Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 57 of 310
Found at i:17883802 original size:14 final size:14
Alignment explanation
Indices: 17883783--17883816 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17883773 GTTCCATTTG
*
17883783 CCCACGCTGCAACT
1 CCCACGCTGCAACA
*
17883797 CCCACGCTTCAACA
1 CCCACGCTGCAACA
17883811 CCCACG
1 CCCACG
17883817 AACGGATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.53, G:0.12, T:0.12
Consensus pattern (14 bp):
CCCACGCTGCAACA
Found at i:17884958 original size:13 final size:13
Alignment explanation
Indices: 17884940--17884966 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17884930 TGTATTATTA
17884940 TATTTTTTATTTT
1 TATTTTTTATTTT
17884953 TATTTTTTATTTT
1 TATTTTTTATTTT
17884966 T
1 T
17884967 GATACATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:17891522 original size:44 final size:43
Alignment explanation
Indices: 17891474--17891805 Score: 127
Period size: 44 Copynumber: 7.6 Consensus size: 43
17891464 AGCCACCGGC
*
17891474 CTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAGT
1 CTTATCTCTCTGAGGTAGTAAG-GAGCAGATTGAAGATACAAGT
* * * *
17891518 CTTATCT-TCCTGAGGTAGCAAGGAAGTAGACTGAA-ATTGC-AGAT
1 CTTATCTCT-CTGAGGTAGTAAGG-AGCAGATTGAAGA-TACAAG-T
** ** ** *
17891562 CTTATCTC-CATGTATCGGCTA-T--GGAGCAGATTTTAGCCACCGGC
1 CTTATCTCTC-TG-A--GG-TAGTAAGGAGCAGATTGAAGATACAAGT
*
17891606 CTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAGT
1 CTTATCTCTCTGAGGTAGTAAG-GAGCAGATTGAAGATACAAGT
* * * *
17891650 CTTATCT-TCCTGAGGTAGCAAGGAAGTAGACTGAA-ATTGC-AGAT
1 CTTATCTCT-CTGAGGTAGTAAGG-AGCAGATTGAAGA-TACAAG-T
** ** ** *
17891694 CTTATCTC-CATGTATCGGCTA-T--GGAGCAGATTTTAGCCACCGGC
1 CTTATCTCTC-TG-A--GG-TAGTAAGGAGCAGATTGAAGATACAAGT
*
17891738 CTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAGT
1 CTTATCTCTCTGAGGTAGTAAG-GAGCAGATTGAAGATACAAGT
*
17891782 CTTATCT-TCCTGAGGTAGCAAGGA
1 CTTATCTCT-CTGAGGTAGTAAGGA
17891806 AGTAGACTGA
Statistics
Matches: 206, Mismatches: 47, Indels: 71
0.64 0.15 0.22
Matches are distributed among these distances:
40 4 0.02
41 6 0.03
43 19 0.09
44 159 0.77
45 10 0.05
47 4 0.02
48 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGTAAGGAGCAGATTGAAGATACAAGT
Found at i:17891666 original size:132 final size:132
Alignment explanation
Indices: 17891429--17891981 Score: 998
Period size: 132 Copynumber: 4.2 Consensus size: 132
17891419 AAATGGTGAG
17891429 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
17891494 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAATTGCA
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAATTGCA
17891559 GA
131 GA
17891561 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
17891626 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAATTGCA
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAATTGCA
17891691 GA
131 GA
17891693 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
17891758 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAATTGCA
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAATTGCA
17891823 GA
131 GA
* * * *
17891825 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTTTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
* * * * * *
17891890 AGAGGGCAGGTTGAAGGTACAAATCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTG-AAATTGC
17891955 AGA
130 AGA
*
17891958 CCTTATCTCCATGTATCGGCTATG
1 TCTTATCTCCATGTATCGGCTATG
17891982 AAACAGATCG
Statistics
Matches: 409, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
132 377 0.92
133 32 0.08
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGTA
AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAATTGCA
GA
Found at i:17893040 original size:75 final size:75
Alignment explanation
Indices: 17892948--17893091 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 75
17892938 GGGAAGGGAA
** * *
17892948 AGAGATTGCCTGTGCATGGACAGCCTGGTTCTGCGCATGTTCTCTTTAAATGGGTAATTT-CGCG
1 AGAGATTGCCTACGCATGGACAGCCTGGTTCTGCGCATGTTCCCCTTAAATGGGTAATTTGCGCG
17893012 GCCAGTCCTT
66 GCCAGTCCTT
* *
17893022 NAGAGATTGCCTACGCATGGACAGGCTGGTTCTGCGCATGTTCCCCTTAAATGGGTAATTTGCTC
1 -AGAGATTGCCTACGCATGGACAGCCTGGTTCTGCGCATGTTCCCCTTAAATGGGTAATTTGCGC
17893087 GGCCA
65 GGCCA
17893092 CTCATTCTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 55 0.89
76 7 0.11
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (75 bp):
AGAGATTGCCTACGCATGGACAGCCTGGTTCTGCGCATGTTCCCCTTAAATGGGTAATTTGCGCG
GCCAGTCCTT
Found at i:17893607 original size:13 final size:13
Alignment explanation
Indices: 17893589--17893615 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17893579 TGTATTATTA
17893589 TATTTTTTATTTT
1 TATTTTTTATTTT
17893602 TATTTTTTATTTT
1 TATTTTTTATTTT
17893615 T
1 T
17893616 GATACATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:17894078 original size:85 final size:86
Alignment explanation
Indices: 17893934--17894105 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 86
17893924 TATATTACCA
17893934 TTGCATGTTCCCTAATTTGTTCCTTCGTGTTCTTGTATCATTCTTGATTATTCATGTAATATTAT
1 TTGCATGTTCCCTAATTTGTTCCTTCGTGTTCTTGTATCATTCTTGATTATTCATGTAATATTAT
17893999 TGCCTCCTTTTTATCTCATGC
66 TGCCTCCTTTTTATCTCATGC
17894020 TTGCATGTTCCCTAATTTGTT-CTTCGTGTTCTTGTATCATTCTTGATTATTCATGTAATATTAT
1 TTGCATGTTCCCTAATTTGTTCCTTCGTGTTCTTGTATCATTCTTGATTATTCATGTAATATTAT
17894084 TGCCTCCTTTTTATCTCATGC
66 TGCCTCCTTTTTATCTCATGC
17894105 T
1 T
17894106 CAATACTATG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 65 0.76
86 21 0.24
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.52
Consensus pattern (86 bp):
TTGCATGTTCCCTAATTTGTTCCTTCGTGTTCTTGTATCATTCTTGATTATTCATGTAATATTAT
TGCCTCCTTTTTATCTCATGC
Found at i:17894138 original size:5 final size:5
Alignment explanation
Indices: 17894128--17894152 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17894118 TGTATGATTG
17894128 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
17894153 ATATATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:17894613 original size:132 final size:131
Alignment explanation
Indices: 17894467--17894728 Score: 470
Period size: 132 Copynumber: 2.0 Consensus size: 131
17894457 TTTATTTCTT
17894467 GAACGAGTGAATCTTGAAATCCAATTCGATTTGTTCACACATTTTTAAGAGGATCATATTTTAAT
1 GAACGAGTGAATCTTGAAATCCAATTCGATTTGTTCACACATTTTTAAGAGGATCATATTTTAA-
*
17894532 TTTTTTTTTCAAAATTTCAATATTAGGACATTGATTAGTCAATTGGTACCAATTTTGGGCGTTAC
65 TTTTTTTTTCAAAATTTCAACATTAGGACATTGATTAGTCAATTGGTACCAATTTTGGGCGTTAC
17894597 GC
130 GC
*
17894599 GAACGAGTGAATCTTGAAATCCAATTCGATTTGTTCACACATTTTTAAGGGGATCATATTTTAAT
1 GAACGAGTGAATCTTGAAATCCAATTCGATTTGTTCACACATTTTTAAGAGGATCATATTTTAAT
* * *
17894664 TTTTTTTTCAAATTTTCAACATTAGGACATTGATTAGTTAATTGGTACCAATTTTGGGTGTTACG
66 TTTTTTTTCAAAATTTCAACATTAGGACATTGATTAGTCAATTGGTACCAATTTTGGGCGTTACG
17894729 AGGGTGCTAA
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
131 62 0.50
132 63 0.50
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (131 bp):
GAACGAGTGAATCTTGAAATCCAATTCGATTTGTTCACACATTTTTAAGAGGATCATATTTTAAT
TTTTTTTTCAAAATTTCAACATTAGGACATTGATTAGTCAATTGGTACCAATTTTGGGCGTTACG
C
Found at i:17904695 original size:21 final size:22
Alignment explanation
Indices: 17904644--17904698 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
17904634 AATAATTATA
*
17904644 AAATTATAAAAATAAAAATTTC
1 AAATTATAAAAATAAAAATTGC
*
17904666 AAATT-TAAAAA-AAATAA-TGG
1 AAATTATAAAAATAAA-AATTGC
17904686 AAATTATAAAAAT
1 AAATTATAAAAAT
17904699 TATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 14 0.50
22 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATTATAAAAATAAAAATTGC
Found at i:17904698 original size:9 final size:9
Alignment explanation
Indices: 17904686--17904723 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
17904676 AAAATAATGG
17904686 AAATTATAA
1 AAATTATAA
17904695 AAATTATAA
1 AAATTATAA
*
17904704 AAATAAGTAA
1 AAATTA-TAA
17904714 AAATT-TAA
1 AAATTATAA
17904722 AA
1 AA
17904724 GTTTTCCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 5 0.19
9 14 0.54
10 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (9 bp):
AAATTATAA
Found at i:17910525 original size:21 final size:21
Alignment explanation
Indices: 17910488--17910528 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17910478 ATTTGCTCAA
*
17910488 ACTCCACCTCTTTTGGAGTAC
1 ACTCCACCTCTTGTGGAGTAC
17910509 ACTCCACCTGC-TGTGGAGTA
1 ACTCCACCT-CTTGTGGAGTA
17910529 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTCTTGTGGAGTAC
Found at i:17937392 original size:3 final size:3
Alignment explanation
Indices: 17937384--17937699 Score: 632
Period size: 3 Copynumber: 105.3 Consensus size: 3
17937374 NNNNNNNNNN
17937384 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17937432 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17937480 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17937528 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17937576 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17937624 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17937672 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17937700 CCTAGAACTT
Statistics
Matches: 313, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 313 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17937809 original size:18 final size:18
Alignment explanation
Indices: 17937786--17937822 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17937776 TATGGAGAAC
17937786 ATTTTATTCTTTTATTTA
1 ATTTTATTCTTTTATTTA
*
17937804 ATTTTATTTTTTTATTTA
1 ATTTTATTCTTTTATTTA
17937822 A
1 A
17937823 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTATTCTTTTATTTA
Found at i:17943249 original size:29 final size:31
Alignment explanation
Indices: 17943199--17943260 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
17943189 TGAGAAATTT
*
17943199 TGGTTGGCCATGTGCCCAACAT-G-GGTGTG
1 TGGTTGGCCATGTGACCAACATGGAGGTGTG
*
17943228 TGGTTGGCCATGTGGAGC-ACATGGAGGTGTG
1 TGGTTGGCCATGT-GACCAACATGGAGGTGTG
17943259 TG
1 TG
17943261 ATTACACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 17 0.61
30 3 0.11
31 8 0.29
ACGTcount: A:0.15, C:0.16, G:0.42, T:0.27
Consensus pattern (31 bp):
TGGTTGGCCATGTGACCAACATGGAGGTGTG
Found at i:17943976 original size:34 final size:34
Alignment explanation
Indices: 17943886--17943977 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
17943876 TGTTCTAATT
*
17943886 TAATATGACATTTTAATATGATATATGTTTCTGG
1 TAATATGACATTTTGATATGATATATGTTTCTGG
* * * *
17943920 -AATTAAGATATTCTGATGTGATATATGATTT-TGG
1 TAA-TATGACATTTTGATATGATATATG-TTTCTGG
17943954 TAATATGACATTTTGATATGATAT
1 TAATATGACATTTTGATATGATAT
17943978 TTGTATAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
33 2 0.04
34 39 0.85
35 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (34 bp):
TAATATGACATTTTGATATGATATATGTTTCTGG
Found at i:17944562 original size:20 final size:19
Alignment explanation
Indices: 17944537--17944575 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
17944527 AGAAATTGTA
17944537 ATTCTTAGAAAATAGAATTT
1 ATTCTTAGAAAATA-AATTT
17944557 ATTCTTAGAAAATAAATTT
1 ATTCTTAGAAAATAAATTT
17944576 TCATTACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTCTTAGAAAATAAATTT
Found at i:17944936 original size:18 final size:17
Alignment explanation
Indices: 17944913--17944946 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17944903 ATGTTTCCAA
*
17944913 AATAAATATTATTTATTT
1 AATAAAT-TTAATTATTT
17944931 AATAAATTTAATTATT
1 AATAAATTTAATTATT
17944947 ACTATTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAAATTTAATTATTT
Found at i:17949414 original size:39 final size:39
Alignment explanation
Indices: 17949346--17949562 Score: 245
Period size: 39 Copynumber: 5.6 Consensus size: 39
17949336 GTAACCACGA
* * *
17949346 CACAAAAGTGCGATCAAGGATACCGAAGTACAATAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
* * *
17949385 CACAAAATTGCGATTAGGGGTACCAAAGTACAACAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
* * *
17949424 CACATAAGTGCGATCAGGGGTATCGAAGTACAATAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
** * * *
17949463 CACCTATGTGCAATCAGGGGTGCCGAAGTACAACAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
* ** *
17949502 AACGTAAGTGTGATCAGGGGTACCGAAGTACAACAGGGG
1 CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
** *
17949541 CACGTAAGTACGATCAGGGGTA
1 CACAAAAGTGCGATCAGGGGTA
17949563 TCATTATATA
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 151 1.00
ACGTcount: A:0.35, C:0.18, G:0.32, T:0.16
Consensus pattern (39 bp):
CACAAAAGTGCGATCAGGGGTACCGAAGTACAACAGGGG
Found at i:17949432 original size:19 final size:19
Alignment explanation
Indices: 17949400--17949551 Score: 79
Period size: 19 Copynumber: 7.8 Consensus size: 19
17949390 AATTGCGATT
* *
17949400 AGGGGTACCAAAGTACAAC
1 AGGGGCACCTAAGTACAAC
* * *
17949419 AGGGGCACATAAGTGCGATC
1 AGGGGCACCTAAGTAC-AAC
* * * *
17949439 AGGGGTATCGAAGTACAAT
1 AGGGGCACCTAAGTACAAC
* *
17949458 AGGGGCACCTATGTGCAATC
1 AGGGGCACCTAAGTACAA-C
** *
17949478 AGGGGTGCCGAAGTACAAC
1 AGGGGCACCTAAGTACAAC
* * ** *
17949497 AGGGGAACGTAAGTGTGATC
1 AGGGGCACCTAAGT-ACAAC
* *
17949517 AGGGGTACCGAAGTACAAC
1 AGGGGCACCTAAGTACAAC
*
17949536 AGGGGCACGTAAGTAC
1 AGGGGCACCTAAGTAC
17949552 GATCAGGGGT
Statistics
Matches: 91, Mismatches: 39, Indels: 6
0.67 0.29 0.04
Matches are distributed among these distances:
19 52 0.57
20 39 0.43
ACGTcount: A:0.33, C:0.18, G:0.34, T:0.15
Consensus pattern (19 bp):
AGGGGCACCTAAGTACAAC
Found at i:17949557 original size:78 final size:78
Alignment explanation
Indices: 17949351--17949562 Score: 271
Period size: 78 Copynumber: 2.7 Consensus size: 78
17949341 CACGACACAA
* * * * *
17949351 AAGTGCGATCAAGGATACCGAAGTACAATAGGGGCACAAAATTGCGATTAGGGGTACCAAAGTAC
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTACCAAAGTAC
*
17949416 AACAGGGGCACAT
66 AACAGGGGAACAT
* * * * * *
17949429 AAGTGCGATCAGGGGTATCGAAGTACAATAGGGGCACCTATGTGCAATCAGGGGTGCCGAAGTAC
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTACCAAAGTAC
*
17949494 AACAGGGGAACGT
66 AACAGGGGAACAT
* * * *
17949507 AAGTGTGATCAGGGGTACCGAAGTACAACAGGGGCACGTAAGTACGATCAGGGGTA
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTA
17949563 TCATTATATA
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 113 1.00
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (78 bp):
AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACATAAGTGCGATCAGGGGTACCAAAGTAC
AACAGGGGAACAT
Found at i:17955783 original size:36 final size:36
Alignment explanation
Indices: 17955741--17955812 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
17955731 TTCTATTATT
*
17955741 TAATAAGATTTAATATTAAGTTTAATCTAATATTTA
1 TAATAAGATTTAATATTAAATTTAATCTAATATTTA
17955777 TAATAAGATTTAATATTAAATTTAATCTAATATTTA
1 TAATAAGATTTAATATTAAATTTAATCTAATATTTA
17955813 ATAGGATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (36 bp):
TAATAAGATTTAATATTAAATTTAATCTAATATTTA
Found at i:17955811 original size:12 final size:13
Alignment explanation
Indices: 17955748--17955815 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 13
17955738 ATTTAATAAG
*
17955748 ATTTAATATTAA-
1 ATTTAATACTAAT
*
17955760 GTTTAAT-CTAAT
1 ATTTAATACTAAT
* *
17955772 ATTT-ATAATAAG
1 ATTTAATACTAAT
*
17955784 ATTTAATATTAA-
1 ATTTAATACTAAT
17955796 ATTTAAT-CTAAT
1 ATTTAATACTAAT
17955808 ATTTAATA
1 ATTTAATA
17955816 GGATAAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
11 8 0.18
12 30 0.68
13 6 0.14
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (13 bp):
ATTTAATACTAAT
Found at i:17956724 original size:50 final size:50
Alignment explanation
Indices: 17956665--17956764 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
17956655 TTGCCTTGTG
17956665 GTGAAAAATTATGTAATTTTATTTTTCCATTTATTTTCTAGAAATAGAAC
1 GTGAAAAATTATGTAATTTTATTTTTCCATTTATTTTCTAGAAATAGAAC
17956715 GTGAAAAATTATGTAATTTTATTTTTCCATTTATTTTCTAGAAATAGAAC
1 GTGAAAAATTATGTAATTTTATTTTTCCATTTATTTTCTAGAAATAGAAC
17956765 CATGGAAACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (50 bp):
GTGAAAAATTATGTAATTTTATTTTTCCATTTATTTTCTAGAAATAGAAC
Found at i:17957836 original size:20 final size:20
Alignment explanation
Indices: 17957800--17957839 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17957790 TACATTCTTG
17957800 ATATGTTGTTGAAATAAAAA
1 ATATGTTGTTGAAATAAAAA
*
17957820 ATAT-TTGTTTAATATAAAAA
1 ATATGTTGTTGAA-ATAAAAA
17957840 TAGTGATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
ATATGTTGTTGAAATAAAAA
Found at i:17959178 original size:12 final size:13
Alignment explanation
Indices: 17959142--17959179 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
17959132 AAATATTTTA
17959142 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
17959155 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
17959169 CTTG-TCTTAAT
1 CTTGTTCTTAAT
17959180 ATTCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:17962307 original size:45 final size:45
Alignment explanation
Indices: 17962237--17962326 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
17962227 ATATTCTTGG
* * *
17962237 AATTCAAATCCTTAGGGATCGAAATAATAAAATGATAGCACTATC
1 AATTCAAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
*
17962282 AATTCGAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
1 AATTCAAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
17962327 TCAAGCTTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (45 bp):
AATTCAAATCCTTAGGGAACAAAATAATAAAACGATAGCACTATC
Found at i:17963236 original size:4 final size:4
Alignment explanation
Indices: 17963229--17963254 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
17963219 TATTTGAATG
17963229 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
17963255 TTAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:17964122 original size:24 final size:25
Alignment explanation
Indices: 17964095--17964144 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
17964085 GTTTATCTTG
*
17964095 AAGATACATAT-TCTATT-ATTTAAT
1 AAGATAAATATGT-TATTAATTTAAT
17964119 AAGATAAATATGTTATTAATTTAAT
1 AAGATAAATATGTTATTAATTTAAT
17964144 A
1 A
17964145 TTAAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (25 bp):
AAGATAAATATGTTATTAATTTAAT
Found at i:17966111 original size:16 final size:16
Alignment explanation
Indices: 17966070--17966115 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
17966060 TCCCGAACTG
** *
17966070 CCGAAAAGCCAAAATG
1 CCGAAAAGCTGAAATA
17966086 CCGAAAAGCTGAAATA
1 CCGAAAAGCTGAAATA
17966102 CCGAAAAGCTGAAA
1 CCGAAAAGCTGAAA
17966116 GTCTGGCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.09
Consensus pattern (16 bp):
CCGAAAAGCTGAAATA
Found at i:17974491 original size:47 final size:47
Alignment explanation
Indices: 17974423--17975200 Score: 1556
Period size: 47 Copynumber: 16.6 Consensus size: 47
17974413 ATCCATAAAT
17974423 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974470 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974517 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974564 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974611 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974658 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974705 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974752 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974799 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974846 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974893 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974940 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17974987 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17975034 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17975081 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17975128 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
17975175 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
17975201 GGACATTCGC
Statistics
Matches: 731, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 731 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:17975242 original size:46 final size:47
Alignment explanation
Indices: 17975175--17975295 Score: 201
Period size: 46 Copynumber: 2.6 Consensus size: 47
17975165 TACATTTCAC
*
17975175 GAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCATAAAT
* *
17975221 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCATAAAT
17975267 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
17975296 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
45 2 0.03
46 65 0.94
47 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCATAAAT
Found at i:17982433 original size:19 final size:20
Alignment explanation
Indices: 17982409--17982446 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17982399 GGTACCACCA
17982409 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
17982428 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
17982447 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:17983205 original size:30 final size:30
Alignment explanation
Indices: 17983171--17983230 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17983161 ATTTAATACG
17983171 AACTTGAAAAAAATTACACTTTTGCCCCTA
1 AACTTGAAAAAAATTACACTTTTGCCCCTA
**** *
17983201 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTGAAAAAAATTACACTTTTGCCCCTA
17983231 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (30 bp):
AACTTGAAAAAAATTACACTTTTGCCCCTA
Found at i:17986010 original size:50 final size:49
Alignment explanation
Indices: 17985892--17986067 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 49
17985882 CTGGTACGCA
* * * *
17985892 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
* * ** * *
17985941 TAGTAACCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCAGGTACACG
* * *
17985991 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACG
*
17986042 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
17986068 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 30 0.28
50 43 0.40
51 34 0.32
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACG
Found at i:17986075 original size:101 final size:99
Alignment explanation
Indices: 17985892--17986075 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 99
17985882 CTGGTACGCA
* * * * **
17985892 TAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAACCTGTACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAACCTACACTTA
*
17985957 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * *
17985991 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAACCTACACT
*
17986056 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
17986076 CACAATAGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 40 0.56
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAACCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:17987768 original size:17 final size:17
Alignment explanation
Indices: 17987737--17987770 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17987727 GATTATAATC
*
17987737 CAACAATTTGAATATAT
1 CAACAATTAGAATATAT
*
17987754 CAACAATTAGCATATAT
1 CAACAATTAGAATATAT
17987771 TAGCTAACAA
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:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (17 bp):
CAACAATTAGAATATAT
Found at i:17992813 original size:19 final size:18
Alignment explanation
Indices: 17992791--17992830 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
17992781 ATCTCAAGGT
17992791 TATAATCCAACAATTAGAA
1 TATAAT-CAACAATTAGAA
*
17992810 TAT-ATCAACAATTAGCA
1 TATAATCAACAATTAGAA
17992827 TATA
1 TATA
17992831 TTAGCTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 14 0.74
18 2 0.11
19 3 0.16
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (18 bp):
TATAATCAACAATTAGAA
Found at i:17992820 original size:17 final size:17
Alignment explanation
Indices: 17992798--17992831 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17992788 GGTTATAATC
17992798 CAACAATTAGAATATAT
1 CAACAATTAGAATATAT
*
17992815 CAACAATTAGCATATAT
1 CAACAATTAGAATATAT
17992832 TAGCTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (17 bp):
CAACAATTAGAATATAT
Found at i:17998829 original size:28 final size:27
Alignment explanation
Indices: 17998722--17998833 Score: 97
Period size: 27 Copynumber: 4.1 Consensus size: 27
17998712 AGCATGGCTG
* *
17998722 CCAGAACAGATA-ATGTGACAGAG-CA
1 CCAGTACAGATATATGTGGCAGAGCCA
** *
17998747 CCAGATACAGATA-ATCGTTACAGAACCA
1 CCAG-TACAGATATAT-GTGGCAGAGCCA
17998775 CCAGTACAGATATATGTGGCAGAGCCA
1 CCAGTACAGATATATGTGGCAGAGCCA
* *
17998802 CCAG-ATCAGATAATTTGTGGCATAGCCA
1 CCAGTA-CAGAT-ATATGTGGCAGAGCCA
17998830 CCAG
1 CCAG
17998834 GACGCTTCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
25 4 0.05
26 10 0.14
27 33 0.45
28 26 0.36
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (27 bp):
CCAGTACAGATATATGTGGCAGAGCCA
Found at i:18000281 original size:24 final size:24
Alignment explanation
Indices: 18000261--18000325 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
18000251 CCCTTATCTG
18000261 CTCCTAAATCCTATCCTTTATCAA
1 CTCCTAAATCCTATCCTTTATCAA
*
18000285 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCCTTTATCAA
*
18000309 CTCCTAAATCCTCTCCT
1 CTCCTAAATCCTATCCT
18000326 GACAGACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.35
Consensus pattern (24 bp):
CTCCTAAATCCTATCCTTTATCAA
Found at i:18000289 original size:48 final size:47
Alignment explanation
Indices: 18000226--18000325 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 47
18000216 CACCTCTTGT
* * **
18000226 TCCTTGATCAGCTCCTAGATTTCC-TCCCTTATCTGCTCCTAAATCCTA
1 TCCTTGATCAACTCCTA-A-ATCCATCCCTTATCAACTCCTAAATCCTA
* *
18000274 TCCTTTATCAACTCCTAAATCCTATCCCTTATCAACTCCTAAATCCTC
1 TCCTTGATCAACTCCTAAATCC-ATCCCTTATCAACTCCTAAATCCTA
18000322 TCCT
1 TCCT
18000326 GACAGACTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
46 3 0.07
47 1 0.02
48 40 0.91
ACGTcount: A:0.22, C:0.37, G:0.04, T:0.37
Consensus pattern (47 bp):
TCCTTGATCAACTCCTAAATCCATCCCTTATCAACTCCTAAATCCTA
Found at i:18002864 original size:27 final size:27
Alignment explanation
Indices: 18002834--18003011 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
18002824 ATATTGAGTC
* *
18002834 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18002861 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
18002888 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18002916 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
18002943 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
18002970 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
18002997 CGCTCACTTAGTGCT
1 CGCACACTTAGTGCT
18003012 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18005466 original size:70 final size:70
Alignment explanation
Indices: 18005372--18005549 Score: 221
Period size: 70 Copynumber: 2.5 Consensus size: 70
18005362 CTAATGTGCT
* * *
18005372 CAACACTAGTCGAACGAATTGACAATGTTTTGCACCCAGCACTAGTTGGGTAACCGACAATGGAT
1 CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCAGCACTAGTCGGATAACCGACAATGGAT
18005437 GCGCC
66 GCGCC
* * * * * * **
18005442 CAGCATTTGTCGAATGAATCGACAATGTTTTGCACCAAGCGCTAGTCGGATAACCGATGATGGAT
1 CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCAGCACTAGTCGGATAACCGACAATGGAT
*
18005507 GTGCC
66 GCGCC
* **
18005512 CAACACTAGTCAAACGAATCGATGATGTTTTGCACCCA
1 CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCA
18005550 CTGATAGTCG
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
70 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (70 bp):
CAACACTAGTCGAACGAATCGACAATGTTTTGCACCCAGCACTAGTCGGATAACCGACAATGGAT
GCGCC
Found at i:18010384 original size:48 final size:47
Alignment explanation
Indices: 18010311--18010586 Score: 179
Period size: 48 Copynumber: 5.8 Consensus size: 47
18010301 GAAGGTAGGG
*
18010311 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGACCACATAATGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACAT-ATGA
*
18010359 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATAT--
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGA-C-CACATATGA
** * * * * * * *
18010406 TG--AA-GTTTATAACCCAG-CTCTGGTCTTACACGATGTCTTA-TTATGA
1 TGCCAATG-CCATATCCCAGAC-ATGGTCTTACATG-GGAC-CACATATGA
** *** *
18010452 TGCCAATGCCATGGCTTGGACATGGTCTTACATGGGATCACATAATGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACAT-ATGA
* * * * * *
18010500 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCACATGTTA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACATATGA
* * * *
18010547 CTGCCAAAGCCATATCCCAGATATGGTCTTATACGGGACC
1 -TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACC
18010587 TCATCCACTC
Statistics
Matches: 175, Mismatches: 39, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
44 5 0.03
45 22 0.13
46 4 0.02
47 6 0.03
48 128 0.73
49 5 0.03
50 5 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (47 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACATATGA
Found at i:18010793 original size:25 final size:25
Alignment explanation
Indices: 18010763--18010841 Score: 140
Period size: 25 Copynumber: 3.2 Consensus size: 25
18010753 ACACACAAAC
* *
18010763 TTACCTCGGTACAAAATATGAACAA
1 TTACCTCGGTACAAAATACGGACAA
18010788 TTACCTCGGTACAAAATACGGACAA
1 TTACCTCGGTACAAAATACGGACAA
18010813 TTACCTCGGTACAAAATACGGACAA
1 TTACCTCGGTACAAAATACGGACAA
18010838 TTAC
1 TTAC
18010842 TTCGATTTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (25 bp):
TTACCTCGGTACAAAATACGGACAA
Found at i:18023260 original size:93 final size:93
Alignment explanation
Indices: 18023129--18023300 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
18023119 GCCCATAAGT
* * *
18023129 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
18023194 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
18023222 GAACTCAGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
18023287 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
18023301 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:18023296 original size:46 final size:46
Alignment explanation
Indices: 18023121--18023296 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
18023111 TGTAACCCGC
* * * *
18023121 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
*
18023167 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
18023213 ACATCTCTCGAACTCAGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
18023260 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
18023297 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:18025724 original size:30 final size:31
Alignment explanation
Indices: 18025689--18025768 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
18025679 CAAGAAAACC
* *
18025689 GAATAAAGAAATCCAAGATAGAGA-AACCTG
1 GAATAAAGAAATCCAAGATAAAGAGAACCAG
* *
18025719 GAATAAATAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGAGAACCAG
*
18025750 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
18025769 TGATACTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 2 0.05
30 32 0.78
31 7 0.17
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAGAACCAG
Found at i:18025739 original size:15 final size:15
Alignment explanation
Indices: 18025680--18025759 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
18025670 CAAAGATAAC
*
18025680 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
18025694 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
18025709 GAGAAA-CCTGGAATA
1 AAGAAATCC-AGAATA
*
18025724 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
18025739 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
18025754 AAGAAA
1 AAGAAA
18025760 CCCAAGATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 11 0.22
15 37 0.73
16 3 0.06
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:18025768 original size:15 final size:15
Alignment explanation
Indices: 18025691--18025768 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
18025681 AGAAAACCGA
18025691 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
18025706 ATAGAGAAA-CCTGG
1 ATAAAGAAATCCAAG
*
18025720 AATAAATAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
18025735 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
18025751 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18025766 ATA
1 ATA
18025769 TGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18028767 original size:20 final size:20
Alignment explanation
Indices: 18028739--18028785 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
18028729 CATAAGTGAA
*
18028739 CTCGTACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
18028759 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
*
18028779 TTCGGAC
1 CTCGGAC
18028786 ATTCGCATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:18028803 original size:66 final size:66
Alignment explanation
Indices: 18028697--18028830 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
18028687 AGTGAACTCA
* * *
18028697 GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGTACTCAACTCAACGAGCTC
1 GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTC
18028762 G
66 G
* *
18028763 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTC
18028828 G
66 G
18028829 GA
1 GA
18028831 TGCCCAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (66 bp):
GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTC
G
Found at i:18032705 original size:123 final size:123
Alignment explanation
Indices: 18032486--18032736 Score: 475
Period size: 123 Copynumber: 2.0 Consensus size: 123
18032476 TATGCTTAAC
*
18032486 AACTTATCAGTGTCTTGGTCCAAGGTTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
1 AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
*
18032551 TATTTTGGCATGTGTATAAAATAGCATACATGAGACTTCTTACTGTCGAAGCAAAAGG
66 TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
*
18032609 AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTTCAAAATAGA
1 AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
18032674 TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
66 TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
18032732 AACTT
1 AACTT
18032737 GTAACAGCCC
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (123 bp):
AACTTATCAGTGTCTTGGTCCAAGATTTGCCTAATATTGACTTACCAACCCCACTGCAAAATAGA
TATTTTGGCATGTGTATAAAATAACATACATGAGACTTCTTACTGTCGAAGCAAAAGG
Found at i:18034374 original size:16 final size:16
Alignment explanation
Indices: 18034355--18034386 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18034345 AATGTCTTGA
18034355 AAGAGTATTGCATGAT
1 AAGAGTATTGCATGAT
*
18034371 AAGAGTGTTGCATGAT
1 AAGAGTATTGCATGAT
18034387 GAGCTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (16 bp):
AAGAGTATTGCATGAT
Found at i:18038578 original size:10 final size:10
Alignment explanation
Indices: 18038559--18038608 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
18038549 TGAAATTCTA
18038559 AAAGATAAAT
1 AAAGATAAAT
18038569 ACAA-ATAAAT
1 A-AAGATAAAT
*
18038579 AAAGATAATT
1 AAAGATAAAT
18038589 AAAGATAAAT
1 AAAGATAAAT
18038599 GAAA-ATAAAT
1 -AAAGATAAAT
18038609 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:18039262 original size:16 final size:17
Alignment explanation
Indices: 18039236--18039274 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
18039226 CTTTTTTTTC
*
18039236 TATTTATTTTATTAATT
1 TATTTAATTTATTAATT
*
18039253 T-TTTAATTTATTTATT
1 TATTTAATTTATTAATT
18039269 TATTTA
1 TATTTA
18039275 TTGTTGCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTAATTTATTAATT
Found at i:18040753 original size:26 final size:26
Alignment explanation
Indices: 18040674--18040754 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
18040664 AACACACCAA
*
18040674 TATCGCAACAAAGCTGCCAGTATCAG
1 TATCGCAACAAAGCTGCCAGTATAAG
*
18040700 TAACGCAACAAAGCTGCCAGTA-ATAG
1 TATCGCAACAAAGCTGCCAGTATA-AG
* *
18040726 TATCGCAGCAAAGCTGCCTGTATAAG
1 TATCGCAACAAAGCTGCCAGTATAAG
18040752 TAT
1 TAT
18040755 ATGTGGCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (26 bp):
TATCGCAACAAAGCTGCCAGTATAAG
Found at i:18041749 original size:21 final size:21
Alignment explanation
Indices: 18041723--18041764 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18041713 CCATTCGGCC
18041723 AAAAACCCATGCCAGCATAAT
1 AAAAACCCATGCCAGCATAAT
18041744 AAAAACCCATGCCAGCATAAT
1 AAAAACCCATGCCAGCATAAT
18041765 CTAGTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.29, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAAACCCATGCCAGCATAAT
Found at i:18047097 original size:20 final size:20
Alignment explanation
Indices: 18047074--18047133 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
18047064 TTAAATTCTA
18047074 AAAGATAAATACAAATAAAT
1 AAAGATAAATACAAATAAAT
* * *
18047094 AAAGATAATTACAGATAATT
1 AAAGATAAATACAAATAAAT
*
18047114 ACAGATAAATGA-AAATAAAT
1 AAAGATAAAT-ACAAATAAAT
18047134 CCTAAAATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAGATAAATACAAATAAAT
Found at i:18051410 original size:28 final size:27
Alignment explanation
Indices: 18051342--18051429 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
18051332 GGAGGAAGCG
*
18051342 TTCTGGTGACTCTGCCAAAAATATCTG-
1 TTCTGGTGGCTCTGCC-AAAATATCTGT
*
18051369 ATCTGGTGGCTCTGCCATAAATATCTGT
1 TTCTGGTGGCTCTGCCA-AAATATCTGT
*
18051397 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCAAAATATCTGT
18051424 TTCTGG
1 TTCTGG
18051430 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 38 0.69
28 16 0.29
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCAAAATATCTGT
Found at i:18055493 original size:38 final size:38
Alignment explanation
Indices: 18055449--18055602 Score: 184
Period size: 38 Copynumber: 4.0 Consensus size: 38
18055439 ATATGCTAGA
*
18055449 ATTATATACGGGTTAAATCCCGCAAGCTTCGTGCTGGT
1 ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
18055487 AATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * * *
18055525 ATTATATATGGGTTAAATCCTGCAGGCCTAGTGCTGGT
1 ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
18055563 ATTATAT-CTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 ATTATATAC-G-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
18055603 GACTGGATTC
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
38 75 0.77
39 6 0.06
40 17 0.17
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (38 bp):
ATTATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:18055512 original size:76 final size:77
Alignment explanation
Indices: 18055413--18055590 Score: 207
Period size: 76 Copynumber: 2.3 Consensus size: 77
18055403 ATTTGATGTG
* *
18055413 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATTATATACGGGTTAAATCCCGCAAGCT
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TCATGCTAGAATTATATACGGGTTAAATCCCGCAAGCC
*
18055477 TCGTGCTGGTAATA
64 TAGTGCTGGTAATA
* * * * * *
18055491 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATATGGGTTAAATCCTGCAGGCCTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCATGCTAGAATTATATACGGGTTAAATCCCGCAAGCCTA
*
18055555 GTGCTGGTATTA
66 GTGCTGGTAATA
* *
18055567 TATCTGAGCTTAAAGTCCCGCAGG
1 TATCCG-GGTTAAAGTCCCGCAGG
18055591 TTTTGTGCTG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
75 1 0.01
76 56 0.66
77 11 0.13
78 17 0.20
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (77 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCATGCTAGAATTATATACGGGTTAAATCCCGCAAGCCTA
GTGCTGGTAATA
Found at i:18061103 original size:3 final size:3
Alignment explanation
Indices: 18061095--18061122 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18061085 ATATATTAGT
18061095 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18061123 TTAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18061444 original size:5 final size:5
Alignment explanation
Indices: 18061436--18061501 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
18061426 TTTATTTATA
* *
18061436 ATAAT ATAAT ATAAT ATAAT ATAAT -TAAT ATAAT TTAAA AT-AT GAT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
*
18061484 AATAAT ATAAT TTAAT AT
1 -ATAAT ATAAT ATAAT AT
18061502 TTAACCAACA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
4 5 0.10
5 44 0.86
6 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:18063130 original size:101 final size:101
Alignment explanation
Indices: 18062955--18063153 Score: 344
Period size: 101 Copynumber: 2.0 Consensus size: 101
18062945 CAAGTCGGGC
* * * *
18062955 ATTTACTAACAAATTCAACTATATCTTTCTTCATCCCTGGCCACTAATACAATTCTCGTAGGTCA
1 ATTTACTAACAAATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
*
18063020 CAATACATCTTTATTTCACCAAGGTGCAAAGCAGGG
66 CAATACATCTTTATTTCACCAAGGTACAAAGCAGGG
*
18063056 ATTTACTAACACATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
1 ATTTACTAACAAATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
18063121 CAATACATCTTTATTTCACCAAGGTACAAAGCA
66 CAATACATCTTTATTTCACCAAGGTACAAAGCA
18063154 AAAGCGTTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (101 bp):
ATTTACTAACAAATTCAACTATATCTTTCTGCATCCCTAGCCACTAATACAATTCTCGCAAGTCA
CAATACATCTTTATTTCACCAAGGTACAAAGCAGGG
Found at i:18067393 original size:5 final size:5
Alignment explanation
Indices: 18067385--18067413 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
18067375 TTTATTTATA
18067385 ATAAT ATAAT ATAAT ATAAT -TAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
18067414 TTAAAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:18067427 original size:26 final size:25
Alignment explanation
Indices: 18067392--18067442 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
18067382 ATAATAATAT
18067392 AATATAATATAATTAATATAATTTAA
1 AATATAATATAA-TAATATAATTTAA
* *
18067418 AATATGATATAATAATATTATTTAA
1 AATATAATATAATAATATAATTTAA
18067443 TATTTAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATATAATATAATAATATAATTTAA
Found at i:18070945 original size:27 final size:27
Alignment explanation
Indices: 18070915--18071206 Score: 368
Period size: 27 Copynumber: 10.8 Consensus size: 27
18070905 ATTACCAAAG
*
18070915 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
18070942 TACCCTCGATTTACAGAGTTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
18070969 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
18070996 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
18071023 TACTCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
18071050 TACCCTCAATTCACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
18071077 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
18071104 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
18071131 TACCTTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
18071158 TACCCTCGATTTAAAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
** *
18071185 TACCCTTAATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
18071207 TGAAATACCC
Statistics
Matches: 233, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 233 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:18071239 original size:27 final size:26
Alignment explanation
Indices: 18071194--18071404 Score: 145
Period size: 27 Copynumber: 7.9 Consensus size: 26
18071184 TTACCCTTAA
* **
18071194 TTTACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCC-TGG
* * *
18071221 TTTACAAAATTTCCAAAATACCCTCG
1 TTTATAAAATTACCAAAATACCCTGG
* *
18071247 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATA-CCCTGG
* *
18071275 TTTGTAAAATTACTAAAATATCCCTGG
1 TTTATAAAATTACCAAAATA-CCCTGG
*
18071302 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATA-CCCTGG
* * * *
18071329 CTTGTAAAATTACTAAAATACCCCTGA
1 TTTATAAAATTACCAAAATA-CCCTGG
* * * * * *
18071356 TTTGTGAAATTATCGAAATACTCTGAA
1 TTTATAAAATTACCAAAATACCCTG-G
* *
18071383 TTTACAAAA-TATCAAAATACCC
1 TTTATAAAATTACCAAAATACCC
18071405 CTGTAGGGTA
Statistics
Matches: 151, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
26 19 0.13
27 126 0.83
28 6 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
TTTATAAAATTACCAAAATACCCTGG
Found at i:18071284 original size:54 final size:53
Alignment explanation
Indices: 18071199--18071356 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 53
18071189 CTTAATTTAC
** * ** * *
18071199 AAAATTACTGAAATACCCTTGGTTTACAAAATTTCCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT-GATCAGT
* **
18071253 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCCTGATCAGT
*
18071307 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGAT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCCTGAT
18071357 TTGTGAAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 86 0.96
55 4 0.04
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTGATCAGT
Found at i:18071360 original size:54 final size:54
Alignment explanation
Indices: 18071251--18071376 Score: 198
Period size: 54 Copynumber: 2.3 Consensus size: 54
18071241 CCCTCGATCA
* * *
18071251 GTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
18071305 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
* * *
18071359 GTGAAATTATCGAAATAC
1 GTAAAATTACCAAAATAC
18071377 TCTGAATTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
Found at i:18071375 original size:81 final size:81
Alignment explanation
Indices: 18071199--18071404 Score: 224
Period size: 81 Copynumber: 2.6 Consensus size: 81
18071189 CTTAATTTAC
*
18071199 AAAATTACTGAAATACCCTTGGTTTACAAAATTTCCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
*
18071264 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* ** * * * *
18071280 AAAATTACTAAAATATCCC-TGGTTTGTAAAATTACCAAAATACCCCTGGCT-TGTAAAATTACT
1 AAAATTACTGAAATA-CCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACC
18071343 AAAATACCCCTGATTTGT
64 AAAATACCCCTGATTTGT
* * * *
18071361 GAAATTA-TCGAAATACTC-TGAATTTACAAAA-TATCAAAATACCC
1 AAAATTACT-GAAATACCCTTG-GTTTACAAAATTACCAAAATACCC
18071405 CTGTAGGGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
79 3 0.03
80 14 0.13
81 79 0.75
82 9 0.09
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:18071392 original size:54 final size:54
Alignment explanation
Indices: 18071251--18071434 Score: 178
Period size: 54 Copynumber: 3.4 Consensus size: 54
18071241 CCCTCGATCA
** * *
18071251 GTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATATCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGAATTGTAAAATTACTAAAATACCCCTGATTT
**
18071305 GTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGAATTGTAAAATTACTAAAATACCCCTGATTT
* * * * * **
18071359 GTGAAATTATCGAAATA-CTCTGAATT-TACAAAATA-TCAAAATACCCCTG-TAGG
1 GTAAAATTACCAAAATACCCCTGAATTGTA-AAATTACT-AAAATACCCCTGAT-TT
* *
18071412 GTAGAATTACCGAAATACCCCTG
1 GTAAAATTACCAAAATACCCCTG
18071435 TAGGGTAGAA
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.04
53 37 0.34
54 69 0.63
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTGAATTGTAAAATTACTAAAATACCCCTGATTT
Found at i:18071435 original size:27 final size:27
Alignment explanation
Indices: 18071397--18071530 Score: 205
Period size: 27 Copynumber: 5.0 Consensus size: 27
18071387 CAAAATATCA
18071397 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
18071424 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
18071451 AAATACCCTTGTAAGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
18071478 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
18071505 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
18071531 ATTTTTCCCC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:18071769 original size:26 final size:25
Alignment explanation
Indices: 18071735--18071805 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
18071725 AGGAAGTGCT
*
18071735 AAAAGGGCTTTGCCCTAGTTTACCAA
1 AAAAGGGCTTTGCCCCAGTTTACC-A
* * *
18071761 AAAAAGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
18071786 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
18071806 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 19 0.49
26 20 0.51
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:18071818 original size:24 final size:24
Alignment explanation
Indices: 18071734--18071832 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 24
18071724 GAGGAAGTGC
* *
18071734 TAAAAG-GGCTTTGCCCTAGTTTACC
1 TAAAAGAGGCTTTGCCCCAG-TTA-T
* * *
18071759 AAAAAAAGGCTTTGCCCCAATTTAT
1 TAAAAGAGGCTTTGCCCC-AGTTAT
*
18071784 CAAAA-AGGGCTTTGCCCCAGTTAT
1 TAAAAGA-GGCTTTGCCCCAGTTAT
**
18071808 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAGAGGCTTTGCC-CCAGTTAT
18071833 ATGATAAAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
24 17 0.29
25 28 0.47
26 13 0.22
27 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (24 bp):
TAAAAGAGGCTTTGCCCCAGTTAT
Found at i:18073746 original size:46 final size:45
Alignment explanation
Indices: 18073692--18073783 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 45
18073682 TCAGTTAAAG
18073692 TAAGCAATGTATTAAATGTTAAAAAATATCCTTAAAATGAACCGC
1 TAAGCAATGTATTAAATGTTAAAAAATATCCTTAAAATGAACCGC
*
18073737 TNAAGCAATGTATTAAATGTTAGAAAATATCCTTAAAATGAACCGC
1 T-AAGCAATGTATTAAATGTTAAAAAATATCCTTAAAATGAACCGC
18073783 T
1 T
18073784 CAAGACTCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 1 0.02
46 44 0.98
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (45 bp):
TAAGCAATGTATTAAATGTTAAAAAATATCCTTAAAATGAACCGC
Found at i:18074065 original size:21 final size:21
Alignment explanation
Indices: 18074039--18074081 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
18074029 TCTCATACCT
18074039 TACCTCCAGATCTTGAACTGC
1 TACCTCCAGATCTTGAACTGC
18074060 TACCTCCAGATCTTGAACTGC
1 TACCTCCAGATCTTGAACTGC
18074081 T
1 T
18074082 TGTTCCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (21 bp):
TACCTCCAGATCTTGAACTGC
Found at i:18076274 original size:19 final size:18
Alignment explanation
Indices: 18076250--18076287 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
18076240 AGAATAAGTT
18076250 AAAATACACAAGATGCAGC
1 AAAATACACAAGATG-AGC
*
18076269 AAAATATACAAGATGAGC
1 AAAATACACAAGATGAGC
18076287 A
1 A
18076288 CACAAAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (18 bp):
AAAATACACAAGATGAGC
Found at i:18078946 original size:15 final size:14
Alignment explanation
Indices: 18078928--18078969 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
18078918 AATATTAAAA
18078928 TTTTAAGTTTTTAAGT
1 TTTTAA-TTTTTAA-T
18078944 TTTTAATTTTTAAT
1 TTTTAATTTTTAAT
18078958 TTTTCAATTTTT
1 TTTT-AATTTTT
18078970 TTGAAGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (14 bp):
TTTTAATTTTTAAT
Found at i:18078968 original size:7 final size:7
Alignment explanation
Indices: 18078928--18078969 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 7
18078918 AATATTAAAA
18078928 TTTTAAGT
1 TTTTAA-T
18078936 TTTTAAGT
1 TTTTAA-T
18078944 TTTTAAT
1 TTTTAAT
18078951 TTTTAAT
1 TTTTAAT
18078958 TTTTCAAT
1 TTTT-AAT
18078966 TTTT
1 TTTT
18078970 TTGAAGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 12 0.36
8 21 0.64
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (7 bp):
TTTTAAT
Found at i:18080165 original size:40 final size:40
Alignment explanation
Indices: 18080121--18080342 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
18080111 ACCTCAATCT
*
18080121 ATAGCGGCGTTTTTCCAAAAGCGTCGCTAAAAATTGAGTA
1 ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
* * *
18080161 ATAGCGGTGTTTTTCCAAAAGCGCCGCTAAAACCTCGA-TA
1 ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAA-ATTGAGTA
* * * *
18080201 TATAGTGGTGTTTTTCCAAAAGCCCCGCTAAAAATTGAGCA
1 -ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
* * * *
18080242 ATAGCGGCGTTTTTCTAAAAGCGCCGCTAAAACCTCGA-TCT
1 ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAA-ATTGAGT-A
* * * *
18080283 ATAACGGCGGTTTTT-CAAAAGCACCGCTAAAAACTGAGCA
1 ATAGCGGC-GTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
*
18080323 ATAGCGGCGTTTCTCCAAAA
1 ATAGCGGCGTTTTTCCAAAA
18080343 ACACCACTAT
Statistics
Matches: 147, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
39 5 0.03
40 77 0.52
41 59 0.40
42 6 0.04
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (40 bp):
ATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAAATTGAGTA
Found at i:18080245 original size:81 final size:81
Alignment explanation
Indices: 18080109--18080342 Score: 335
Period size: 81 Copynumber: 2.9 Consensus size: 81
18080099 TCTAAACCCT
* ** * *
18080109 AAACCTCAATCTATAGCGGCGTTTTTCCAAAAGCGTCGCTAAAAATTGAGTAATAGCGGTGTTTT
1 AAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTTT
18080174 TCCAAAAGCGCCGCTA
66 TCCAAAAGCGCCGCTA
* * * *
18080190 AAACCTCGATATATAGTGGTGTTTTTCCAAAAGCCCCGCTAAAAATTGAGCAATAGCGGCGTTTT
1 AAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTTT
*
18080255 TCTAAAAGCGCCGCTA
66 TCCAAAAGCGCCGCTA
* *
18080271 AAACCTCGATCTATAACGGCGGTTTTT-CAAAAGCACCGCTAAAAACTGAGCAATAGCGGCGTTT
1 AAACCTCGATCTATAGCGGC-GTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTT
*
18080335 CTCCAAAA
65 TTCCAAAA
18080343 ACACCACTAT
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 129 0.96
82 6 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (81 bp):
AAACCTCGATCTATAGCGGCGTTTTTCCAAAAGCACCGCTAAAAATTGAGCAATAGCGGCGTTTT
TCCAAAAGCGCCGCTA
Found at i:18080370 original size:40 final size:41
Alignment explanation
Indices: 18080326--18080415 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
18080316 CTGAGCAATA
* *
18080326 GCGGCGTTT-CTCCAAAAACACCACTATTGTTCAGTTTTTC
1 GCGGCGTTTGCACCAAAAACACCACTATTGCTCAGTTTTTC
* * * *
18080366 GCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTT
1 GCGGCGTTTGCACCAAAAACACCACTATTGCTCAGTTTTTC
*
18080407 GTGGCGTTT
1 GCGGCGTTT
18080416 TCAATAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 9 0.21
41 33 0.79
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (41 bp):
GCGGCGTTTGCACCAAAAACACCACTATTGCTCAGTTTTTC
Found at i:18080394 original size:41 final size:41
Alignment explanation
Indices: 18080337--18080415 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
18080327 CGGCGTTTCT
*
18080337 CCAAAAACACCACTATTGTTCAGTTTTTCGCGGCGTTTGGA
1 CCAAAAACACCACTATTGCTCAGTTTTTCGCGGCGTTTGGA
* * * *
18080378 CCAAAAACGCCGCTATTGCTCAGTTTTTTGTGGCGTTT
1 CCAAAAACACCACTATTGCTCAGTTTTTCGCGGCGTTT
18080416 TCAATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (41 bp):
CCAAAAACACCACTATTGCTCAGTTTTTCGCGGCGTTTGGA
Found at i:18083082 original size:19 final size:19
Alignment explanation
Indices: 18083055--18083093 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18083045 TTCTAGAAAA
*
18083055 AGAATTATGAGTAAGTCAC
1 AGAACTATGAGTAAGTCAC
18083074 AGAACTATGAGTAAGTCAC
1 AGAACTATGAGTAAGTCAC
18083093 A
1 A
18083094 ATCATTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (19 bp):
AGAACTATGAGTAAGTCAC
Found at i:18087473 original size:17 final size:18
Alignment explanation
Indices: 18087447--18087480 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18087437 GGTAAATTTA
18087447 GGACGCGTGGG-CCACAC
1 GGACGCGTGGGTCCACAC
*
18087464 GGACGTGTGGGTCCACA
1 GGACGCGTGGGTCCACA
18087481 TGGGCGTTTG
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:0.18, C:0.29, G:0.41, T:0.12
Consensus pattern (18 bp):
GGACGCGTGGGTCCACAC
Found at i:18090746 original size:36 final size:36
Alignment explanation
Indices: 18090699--18090771 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
18090689 CATGGCATGA
18090699 GAATTATGAGATGA-AGTAATAATGTCTTGAAAGAGT
1 GAATTATGAGATGAGA-TAATAATGTCTTGAAAGAGT
* *
18090735 GAATTTTGAGATGAGATGATAATGTCTTGAAAGAGT
1 GAATTATGAGATGAGATAATAATGTCTTGAAAGAGT
18090771 G
1 G
18090772 TTGCATGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (36 bp):
GAATTATGAGATGAGATAATAATGTCTTGAAAGAGT
Found at i:18093319 original size:13 final size:14
Alignment explanation
Indices: 18093301--18093335 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
18093291 TTCCTGGCCA
18093301 TTCTTCATTTTT-T
1 TTCTTCATTTTTCT
18093314 TTCTTCATTTTTCT
1 TTCTTCATTTTTCT
*
18093328 CTCTTCAT
1 TTCTTCAT
18093336 CAACTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTCATTTTTCT
Found at i:18094376 original size:27 final size:26
Alignment explanation
Indices: 18094333--18094444 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
18094323 AGGAAATGTC
* *
18094333 CTGGTGGCTATGGCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
18094360 CTGGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
18094387 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * *
18094415 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
18094441 CTGG
1 CTGG
18094445 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.66
28 17 0.24
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:18094440 original size:54 final size:54
Alignment explanation
Indices: 18094333--18094444 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
18094323 AGGAAATGTC
* *
18094333 CTGGTGGCTATGGCACAATTATCTGATCTGGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATAACTGTT
* * * * *
18094387 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTGCCACATATAACTGTT
18094441 CTGG
1 CTGG
18094445 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATAACTGTT
Found at i:18099142 original size:32 final size:32
Alignment explanation
Indices: 18099105--18099168 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
18099095 GTTGTATCAC
*
18099105 GACTTGCGAGAATTGTACTGGTGGCCTGGACT
1 GACTTGCGAGAACTGTACTGGTGGCCTGGACT
*
18099137 GACTTGCGAGAACTGTATTGGTGGCCTGGACT
1 GACTTGCGAGAACTGTACTGGTGGCCTGGACT
18099169 CAAGCGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (32 bp):
GACTTGCGAGAACTGTACTGGTGGCCTGGACT
Found at i:18100517 original size:7 final size:7
Alignment explanation
Indices: 18100505--18100552 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
18100495 AGTTAACACT
18100505 CTAAACC
1 CTAAACC
18100512 CTAAACC
1 CTAAACC
* *
18100519 CTAGATC
1 CTAAACC
*
18100526 CTAAATC
1 CTAAACC
18100533 CTAAACC
1 CTAAACC
18100540 CTAAACC
1 CTAAACC
18100547 CTAAAC
1 CTAAAC
18100553 TGGGATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:18101333 original size:31 final size:31
Alignment explanation
Indices: 18101297--18101404 Score: 110
Period size: 31 Copynumber: 3.5 Consensus size: 31
18101287 AAGAAACATT
* *
18101297 ATCAGAA-CTAGAATCAGAATTAGGTGACAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAACAGA
* *
18101328 ATCAGAATCGGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
* * * *
18101359 ATCAAAATCAAAATCAGTATCAGGTAATAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
18101390 ATCAAAAATCAGAAT
1 ATC-AGAATCAGAAT
18101405 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
31 55 0.83
32 11 0.17
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:18101578 original size:27 final size:26
Alignment explanation
Indices: 18101539--18101642 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 26
18101529 CTGCTCAGTT
* * *
18101539 ATCAGATACTGTGACAGAGTCACCAG
1 ATCAGATATTGTGGCAGAGCCACCAG
18101565 ATTCAGATATTGTGGCAGAGCCACCAG
1 A-TCAGATATTGTGGCAGAGCCACCAG
* *
18101592 AACAGATATTTGTGGCATAGCCACCAG
1 ATCAGATA-TTGTGGCAGAGCCACCAG
* * *
18101619 AAACAGATAATGTGGCAAAGCCAC
1 -ATCAGATATTGTGGCAGAGCCAC
18101643 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
ATCAGATATTGTGGCAGAGCCACCAG
Found at i:18101835 original size:22 final size:22
Alignment explanation
Indices: 18101801--18101865 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
18101791 GCAAATACGT
* *
18101801 TTGGCAGACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
18101823 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
18101845 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
18101866 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:18102330 original size:27 final size:27
Alignment explanation
Indices: 18102296--18102700 Score: 537
Period size: 27 Copynumber: 15.0 Consensus size: 27
18102286 CAAAATGATA
* * *
18102296 ATTT-TACCCCACGAGGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
** * *
18102322 AACTCTACCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
18102349 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
18102376 ATTTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
18102403 AATTCTACCCTACAAGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
18102430 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
18102457 ATTTC-ATCCCTACAAGGGTATTTCGGT
1 ATTTCTA-CCCTACAAGGGTATTTCGGT
18102484 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
18102511 AATTCTACCCTAC-AGGGTTATTTCGGT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
18102538 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
18102565 ATTTCAACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
18102592 AATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
18102619 AATTCTACCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
18102646 AATTCTATCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
** *
18102673 ATTTCTACCCTGTAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
18102700 A
1 A
18102701 ATTTTACAAA
Statistics
Matches: 336, Mismatches: 38, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
26 7 0.02
27 324 0.96
28 5 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCGGT
Found at i:18102719 original size:27 final size:27
Alignment explanation
Indices: 18102689--18102758 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
18102679 ACCCTGTAAG
18102689 GGTATTTTGGTAATTTTACAAACTAGA
1 GGTATTTTGGTAATTTTACAAACTAGA
* *
18102716 GGTATTTGGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGA
*
18102743 GGCATTTTGGTAATTT
1 GGTATTTTGGTAATTT
18102759 GGTAAACTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGA
Found at i:18111078 original size:96 final size:97
Alignment explanation
Indices: 18110912--18111143 Score: 335
Period size: 96 Copynumber: 2.4 Consensus size: 97
18110902 TAAGATACCA
* *
18110912 ATGCCATGTCCCAGACATGGT-TTACATTAGCTCTCATATATAGGTGCCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATA-GTGCCGATGCCATGTCCCAAA
* *
18110976 CATGGTCTTGCACTAGCCCACATGTCGAGGCCG
65 CATGGTCTTACACTAGCCCACATATCGAGGCCG
* *
18111009 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-A-TGCCGATGTCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-ATAGTGCCGATGCCATGTCCCAAA
*
18111072 CATGGTCTTACACTAGCTCACATATCGAGGCCG
65 CATGGTCTTACACTAGCCCACATATCGAGGCCG
* * *
18111105 ATACCATGTCCCAAACATTGTCTTACACTAGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
18111144 ACCCTAGTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
96 83 0.67
97 21 0.17
98 18 0.15
99 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAGTGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCCCACATATCGAGGCCG
Found at i:18111137 original size:48 final size:48
Alignment explanation
Indices: 18110912--18111143 Score: 295
Period size: 48 Copynumber: 4.8 Consensus size: 48
18110902 TAAGATACCA
* **
18110912 ATGCCATGTCCCAGACATGGT-TTACATTAGCTCTCATATATAGGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGA-G-GCCG
* * * * * *
18110961 ATGCCATGTTCCAAACATGGTCTTGCACTAGCCCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
* *
18111009 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
* *
18111057 ATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
* * *
18111105 ATACCATGTCCCAAACATTGTCTTACACTAGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
18111144 ACCCTAGTAT
Statistics
Matches: 156, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 122 0.78
49 20 0.13
50 14 0.09
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAGGCCG
Found at i:18113968 original size:53 final size:54
Alignment explanation
Indices: 18113857--18113960 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 54
18113847 TGGGTGTGAT
* ****
18113857 TTAAATTGCAAGAATTTGCATTTTTTATGAGCTAGAGACTAAATTGTTTGTGGG
1 TTAAATTGCAAGAATTTACATTTTTTATGAGCTAGAGACTAAATTGTTAAAAGG
* *
18113911 TTAAATTGTAAGAATTTACA-TTTTTATGAGCTAGGGACTAAATT-TTAAAA
1 TTAAATTGCAAGAATTTACATTTTTTATGAGCTAGAGACTAAATTGTTAAAA
18113961 ATGTTAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.05
53 23 0.53
54 18 0.42
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (54 bp):
TTAAATTGCAAGAATTTACATTTTTTATGAGCTAGAGACTAAATTGTTAAAAGG
Found at i:18116342 original size:25 final size:25
Alignment explanation
Indices: 18116314--18116361 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18116304 ATAATTAAAC
* * *
18116314 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
18116339 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
18116362 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:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:18118700 original size:17 final size:17
Alignment explanation
Indices: 18118678--18118710 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18118668 TGTCTTTGGT
18118678 CGTGTGAGACACACGGA
1 CGTGTGAGACACACGGA
18118695 CGTGTGAGACACACGG
1 CGTGTGAGACACACGG
18118711 CCGAACCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.36, T:0.12
Consensus pattern (17 bp):
CGTGTGAGACACACGGA
Found at i:18131401 original size:16 final size:17
Alignment explanation
Indices: 18131372--18131408 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
18131362 CGGTATTTTT
*
18131372 GGGCTTAATGGGCCAAC
1 GGGCTTAATAGGCCAAC
18131389 GGGC-TAATAGGCCAAC
1 GGGCTTAATAGGCCAAC
18131405 GGGC
1 GGGC
18131409 CCACTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.24, C:0.24, G:0.38, T:0.14
Consensus pattern (17 bp):
GGGCTTAATAGGCCAAC
Found at i:18131709 original size:27 final size:26
Alignment explanation
Indices: 18131665--18131715 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
18131655 CTCGCTGTAA
*
18131665 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
18131692 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
18131716 GCCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:18141579 original size:49 final size:49
Alignment explanation
Indices: 18141522--18141620 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
18141512 CTAAGCATTT
*
18141522 ATGCTTACTCCCTCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTC
1 ATGCTTACTCCCCCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTC
*
18141571 ATGCTTACTCCCCCCTTCTTCCTCATTGTAGTTTTGGACAAGCCAGCTC
1 ATGCTTACTCCCCCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTC
18141620 A
1 A
18141621 GGAGTCGGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.35
Consensus pattern (49 bp):
ATGCTTACTCCCCCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTC
Found at i:18148692 original size:46 final size:46
Alignment explanation
Indices: 18148642--18148813 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
18148632 TGAGCATCCA
18148642 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
18148688 AACTCGTTGAGTAGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
18148735 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-G
* *
18148781 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18148814 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.53
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:18148798 original size:93 final size:93
Alignment explanation
Indices: 18148635--18148805 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
18148625 GGATGATTGA
*
18148635 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
18148700 AGAGTCCGAGTTCATGAGATGTAACTAG
66 AGAGTCCGAGTTCATGAGATGTAACTAG
* * *
18148728 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
18148792 TTGAGTCCGAGTTC
65 TAGAGTCCGAGTTC
18148806 GCTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
AGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:18157502 original size:72 final size:72
Alignment explanation
Indices: 18157419--18157561 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
18157409 CCTAAGTCCG
*
18157419 AAAAATTCAAAAATTCAACCGGGTTTTGGCCAACACATGGGCCTTCTATAAGCCCATTTACCTAC
1 AAAAAGTCAAAAATTCAACCGGGTTTTGGCCAACACATGGGCCTTCTATAAGCCCATTTACCTAC
18157484 TCAAAAA
66 TCAAAAA
18157491 AAAAAGTCAAAAATTCAACCGGGTTTTGGCCAACACATGGGCCTTCTATAAGCCCATTTACCTAC
1 AAAAAGTCAAAAATTCAACCGGGTTTTGGCCAACACATGGGCCTTCTATAAGCCCATTTACCTAC
18157556 TCAAAA
66 TCAAAA
18157562 TATTAATTTC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (72 bp):
AAAAAGTCAAAAATTCAACCGGGTTTTGGCCAACACATGGGCCTTCTATAAGCCCATTTACCTAC
TCAAAAA
Found at i:18175128 original size:31 final size:31
Alignment explanation
Indices: 18175070--18175138 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
18175060 TTAACAGCCC
* * * *
18175070 AATAGTTTAAATTAAAACTTTCGAATAATTT
1 AATAATTTAAATAAAAACTTTCAAATAACTT
* *
18175101 AGTAATTTAAATAAAAATTTTCAAATAACTT
1 AATAATTTAAATAAAAACTTTCAAATAACTT
18175132 AATAATT
1 AATAATT
18175139 ATTTTATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (31 bp):
AATAATTTAAATAAAAACTTTCAAATAACTT
Found at i:18190367 original size:3 final size:3
Alignment explanation
Indices: 18190361--18190459 Score: 105
Period size: 3 Copynumber: 34.0 Consensus size: 3
18190351 TTTTTTTTTC
* * *
18190361 TCT TCT TCT TCT TCT TCT TTT TCT TC- TCC TAT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * * *
18190408 CCT TC- TCC TAT TCT TTT TCT TCT TCT TCT TCT TCT T-T TCC TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
18190454 TCT TCT
1 TCT TCT
18190460 ACTGCCCAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
2 6 0.08
3 73 0.92
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:18190388 original size:26 final size:26
Alignment explanation
Indices: 18190358--18190459 Score: 116
Period size: 26 Copynumber: 3.9 Consensus size: 26
18190348 ATATTTTTTT
*
18190358 TTCTCTTCTTCTTCTTCTTCTTTTTC
1 TTCTCTTCTTCTTCTTCTTCTTCTTC
* * *
18190384 TTCTCCTATTCTTCTTCTTCTTCTCC
1 TTCTCTTCTTCTTCTTCTTCTTCTTC
* * *
18190410 TTCTCCTATTCTTTTTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTCTTCTTCTTC
*
18190436 TTCTTCTT-TTCCTCTTCTTCTTCT
1 TTC-TCTTCTTCTTCTTCTTCTTCT
18190460 ACTGCCCAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 63 0.95
27 3 0.05
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (26 bp):
TTCTCTTCTTCTTCTTCTTCTTCTTC
Found at i:18190397 original size:20 final size:20
Alignment explanation
Indices: 18190372--18190459 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
18190362 CTTCTTCTTC
*
18190372 TTCTTCTTTTTCTTCTCCTA
1 TTCTTCTTCTTCTTCTCCTA
18190392 TTCTTCTTCTTCTTCTCCT-
1 TTCTTCTTCTTCTTCTCCTA
* * * *
18190411 TCTCCTATTCTT-TT-TCTTC
1 T-TCTTCTTCTTCTTCTCCTA
* *
18190430 TTCTTCTTCTTCTTTTCCTC
1 TTCTTCTTCTTCTTCTCCTA
18190450 TTCTTCTTCT
1 TTCTTCTTCT
18190460 ACTGCCCAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
18 11 0.19
19 6 0.11
20 40 0.70
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (20 bp):
TTCTTCTTCTTCTTCTCCTA
Found at i:18194311 original size:4 final size:4
Alignment explanation
Indices: 18194304--18194335 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
18194294 AAAACTATTT
18194304 ATAA ATAA A-AA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
18194336 ATGTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:18200006 original size:22 final size:21
Alignment explanation
Indices: 18199981--18200021 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18199971 AAAGCCTCAT
18199981 TTTTCTTTCGATTTTATTTTCC
1 TTTTCTTT-GATTTTATTTTCC
*
18200003 TTTTCTTTGATTTTTTTTT
1 TTTTCTTTGATTTTATTTT
18200022 ATCTATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTCTTTGATTTTATTTTCC
Found at i:18200670 original size:14 final size:14
Alignment explanation
Indices: 18200653--18200682 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18200643 TACTTTATTA
18200653 TTATTATTATTTAT
1 TTATTATTATTTAT
18200667 TTATTATTATTTAT
1 TTATTATTATTTAT
18200681 TT
1 TT
18200683 GTTTCAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTATTATTTAT
Found at i:18200670 original size:17 final size:16
Alignment explanation
Indices: 18200641--18200681 Score: 59
Period size: 14 Copynumber: 2.6 Consensus size: 16
18200631 TACGTTTTGG
18200641 ATTACTTTATTATTATT
1 ATTA-TTTATTATTATT
18200658 ATTATTTA-T-TTATT
1 ATTATTTATTATTATT
18200672 ATTATTTATT
1 ATTATTTATT
18200682 TGTTTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.57
15 2 0.09
16 4 0.17
17 4 0.17
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATTTATTATTATT
Found at i:18200941 original size:24 final size:24
Alignment explanation
Indices: 18200914--18200959 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18200904 AAATATTCTC
*
18200914 TTTTAAAATTTTTTTATATATATA
1 TTTTAAAATTTATTTATATATATA
* *
18200938 TTTTTAAATTTATTTATGTATA
1 TTTTAAAATTTATTTATATATA
18200960 GTTCGATTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTAAAATTTATTTATATATATA
Found at i:18204559 original size:44 final size:44
Alignment explanation
Indices: 18204496--18204583 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
18204486 GAAGCTGTGG
18204496 CTCAGATTCGAGAAGTGGCTGATTATTTACAGACCTTAGCGGTT
1 CTCAGATTCGAGAAGTGGCTGATTATTTACAGACCTTAGCGGTT
* *
18204540 CTCAGATTCGAGAAGTGGCTGATTATTTACATACCTTAGTGGTT
1 CTCAGATTCGAGAAGTGGCTGATTATTTACAGACCTTAGCGGTT
18204584 TAGGCTGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
CTCAGATTCGAGAAGTGGCTGATTATTTACAGACCTTAGCGGTT
Done.