAGGGAAATAAA
*
10795794 ATTCGCTGTCTTC
1 ATTCGCTGCCTTC
10795807 GATCCGCTCT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (51 bp):
ATTCGCTGCCTTCAACTTTAATCCGTTCCACTACAACGCCAGGGAAATAAA
Found at i:10796003 original size:44 final size:43
Alignment explanation
Indices: 10795952--10796556 Score: 197
Period size: 44 Copynumber: 13.8 Consensus size: 43
10795942 CCATTTTTTT
*
10795952 ATCTACTCCACTACTGCTTAGGGAGACAAGATCTACATTCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGAT-TACATTCTTCA
* * * * * * * * * *
10795996 ACCTACTCCACTGCTACTCAAGGAGATGAGATTA-GTAGCCTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATTACAT-TCTTCA
* * * ** *
10796039 ATATGCTTCC-CTACTACCTT-GGGAAGATAAGATTCACCGTCTTCG
1 ATCTAC-TCCACTACT-GCTTAGGG-AGATAAGATT-ACATTCTTCA
* * **
10796084 ATCTGCTCCGCTACTGCTTAGGGAGAGCAGATCTACATTCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGAT-TACATTCTTCA
* * * * * * * * *
10796128 ACCTACTCCATTGCTGCTCAGGGAGATGAGATTA-GTAGCCTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATTACAT-TCTTCA
* * ** *
10796171 ATCTGCTTCC-CTACTATCTT-GGGAAGATAAGATTCACCGTCTTCG
1 ATCTAC-TCCACTACT-GCTTAGGG-AGATAAGATT-ACATTCTTCA
* ** **
10796216 ATCTGCTCCGTTACTGCTTAGGGAGACCAGATCTACATTCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGAT-TACATTCTTCA
* * * * * * *
10796260 ACCTATTCCACTGCTGCTCAGGGAGATAAGATTA-GTGGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATTACAT-TCTTCA
* * **
10796303 ATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTCACCGTCTTCA
1 ATCTAC-TCCACTACT-GCTTAGGG-AGATAAGATT-ACATTCTTCA
* * **
10796348 ATCTACTCCGCTACTGCTCAGGGAGACCAGATCTACATTCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGAT-TACATTCTTCA
* * ** * * * * *
10796392 ACCTACTCTACTGTTGCTCAGGGAGATAGGATTA-GTGGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATTACAT-TCTTCA
* * * * ** **
10796435 ATCTGCTTCTCTACTACCTT-GGGAAGATAAGATTCACCGTCTTTG
1 ATCTACTCCACTACT-GCTTAGGG-AGATAAGATT-ACATTCTTCA
* * * *
10796480 ATCTGCTCTACTACTGCTTAGGGAAACAAGATCTACATTCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGAT-TACATTCTTCA
* * * *
10796524 ACCTACTCCACTGCTGCTCAGGGAGATAGGATT
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATT
10796557 GGTGGCTTAA
Statistics
Matches: 390, Mismatches: 137, Indels: 69
0.65 0.23 0.12
Matches are distributed among these distances:
42 4 0.01
43 63 0.16
44 250 0.64
45 73 0.19
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGATTACATTCTTCA
Found at i:10796685 original size:132 final size:132
Alignment explanation
Indices: 10795902--10796686 Score: 1126
Period size: 132 Copynumber: 5.9 Consensus size: 132
10795892 TAAATCTGCT
* * * * ** * *
10795902 TTAAATCTGCTTCCCTACTACTTTGGGAAGATAAGATTCGCCATTTTTTTATCTACTCCACTACT
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACC-GTCTTCGATCTGCTCCGCTACT
* * *
10795967 GCTTAGGGAGACAAGATCTACATTCTTCAACCTACTCCACTGCTACTCAAGGAGAT-GAGATTAG
65 GCTTAGGGAGACCAGATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAG-GATTAG
*
10796031 TAGC
129 TGGC
* *
10796035 CTAAATATGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTG
* *
10796100 CTTAGGGAGAGCAGATCTACATTCTTCAACCTACTCCATTGCTGCTCAGGGAGAT-GAGATTAGT
66 CTTAGGGAGACCAGATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAG-GATTAGT
*
10796164 AGC
130 GGC
* * *
10796167 CTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGTTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTG
* *
10796232 CTTAGGGAGACCAGATCTACATTCTTCAACCTATTCCACTGCTGCTCAGGGAGATAAGATTAGTG
66 CTTAGGGAGACCAGATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTG
10796297 GC
131 GC
* *
10796299 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCAATCTACTCCGCTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTG
* * *
10796364 CTCAGGGAGACCAGATCTACATTCTTCAACCTACTCTACTGTTGCTCAGGGAGATAGGATTAGTG
66 CTTAGGGAGACCAGATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTG
10796429 GC
131 GC
* * **
10796431 TTAAATCTGCTTCTCTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCTACTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTG
* * *
10796496 CTTAGGGAAACAAGATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTG
66 CTTAGGGAGACCAGATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTG
10796561 GC
131 GC
* * * * *
10796563 TTAAATCTGCTTCTCTACTACTTTGGGAAGATAAGACTCAACGTCTTCGATCTGCTCCGCTATTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTG
* * * *
10796628 CTTAGAGAGA-CATGATCTACAATATTCAACCTACTCCACTGCTGCTCAAGGAGATAGGA
66 CTTAGGGAGACCA-GATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGA
10796687 CTTGTTTTCT
Statistics
Matches: 592, Mismatches: 58, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 553 0.93
133 38 0.06
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTG
CTTAGGGAGACCAGATCTACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAGTG
GC
Found at i:10806882 original size:16 final size:16
Alignment explanation
Indices: 10806861--10806894 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10806851 TTTTATGATG
* *
10806861 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
10806877 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
10806893 AA
1 AA
10806895 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:10808087 original size:13 final size:13
Alignment explanation
Indices: 10808069--10808093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10808059 GAATATTTTG
10808069 AAAATTTACAGAT
1 AAAATTTACAGAT
10808082 AAAATTTACAGA
1 AAAATTTACAGA
10808094 ATTAAAGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAAATTTACAGAT
Found at i:10808358 original size:4 final size:4
Alignment explanation
Indices: 10808349--10808378 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
10808339 TTTTCCTTCG
10808349 AAAT AAAT AAAT AAAT AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
10808379 CCAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:10809093 original size:22 final size:22
Alignment explanation
Indices: 10809068--10809115 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
10809058 GCTTCCTAAA
*
10809068 AAATTAAAGAAAACAGAATAAT
1 AAATTAAAGAAAACAGAACAAT
10809090 AAATTAAAGAAAACAGAACAAT
1 AAATTAAAGAAAACAGAACAAT
10809112 AAAT
1 AAAT
10809116 GAAAAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (22 bp):
AAATTAAAGAAAACAGAACAAT
Found at i:10815549 original size:2 final size:2
Alignment explanation
Indices: 10815542--10815579 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10815532 GTTTGGTCCG
10815542 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10815580 ACCTCACATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10817016 original size:12 final size:12
Alignment explanation
Indices: 10816994--10817026 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10816984 CCATAGAAAC
10816994 ATGCA-TTGCAT
1 ATGCATTTGCAT
10817005 ATGCATTTGCAT
1 ATGCATTTGCAT
*
10817017 TTGCATTTGC
1 ATGCATTTGC
10817027 GTACCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (12 bp):
ATGCATTTGCAT
Found at i:10817546 original size:31 final size:29
Alignment explanation
Indices: 10817503--10817570 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
10817493 TTTTATAAAT
* *
10817503 AATTAATATTTAT-TAATTAAAAATATTTAC
1 AATTTATATTTATAT-ATT-AAAATATTAAC
10817533 AATTTATATTTTATATATTAAAATATTAAC
1 AATTTATA-TTTATATATTAAAATATTAAC
*
10817563 AAGTTATA
1 AATTTATA
10817571 ATAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 24 0.73
31 8 0.24
32 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (29 bp):
AATTTATATTTATATATTAAAATATTAAC
Found at i:10817685 original size:20 final size:20
Alignment explanation
Indices: 10817660--10817700 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10817650 TAATAACATG
*
10817660 TCTAAAATGGATATTTTATT
1 TCTAAAATGGACATTTTATT
*
10817680 TCTAAAATGGACCTTTTATT
1 TCTAAAATGGACATTTTATT
10817700 T
1 T
10817701 ATCAGAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (20 bp):
TCTAAAATGGACATTTTATT
Found at i:10817767 original size:13 final size:13
Alignment explanation
Indices: 10817751--10817791 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
10817741 TTTAAACAAA
10817751 ACTTTTCCAAAGC
1 ACTTTTCCAAAGC
* *
10817764 ACTTTTCAAAATC
1 ACTTTTCCAAAGC
*
10817777 ATTTTTCCAAAGC
1 ACTTTTCCAAAGC
10817790 AC
1 AC
10817792 AAAAGTACTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (13 bp):
ACTTTTCCAAAGC
Found at i:10817769 original size:26 final size:26
Alignment explanation
Indices: 10817740--10817791 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
10817730 AACACTCAAA
10817740 TTTT-AAACAAAACTTTTCCAAAGCAC
1 TTTTCAAA-AAAACTTTTCCAAAGCAC
** *
10817766 TTTTCAAAATCATTTTTCCAAAGCAC
1 TTTTCAAAAAAACTTTTCCAAAGCAC
10817792 AAAAGTACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (26 bp):
TTTTCAAAAAAACTTTTCCAAAGCAC
Found at i:10820102 original size:16 final size:16
Alignment explanation
Indices: 10820081--10820120 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10820071 AATATATATC
**
10820081 ATATTTAATGTAAATA
1 ATATTTAAAATAAATA
10820097 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
10820113 ATAATTTA
1 AT-ATTTA
10820121 TGAATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:10822009 original size:9 final size:9
Alignment explanation
Indices: 10821995--10822031 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10821985 TATAGTTTAA
10821995 TATTCGAAT
1 TATTCGAAT
10822004 TATTCGAAT
1 TATTCGAAT
*
10822013 TATTCGAGT
1 TATTCGAAT
10822022 TATTCGAAT
1 TATTCGAAT
10822031 T
1 T
10822032 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10822103 original size:9 final size:9
Alignment explanation
Indices: 10822086--10822116 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10822076 TTGAGTTGAT
10822086 TCGAATAAC
1 TCGAATAAC
*
10822095 TCGATTAAC
1 TCGAATAAC
10822104 TCGAATAAC
1 TCGAATAAC
10822113 TCGA
1 TCGA
10822117 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:10823087 original size:50 final size:48
Alignment explanation
Indices: 10823048--10823179 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 48
10823038 CATTGAAGTT
10823048 ATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCA-T-GCACCGAG
* *
10823098 ATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCAT--GCACCGAG
** *
10823148 ATGAGAACTCCCAT-GTAAGACCATATCTGGGA
1 ATGAGAGGTCCC-TCGTAAGACCATGTCTGGGA
10823180 TATGACATTG
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
49 2 0.03
50 71 0.96
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (48 bp):
ATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGCACCGAG
Found at i:10832615 original size:10 final size:11
Alignment explanation
Indices: 10832590--10832616 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10832580 AAATAAAATA
10832590 AAAAAATAAAC
1 AAAAAATAAAC
10832601 AAAAAATAAAC
1 AAAAAATAAAC
10832612 AAAAA
1 AAAAA
10832617 GGGAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAATAAAC
Found at i:10835252 original size:17 final size:17
Alignment explanation
Indices: 10835226--10835258 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10835216 GTATTGATTT
*
10835226 TGACATCTCTATGTCAA
1 TGACAACTCTATGTCAA
10835243 TGACAACTCTATGTCA
1 TGACAACTCTATGTCA
10835259 TCAATCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
TGACAACTCTATGTCAA
Found at i:10840278 original size:66 final size:65
Alignment explanation
Indices: 10840156--10840281 Score: 166
Period size: 66 Copynumber: 1.9 Consensus size: 65
10840146 TTATTGCATT
* *
10840156 AATGTCGCTGCATGAGTTAATCCAAGATTACGTCCAGAATTGTCGCTGCACTTGACAGCTGCTCG
1 AATGTCGCTGCATGAGTTAATCCAAGATGACGTCCAGAATTGTCGC-GCACCTGACAGCTGCTCG
10840221 C
65 C
* *
10840222 AATGTCGTTGCATGAGTTAATTCC-AGATGGCGTCCAGAATTGTCGC-CACGGCTGACAGCT
1 AATGTCGCTGCATGAGTTAA-TCCAAGATGACGTCCAGAATTGTCGCGCAC--CTGACAGCT
10840282 ATCCGGATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
64 3 0.06
66 47 0.89
67 3 0.06
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (65 bp):
AATGTCGCTGCATGAGTTAATCCAAGATGACGTCCAGAATTGTCGCGCACCTGACAGCTGCTCGC
Found at i:10842904 original size:79 final size:81
Alignment explanation
Indices: 10842795--10842978 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
10842785 TACTCGTTCA
* * *
10842795 AATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
10842858 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
10842875 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCTCAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
10842938 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
10842954 AAAGCCTTCGGGGACTTAGCCCGGA
1 AATGCCTTC-GGGACTTAGCCCGGA
10842979 CATCTTTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.63
80 19 0.21
81 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:10842907 original size:39 final size:41
Alignment explanation
Indices: 10842793--10842978 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 41
10842783 GCTACTCGTT
* * *
10842793 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
10842833 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
10842873 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
10842912 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
10842953 CAAA-GCCTTCGGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGGACTTAGCCCGGA
10842979 CATCTTTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 71 0.57
41 16 0.13
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:10844771 original size:30 final size:31
Alignment explanation
Indices: 10844737--10844802 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
10844727 TTTAACCCTT
**
10844737 CCCAAACCCATTA-CCAAAACA-ACCCACCAG
1 CCCAAACCCAAGACCCAAAACAGACCC-CCAG
*
10844767 CCCAAACCCAAGACCCAAAACAGACCCTCAG
1 CCCAAACCCAAGACCCAAAACAGACCCCCAG
10844798 CCCAA
1 CCCAA
10844803 TTACAAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 11 0.35
31 16 0.52
32 4 0.13
ACGTcount: A:0.42, C:0.47, G:0.06, T:0.05
Consensus pattern (31 bp):
CCCAAACCCAAGACCCAAAACAGACCCCCAG
Found at i:10845913 original size:3 final size:3
Alignment explanation
Indices: 10845838--10845904 Score: 91
Period size: 3 Copynumber: 22.3 Consensus size: 3
10845828 GTACTTTTGC
*
10845838 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10845886 CT-T TAC TAT TAT TAG TAT T
1 -TAT TAT TAT TAT TAT TAT T
10845905 GGTATTATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 55 0.98
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10846360 original size:17 final size:17
Alignment explanation
Indices: 10846338--10846372 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10846328 TACACCTATA
*
10846338 TATATATGTACATATTT
1 TATATATATACATATTT
*
10846355 TATATATATGCATATTT
1 TATATATATACATATTT
10846372 T
1 T
10846373 TTTTCTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TATATATATACATATTT
Found at i:10846360 original size:19 final size:17
Alignment explanation
Indices: 10846336--10846372 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
10846326 TATACACCTA
10846336 TATATATATGTACATATTT
1 TATATATATG--CATATTT
10846355 TATATATATGCATATTT
1 TATATATATGCATATTT
10846372 T
1 T
10846373 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATATATGCATATTT
Found at i:10858707 original size:46 final size:46
Alignment explanation
Indices: 10858640--10858886 Score: 159
Period size: 46 Copynumber: 5.7 Consensus size: 46
10858630 ATAATACAGG
*
10858640 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * * *
10858686 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAT-TTCAGA
* * * * * **
10858730 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * * * * *
10858769 TCTTATCTCTCT-AAAGTTACAGTAGATA-AGATC--A-CA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGACCAAAGAATTTCAGA
10858810 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * *
10858856 TCTTATCTCCCTGAGGTTACAGCGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGA
10858887 TCTAAGACAC
Statistics
Matches: 155, Mismatches: 30, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
39 21 0.14
40 1 0.01
41 25 0.16
42 2 0.01
43 1 0.01
44 33 0.21
45 3 0.02
46 66 0.43
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
Found at i:10859395 original size:30 final size:31
Alignment explanation
Indices: 10859361--10859426 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
10859351 TTTAACCCTT
**
10859361 CCCAAACCCATTA-CCAAAACA-ACCCACCAG
1 CCCAAACCCAAGACCCAAAACAGACCC-CCAG
*
10859391 CCCAAACCCAAGACCCAAAACAGACCCTCAG
1 CCCAAACCCAAGACCCAAAACAGACCCCCAG
10859422 CCCAA
1 CCCAA
10859427 TTACAAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 11 0.35
31 16 0.52
32 4 0.13
ACGTcount: A:0.42, C:0.47, G:0.06, T:0.05
Consensus pattern (31 bp):
CCCAAACCCAAGACCCAAAACAGACCCCCAG
Found at i:10860529 original size:3 final size:3
Alignment explanation
Indices: 10860460--10860520 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
10860450 GTACTTTTGC
*
10860460 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
10860505 TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT T
10860521 GGTATTATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10860978 original size:18 final size:18
Alignment explanation
Indices: 10860957--10860993 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10860947 TACACCTATA
*
10860957 TATATATGTACATATTTT
1 TATATATATACATATTTT
*
10860975 TATATATATGCATATTTT
1 TATATATATACATATTTT
10860993 T
1 T
10860994 TTTCTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:10860980 original size:20 final size:18
Alignment explanation
Indices: 10860955--10860993 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
10860945 TATACACCTA
10860955 TATATATATGTACATATTTT
1 TATATATATG--CATATTTT
10860975 TATATATATGCATATTTT
1 TATATATATGCATATTTT
10860993 T
1 T
10860994 TTTCTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TATATATATGCATATTTT
Found at i:10862458 original size:27 final size:27
Alignment explanation
Indices: 10862428--10862539 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 27
10862418 AGGCATTCCC
**
10862428 TTCATAGATCGCCATGAAGGCTTCTTT
1 TTCATAGATCGCCACAAAGGCTTCTTT
* *
10862455 TTCATAGATAGCCACAAAGGCTTC-CT
1 TTCATAGATCGCCACAAAGGCTTCTTT
*
10862481 TTCTATAGATTGCCA-AAAGGACTT-TCTT
1 TTC-ATAGATCGCCACAAAGG-CTTCT-TT
*
10862509 TTCATAGATCGCTACAAAGGCTTCCTTT
1 TTCATAGATCGCCACAAAGGCTT-CTTT
10862537 TTC
1 TTC
10862540 TAGCGTGTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.13
27 46 0.66
28 14 0.20
29 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (27 bp):
TTCATAGATCGCCACAAAGGCTTCTTT
Found at i:10862489 original size:54 final size:53
Alignment explanation
Indices: 10862417--10862536 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 53
10862407 AGTGCGTCAC
* *
10862417 AAGGCATTCCCTTCATAGATCGCCATGAAGG-C-TTCTTTTTCATAGATAGCCACA
1 AAGGC-TTCCTTTCATAGATCGCCA-AAAGGACTTTC-TTTTCATAGATAGCCACA
* * *
10862471 AAGGCTTCCTTTCTATAGATTGCCAAAAGGACTTTCTTTTCATAGATCGCTACA
1 AAGGCTTCCTTTC-ATAGATCGCCAAAAGGACTTTCTTTTCATAGATAGCCACA
10862525 AAGGCTTCCTTT
1 AAGGCTTCCTTT
10862537 TTCTAGCGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
53 11 0.19
54 44 0.76
55 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (53 bp):
AAGGCTTCCTTTCATAGATCGCCAAAAGGACTTTCTTTTCATAGATAGCCACA
Found at i:10863734 original size:29 final size:29
Alignment explanation
Indices: 10863692--10863749 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10863682 AGATGAACTG
10863692 GGCGTACAACACCTTTGGCAATAATCCCT
1 GGCGTACAACACCTTTGGCAATAATCCCT
10863721 GGCGTACAACACCTTTGGCAATAATCCCT
1 GGCGTACAACACCTTTGGCAATAATCCCT
10863750 TACTTATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
GGCGTACAACACCTTTGGCAATAATCCCT
Found at i:10866682 original size:21 final size:21
Alignment explanation
Indices: 10866658--10866704 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
10866648 GAACTGAGAG
*
10866658 TTCTACCGATACAACTCTGG-C
1 TTCTACCAATACAAC-CTGGAC
10866679 TTCTACCAATACAACCTGGAC
1 TTCTACCAATACAACCTGGAC
10866700 TTCTA
1 TTCTA
10866705 TCGGTAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (21 bp):
TTCTACCAATACAACCTGGAC
Found at i:10873112 original size:17 final size:18
Alignment explanation
Indices: 10873082--10873115 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10873072 CATTTTCATA
*
10873082 TCATTCTCATTTTCATTC
1 TCATTCTCAATTTCATTC
10873100 TCATT-TCAATTTCATT
1 TCATTCTCAATTTCATT
10873116 TCCGCAGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.56
Consensus pattern (18 bp):
TCATTCTCAATTTCATTC
Found at i:10878813 original size:24 final size:23
Alignment explanation
Indices: 10878769--10878813 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
10878759 CAATAATATC
*
10878769 ATCTTGATTAAATCTTATTTAAA
1 ATCTTGATTAAACCTTATTTAAA
10878792 ATCTTGCATTAGAACCTT-TTTA
1 ATCTTG-ATTA-AACCTTATTTA
10878814 TTTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 8 0.42
25 5 0.26
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (23 bp):
ATCTTGATTAAACCTTATTTAAA
Found at i:10892592 original size:12 final size:12
Alignment explanation
Indices: 10892575--10892608 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10892565 CCTGTATGTC
10892575 AGGCCGTGTACT
1 AGGCCGTGTACT
10892587 AGGCCGTGTACT
1 AGGCCGTGTACT
*
10892599 AGGTCGTGTA
1 AGGCCGTGTA
10892609 ACTCATTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.35, T:0.26
Consensus pattern (12 bp):
AGGCCGTGTACT
Found at i:10894747 original size:23 final size:22
Alignment explanation
Indices: 10894721--10894784 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
10894711 TCTTAGTAAT
10894721 GCCTTTATGGTGTATTCTATCTG
1 GCCTTTATGG-GTATTCTATCTG
* * * *
10894744 GCCTTTGT-GGCATTCTATTTT
1 GCCTTTATGGGTATTCTATCTG
10894765 GCCTTTATGGCGTACTTCTA
1 GCCTTTATGG-GTA-TTCTA
10894785 CTAAAGCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 16 0.50
22 2 0.06
23 9 0.28
24 5 0.16
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (22 bp):
GCCTTTATGGGTATTCTATCTG
Found at i:10900600 original size:14 final size:14
Alignment explanation
Indices: 10900576--10900615 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
10900566 ATGTGAAGAA
10900576 TATTA-TTTAAAAT
1 TATTATTTTAAAAT
10900589 TATTATTTTAAAA-
1 TATTATTTTAAAAT
10900602 T-TTATTCTTAAAAT
1 TATTATT-TTAAAAT
10900616 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.21
13 12 0.50
14 7 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTTAAAAT
Found at i:10900729 original size:15 final size:15
Alignment explanation
Indices: 10900709--10900764 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
10900699 TGTATGTTTA
10900709 ATAATATTTATAATT
1 ATAATATTTATAATT
10900724 ATAATATTT-TATATT
1 ATAATATTTATA-ATT
*
10900739 A-ATATATTAATAATT
1 ATA-ATATTTATAATT
*
10900754 TTAAATATTTA
1 AT-AATATTTA
10900765 AAAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 3 0.09
15 21 0.64
16 8 0.24
17 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATAATATTTATAATT
Found at i:10900754 original size:22 final size:22
Alignment explanation
Indices: 10900645--10900756 Score: 60
Period size: 21 Copynumber: 5.1 Consensus size: 22
10900635 GTTTATTTTA
10900645 TTATATTAATTATATTAATAATTTAT
1 TTATATTAA-TATATTAATAA--T-T
*
10900671 TATATGATTAA-ATATAAATAATT
1 T-TAT-ATTAATATATTAATAATT
** * *
10900694 AAATATGT-ATGT-TTAATAATA
1 TTATAT-TAATATATTAATAATT
10900715 TT-TA-TAAT-TA-TAAT-ATT
1 TTATATTAATATATTAATAATT
10900732 TTATATTAATATATTAATAATT
1 TTATATTAATATATTAATAATT
10900754 TTA
1 TTA
10900757 AATATTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 26
0.65 0.09 0.26
Matches are distributed among these distances:
17 4 0.06
18 8 0.12
19 6 0.09
20 4 0.06
21 14 0.21
22 10 0.15
23 1 0.02
24 1 0.02
26 10 0.15
27 3 0.05
28 5 0.08
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TTATATTAATATATTAATAATT
Found at i:10901619 original size:3 final size:3
Alignment explanation
Indices: 10901611--10901641 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10901601 TAACATTTCG
10901611 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10901642 AACCTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10904662 original size:5 final size:5
Alignment explanation
Indices: 10904652--10904678 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10904642 AGTGCTAGTC
10904652 TCCTT TCCTT TCCTT TCCTT TCCTT TC
1 TCCTT TCCTT TCCTT TCCTT TCCTT TC
10904679 TTCTTACGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
TCCTT
Found at i:10906159 original size:35 final size:35
Alignment explanation
Indices: 10906086--10906152 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
10906076 TCGAAATCGT
* *
10906086 AACCCGTAATCTCGAACCCTTGAACCTTAAACTCA
1 AACCCGTAACCTCGAACCCTTGAACCCTAAACTCA
10906121 AACCCGTAACCTCGAACCCTTGAACCCTAAAC
1 AACCCGTAACCTCGAACCCTTGAACCCTAAAC
10906153 CTAAACCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.37, G:0.09, T:0.19
Consensus pattern (35 bp):
AACCCGTAACCTCGAACCCTTGAACCCTAAACTCA
Found at i:10906672 original size:102 final size:103
Alignment explanation
Indices: 10906495--10906698 Score: 225
Period size: 102 Copynumber: 2.0 Consensus size: 103
10906485 ATAGATGAGT
* * **
10906495 ATATAATAACACTTTGTTATCTTTAAAATTTAATGATGTGACATTATTTTATTGGTGCTTAAAAA
1 ATATAATAACACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAATGCTTAAAAA
***
10906560 CTATACTTTTTTGGATAATCT-TAATATAATTTATTCTC
66 CTATACTTTTTAAAATAAT-TATAATATAATTTATTCTC
* * * * *
10906598 ATATAATAATA-TTTTTTATTTTTAAAATTTAATGACGTGGCACTATTTTATTAAT-ATCTAAAA
1 ATATAATAACACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAATGCT-TAAAA
** * *
10906661 TTTATATTTTTTAAAATGATTATAATATAATTTATTCT
65 ACTATACTTTTTAAAATAATTATAATATAATTTATTCT
10906699 AAATTAATTT
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
101 2 0.02
102 71 0.86
103 10 0.12
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (103 bp):
ATATAATAACACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAATGCTTAAAAA
CTATACTTTTTAAAATAATTATAATATAATTTATTCTC
Found at i:10907108 original size:21 final size:20
Alignment explanation
Indices: 10907082--10907120 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
10907072 AGGGTCATAG
10907082 TATTTAATTATAATTAATTAT
1 TATTTAATTAT-ATTAATTAT
10907103 TATTTAATTATATTAATT
1 TATTTAATTATATTAATT
10907121 TGAAAGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTAATTATATTAATTAT
Found at i:10907136 original size:14 final size:13
Alignment explanation
Indices: 10907115--10907153 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
10907105 TTTAATTATA
*
10907115 TTAATTTGAAAGC
1 TTAATTTGAAAAC
10907128 TTAAGTTTGAAAAC
1 TTAA-TTTGAAAAC
10907142 TTAATTTGAAAA
1 TTAATTTGAAAA
10907154 TTTGGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TTAATTTGAAAAC
Found at i:10907191 original size:29 final size:27
Alignment explanation
Indices: 10907117--10907191 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
10907107 TAATTATATT
* * * *
10907117 AATTTGAAAGCTTAAGTTTGAAAACTT
1 AATTTGAAAACTTAAATTTAAAAACTA
*
10907144 AATTTGAAAATTTGGAAATTTAAAAACTA
1 AATTTGAAAACTT--AAATTTAAAAACTA
10907173 AATTTTTGAAAACTTAAAT
1 AA--TTTGAAAACTTAAAT
10907192 GTCTTGAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.29
29 17 0.45
31 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTTGAAAACTTAAATTTAAAAACTA
Found at i:10907381 original size:13 final size:13
Alignment explanation
Indices: 10907346--10907383 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
10907336 AATATATTTG
*
10907346 TAATTTGAAAGCT
1 TAATTTGAAAACT
10907359 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
10907373 TAATTTGAAAA
1 TAATTTGAAAA
10907384 TTTGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:10907421 original size:29 final size:27
Alignment explanation
Indices: 10907347--10907421 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
10907337 ATATATTTGT
* * * *
10907347 AATTTGAAAGCTTAAGTTTGAAAACTT
1 AATTTGAAAACTTAAATTTAAAAACTA
*
10907374 AATTTGAAAATTTGGAAATTTAAAAACTA
1 AATTTGAAAACTT--AAATTTAAAAACTA
10907403 AATTTTTGAAAACTTAAAT
1 AA--TTTGAAAACTTAAAT
10907422 GTCTTGAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.29
29 17 0.45
31 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTTGAAAACTTAAATTTAAAAACTA
Found at i:10907684 original size:35 final size:35
Alignment explanation
Indices: 10907640--10907871 Score: 260
Period size: 35 Copynumber: 6.8 Consensus size: 35
10907630 TTCACTTGTT
* * * *
10907640 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
* * * *
10907675 TTCTGTTGCAGGAAATCTTTCCTGTT--CACATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
* * *
10907708 -TTTCTTGCAGGGAACCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
*
10907742 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
*
10907777 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
* * *
10907812 TTTTGTTGCAGGGAATCTTTCTTGTT--CACATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
* *
10907845 -TTTCTTGCTGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
10907872 TGTATTATTT
Statistics
Matches: 167, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
32 41 0.25
33 11 0.07
34 5 0.03
35 110 0.66
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.41
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
Found at i:10907749 original size:67 final size:67
Alignment explanation
Indices: 10907641--10907881 Score: 320
Period size: 67 Copynumber: 3.6 Consensus size: 67
10907631 TCACTTGTTT
* * * *
10907641 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGAAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
10907706 CA
66 CA
* * *
10907708 TTTCTTGCAGGGAACCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACAC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTT--CAC
*
10907773 ATTA
64 ATCA
* * * *
10907777 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTATTTTGTTGCAGGGAATCTTTCTTGTTCACA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
10907842 TCA
65 TCA
* * *
10907845 TTTCTTGCTGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
10907882 CTTTTTGGAC
Statistics
Matches: 149, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
67 84 0.56
68 6 0.04
69 6 0.04
70 53 0.36
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
CA
Found at i:10910716 original size:20 final size:22
Alignment explanation
Indices: 10910679--10910722 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
10910669 GAGCAAATTG
10910679 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
10910700 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
10910721 TT
1 TT
10910723 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:10916365 original size:20 final size:22
Alignment explanation
Indices: 10916335--10916378 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
10916325 AGAAAAAGAG
10916335 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
10916356 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
10916377 AA
1 AA
10916379 CATTTGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Found at i:10919254 original size:67 final size:66
Alignment explanation
Indices: 10919182--10919378 Score: 227
Period size: 67 Copynumber: 2.9 Consensus size: 66
10919172 AAATAATACA
* *
10919182 TGAACAGGAGAGATTCCCTGCAA-GAAATGAT-GTGAACAGGAAAGATTCCCTGCAACAAAATAA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATCGTGAACAGGAAAGATTCCCTGCAA-AAAATAA
10919245 TGTG
65 --TG
* * *
10919249 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT-CGTGAACAGGAAAGATTCCCTGCAAAAAATAA
10919314 TG
65 TG
* * * * * *
10919316 TAAACAGGAAAGATTCCCTGCAACAGAATAATGCGTAAACAGGAAATATTCCCTACAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT-CGTGAACAGGAAAGATTCCCTGCAA-AAAA
10919379 GACAAGTGAA
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
67 76 0.67
68 9 0.08
69 5 0.04
70 23 0.20
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (66 bp):
TGAACAGGAGAGATTCCCTGCAACAAAATAATCGTGAACAGGAAAGATTCCCTGCAAAAAATAAT
G
Found at i:10919263 original size:35 final size:35
Alignment explanation
Indices: 10919182--10919378 Score: 217
Period size: 35 Copynumber: 5.8 Consensus size: 35
10919172 AAATAATACA
* * *
10919182 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
10919214 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* *
10919249 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* * *
10919284 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* * *
10919316 TAAACAGGAAAGATTCCCTGCAACAGAATAATGCG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* * * *
10919351 TAAACAGGAAATATTCCCTACAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAA
10919379 GACAAGTGAA
Statistics
Matches: 141, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
32 44 0.31
33 9 0.06
34 5 0.04
35 83 0.59
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (35 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
Found at i:10919306 original size:102 final size:102
Alignment explanation
Indices: 10919172--10919378 Score: 324
Period size: 102 Copynumber: 2.0 Consensus size: 102
10919162 GGTCCAAAAG
*
10919172 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
* * * *
10919237 CAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACA
66 CAAAATAATGCGTAAACAGGAAAGATTCCCTACAACA
* *
10919274 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
1 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
* * *
10919339 CAGAATAATGCGTAAACAGGAAATATTCCCTACAAGA
66 CAAAATAATGCGTAAACAGGAAAGATTCCCTACAACA
10919376 AAA
1 AAA
10919379 GACAAGTGAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.18
Consensus pattern (102 bp):
AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTAAACAGGAAAGATTCCCTGCAA
CAAAATAATGCGTAAACAGGAAAGATTCCCTACAACA
Found at i:10920247 original size:7 final size:7
Alignment explanation
Indices: 10920235--10920297 Score: 81
Period size: 7 Copynumber: 8.7 Consensus size: 7
10920225 GTTAGGAAAT
10920235 CCTAAAC
1 CCTAAAC
10920242 CCTAAAC
1 CCTAAAC
10920249 CCTAAAAC
1 CCT-AAAC
*
10920257 CTTAAAAC
1 CCT-AAAC
10920265 CCTAAAC
1 CCTAAAC
*
10920272 ACTAAAC
1 CCTAAAC
*
10920279 CTTAAAC
1 CCTAAAC
10920286 CCTAAAC
1 CCTAAAC
10920293 CCTAA
1 CCTAA
10920298 TCCCGATACT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
7 36 0.73
8 13 0.27
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:10925094 original size:34 final size:34
Alignment explanation
Indices: 10925050--10925114 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
10925040 CATAACAAAA
10925050 ATTAT-TTTTTTGAAAATATAAAATTATTAAAATT
1 ATTATATTTTTTG-AAATATAAAATTATTAAAATT
10925084 ATTATATTTTTTGAAATATAAAATTATTAAA
1 ATTATATTTTTTGAAATATAAAATTATTAAA
10925115 TAATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 23 0.77
35 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
ATTATATTTTTTGAAATATAAAATTATTAAAATT
Found at i:10926799 original size:9 final size:9
Alignment explanation
Indices: 10926785--10926821 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10926775 TATAGTTTGA
10926785 TATTCGAAT
1 TATTCGAAT
10926794 TATTCGAAT
1 TATTCGAAT
*
10926803 TATTCGAGT
1 TATTCGAAT
10926812 TATTCGAAT
1 TATTCGAAT
10926821 T
1 T
10926822 CGAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10927154 original size:43 final size:44
Alignment explanation
Indices: 10927077--10927160 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
10927067 GGGACTTGGG
*
10927077 GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGATATGACTT
1 GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGAGATGACTT
* *
10927121 GGAGGAGGAGGATGAA-GATGGAAAGAAATAATGGAGATGA
1 GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGAGATGA
10927161 TGATGATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 21 0.57
44 16 0.43
ACGTcount: A:0.44, C:0.04, G:0.38, T:0.14
Consensus pattern (44 bp):
GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGAGATGACTT
Found at i:10940292 original size:98 final size:98
Alignment explanation
Indices: 10940174--10940363 Score: 362
Period size: 98 Copynumber: 1.9 Consensus size: 98
10940164 AAAATTTGCC
10940174 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
1 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
10940239 GGACCTCATTAAACCTAAAAATTATCCTTAGCA
66 GGACCTCATTAAACCTAAAAATTATCCTTAGCA
* *
10940272 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTGATTTCACACTCATTATATCTACATTT
1 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
10940337 GGACCTCATTAAACCTAAAAATTATCC
66 GGACCTCATTAAACCTAAAAATTATCC
10940364 ATGCCAAAAC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (98 bp):
CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
GGACCTCATTAAACCTAAAAATTATCCTTAGCA
Found at i:10942092 original size:29 final size:29
Alignment explanation
Indices: 10942060--10942137 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
10942050 TTCTGATAAA
10942060 GCACTTTGATGCCATTCTATTCTA-TTATT
1 GCACTTTGATGCCATTCTATTCTATTTA-T
* * *
10942089 GCAC-TTCATTGCTATTCTTTTCTATTTAT
1 GCACTTTGA-TGCCATTCTATTCTATTTAT
10942118 GCACTTTGATG-CATCTCTAT
1 GCACTTTGATGCCAT-TCTAT
10942138 ATTAATTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.13
29 28 0.72
30 6 0.15
ACGTcount: A:0.19, C:0.22, G:0.10, T:0.49
Consensus pattern (29 bp):
GCACTTTGATGCCATTCTATTCTATTTAT
Found at i:10948409 original size:7 final size:8
Alignment explanation
Indices: 10948392--10948419 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10948382 AATTTATTTT
10948392 AAAAATAA
1 AAAAATAA
10948400 AAAAATAA
1 AAAAATAA
10948408 AAAAATAA
1 AAAAATAA
10948416 AAAA
1 AAAA
10948420 GTATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:10951474 original size:33 final size:33
Alignment explanation
Indices: 10951448--10951586 Score: 217
Period size: 33 Copynumber: 4.2 Consensus size: 33
10951438 ATCCTTCCAG
*
10951448 CACACCAATGCTCAGAAGAGCTAATCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* *
10951481 CACACCAATGCTTATAAGAGCTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* *
10951514 CACACCAGTGCTCATAAGAGCTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
*
10951547 CACA-CAATGCTCATAAGAGCTAGTCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
10951579 CACACCAA
1 CACACCAA
10951587 ACGGAGAGTA
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 29 0.30
33 68 0.70
ACGTcount: A:0.40, C:0.33, G:0.11, T:0.16
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATCCAACCAA
Done.