Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 147 of 290
Found at i:46821334 original size:27 final size:27
Alignment explanation
Indices: 46821071--46821353 Score: 169
Period size: 27 Copynumber: 10.4 Consensus size: 27
46821061 GTAATTTCAC
* *
46821071 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
46821098 AAT-TAGGGGTAAAATAGTAATTCTGTA
1 AATCGA-GGGTAAAATGGTAATTCTATA
*
46821125 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*** *
46821152 AATCGAGGGTACTTTGGTAATT-TTTA
1 AATCGAGGGTAAAATGGTAATTCTATA
** * * *
46821178 CAAGTCGAGGGT-ATTTCAGTAATTTTACA
1 -AA-TCGAGGGTAAAAT-GGTAATTCTATA
* *** * * *
46821207 AATCAAGGGGTATTTTAGTAATTTTACA
1 AATCGA-GGGTAAAATGGTAATTCTATA
* *** * * *
46821235 AA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATCGA-GGGTAAAATGGTAATTCTATA
* * *
46821262 AATCAAGGGTAAAATGATAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
46821289 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
46821316 AATCGAGGGTAGAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
46821343 AATCGGGGGTA
1 AATCGAGGGTA
46821354 CTTTGGTAAT
Statistics
Matches: 215, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.02
27 169 0.79
28 37 0.17
29 5 0.02
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:46850898 original size:42 final size:43
Alignment explanation
Indices: 46850851--46850973 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 43
46850841 AGGCTACCGA
* *
46850851 GATTTCAAATATGACCATATCTGGGATATGGCATTGGTATG-T
1 GATTTCAAATAAGACCATATCTGGGATATGGCATTGATATGAT
* * * * * * *
46850893 GATTTCAGATAAGACCATGTCAGGGACATGTCGTCGATATGAT
1 GATTTCAAATAAGACCATATCTGGGATATGGCATTGATATGAT
* * *
46850936 -ATTTTATATAAGACCATATCTAGGATATGGCATTGATA
1 GATTTCAAATAAGACCATATCTGGGATATGGCATTGATA
46850974 CGGTACTATG
Statistics
Matches: 62, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (43 bp):
GATTTCAAATAAGACCATATCTGGGATATGGCATTGATATGAT
Found at i:46854194 original size:48 final size:48
Alignment explanation
Indices: 46854130--46854310 Score: 236
Period size: 48 Copynumber: 3.8 Consensus size: 48
46854120 GTTATGGCAT
* * *
46854130 TGTGATCCCATTTAAGACCCTGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
*
46854178 TGTGATCCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* * *
46854226 TGTGATCCCATGTAAGACCATATCTGAGATATGGCTTTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* ** * * * *
46854274 TGCGATTTCGTGTAAGACCATTTTTGGGACGTGGCAT
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCAT
46854311 CGATATGAGA
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
Found at i:46854214 original size:42 final size:42
Alignment explanation
Indices: 46854167--46854336 Score: 117
Period size: 48 Copynumber: 3.8 Consensus size: 42
46854157 GACATGGCAT
46854167 TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGGACATGGCA
1 TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGG--A---CA
* * *
46854214 TTGGCATCGATATGTGATCCCATGTAAGACCATATCTGAGATATGGCTT
1 -TGGCATCGATATGTGATCCCATGTAAGACCATTTCTG-G----GAC-A
* ** * * *
46854263 TGGCATCGATATGCGATTTCGTGTAAGACCATTTTTGGGACG
1 TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGGACA
* *
46854305 TGGCATCGATATGAGA-CTTCATGTAAGACCAT
1 TGGCATCGATATGTGATC-CCATGTAAGACCAT
46854337 AGTTGGACTA
Statistics
Matches: 101, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 28 0.28
43 2 0.02
47 1 0.01
48 68 0.67
49 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGTGATCCCATGTAAGACCATTTCTGGGACA
Found at i:46854351 original size:42 final size:42
Alignment explanation
Indices: 46854263--46854353 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
46854253 GATATGGCTT
* * * ** *
46854263 TGGCATCGATATGCGATTTCGTGTAAGACCATTTTTGGGACG
1 TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGGACA
46854305 TGGCATCGATATGAGACTTCATGTAAGACCATAGTT-GGACTA
1 TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGGAC-A
46854347 TGGCATC
1 TGGCATC
46854354 AAGTAAACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 4 0.10
42 38 0.90
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGAGACTTCATGTAAGACCATAGTTGGGACA
Found at i:46865769 original size:43 final size:42
Alignment explanation
Indices: 46865698--46865820 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 42
46865688 CGAAAAGCTC
*
46865698 ATATAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATATGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
46865740 ATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACATGTAATCAA
1 ATAT-GATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAA
* * * * *
46865783 ATATGATGTCAACGTCCTACATGTAGTCTTACATGTAA
1 ATATGATGCCAACGTCCCAGACGTGGTCTTACATGTAA
46865821 ATCATAAGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.43
43 38 0.54
44 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
ATATGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
Found at i:46874332 original size:13 final size:13
Alignment explanation
Indices: 46874316--46874353 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
46874306 ACTCTCGGCC
*
46874316 GCCATTGGCCACT
1 GCCATTGACCACT
*
46874329 GCCATTGACCATT
1 GCCATTGACCACT
46874342 GCCATTGACCAC
1 GCCATTGACCAC
46874354 CACCGCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (13 bp):
GCCATTGACCACT
Found at i:46875484 original size:16 final size:15
Alignment explanation
Indices: 46875453--46875493 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
46875443 ATATTTATGA
46875453 AATTAATTTT-AATT
1 AATTAATTTTCAATT
46875467 AATTAATTTTCCAATT
1 AATTAATTTT-CAATT
*
46875483 AAATAATTTTC
1 AATTAATTTTC
46875494 TCAACCAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:46878445 original size:25 final size:25
Alignment explanation
Indices: 46878411--46878472 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
46878401 TTGCTTTTCG
*
46878411 GAGCTTCCCGATAAATGACTCT-TA
1 GAGCTTCCCGATAAATGACTCTCCA
*
46878435 TGAGCTTCCCG-TTAATGACTCTCCA
1 -GAGCTTCCCGATAAATGACTCTCCA
46878460 GAGCTTCCCGATA
1 GAGCTTCCCGATA
46878473 TTGGCTCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGATAAATGACTCTCCA
Found at i:46878456 original size:24 final size:24
Alignment explanation
Indices: 46878326--46878603 Score: 166
Period size: 25 Copynumber: 11.2 Consensus size: 24
46878316 TCCCAATATT
* * *
46878326 TGGCTCTGACGAGCTTCCCGTAAA
1 TGGCTCTCATGAGCTTCCCGTTAA
* *** *
46878350 TGGTTCTTGCGAGCTTCCCGATTCA
1 TGGCTCTCATGAGCTTCCCG-TTAA
* *
46878375 TGGCTCTCTTTTGAGCTTCCCGTTTA
1 TGGCTCTC--ATGAGCTTCCCGTTAA
* * * *
46878401 TTGCTTTTC-GGAGCTTCCCGATAAA
1 TGGC-TCTCATGAGCTTCCCG-TTAA
* *
46878426 TGACTCTTATGAGCTTCCCGTTAA
1 TGGCTCTCATGAGCTTCCCGTTAA
* * *
46878450 TGACTCTCCA-GAGCTTCCCGATAT
1 TGGCTCT-CATGAGCTTCCCGTTAA
* * * * *
46878474 TGGCTCACTTGAACTTGCCATTAA
1 TGGCTCTCATGAGCTTCCCGTTAA
*
46878498 TGGCTCTCCA-GAGCTTCCCTTTATA
1 TGGCTCT-CATGAGCTTCCCGTTA-A
* * *
46878523 TGCCTCACATGAGCTTCTCGTTATA
1 TGGCTCTCATGAGCTTCCCGTTA-A
*
46878548 TGGCTCACATGAGCTTCCCGTTACA
1 TGGCTCTCATGAGCTTCCCGTTA-A
*
46878573 TGGCTCACATGAGCTTCCCGTTATA
1 TGGCTCTCATGAGCTTCCCGTTA-A
46878598 TGGCTC
1 TGGCTC
46878604 AAAAGAGCTT
Statistics
Matches: 198, Mismatches: 45, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
23 1 0.01
24 83 0.42
25 95 0.48
26 6 0.03
27 13 0.07
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.34
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGTTAA
Found at i:46878546 original size:25 final size:25
Alignment explanation
Indices: 46878411--46878614 Score: 184
Period size: 25 Copynumber: 8.3 Consensus size: 25
46878401 TTGCTTTTCG
* * * **
46878411 GAGCTTCCCGATAAATGACTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* *
46878436 GAGCTTCCCGTTA-ATGACTCTCCA-
1 GAGCTTCCCGTTATATGGCTC-ACAT
* *
46878460 GAGCTTCCCGATAT-TGGCTCACTT
1 GAGCTTCCCGTTATATGGCTCACAT
* * * *
46878484 GAACTTGCCATTA-ATGGCTCTCCA-
1 GAGCTTCCCGTTATATGGCTC-ACAT
* *
46878508 GAGCTTCCCTTTATATGCCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
46878533 GAGCTTCTCGTTATATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
46878558 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
* *
46878583 GAGCTTCCCGTTATATGGCTCAAAA
1 GAGCTTCCCGTTATATGGCTCACAT
46878608 GAGCTTC
1 GAGCTTC
46878615 TCGATTTCAT
Statistics
Matches: 146, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.01
24 51 0.35
25 94 0.64
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:46884141 original size:22 final size:21
Alignment explanation
Indices: 46884112--46884152 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
46884102 TTGGTCCTTC
46884112 TTTTTTTTATTTTCTAATTTA
1 TTTTTTTTATTTTCTAATTTA
46884133 TTTTATTTTATTTTCTAATT
1 TTTT-TTTTATTTTCTAATT
46884153 CGACCCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTTATTTTCTAATTTA
Found at i:46884475 original size:13 final size:13
Alignment explanation
Indices: 46884432--46884531 Score: 66
Period size: 13 Copynumber: 7.8 Consensus size: 13
46884422 TATTATCCAT
*
46884432 TATATTATTATTA
1 TATATTTTTATTA
*
46884445 TAT-TTTTTA-AA
1 TATATTTTTATTA
*
46884456 TAT-TTTTTATCA
1 TATATTTTTATTA
46884468 TATATTTTTATTA
1 TATATTTTTATTA
* *
46884481 TATATATTTATTCC
1 TATATTTTTATT-A
*
46884495 T-T-TTTTATGTTA
1 TATATTTT-TATTA
* *
46884507 TATATTTATGTTA
1 TATATTTTTATTA
46884520 CTATATTTTTAT
1 -TATATTTTTAT
46884532 ATGAAGAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
11 10 0.15
12 13 0.19
13 32 0.47
14 13 0.19
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (13 bp):
TATATTTTTATTA
Found at i:46884600 original size:15 final size:15
Alignment explanation
Indices: 46884576--46884714 Score: 58
Period size: 15 Copynumber: 9.3 Consensus size: 15
46884566 ATCCCTTATC
46884576 ATATTATATTTCAT-T
1 ATATTATATTT-ATAT
*
46884591 ATATTCTATTTATAT
1 ATATTATATTTATAT
* *
46884606 ATATT-TGTTACATATT
1 ATATTATATT-TATA-T
* *
46884622 ATGTTTTA-TTATAT
1 ATATTATATTTATAT
* *
46884636 ATCATAATATTTTTAT
1 AT-ATTATATTTATAT
*
46884652 ATATTGTA-TTATAT
1 ATATTATATTTATAT
**
46884666 ACGTTATA-TTATAT
1 ATATTATATTTATAT
* *
46884680 AT-TTTTATATTATAC
1 ATATTATAT-TTATAT
*
46884695 A-ATTTATATTTTTAT
1 ATA-TTATATTTATAT
46884710 ATATT
1 ATATT
46884715 TTAAAAAAAA
Statistics
Matches: 91, Mismatches: 22, Indels: 22
0.67 0.16 0.16
Matches are distributed among these distances:
13 4 0.04
14 25 0.27
15 42 0.46
16 19 0.21
17 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (15 bp):
ATATTATATTTATAT
Found at i:46887686 original size:29 final size:27
Alignment explanation
Indices: 46887624--46887705 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 27
46887614 TTTTTAAATT
*
46887624 ATTATAAAATTATTAAATAATAATTATAA
1 ATTATAAAA-TATT-ATTAATAATTATAA
46887653 ATTATAAAA-ATTATTAATAATTATAAA
1 ATTATAAAATATTATTAATAATTAT-AA
*
46887680 TAGTTATAAAATATTATCAA-AATTAT
1 -A-TTATAAAATATTATTAATAATTAT
46887706 TAAGAATTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.23
27 5 0.11
28 1 0.02
29 23 0.49
30 7 0.15
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
ATTATAAAATATTATTAATAATTATAA
Found at i:46887696 original size:39 final size:39
Alignment explanation
Indices: 46887653--46887728 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
46887643 ATAATTATAA
* *
46887653 ATTATAAAAATTATTAATAATTATAAATAGTTATAAAAT
1 ATTATAAAAATTATTAAGAATTATAAAAAGTTATAAAAT
* *
46887692 ATTATCAAAATTATTAAGAATTCTAAAAAGTTATAAA
1 ATTATAAAAATTATTAAGAATTATAAAAAGTTATAAA
46887729 TTCTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (39 bp):
ATTATAAAAATTATTAAGAATTATAAAAAGTTATAAAAT
Found at i:46887728 original size:10 final size:9
Alignment explanation
Indices: 46887624--46887728 Score: 68
Period size: 10 Copynumber: 10.9 Consensus size: 9
46887614 TTTTTAAATT
46887624 ATTAT-AAA
1 ATTATAAAA
46887632 ATTATTAAATA
1 ATTA-TAAA-A
* *
46887643 ATAATTATAA
1 ATTA-TAAAA
46887653 ATTATAAAA
1 ATTATAAAA
*
46887662 ATTATTAATA
1 ATTA-TAAAA
46887672 ATTATAAATA
1 ATTATAAA-A
*
46887682 GTTATAAAA
1 ATTATAAAA
*
46887691 TATTATCAAA
1 -ATTATAAAA
*
46887701 ATTATTAAGA
1 ATTA-TAAAA
*
46887711 ATTCTAAAA
1 ATTATAAAA
46887720 AGTTATAAA
1 A-TTATAAA
46887729 TTCTTTTTAT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
8 4 0.05
9 22 0.29
10 41 0.55
11 8 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (9 bp):
ATTATAAAA
Found at i:46898221 original size:43 final size:44
Alignment explanation
Indices: 46898115--46898286 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 44
46898105 ATATAGCTTG
* * * * *
46898115 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAT-
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATA
* * * *
46898157 TATCGATACTAATGTCCCAGACATGGTCTTACACGAAATCATATA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATA
* * *
46898202 -ACGATGTCAATGTCCCAGACATGGTCTTACACGTAATCACA-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATA
* * *
46898244 TACAATGCCAATTTCCCAGAAATGGTCTTACATGTAATCATAT
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATAT
46898287 CTCGGTAATC
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.03
43 74 0.70
44 28 0.27
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (44 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATA
Found at i:46898284 original size:86 final size:87
Alignment explanation
Indices: 46898127--46898286 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 87
46898117 CAATGCCATA
* * * * * * *
46898127 TCCCAGATATGGTCTTACATGTTATCACATTATCGATACTAATGTCCCAGACATGGTCTTACACG
1 TCCCAGACATGGTCTTACACGTAATCACAATATCAATACCAATGTCCCAGAAATGGTCTTACACG
46898192 AAATCATATAACGATGTCAATG
66 AAATCATATAACGATGTCAATG
* * *
46898214 TCCCAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATTTCCCAGAAATGGTCTTACATG
1 TCCCAGACATGGTCTTACACGTAATCACAATATCAATACCAATGTCCCAGAAATGGTCTTACACG
*
46898278 TAATCATAT
66 AAATCATAT
46898287 CTCGGTAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
86 34 0.55
87 28 0.45
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (87 bp):
TCCCAGACATGGTCTTACACGTAATCACAATATCAATACCAATGTCCCAGAAATGGTCTTACACG
AAATCATATAACGATGTCAATG
Found at i:46902665 original size:42 final size:42
Alignment explanation
Indices: 46902603--46902685 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
46902593 TGTGCGTTTC
* *
46902603 CGGTCTCTATCTCTTAACCAAAGTACTAATGAGTGAGGGATT
1 CGGTCTCTATCTCTTAACCAAAGCACTAACGAGTGAGGGATT
* * * *
46902645 CGGTCTCTGTGTCTTGACCAAAGCACTAACGAGTGGGGGAT
1 CGGTCTCTATCTCTTAACCAAAGCACTAACGAGTGAGGGAT
46902686 CCAATTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
CGGTCTCTATCTCTTAACCAAAGCACTAACGAGTGAGGGATT
Found at i:46907974 original size:14 final size:14
Alignment explanation
Indices: 46907947--46907993 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
46907937 ATAAATATAA
*
46907947 ATTTATTTATATTTAT
1 ATTT-TTTA-ATTTTT
46907963 ATTTTTTAATTTTT
1 ATTTTTTAATTTTT
*
46907977 AATTTTTAATTTTT
1 ATTTTTTAATTTTT
46907991 ATT
1 ATT
46907994 ATATCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 20 0.71
15 4 0.14
16 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTTTAATTTTT
Found at i:46907977 original size:7 final size:7
Alignment explanation
Indices: 46907965--46907991 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46907955 ATATTTATAT
46907965 TTTTTAA
1 TTTTTAA
46907972 TTTTTAA
1 TTTTTAA
46907979 TTTTTAA
1 TTTTTAA
46907986 TTTTTA
1 TTTTTA
46907992 TTATATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:46910469 original size:32 final size:32
Alignment explanation
Indices: 46910430--46910589 Score: 239
Period size: 32 Copynumber: 5.0 Consensus size: 32
46910420 CATAAAAAAT
* * *
46910430 ATCATACATCAGGTTTACCTATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
46910462 ATCATACATTAGTTTTGCATATAAAAAAGTAT
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
46910494 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
46910526 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
46910558 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
46910590 CATAGTTATA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 113 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:46910499 original size:64 final size:64
Alignment explanation
Indices: 46910428--46910589 Score: 270
Period size: 64 Copynumber: 2.5 Consensus size: 64
46910418 AACATAAAAA
* *
46910428 ATATCATACATCAGGTTTACCTATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* *
46910492 ATATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* *
46910556 AGATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATATCATACATTAGGTTTACATATAAAAAAGTAG
46910590 CATAGTTATA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 91 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (64 bp):
ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
Found at i:46915842 original size:15 final size:15
Alignment explanation
Indices: 46915822--46915853 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46915812 TCGCACATTA
*
46915822 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
46915837 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
46915852 TT
1 TT
46915854 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:46917205 original size:25 final size:25
Alignment explanation
Indices: 46917169--46917238 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
46917159 GAACTGGTTA
* * *
46917169 GGTCGTCATTGACCTAGACC-GATCG
1 GGTCATCATTGACCCAAACCAG-TCG
*
46917194 GGTCATCTTTGACCCAAACCAGTCG
1 GGTCATCATTGACCCAAACCAGTCG
*
46917219 GGTCATCATTGACTCAAACC
1 GGTCATCATTGACCCAAACC
46917239 GAACTAGCAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (25 bp):
GGTCATCATTGACCCAAACCAGTCG
Found at i:46920944 original size:48 final size:48
Alignment explanation
Indices: 46920885--46921203 Score: 281
Period size: 48 Copynumber: 6.6 Consensus size: 48
46920875 TATGTGTGCT
*
46920885 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * *
46920933 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATG-TAATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAT-ATGAGAGCC
* * *
46920981 AGTGTAAGACCACGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * * * * *
46921029 AGTGTAAGACCATATCTAGGACATGGCATCGG-TATTGATATGTA-CGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATG-AGAGCC
** * * **
46921077 AGTGTAAGACCATGTCTGGGACATGGCATC-AACATTGAGACT-AGAGAA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATA-TGAGAGCC
** * ** *
46921125 AGTGTAAGACCATGTCTGGGACATGGCATCTACCTCGACGTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* *
46921173 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
46921204 ATAATTCACC
Statistics
Matches: 220, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
47 4 0.02
48 210 0.95
49 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:46925375 original size:13 final size:13
Alignment explanation
Indices: 46925357--46925430 Score: 69
Period size: 13 Copynumber: 5.7 Consensus size: 13
46925347 TCTTCATTGT
46925357 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
46925370 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
46925382 TTATGAAAAAGTAC
1 TTTTG-AAAAGTGC
* **
46925396 TTTTGAGAAGAAC
1 TTTTGAAAAGTGC
*
46925409 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
*
46925422 TTTAGAAAA
1 TTTTGAAAA
46925431 ATTTAAGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
12 4 0.08
13 42 0.84
14 4 0.08
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:46925468 original size:68 final size:68
Alignment explanation
Indices: 46925387--46925605 Score: 184
Period size: 68 Copynumber: 3.2 Consensus size: 68
46925377 AAGTGTTATG
46925387 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
1 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
46925452 GTT
66 GTT
* * * * * * * *** *
46925455 AAAAAGTGCTTTTGAAAAGTAAAATGTT---CA-T--TTTAGACATGATATTATAA-AGTAACAA
1 AAAAAGTACTTTTGAGAAG--AACTTTTGAGAAGTGCTTTAGA-A--AAATT-TAAGTGTTTGAT
*
46925513 ATATG-TATTT
60 AT-TGCT-GTT
46925523 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
1 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
*
46925588 GTC
66 GTT
*
46925591 AAAAAGTGCTTTTGA
1 AAAAAGTACTTTTGA
46925606 AAAGTAAAAT
Statistics
Matches: 109, Mismatches: 26, Indels: 32
0.65 0.16 0.19
Matches are distributed among these distances:
64 6 0.06
65 1 0.01
66 6 0.06
67 11 0.10
68 61 0.56
69 11 0.10
70 6 0.06
71 1 0.01
72 6 0.06
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.37
Consensus pattern (68 bp):
AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
GTT
Found at i:46925560 original size:13 final size:13
Alignment explanation
Indices: 46925526--46925560 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
46925516 TGTATTTAAA
46925526 AAGTACTTTTGAG
1 AAGTACTTTTGAG
*
46925539 AAGAACTTTTGAG
1 AAGTACTTTTGAG
*
46925552 AAGTGCTTT
1 AAGTACTTT
46925561 AGAAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:46925631 original size:136 final size:136
Alignment explanation
Indices: 46925387--46925661 Score: 541
Period size: 136 Copynumber: 2.0 Consensus size: 136
46925377 AAGTGTTATG
46925387 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
1 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
*
46925452 GTTAAAAAGTGCTTTTGAAAAGTAAAATGTTCATTTTAGACATGATATTATAAAGTAACAAATAT
66 GTCAAAAAGTGCTTTTGAAAAGTAAAATGTTCATTTTAGACATGATATTATAAAGTAACAAATAT
46925517 GTATTT
131 GTATTT
46925523 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
1 AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
46925588 GTCAAAAAGTGCTTTTGAAAAGTAAAATGTTCATTTTAGACATGATATTATAAAGTAACAAATAT
66 GTCAAAAAGTGCTTTTGAAAAGTAAAATGTTCATTTTAGACATGATATTATAAAGTAACAAATAT
46925653 GTATTT
131 GTATTT
46925659 AAA
1 AAA
46925662 TAATGTTTAA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 138 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (136 bp):
AAAAAGTACTTTTGAGAAGAACTTTTGAGAAGTGCTTTAGAAAAATTTAAGTGTTTGATATTGCT
GTCAAAAAGTGCTTTTGAAAAGTAAAATGTTCATTTTAGACATGATATTATAAAGTAACAAATAT
GTATTT
Found at i:46925841 original size:18 final size:18
Alignment explanation
Indices: 46925796--46925855 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 18
46925786 TAATTATTTA
* *
46925796 TTAAATTTAATTAGAATA-
1 TTAAATATATTTA-AATAT
46925814 TTAAACTATATTTAAATAT
1 TTAAA-TATATTTAAATAT
46925833 TTAAATATAATAATTAAATAT
1 TTAAATAT-AT--TTAAATAT
46925854 TT
1 TT
46925856 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 12 0.34
19 13 0.37
21 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAAATATATTTAAATAT
Found at i:46935497 original size:59 final size:59
Alignment explanation
Indices: 46935405--46935521 Score: 234
Period size: 59 Copynumber: 2.0 Consensus size: 59
46935395 ATAACTTACC
46935405 ATTTCAATAATACAATTCAATCCATTTGCATACTTACCATTTTGTTCCCTTTTCTTTCT
1 ATTTCAATAATACAATTCAATCCATTTGCATACTTACCATTTTGTTCCCTTTTCTTTCT
46935464 ATTTCAATAATACAATTCAATCCATTTGCATACTTACCATTTTGTTCCCTTTTCTTTC
1 ATTTCAATAATACAATTCAATCCATTTGCATACTTACCATTTTGTTCCCTTTTCTTTC
46935522 CTGTTGAATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (59 bp):
ATTTCAATAATACAATTCAATCCATTTGCATACTTACCATTTTGTTCCCTTTTCTTTCT
Found at i:46936984 original size:21 final size:21
Alignment explanation
Indices: 46936934--46936988 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
46936924 GCTGCTACAT
* *
46936934 TTTTCATTAGTTTTAGCTAGT
1 TTTTCATTCGTTTTAGCTAGG
*
46936955 TTTTCATTCGTTTTAGCTGGG
1 TTTTCATTCGTTTTAGCTAGG
46936976 TTTTCATTC-TTTT
1 TTTTCATTCGTTTT
46936989 CATCTTCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.60
Consensus pattern (21 bp):
TTTTCATTCGTTTTAGCTAGG
Found at i:46939250 original size:22 final size:22
Alignment explanation
Indices: 46939225--46939267 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
46939215 CAAGGGCGTG
*
46939225 TGACTCAGTCAAGTGTGACACA
1 TGACTCAGTCAAGTGCGACACA
46939247 TGACTCAGTCAAGTGCGACAC
1 TGACTCAGTCAAGTGCGACAC
46939268 GACCGTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (22 bp):
TGACTCAGTCAAGTGCGACACA
Found at i:46950244 original size:42 final size:43
Alignment explanation
Indices: 46950198--46950287 Score: 96
Period size: 43 Copynumber: 2.1 Consensus size: 43
46950188 AGACCATGTT
** *
46950198 TGGGAAATTGGCATCG-TATCTG-ATTTCATGTAAGACC-CTATC
1 TGGGAAAGAGGCATCGATAT-TGAATTACATGTAAGACCAC-ATC
* *
46950240 TGGGACAGAGGCTTCGATATTGAATTACATGTAAGACCACATC
1 TGGGAAAGAGGCATCGATATTGAATTACATGTAAGACCACATC
46950283 TGGGA
1 TGGGA
46950288 TGTCGGTAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
42 14 0.35
43 25 0.62
44 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TGGGAAAGAGGCATCGATATTGAATTACATGTAAGACCACATC
Found at i:46956538 original size:37 final size:37
Alignment explanation
Indices: 46956488--46956559 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
46956478 ACATGCTTTC
*
46956488 GGATGAATCATTCATCCTTATTACCGAAAATCACATT
1 GGATGAATCATTCATCCTTATTACCAAAAATCACATT
46956525 GGATGAATCATTCATCCTTATTACCAAAAATCACA
1 GGATGAATCATTCATCCTTATTACCAAAAATCACA
46956560 AGAAAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (37 bp):
GGATGAATCATTCATCCTTATTACCAAAAATCACATT
Found at i:46958608 original size:119 final size:119
Alignment explanation
Indices: 46958370--46958610 Score: 292
Period size: 119 Copynumber: 2.0 Consensus size: 119
46958360 CTCTTGTCCA
* *
46958370 TCTGTGTCGATGCCATGTCCCAGAACGGTCTTACACTGACACATATCAAGTCGATGCCATGTCCC
1 TCTGTGTCGACGCCATGTCCCAGAACGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCC
* * **
46958435 AGACATGGTCTTACACTAGCTTTCACGATGTGGCTGATGCATCTCCCAGTCATG
66 AGACATGGTCTTACACTAGCTTTCACGATGAGGCAGATGCATCTCCCAAACATG
* * *
46958489 TCTGTGTCGACGCCATGTCCTAGACATGGTCTTACACTGACACATCTCATAGCCGATG-CATGTC
1 TCTGTGTCGACGCCATGTCCCAGA-ACGGTCTTACACTGACACATATCA-AGCCGATGCCATGTC
* * * * *
46958553 CTAGACAT-GTCTTACACTGGC-TT-ACGTCTCGAGGCAGATGCATGTCCGAAACATG
64 CCAGACATGGTCTTACACTAGCTTTCACG-AT-GAGGCAGATGCATCTCCCAAACATG
46958608 TCT
1 TCT
46958611 TACACTAGCA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
117 3 0.03
118 3 0.03
119 56 0.54
120 35 0.34
121 7 0.07
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (119 bp):
TCTGTGTCGACGCCATGTCCCAGAACGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCTTTCACGATGAGGCAGATGCATCTCCCAAACATG
Found at i:46963407 original size:50 final size:47
Alignment explanation
Indices: 46963295--46963418 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 47
46963285 TATTATGAAA
*
46963295 GGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACAAGATGT
1 GGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACTACAAGATGT
* * *
46963340 GTC-AGTGTAAGACCATGTCTAGGACATGGCATCGAC-ACGGATATGT
1 GGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACTAC-AAGATGT
*
46963386 GAGAGCTAGTGTAAGACCATGTCTGGGACATGG
1 --G-GCTAGTGTAAGACCATGTCTAGGACATGG
46963419 TGTCGGCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
44 9 0.14
45 18 0.27
46 12 0.18
48 1 0.02
49 1 0.02
50 25 0.38
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
GGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACTACAAGATGT
Found at i:46969534 original size:35 final size:35
Alignment explanation
Indices: 46969488--46969559 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
46969478 ACGCAATTGG
46969488 ACTACCTTCAGGATCAGTCTGCGACATATTAGTCT
1 ACTACCTTCAGGATCAGTCTGCGACATATTAGTCT
46969523 ACTACCTTCAGGATCAGTCTGCGACATATTAGTCT
1 ACTACCTTCAGGATCAGTCTGCGACATATTAGTCT
46969558 AC
1 AC
46969560 GGCATGGTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (35 bp):
ACTACCTTCAGGATCAGTCTGCGACATATTAGTCT
Found at i:46970068 original size:24 final size:24
Alignment explanation
Indices: 46970036--46970084 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
46970026 TACAGATCAA
46970036 AATTTTCTATAGAACTCAACACCT
1 AATTTTCTATAGAACTCAACACCT
*
46970060 AATTTTCTATAGAATTCAACACCT
1 AATTTTCTATAGAACTCAACACCT
46970084 A
1 A
46970085 TGAATATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (24 bp):
AATTTTCTATAGAACTCAACACCT
Found at i:46978136 original size:21 final size:22
Alignment explanation
Indices: 46978110--46978150 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
46978100 GACTAGCCAC
46978110 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
46978131 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
46978151 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:46979439 original size:46 final size:46
Alignment explanation
Indices: 46979342--46979512 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
46979332 AACTCGTAGT
* * * * * * *
46979342 CGATGCATGTCTCAGACATGTCTTACATTGGCTT-ACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAG-TTCTCGTATCAATGC
*
46979388 TGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGC
* * *
46979434 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATAATATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTCGTATCA-AT-GC
* *
46979482 CAATGCATGTCCCAAACATGTCTTACACTAG
1 CGATGCATGTCCCAGACATGTCTTACACTAG
46979513 CTCACAATAA
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
45 2 0.02
46 53 0.50
47 29 0.28
48 21 0.20
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGC
Found at i:46979491 original size:47 final size:45
Alignment explanation
Indices: 46979390--46979515 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 45
46979380 CTCGAGGCTG
* * *
46979390 ATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAT-AATGCCA
*
46979436 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATATGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATA-AT-GCCA
*
46979484 ATGCATGTCCCAAACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
46979516 ACAATAACCT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 18 0.26
47 29 0.41
48 23 0.33
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATAATGCCA
Found at i:46982677 original size:10 final size:10
Alignment explanation
Indices: 46982662--46982686 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46982652 CGGGAGATCC
46982662 TTTTGGTAGA
1 TTTTGGTAGA
46982672 TTTTGGTAGA
1 TTTTGGTAGA
46982682 TTTTG
1 TTTTG
46982687 AATACAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (10 bp):
TTTTGGTAGA
Found at i:46983558 original size:64 final size:65
Alignment explanation
Indices: 46983455--46983613 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 65
46983445 CACAGCTCAG
* * * * *
46983455 CACGCCCGTGTCCCTTGCCCATATAAC-TCTAAATTTGAACTCAAAGAGTTACAC-GATATGGAC
1 CACGCCCGTGTCCCCTACCCATGTGACTTCTAAATCTGAACTCAAAGAGTTACACAGAT-TGGAC
46983518 A
65 A
* * *
46983519 GACGCCCGTGTCCCCTACCCATGTGACTTC-AAATCTGAACTCAAGGAGTTACACAGCTTGGACA
1 CACGCCCGTGTCCCCTACCCATGTGACTTCTAAATCTGAACTCAAAGAGTTACACAGATTGGACA
** * **
46983583 CACGTTCGTATGTCCTACCCATGTGACTTCT
1 CACGCCCGTGTCCCCTACCCATGTGACTTCT
46983614 GCACATCGTT
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
64 74 0.95
65 4 0.05
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (65 bp):
CACGCCCGTGTCCCCTACCCATGTGACTTCTAAATCTGAACTCAAAGAGTTACACAGATTGGACA
Found at i:46986214 original size:43 final size:43
Alignment explanation
Indices: 46986162--46986273 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
46986152 ACATATCGAT
* * *
46986162 GCCACTGTCCCAGACA-GTGTCTTACACAAAATCT-ATTAACGAC
1 GCCAATGTCCCAGACATG-GTCTTACACAAAATCTCAAT-ACAAC
** *
46986205 GCCAATGTCCCAGACATGGTCTTACACTTAATCTCAATACAAT
1 GCCAATGTCCCAGACATGGTCTTACACAAAATCTCAATACAAC
*
46986248 GCCAATGTCCCAGACATGGTTTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
46986274 TGTAATCACA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 57 0.95
44 3 0.05
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACAAAATCTCAATACAAC
Found at i:47001691 original size:22 final size:22
Alignment explanation
Indices: 47001647--47001691 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
47001637 AAACAATATG
* *
47001647 AAACTAAAGGAACTCAACAAAA
1 AAACTAAAGCAACTAAACAAAA
*
47001669 AAACTAAAGCAA-TAAACATAA
1 AAACTAAAGCAACTAAACAAAA
47001690 AA
1 AA
47001692 GGAATAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.67, C:0.16, G:0.07, T:0.11
Consensus pattern (22 bp):
AAACTAAAGCAACTAAACAAAA
Found at i:47003953 original size:30 final size:29
Alignment explanation
Indices: 47003917--47003974 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
47003907 CAGAAGTTGT
47003917 GGCACTAAGTGTGCA-ATTTAAACTAGCTTG
1 GGCACTAAGTGTG-AGATTT-AACTAGCTTG
47003947 GGCACTAAGTGTGAGATTTAACTAGCTT
1 GGCACTAAGTGTGAGATTTAACTAGCTT
47003975 CGGCTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (29 bp):
GGCACTAAGTGTGAGATTTAACTAGCTTG
Found at i:47006160 original size:43 final size:43
Alignment explanation
Indices: 47006107--47006261 Score: 256
Period size: 43 Copynumber: 3.6 Consensus size: 43
47006097 CCAGCATTAC
* *
47006107 GCCTACTAGGCACAAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
* *
47006150 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
*
47006193 GCCTTCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
*
47006236 GCCTGCTAGGCACTAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
47006262 TAATACCAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
Found at i:47006302 original size:38 final size:38
Alignment explanation
Indices: 47006254--47006358 Score: 138
Period size: 38 Copynumber: 2.8 Consensus size: 38
47006244 GGCACTAAGG
* * *
47006254 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
* **
47006292 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
**
47006330 CCCGAATATTTTACCAGCACGAAGCCTGC
1 CCCGAATATAATACCAGCACGAAGCCTGC
47006359 GGGTCTTTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:47006305 original size:86 final size:86
Alignment explanation
Indices: 47006094--47006282 Score: 274
Period size: 86 Copynumber: 2.2 Consensus size: 86
47006084 ACATATCATT
** * *
47006094 TCACCAGCATTACGCCTACTAGGCACAAAGGCCCGAATACACATCACCGGCATGAAGCCTGCTAG
1 TCACCAGCACGACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGCTAG
47006159 GCACGAAGGCCCGAATACACA
66 GCACGAAGGCCCGAATACACA
* *
47006180 TCACCGGCACGACGCCTTCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGCTAG
1 TCACCAGCACGACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGCTAG
* *
47006245 GCACTAAGGCCCGAATATA-A
66 GCACGAAGGCCCGAATACACA
* *
47006265 T-ACCAGCACTAGGCCTGC
1 TCACCAGCACGACGCCTGC
47006283 AGGATTTATC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 13 0.14
85 2 0.02
86 77 0.84
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.14
Consensus pattern (86 bp):
TCACCAGCACGACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGCTAG
GCACGAAGGCCCGAATACACA
Found at i:47020736 original size:40 final size:40
Alignment explanation
Indices: 47020681--47020760 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
47020671 CTCTACGTAG
*
47020681 AGAAAAAACTGTTGTCACCAATTTTCCTTTCATACTCATT
1 AGAAAAAACTATTGTCACCAATTTTCCTTTCATACTCATT
47020721 AGAAAAAACTATTGTCACCAATTTTCCTTTCATACTCATT
1 AGAAAAAACTATTGTCACCAATTTTCCTTTCATACTCATT
47020761 CTCCTCTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.38
Consensus pattern (40 bp):
AGAAAAAACTATTGTCACCAATTTTCCTTTCATACTCATT
Found at i:47023841 original size:42 final size:42
Alignment explanation
Indices: 47023795--47023876 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
47023785 AGGAACATGC
* * *
47023795 CCGTGTAACTGAGATACGCGGTCCTATGGTTGAGAGACACAT
1 CCGTGTAACTGAGATACACGGTCATATGGCTGAGAGACACAT
* * *
47023837 CCGTGTGACTGAGATACATGGTCATGTGGCTGAGAGACAC
1 CCGTGTAACTGAGATACACGGTCATATGGCTGAGAGACAC
47023877 GCCCTGTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (42 bp):
CCGTGTAACTGAGATACACGGTCATATGGCTGAGAGACACAT
Found at i:47027370 original size:15 final size:15
Alignment explanation
Indices: 47027352--47027388 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
47027342 TGTCACATGG
47027352 GAATTCTTCCAGGCT
1 GAATTCTTCCAGGCT
*
47027367 GAATTCTTCTAGGCT
1 GAATTCTTCCAGGCT
47027382 GAATTCT
1 GAATTCT
47027389 AGAAGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (15 bp):
GAATTCTTCCAGGCT
Found at i:47032092 original size:19 final size:20
Alignment explanation
Indices: 47032057--47032100 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
47032047 AGGGACTAAA
*
47032057 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTATAAAATTTG
*
47032077 ATGAAAA-TTATAAAATTTT
1 ATGAAAAGTTATAAAATTTG
47032096 ATGAA
1 ATGAA
47032101 TACATTTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAGTTATAAAATTTG
Found at i:47036434 original size:43 final size:42
Alignment explanation
Indices: 47036382--47036467 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
47036372 ACATGTTATT
* *
47036382 ATTTACTATCGTGATAGGTTAGCCTAAATTAAAAGTAATCTA
1 ATTTACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
47036424 ATTTGACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
1 ATTT-ACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
47036467 A
1 A
47036468 ATTAAAAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (42 bp):
ATTTACTATCATGATAGGTTAGCCTAAATTAAAAGTAACCTA
Found at i:47036468 original size:16 final size:16
Alignment explanation
Indices: 47036447--47036483 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
47036437 GATAGGTTAG
47036447 CCTAAATTAAAAGTAA
1 CCTAAATTAAAAGTAA
47036463 CCTAAATTAAAAGTAA
1 CCTAAATTAAAAGTAA
*
47036479 TCTAA
1 CCTAA
47036484 TTTGGTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (16 bp):
CCTAAATTAAAAGTAA
Found at i:47039368 original size:18 final size:19
Alignment explanation
Indices: 47039347--47039397 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
47039337 TTAAAATAAA
47039347 TTTATATTTTTTGAATT-T
1 TTTATATTTTTTGAATTCT
*
47039365 TTTA-ATTTTTTTAATTCT
1 TTTATATTTTTTGAATTCT
47039383 TTT-TATTTTTATGAA
1 TTTATATTTTT-TGAA
47039398 GTGTAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 11 0.39
18 14 0.50
19 3 0.11
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTATATTTTTTGAATTCT
Found at i:47043588 original size:17 final size:18
Alignment explanation
Indices: 47043568--47043605 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
47043558 TCTTTTCAAC
47043568 TTTATTTTTA-TCTTTAT
1 TTTATTTTTATTCTTTAT
*
47043585 TTTATTTTTATTTTTTAT
1 TTTATTTTTATTCTTTAT
47043603 TTT
1 TTT
47043606 TATTCTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTATTTTTATTCTTTAT
Found at i:47043596 original size:6 final size:6
Alignment explanation
Indices: 47043568--47043609 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
47043558 TCTTTTCAAC
*
47043568 TTTATT TTTATC TTTA-T TTTATT TTTATTT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT
47043610 CTTAGAATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:47045641 original size:55 final size:53
Alignment explanation
Indices: 47045452--47045707 Score: 193
Period size: 55 Copynumber: 4.8 Consensus size: 53
47045442 ACACGGGTAC
* * * *
47045452 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG-AA
* *
47045501 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAA
* * * * * *
47045554 CTCACCAATGCCATGCCTTGGCAAGGTTTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTACCTTAT-G-AA
* ** *** *
47045609 CTTATCAATGCCATGTCTTGATTTGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG-AA
* ** *
47045662 CCTTACCAATTGCCATGCCTTGGGATGGTCTTACATGGTATCCTTA
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTTA
47045708 AACCCTAATG
Statistics
Matches: 166, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 39 0.23
50 1 0.01
52 2 0.01
53 46 0.28
54 10 0.06
55 66 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAA
Found at i:47045643 original size:108 final size:110
Alignment explanation
Indices: 47045499--47045699 Score: 273
Period size: 108 Copynumber: 1.8 Consensus size: 110
47045489 ATCCTTTTGA
* *
47045499 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTA-GAAACCTCACCAA
*
47045562 -TGCCATGCCTTGGCAAGGTTTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCAAGGTCTTACATGGGACCTTTGCCTTATAGT
* ** * * *
47045607 AACTTATCAATGCCATGTCTTGATTTGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
* *
47045672 TGCCATGCCTTGGGATGGTCTTACATGG
66 TGCCATGCCTTGGCAAGGTCTTACATGG
47045700 TATCCTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.58
109 7 0.09
110 25 0.32
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCAAGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:47046906 original size:26 final size:26
Alignment explanation
Indices: 47046876--47046928 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
47046866 AGCTATGGTT
47046876 AGGGTTTGGCCAAGCTTCCAAGCTTA
1 AGGGTTTGGCCAAGCTTCCAAGCTTA
47046902 AGGGTTTGGCCAAGCTTCCAAGCTTA
1 AGGGTTTGGCCAAGCTTCCAAGCTTA
47046928 A
1 A
47046929 TAGTAAGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (26 bp):
AGGGTTTGGCCAAGCTTCCAAGCTTA
Found at i:47053995 original size:47 final size:46
Alignment explanation
Indices: 47053940--47054141 Score: 162
Period size: 46 Copynumber: 4.3 Consensus size: 46
47053930 TCCTAGATAT
*
47053940 GGTCTTACACTGGCTCAT-ATCTC-AAGTCGATGCCATGTCCCAAACA
1 GGTCTTACACTGGCT-ATAATCTCGAAGCCGATG-CATGTCCCAAACA
* *
47053986 GGGTCTTACACTGACTATAATCTCGTAGCCGATGCATGTCCCAAACA
1 -GGTCTTACACTGGCTATAATCTCGAAGCCGATGCATGTCCCAAACA
* * * * *
47054033 TGTCTTACACTGGCT-TACGTCTCGAGGCCGATGCATGTCCTAGACA
1 GGTCTTACACTGGCTATA-ATCTCGAAGCCGATGCATGTCCCAAACA
* * * * * * *
47054079 TGCCTTACACTAGC-ACTCATCTC-AATGCCTATGCCGTGTCCCAGACA
1 GGTCTTACACTGGCTA-TAATCTCGAA-GCCGATG-CATGTCCCAAACA
47054126 TGGTCTTACACTGGCT
1 -GGTCTTACACTGGCT
47054142 CTCATAATGT
Statistics
Matches: 125, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 60 0.48
47 44 0.35
48 18 0.14
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GGTCTTACACTGGCTATAATCTCGAAGCCGATGCATGTCCCAAACA
Found at i:47054175 original size:22 final size:22
Alignment explanation
Indices: 47054147--47054192 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
47054137 TGGCTCTCAT
47054147 AATGTGGCCAATGCATGTCCCA
1 AATGTGGCCAATGCATGTCCCA
47054169 AATGTGGCCAATGCATGTCCCA
1 AATGTGGCCAATGCATGTCCCA
47054191 AA
1 AA
47054193 CATGTCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (22 bp):
AATGTGGCCAATGCATGTCCCA
Found at i:47057889 original size:27 final size:28
Alignment explanation
Indices: 47057846--47057912 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
47057836 AAACACTATT
*
47057846 AAAA-ATAATAAAAAATACAAATT-T-TA
1 AAAATATAATATAAAATA-AAATTATATA
*
47057872 AAAATATAATATATAATAAAATTATATA
1 AAAATATAATATAAAATAAAATTATATA
*
47057900 AACAATTTAATAT
1 AA-AATATAATAT
47057913 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.26
27 12 0.35
28 4 0.12
29 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAATATAATATAAAATAAAATTATATA
Found at i:47067594 original size:21 final size:21
Alignment explanation
Indices: 47067570--47067610 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47067560 GTCAATAGTC
*
47067570 GAGAGCTAACCTCATCTCTAT
1 GAGAGCTAACCTCATATCTAT
*
47067591 GAGATCTAACCTCATATCTA
1 GAGAGCTAACCTCATATCTA
47067611 ATTCTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
GAGAGCTAACCTCATATCTAT
Found at i:47069479 original size:33 final size:34
Alignment explanation
Indices: 47069442--47069506 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
47069432 TTTTTGTACA
*
47069442 TAATTAAATAATTTTATTTTGAATTTT-TTTAGT
1 TAATTAAATAATTTTATTTTAAATTTTATTTAGT
* *
47069475 TAATTAAGTATTTTTATTTTAAATTTTATTTA
1 TAATTAAATAATTTTATTTTAAATTTTATTTA
47069507 TTTATCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (34 bp):
TAATTAAATAATTTTATTTTAAATTTTATTTAGT
Found at i:47070615 original size:17 final size:16
Alignment explanation
Indices: 47070584--47070614 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47070574 AAAATACTTT
47070584 ATTTAAAATTCTTTTA
1 ATTTAAAATTCTTTTA
*
47070600 ATTTTAAATTCTTTT
1 ATTTAAAATTCTTTT
47070615 TTTCATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTAAAATTCTTTTA
Found at i:47072767 original size:12 final size:12
Alignment explanation
Indices: 47072748--47072778 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47072738 GTAGGTTTCC
47072748 AAAAATGAAAAT
1 AAAAATGAAAAT
*
47072760 AGAAATGAAAAT
1 AAAAATGAAAAT
47072772 AAAAATG
1 AAAAATG
47072779 GGAACTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:47074981 original size:14 final size:14
Alignment explanation
Indices: 47074962--47075028 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
47074952 CCAGAAAAGT
47074962 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
47074976 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
*
47074991 AAATTATTTTCCAG
1 AAATCATTTTCCAG
47075005 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
47075019 AAAACATTTT
1 AAATCATTTT
47075029 ATCTGCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:47075993 original size:10 final size:10
Alignment explanation
Indices: 47075978--47076023 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
47075968 TTTAATTAAC
*
47075978 ATAAAATTAT
1 ATAAAATTTT
47075988 ATAAAATTTT
1 ATAAAATTTT
*
47075998 CTAAAATTTT
1 ATAAAATTTT
*
47076008 CTAAAATTTCT
1 ATAAAATTT-T
47076019 ATAAA
1 ATAAA
47076024 GTAATAACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 27 0.84
11 5 0.16
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:47076019 original size:9 final size:10
Alignment explanation
Indices: 47075979--47076016 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
47075969 TTAATTAACA
* *
47075979 TAAAATTATA
1 TAAAATTTTC
47075989 TAAAATTTTC
1 TAAAATTTTC
47075999 TAAAATTTTC
1 TAAAATTTTC
47076009 TAAAATTT
1 TAAAATTT
47076017 CTATAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (10 bp):
TAAAATTTTC
Found at i:47097368 original size:27 final size:26
Alignment explanation
Indices: 47097318--47097412 Score: 91
Period size: 28 Copynumber: 3.5 Consensus size: 26
47097308 GTAGTTTTGG
**
47097318 GGATTTCTTGATGCTTTTCTTATTTTT
1 GGATTTCTTGAAACTTTTC-TATTTTT
47097345 GGATTTCTTGAAACATTTTCTATTTTAT
1 GGATTTCTTGAAAC-TTTTCTATTTT-T
**
47097373 GTTTTTCTTGAAACTTTCTCTATTATTT
1 GGATTTCTTGAAACTTT-TCTATT-TTT
* *
47097401 GGGTATCTTGAA
1 GGATTTCTTGAA
47097413 GTTTTATCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.37
28 34 0.60
29 2 0.04
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (26 bp):
GGATTTCTTGAAACTTTTCTATTTTT
Found at i:47098209 original size:69 final size:68
Alignment explanation
Indices: 47098099--47098231 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 68
47098089 TTCAGCTCTC
* * * * **
47098099 TTTGTTTTTTATACAACTACCATGTTGATTGTAAGTCTCATATCTATGGAGCTTTGGCTCTCTTC
1 TTTGTTTTTGATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTTC
47098164 GTG
66 GTG
* ** *
47098167 TTTGTTTTTAGATGCAAATACCATGTTGATTATGTGTATCATATTTATGGAGCTTTACCTCTCTT
1 TTTGTTTTT-GATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTT
47098232 TCAAGTTGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
68 9 0.17
69 45 0.83
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.47
Consensus pattern (68 bp):
TTTGTTTTTGATACAAATACCATGTTGATTATAAGTATCATATCTATGGAGCTTTACCTCTCTTC
GTG
Found at i:47101244 original size:28 final size:29
Alignment explanation
Indices: 47101213--47101269 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
47101203 AAAGTGACAT
47101213 AATTATTAACAATCAAAAT-ATAAAATTC
1 AATTATTAACAATCAAAATAATAAAATTC
*
47101241 AATTATTAACAATCGAAATGAATAAAATT
1 AATTATTAACAATCAAAAT-AATAAAATT
47101270 TTACTATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.69
30 8 0.31
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (29 bp):
AATTATTAACAATCAAAATAATAAAATTC
Found at i:47103489 original size:18 final size:19
Alignment explanation
Indices: 47103468--47103504 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
47103458 TTTTTATTAA
*
47103468 TTTATATATTTT-AAATTT
1 TTTATAAATTTTGAAATTT
47103486 TTTATAAATTTTGAAATTT
1 TTTATAAATTTTGAAATTT
47103505 ATATCTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATAAATTTTGAAATTT
Found at i:47115067 original size:33 final size:33
Alignment explanation
Indices: 47115027--47115095 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
47115017 TCAATTTACC
* *
47115027 CTTTTATATATGCTATTAACAGTTTTAATTAAT
1 CTTTTATATATGCTATTAAAAATTTTAATTAAT
47115060 CTTTTATATATGCTATTAAAAATTTTAATTAAT
1 CTTTTATATATGCTATTAAAAATTTTAATTAAT
47115093 CTT
1 CTT
47115096 AATATGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (33 bp):
CTTTTATATATGCTATTAAAAATTTTAATTAAT
Found at i:47118396 original size:25 final size:24
Alignment explanation
Indices: 47118367--47118433 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
47118357 ATGTTTTCTA
*
47118367 ATTTTAAAAATAAAAA-ATGAAACCT
1 ATTTTAAAAATAAAAATAT-AAA-AT
**
47118392 ATTTTTTAAATAAAAATATAAAAT
1 ATTTTAAAAATAAAAATATAAAAT
*
47118416 ATTTTCAAAAATCAAAAT
1 ATTTT-AAAAATAAAAAT
47118434 TTATATCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 26 0.76
26 2 0.06
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.34
Consensus pattern (24 bp):
ATTTTAAAAATAAAAATATAAAAT
Found at i:47127817 original size:13 final size:14
Alignment explanation
Indices: 47127799--47127836 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
47127789 ATGGGGGTAG
47127799 GATTCTGTATATTT
1 GATTCTGTATATTT
*
47127813 G-TTCTGTACATTT
1 GATTCTGTATATTT
47127826 GATTCTG-ATAT
1 GATTCTGTATAT
47127837 CTGTATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (14 bp):
GATTCTGTATATTT
Found at i:47128204 original size:13 final size:13
Alignment explanation
Indices: 47128188--47128213 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47128178 ACTTCACGCA
47128188 AACAAATGGTTTT
1 AACAAATGGTTTT
47128201 AACAAATGGTTTT
1 AACAAATGGTTTT
47128214 TAGAAACACG
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:47130762 original size:42 final size:41
Alignment explanation
Indices: 47130706--47130862 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 41
47130696 TTACTAAGAC
* *
47130706 TATGTTAAGACCATATCTGGGATATGACATCTATGTGAGACTT
1 TATG-TAAGACCATATCTGGGATATGACATCGATATGAGA-TT
* *
47130749 TATGTAAAACCATATCTGGGATATTACATCGATATGAGATT
1 TATGTAAGACCATATCTGGGATATGACATCGATATGAGATT
* * * * * *
47130790 TCGTGTAAGACCATAGCTAGGCTATTGGCATCGATACGAGATT
1 T-ATGTAAGACCATATCTGGGATA-TGACATCGATATGAGATT
* * * *
47130833 ACATATATGACCATATCTGAGATATGACAT
1 -TATGTAAGACCATATCTGGGATATGACAT
47130863 TGGTACGGTC
Statistics
Matches: 90, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 3 0.03
42 53 0.59
43 34 0.38
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (41 bp):
TATGTAAGACCATATCTGGGATATGACATCGATATGAGATT
Found at i:47131140 original size:40 final size:40
Alignment explanation
Indices: 47131085--47131189 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
47131075 TTATGCTAAG
* *
47131085 CATTAGCGGCGCTTTTATAAAAACGCCACTATAGATCTAC-
1 CATTAACGGCGCTTTT-TAAAAACGCCACTATAGATCGACT
* *
47131125 CATTAACGGCGCTTTTGTAAAAATGCCGCTATAGATCGACT
1 CATTAACGGCGCTTTT-TAAAAACGCCACTATAGATCGACT
* *
47131166 AATTAACGGTGCTTATTTAAAAAC
1 CATTAACGGCGCTT-TTTAAAAAC
47131190 ACCGTGAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 35 0.64
41 18 0.33
42 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (40 bp):
CATTAACGGCGCTTTTTAAAAACGCCACTATAGATCGACT
Found at i:47131572 original size:14 final size:14
Alignment explanation
Indices: 47131555--47131601 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
47131545 AAAGAGATAG
47131555 TATTGAATTTAAAA
1 TATTGAATTTAAAA
*
47131569 TATTGAA--T--AG
1 TATTGAATTTAAAA
47131579 TATTGAATTTAAAA
1 TATTGAATTTAAAA
47131593 TATTGAATT
1 TATTGAATT
47131602 AATTATGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.30
12 2 0.07
14 17 0.63
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (14 bp):
TATTGAATTTAAAA
Found at i:47131580 original size:24 final size:24
Alignment explanation
Indices: 47131551--47131600 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47131541 TATTAAAGAG
47131551 ATAGTATTGAATTTAAAATATTGA
1 ATAGTATTGAATTTAAAATATTGA
47131575 ATAGTATTGAATTTAAAATATTGA
1 ATAGTATTGAATTTAAAATATTGA
47131599 AT
1 AT
47131601 TAATTATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (24 bp):
ATAGTATTGAATTTAAAATATTGA
Found at i:47131632 original size:14 final size:14
Alignment explanation
Indices: 47131610--47131654 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
47131600 TTAATTATGA
*
47131610 TTATAGTTTAGGAT
1 TTATGGTTTAGGAT
47131624 TTATGGTTTAGGAT
1 TTATGGTTTAGGAT
* *
47131638 ATATGGTTTAGGGT
1 TTATGGTTTAGGAT
47131652 TTA
1 TTA
47131655 AGGGTTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGAT
Found at i:47131752 original size:7 final size:7
Alignment explanation
Indices: 47131731--47131812 Score: 67
Period size: 7 Copynumber: 11.6 Consensus size: 7
47131721 TAGTTAGAGT
*
47131731 TTAAGGT
1 TTAAGGG
*
47131738 TTAGGGG
1 TTAAGGG
*
47131745 TTATGGG
1 TTAAGGG
47131752 TTAAGGG
1 TTAAGGG
47131759 TTAAGGG
1 TTAAGGG
47131766 TT-AGAGG
1 TTAAG-GG
* *
47131773 TTTATGG
1 TTAAGGG
* *
47131780 TTTAGAG
1 TTAAGGG
47131787 TCTAAGGG
1 T-TAAGGG
*
47131795 TTAGGGG
1 TTAAGGG
47131802 TTAAGGG
1 TTAAGGG
47131809 TTAA
1 TTAA
47131813 TGATTTAGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
6 2 0.03
7 53 0.87
8 6 0.10
ACGTcount: A:0.24, C:0.01, G:0.39, T:0.35
Consensus pattern (7 bp):
TTAAGGG
Found at i:47131804 original size:50 final size:50
Alignment explanation
Indices: 47131742--47131837 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
47131732 TAAGGTTTAG
* * *
47131742 GGGTTATGGGTTAAGGGTTAA-GGGTTAGAGGTTTATGGTTTAGAGTCTAA
1 GGGTTAGGGGTTAAGGGTTAATGAGTTAG-GGTTTAAGGTTTAGAGTCTAA
*
47131792 GGGTTAGGGGTTAAGGGTTAATGATTTAGGGTTTAAGGTTTAGAGT
1 GGGTTAGGGGTTAAGGGTTAATGAGTTAGGGTTTAAGGTTTAGAGT
47131838 TTAGTGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 36 0.88
51 5 0.12
ACGTcount: A:0.24, C:0.01, G:0.39, T:0.36
Consensus pattern (50 bp):
GGGTTAGGGGTTAAGGGTTAATGAGTTAGGGTTTAAGGTTTAGAGTCTAA
Found at i:47131810 original size:57 final size:57
Alignment explanation
Indices: 47131707--47131861 Score: 163
Period size: 57 Copynumber: 2.7 Consensus size: 57
47131697 TAGGGATTAT
* * * * *
47131707 GGTTTATGGTTTAATAG-TTAGAGTTTAAGGTTTAGGGGTTATGGGTTAAGGGTTAAG
1 GGTTTAAGGTTT-AGAGTTTAGAGTTTAAGGGTTAGGGGTTAAGGGTTAAGGATTAAG
* * *
47131764 GG-TTAGAGGTTTATG-GTTTAGAGTCTAAGGGTTAGGGGTTAAGGGTTAATGATTTAG
1 GGTTTA-AGGTTTA-GAGTTTAGAGTTTAAGGGTTAGGGGTTAAGGGTTAAGGATTAAG
* * *
47131821 GGTTTAAGGTTTAGAGTTTAGTGTTTATGGGATAGGGGTTA
1 GGTTTAAGGTTTAGAGTTTAGAGTTTAAGGGTTAGGGGTTA
47131862 GAGGCTTAGG
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
56 6 0.07
57 72 0.89
58 3 0.04
ACGTcount: A:0.24, C:0.01, G:0.36, T:0.39
Consensus pattern (57 bp):
GGTTTAAGGTTTAGAGTTTAGAGTTTAAGGGTTAGGGGTTAAGGGTTAAGGATTAAG
Found at i:47131820 original size:36 final size:36
Alignment explanation
Indices: 47131753--47131834 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
47131743 GGTTATGGGT
* * *
47131753 TAAGGGTTAAGGGTTAGAGGTTTATGGTTTAGAGTC
1 TAAGGGTTAGGGGTTAGAGGTTAATGATTTAGAGTC
* *
47131789 TAAGGGTTAGGGGTTA-AGGGTTAATGATTTAGGGTT
1 TAAGGGTTAGGGGTTAGA-GGTTAATGATTTAGAGTC
*
47131825 TAAGGTTTAG
1 TAAGGGTTAG
47131835 AGTTTAGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.26, C:0.01, G:0.37, T:0.37
Consensus pattern (36 bp):
TAAGGGTTAGGGGTTAGAGGTTAATGATTTAGAGTC
Found at i:47131826 original size:7 final size:7
Alignment explanation
Indices: 47131724--47131847 Score: 63
Period size: 7 Copynumber: 17.4 Consensus size: 7
47131714 GGTTTAATAG
*
47131724 TTAGAGT
1 TTAGGGT
*
47131731 TTAAGGT
1 TTAGGGT
*
47131738 TTAGGGG
1 TTAGGGT
47131745 TTATGGGT
1 TTA-GGGT
*
47131753 TAAGGGT
1 TTAGGGT
*
47131760 TAAGGG-
1 TTAGGGT
47131766 TTAGAGGT
1 TTAG-GGT
*
47131774 TTATGGT
1 TTAGGGT
*
47131781 TTAGAGT
1 TTAGGGT
*
47131788 CTAAGGG-
1 -TTAGGGT
47131795 TTAGGGGT
1 TTA-GGGT
*
47131803 TAAGGGT
1 TTAGGGT
* * *
47131810 TAATGAT
1 TTAGGGT
47131817 TTAGGGT
1 TTAGGGT
*
47131824 TTAAGGT
1 TTAGGGT
*
47131831 TTAGAGT
1 TTAGGGT
*
47131838 TTAGTGT
1 TTAGGGT
47131845 TTA
1 TTA
47131848 TGGGATAGGG
Statistics
Matches: 88, Mismatches: 23, Indels: 12
0.72 0.19 0.10
Matches are distributed among these distances:
6 5 0.06
7 69 0.78
8 14 0.16
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.40
Consensus pattern (7 bp):
TTAGGGT
Found at i:47131833 original size:14 final size:14
Alignment explanation
Indices: 47131694--47131847 Score: 62
Period size: 14 Copynumber: 10.9 Consensus size: 14
47131684 TGAATTATGA
* *
47131694 GTTTAGGGATTATG
1 GTTTAGGGTTTAAG
* *
47131708 GTTTATGGTTTAATA
1 GTTTAGGGTTTAA-G
*
47131723 G-TTAGAGTTTAAG
1 GTTTAGGGTTTAAG
* *
47131736 GTTTAGGGGTTATGG
1 GTTTAGGGTTTA-AG
*
47131751 GTTAAGGG-TTAAG
1 GTTTAGGGTTTAAG
* *
47131764 GGTTAGAGGTTTATG
1 GTTTAG-GGTTTAAG
* *
47131779 GTTTAGAGTCTAAG
1 GTTTAGGGTTTAAG
* *
47131793 GGTTAGGGGTTAAGG
1 GTTTAGGGTTTAA-G
* * * *
47131808 GTTAATGATTTAGG
1 GTTTAGGGTTTAAG
*
47131822 GTTTAAGGTTT-AG
1 GTTTAGGGTTTAAG
*
47131835 AGTTTAGTGTTTA
1 -GTTTAGGGTTTA
47131848 TGGGATAGGG
Statistics
Matches: 97, Mismatches: 35, Indels: 15
0.66 0.24 0.10
Matches are distributed among these distances:
13 7 0.07
14 64 0.66
15 26 0.27
ACGTcount: A:0.24, C:0.01, G:0.34, T:0.41
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:47132148 original size:20 final size:20
Alignment explanation
Indices: 47132125--47132164 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47132115 CTTAAAATTT
*
47132125 CAAAT-TTATATGCAATATAA
1 CAAATATTA-ATGAAATATAA
47132145 CAAATATTAATGAAATATAA
1 CAAATATTAATGAAATATAA
47132165 AAAGTAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
CAAATATTAATGAAATATAA
Found at i:47132412 original size:82 final size:80
Alignment explanation
Indices: 47132304--47132562 Score: 246
Period size: 73 Copynumber: 3.2 Consensus size: 80
47132294 TCGTAAACGA
*
47132304 CGTTTTAATAGGAGATTTAGGGGATTAGCGGCGTTTTGATATAAACGCCGCAAAAAGCAATATAG
1 CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTTTT-ATATAAA-GCCGCAAAAAGCAATATAG
**
47132369 TATAACGAAAACGACAC
64 TATAACGAAAACGACGT
* * *
47132386 CGTTTTAATTGGAGATTTAGGGGATTAGCAGCGTTTT-T-T-----TGCAAAAAAC-ATAATAGT
1 CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTTTTATATAAAGCCGCAAAAAGCAAT-ATAGT
* * ** *
47132443 TTATCCTAAACGTCGT
65 ATAACGAAAACGACGT
* * * *
47132459 TGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTCTTATAAAAAAAAGCCGCAAAAAAGCAAAAT
1 CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGT-TT-T-ATATAAAGCCGC-AAAAAGCAATAT
* *
47132524 AGTATAACGAGAACGGCGT
62 AGTATAACGAAAACGACGT
47132543 CGTTTTAATTGGAGATTTAG
1 CGTTTTAATTGGAGATTTAG
47132563 AGGAGAAATA
Statistics
Matches: 139, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
72 2 0.01
73 54 0.39
74 2 0.01
75 1 0.01
79 1 0.01
80 1 0.01
82 35 0.25
83 2 0.01
84 40 0.29
85 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (80 bp):
CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTTTTATATAAAGCCGCAAAAAGCAATATAGTA
TAACGAAAACGACGT
Found at i:47132589 original size:152 final size:149
Alignment explanation
Indices: 47132191--47132645 Score: 490
Period size: 152 Copynumber: 3.0 Consensus size: 149
47132181 GACGTTTTAC
* *
47132191 AAAAAAAAGCCGCAAAGAAGCAAAATAGTATAACGAGAACGACATCTTTTTAATTGGAGATTTAG
1 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
* * * *
47132256 GGGATTTTAAAAAACGCCGCAAAAAACATAATAGTTTCTCGTAAACGAC--GTTTTAATAGGAGA
66 GGGA----AAAAAACGCCGCAAAAAACATAATAGTTTATCCTAAACGTCGTGTTTTAATTGGAGA
47132319 TTTAGGGGATTAGCGGCGTTTTG
127 TTTAGGGGATTAGCGGCGTTTTG
* * * * * *
47132342 ATATAAACGCCGC-AAAAAGCAATATAGTATAACGAAAACGACACCGTTTTAATTGGAGATTTAG
1 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
* ** * **
47132406 GGGATTAGCAGCGTTTTTTTGCAAAAAACATAATAGTTTATCCTAAACGTCGTTGTTTTAATTGG
66 GGGA-AAAAAACG-----CCGCAAAAAACATAATAGTTTATCCTAAACGTCG-TGTTTTAATTGG
47132471 AGATTTAGGGGATTAGCGGCGTCTTAT-
124 AGATTTAGGGGATTAGCGGCGT-TT-TG
* *
47132498 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGGCGTCGTTTTAATTGGAGATTTAG
1 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
* * * * * *
47132563 AGGAGAAATACGCCGCAAAAAAACATAATAGTTCATCTTAAACGTCGTCGTTTTAATTGGAAATT
66 GGGAAAAAAACGCCGC-AAAAAACATAATAGTTTATCCTAAACGTCGT-GTTTTAATTGGAGATT
*
47132628 TA-GGGAGTAGC-GCGTTTT
129 TAGGGGATTAGCGGCGTTTT
47132646 TTGGCATTTT
Statistics
Matches: 253, Mismatches: 38, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
147 5 0.02
148 1 0.00
149 2 0.01
150 54 0.21
151 21 0.08
152 73 0.29
155 32 0.13
156 15 0.06
157 50 0.20
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (149 bp):
AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
GGGAAAAAAACGCCGCAAAAAACATAATAGTTTATCCTAAACGTCGTGTTTTAATTGGAGATTTA
GGGGATTAGCGGCGTTTTG
Found at i:47136595 original size:150 final size:151
Alignment explanation
Indices: 47136324--47136630 Score: 607
Period size: 150 Copynumber: 2.0 Consensus size: 151
47136314 ATACAAAAAC
47136324 AAATAAGATTATAGTCAAAATAACAATGTTCAAATATTAAAACTTAAGAGATTTTGGGTTAAAAT
1 AAATAAGATTATAGTCAAAATAACAATGTTCAAATATTAAAACTTAAGAGATTTTGGGTTAAAAT
47136389 TTTAATATGCGTTATTTTTTGTAGACTTCATATAAAAATATAAAAAGAAAAAAATTACAATATAT
66 TTTAATATGCGTTATTTTTTGTAGACTTCATATAAAAATATAAAAAGAAAAAAATTACAATATAT
47136454 TTATTATTTTAGAAAATAA-T
131 TTATTATTTTAGAAAATAATT
47136474 AAATAAGATTATAGTCAAAATAACAATGTTCAAATATTAAAACTTAAGAGATTTTGGGTTAAAAT
1 AAATAAGATTATAGTCAAAATAACAATGTTCAAATATTAAAACTTAAGAGATTTTGGGTTAAAAT
47136539 TTTAATATGCGTTATTTTTTGTAGACTTCATATAAAAATATAAAAAGAAAAAAATTACAATATAT
66 TTTAATATGCGTTATTTTTTGTAGACTTCATATAAAAATATAAAAAGAAAAAAATTACAATATAT
47136604 TTATTATTTTAGAAAATAATT
131 TTATTATTTTAGAAAATAATT
47136625 AAATAA
1 AAATAA
47136631 TTTAATACAT
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
150 149 0.96
151 7 0.04
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (151 bp):
AAATAAGATTATAGTCAAAATAACAATGTTCAAATATTAAAACTTAAGAGATTTTGGGTTAAAAT
TTTAATATGCGTTATTTTTTGTAGACTTCATATAAAAATATAAAAAGAAAAAAATTACAATATAT
TTATTATTTTAGAAAATAATT
Found at i:47136643 original size:30 final size:30
Alignment explanation
Indices: 47136584--47136643 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
47136574 AAATATAAAA
*
47136584 AGAAAAAAATTACAATATATTTATTATTTT
1 AGAAAAAAATTACAATATATTTATCATTTT
*
47136614 AGAAAATAATTA-AATA-ATTTAATACATTTT
1 AGAAAAAAATTACAATATATTT-AT-CATTTT
47136644 TAACTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 6 0.23
30 16 0.62
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (30 bp):
AGAAAAAAATTACAATATATTTATCATTTT
Found at i:47137042 original size:9 final size:9
Alignment explanation
Indices: 47137030--47137281 Score: 82
Period size: 9 Copynumber: 29.1 Consensus size: 9
47137020 TATATCATAT
47137030 CATAACTTA
1 CATAACTTA
47137039 CATAACTTA
1 CATAACTTA
*
47137048 CAAAACTTA
1 CATAACTTA
47137057 CATAA--TA
1 CATAACTTA
*
47137064 CATAA-ATA
1 CATAACTTA
*
47137072 TATAACTTA
1 CATAACTTA
47137081 CATAACTTA
1 CATAACTTA
**
47137090 TGTAA--TA
1 CATAACTTA
*
47137097 CATAA-ATA
1 CATAACTTA
* ** *
47137105 TATTTCATA
1 CATAACTTA
* *
47137114 TCTTAATTTA
1 -CATAACTTA
47137124 CATAACTTA
1 CATAACTTA
*
47137133 CAAAACTTA
1 CATAACTTA
*
47137142 AATAA--TA
1 CATAACTTA
* *
47137149 AATAA-ATA
1 CATAACTTA
*
47137157 TATAACTTA
1 CATAACTTA
*
47137166 CATAGCTTA
1 CATAACTTA
*
47137175 CGTAA--TA
1 CATAACTTA
*
47137182 CATAA-ATA
1 CATAACTTA
* ** *
47137190 TATTTCATA
1 CATAACTTA
*
47137199 TCATAATTTA
1 -CATAACTTA
47137209 CATAACTTA
1 CATAACTTA
*
47137218 CATACCTTA
1 CATAACTTA
*
47137227 CATAAATT-
1 CATAACTTA
* * *
47137235 TATATCATA
1 CATAACTTA
*
47137244 TTATAACTTA
1 -CATAACTTA
47137254 CATAACTTA
1 CATAACTTA
47137263 C-TAAACTTA
1 CAT-AACTTA
*
47137272 CTTAACTTA
1 CATAACTTA
47137281 C
1 C
47137282 GTAATACATA
Statistics
Matches: 180, Mismatches: 49, Indels: 28
0.70 0.19 0.11
Matches are distributed among these distances:
7 25 0.14
8 25 0.14
9 115 0.64
10 15 0.08
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:47137077 original size:33 final size:33
Alignment explanation
Indices: 47137040--47137107 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
47137030 CATAACTTAC
47137040 ATAACTTACAAAACTTACATAATACATAAATAT
1 ATAACTTACAAAACTTACATAATACATAAATAT
* **
47137073 ATAACTTACATAACTTATGTAATACATAAATAT
1 ATAACTTACAAAACTTACATAATACATAAATAT
47137106 AT
1 AT
47137108 TTCATATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.34
Consensus pattern (33 bp):
ATAACTTACAAAACTTACATAATACATAAATAT
Found at i:47137157 original size:85 final size:85
Alignment explanation
Indices: 47137014--47137263 Score: 365
Period size: 85 Copynumber: 2.9 Consensus size: 85
47137004 ATCTTAATGT
* * *
47137014 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAACT
1 TAAATATATTTCATATCATAATTTACATAACTTACAAAACTTACATAATAAATAAATATATAACT
*
47137079 TACATAACTTATGTAATACA
66 TACATAACTTACGTAATACA
* *
47137099 TAAATATATTTCATATCTTAATTTACATAACTTACAAAACTTAAATAATAAATAAATATATAACT
1 TAAATATATTTCATATCATAATTTACATAACTTACAAAACTTACATAATAAATAAATATATAACT
*
47137164 TACATAGCTTACGTAATACA
66 TACATAACTTACGTAATACA
* * ** *
47137184 TAAATATATTTCATATCATAATTTACATAACTTACATACCTTACATAAATTTATATCATATTATA
1 TAAATATATTTCATATCATAATTTACATAACTTACAAAACTTACAT-AATAAATA-AATA-TATA
47137249 ACTTACATAACTTAC
63 ACTTACATAACTTAC
47137264 TAAACTTACT
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
85 120 0.82
86 6 0.04
87 3 0.02
88 18 0.12
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (85 bp):
TAAATATATTTCATATCATAATTTACATAACTTACAAAACTTACATAATAAATAAATATATAACT
TACATAACTTACGTAATACA
Found at i:47137167 original size:33 final size:33
Alignment explanation
Indices: 47137125--47137192 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
47137115 CTTAATTTAC
47137125 ATAACTTACAAAACTTAAATAATAAATAAATAT
1 ATAACTTACAAAACTTAAATAATAAATAAATAT
* * ** *
47137158 ATAACTTACATAGCTTACGTAATACATAAATAT
1 ATAACTTACAAAACTTAAATAATAAATAAATAT
47137191 AT
1 AT
47137193 TTCATATCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (33 bp):
ATAACTTACAAAACTTAAATAATAAATAAATAT
Found at i:47142415 original size:13 final size:14
Alignment explanation
Indices: 47142399--47142427 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47142389 TTATAAATAT
47142399 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
47142412 TTATAATGGTTTAA
1 TTATAATGGTTTAA
47142426 TT
1 TT
47142428 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:47142876 original size:21 final size:21
Alignment explanation
Indices: 47142836--47142892 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
47142826 ACTTAGAGCG
* * *
47142836 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGATGAAGGCA
* **
47142857 GCGGTGGCAGCGATGAAGGCA
1 GAGGCAGCAGCGATGAAGGCA
47142878 GAGGCAGCAGCGATG
1 GAGGCAGCAGCGATG
47142893 GCAGTAGAGC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.49, T:0.05
Consensus pattern (21 bp):
GAGGCAGCAGCGATGAAGGCA
Found at i:47143167 original size:31 final size:31
Alignment explanation
Indices: 47143132--47143197 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
47143122 TTGTATTTTT
** *
47143132 ATGCTACATTTGTTGTTTTTGGTTGGATTTC
1 ATGCTACATTTACTGTTTTTGGTTGGATTTA
*
47143163 ATGCTATATTTACTGTTTTTGGTTGGATTTA
1 ATGCTACATTTACTGTTTTTGGTTGGATTTA
47143194 ATGC
1 ATGC
47143198 AAGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTACTGTTTTTGGTTGGATTTA
Found at i:47143324 original size:43 final size:43
Alignment explanation
Indices: 47143273--47143530 Score: 234
Period size: 43 Copynumber: 6.2 Consensus size: 43
47143263 AAAAAGCGCT
* * *
47143273 GCTAAAAGTCATGGCTTTTAGTGGCGCTTTCCCAAAAAATGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAACAAACGCC
* *
47143316 GCTAAAAGTCATGGCTTTTAGCAGCGCTTTTCTC-ACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGC-TTTCCCAACAAACGCC
* * * * *
47143359 GCTAAAAGTTATTGCCTTTAGCGGCACTTCCCCAACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAACAAACGCC
* * *
47143402 GCTAAAAG-C----CCTTTAGCGGCGCTTCCCCAACAAAAGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAACAAACGCC
** * *
47143440 TTTAAAAG-C----CCTTTAGCGGCGCTTCCCCAACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAACAAACGCC
* * *
47143478 GCTAAAGGTCATGACTTTTAGCGGCGCTTTTCTC-ACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGC-TTTCCCAACAAACGCC
47143521 GCTAAAAGTC
1 GCTAAAAGTC
47143531 TTGATCTTTT
Statistics
Matches: 182, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
38 67 0.37
39 1 0.01
42 4 0.02
43 101 0.55
44 9 0.05
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAACAAACGCC
Found at i:47143427 original size:38 final size:38
Alignment explanation
Indices: 47143373--47143483 Score: 186
Period size: 38 Copynumber: 2.9 Consensus size: 38
47143363 AAAGTTATTG
*
47143373 CCTTTAGCGGCACTTCCCCAACAAACGCCGCTAAAAGC
1 CCTTTAGCGGCGCTTCCCCAACAAACGCCGCTAAAAGC
* **
47143411 CCTTTAGCGGCGCTTCCCCAACAAAAGCCTTTAAAAGC
1 CCTTTAGCGGCGCTTCCCCAACAAACGCCGCTAAAAGC
47143449 CCTTTAGCGGCGCTTCCCCAACAAACGCCGCTAAA
1 CCTTTAGCGGCGCTTCCCCAACAAACGCCGCTAAA
47143484 GGTCATGACT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.18
Consensus pattern (38 bp):
CCTTTAGCGGCGCTTCCCCAACAAACGCCGCTAAAAGC
Found at i:47149405 original size:20 final size:20
Alignment explanation
Indices: 47149380--47149434 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
47149370 TACAGGGGTC
47149380 ACACGCCCGTGTGGTTTGGG
1 ACACGCCCGTGTGGTTTGGG
47149400 ACACGCCCGTGTGGTTTGGG
1 ACACGCCCGTGTGGTTTGGG
47149420 ACACGCCCGTGTGGT
1 ACACGCCCGTGTGGT
47149435 CACACACGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.11, C:0.27, G:0.38, T:0.24
Consensus pattern (20 bp):
ACACGCCCGTGTGGTTTGGG
Found at i:47153244 original size:13 final size:13
Alignment explanation
Indices: 47153228--47153253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47153218 ATTTTATGCA
47153228 AACAAATGGTTTT
1 AACAAATGGTTTT
47153241 AACAAATGGTTTT
1 AACAAATGGTTTT
47153254 TGGAAACACG
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:47153601 original size:10 final size:9
Alignment explanation
Indices: 47153562--47153770 Score: 59
Period size: 9 Copynumber: 22.0 Consensus size: 9
47153552 GATGTGGCAA
*
47153562 AAAAATTAG
1 AAAAATTAT
47153571 AAAAA--AT
1 AAAAATTAT
*
47153578 AAAAATAAAT
1 AAAAAT-TAT
*
47153588 AAAAGTTAT
1 AAAAATTAT
47153597 AAAAATTATT
1 AAAAATTA-T
**
47153607 AAATTTTAAT
1 AAAAATT-AT
47153617 AAAAA-TAT
1 AAAAATTAT
*
47153625 AAAAAATATT
1 AAAAATTA-T
*
47153635 TAAAATTAT
1 AAAAATTAT
*
47153644 AAAAAAATTAAA
1 --AAAAATT-AT
*
47153656 AAAAACGTA-
1 AAAAA-TTAT
47153665 AAAAATTAT
1 AAAAATTAT
* *
47153674 AAAATATAGAA
1 AAAA-AT-TAT
47153685 AAAAATTAT
1 AAAAATTAT
* * *
47153694 GAAATTTTT
1 AAAAATTAT
* * *
47153703 TAAAGTAAT
1 AAAAATTAT
47153712 AAGAAAATTAT
1 -A-AAAATTAT
* *
47153723 AAAAAAATGT
1 -AAAAATTAT
*
47153733 AAAGAAATAT
1 AAA-AATTAT
47153743 -AAAATTAAT
1 AAAAATT-AT
47153752 AAAAAATTAT
1 -AAAAATTAT
47153762 AAAAATTAT
1 AAAAATTAT
47153771 CGTACCAAAA
Statistics
Matches: 148, Mismatches: 32, Indels: 40
0.67 0.15 0.18
Matches are distributed among these distances:
7 6 0.04
8 12 0.08
9 55 0.37
10 47 0.32
11 27 0.18
12 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:47153634 original size:28 final size:30
Alignment explanation
Indices: 47153577--47153658 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 30
47153567 TTAGAAAAAA
* * *
47153577 TAAAAATA-AATAAAAGTTATAAAAATTA-T
1 TAAAATTATAATAAAA-ATATAAAAAATATT
*
47153606 T-AAATTTTAATAAAAATATAAAAAATATT
1 TAAAATTATAATAAAAATATAAAAAATATT
47153635 TAAAATTATAA-AAAAAT-TAAAAAA
1 TAAAATTATAATAAAAATATAAAAAA
47153659 AACGTAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 21 0.47
29 16 0.36
30 8 0.18
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (30 bp):
TAAAATTATAATAAAAATATAAAAAATATT
Found at i:47153638 original size:19 final size:17
Alignment explanation
Indices: 47153616--47153688 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 17
47153606 TAAATTTTAA
47153616 TAAAAATATAAAAAATATT
1 TAAAAATATAAAAAA-A-T
*
47153635 TAAAATTATAAAAAAAT
1 TAAAAATATAAAAAAAT
*
47153652 TAAAAA-AAACGTAAAAAAT
1 TAAAAATATA---AAAAAAT
47153671 TATAAAATATAGAAAAAA
1 TA-AAAATATA-AAAAAA
47153689 ATTATGAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.05
17 6 0.14
18 1 0.02
19 29 0.66
20 4 0.09
21 2 0.05
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (17 bp):
TAAAAATATAAAAAAAT
Found at i:47153660 original size:39 final size:39
Alignment explanation
Indices: 47153612--47153692 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
47153602 TTATTAAATT
* * * *
47153612 TTAATAAAAATATAAAAAATATTTAAAAT-TATAAAAAAA
1 TTAAAAAAAACATAAAAAAT-TATAAAATATAGAAAAAAA
*
47153651 TTAAAAAAAACGTAAAAAATTATAAAATATAGAAAAAAA
1 TTAAAAAAAACATAAAAAATTATAAAATATAGAAAAAAA
47153690 TTA
1 TTA
47153693 TGAAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 7 0.19
39 29 0.81
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.27
Consensus pattern (39 bp):
TTAAAAAAAACATAAAAAATTATAAAATATAGAAAAAAA
Found at i:47153961 original size:9 final size:9
Alignment explanation
Indices: 47153949--47154095 Score: 73
Period size: 9 Copynumber: 15.4 Consensus size: 9
47153939 TTTTTATGTA
47153949 TTTTATAATTT
1 TTTTATAA--T
*
47153960 TTTTATGAT
1 TTTTATAAT
*
47153969 TTTTATAAAA
1 TTTTAT-AAT
*
47153979 TTTTACAAT
1 TTTTATAAT
* *
47153988 TTTTTTTAT
1 TTTTATAAT
*
47153997 TTTTTTACGAT
1 TTTTATA--AT
*
47154008 TTTTATATT
1 TTTTATAAT
**
47154017 TTATTCCAAT
1 TT-TTATAAT
*
47154027 TTTTATTATT
1 TTTTA-TAAT
47154037 TTTTATTAAAT
1 TTTTA-T-AAT
*
47154048 TTTAATAAT
1 TTTTATAAT
47154057 TTTTATAAT
1 TTTTATAAT
*
47154066 TTTTATTGAT
1 TTTTA-TAAT
47154076 TTTTAT--T
1 TTTTATAAT
*
47154083 TTTTACAAT
1 TTTTATAAT
47154092 TTTT
1 TTTT
47154096 TTCACATGTC
Statistics
Matches: 105, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
7 6 0.06
9 48 0.46
10 30 0.29
11 21 0.20
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:47153963 original size:20 final size:20
Alignment explanation
Indices: 47153938--47154018 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 20
47153928 CTAAAGAGCA
47153938 TTTTTTATG-TATTTTATAAT
1 TTTTTTATGAT-TTTTATAAT
47153958 TTTTTTATGATTTTTATAA-
1 TTTTTTATGATTTTTATAAT
** ** * *
47153977 AATTTTACAATTTTTTTTAT
1 TTTTTTATGATTTTTATAAT
*
47153997 TTTTTTACGATTTTTAT-AT
1 TTTTTTATGATTTTTATAAT
47154016 TTT
1 TTT
47154019 ATTCCAATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
19 18 0.37
20 30 0.61
21 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTTATGATTTTTATAAT
Found at i:47153999 original size:39 final size:39
Alignment explanation
Indices: 47153949--47154079 Score: 115
Period size: 39 Copynumber: 3.3 Consensus size: 39
47153939 TTTTTATGTA
* *
47153949 TTTTATAATTTTTTTATGATTTTTATAAAATT-TTACAAT
1 TTTTATTATTTTTTTACGATTTTTAT-AAATTATTACAAT
* ** *
47153988 TTTTTTTATTTTTTTACGATTTTTATATTTTATTCCAAT
1 TTTTATTATTTTTTTACGATTTTTATAAATTATTACAAT
* * * *
47154027 TTTTATTATTTTTTATTA-AATTTTAAT-AATTTTTATAAT
1 TTTTATTA-TTTTT-TTACGATTTTTATAAATTATTACAAT
47154066 TTTTATTGATTTTT
1 TTTTATT-ATTTTT
47154080 ATTTTTTACA
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 3 0.04
39 55 0.74
40 13 0.18
41 3 0.04
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (39 bp):
TTTTATTATTTTTTTACGATTTTTATAAATTATTACAAT
Found at i:47154010 original size:17 final size:17
Alignment explanation
Indices: 47153990--47154039 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
47153980 TTTACAATTT
*
47153990 TTTTTATTTTTTTACGA
1 TTTTTATTTTTTTACAA
*
47154007 TTTTTATATTTTATTCCAA
1 TTTTTAT-TTTT-TTACAA
47154026 TTTTTATTATTTTT
1 TTTTTATT-TTTTT
47154040 TATTAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 7 0.25
18 7 0.25
19 14 0.50
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTTATTTTTTTACAA
Found at i:47154077 original size:10 final size:10
Alignment explanation
Indices: 47153949--47154082 Score: 79
Period size: 10 Copynumber: 13.7 Consensus size: 10
47153939 TTTTTATGTA
47153949 TTTTA-TAAT
1 TTTTATTAAT
47153958 TTTT-TTATGAT
1 TTTTATTA--AT
* *
47153969 TTTTATAAAA
1 TTTTATTAAT
*
47153979 TTTTA-CAAT
1 TTTTATTAAT
*
47153988 TTTT-TTTAT
1 TTTTATTAAT
47153997 TTTT-TTACGAT
1 TTTTATTA--AT
47154008 TTTTA-T-A-
1 TTTTATTAAT
47154015 TTTTATTCCAAT
1 TTTTATT--AAT
*
47154027 TTTTATTATT
1 TTTTATTAAT
*
47154037 TTTTATTAAA
1 TTTTATTAAT
*
47154047 TTTTAATAAT
1 TTTTATTAAT
47154057 TTTTA-TAAT
1 TTTTATTAAT
*
47154066 TTTTATTGAT
1 TTTTATTAAT
47154076 TTTTATT
1 TTTTATT
47154083 TTTTACAATT
Statistics
Matches: 98, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
7 5 0.05
8 2 0.02
9 29 0.30
10 39 0.40
11 14 0.14
12 9 0.09
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:47157930 original size:18 final size:19
Alignment explanation
Indices: 47157920--47157987 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
47157910 TAACAAAAAG
47157920 AATAAAA-ATAAAAATAAA
1 AATAAAAGATAAAAATAAA
47157938 AATAAAAGATAAAAGATAAA
1 AATAAAAGATAAAA-ATAAA
*
47157958 AAT-AAAGATAAACATAAA
1 AATAAAAGATAAAAATAAA
* *
47157976 CATAAAAAATAA
1 AATAAAAGATAA
47157988 TTAGACTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
18 14 0.32
19 22 0.50
20 8 0.18
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.16
Consensus pattern (19 bp):
AATAAAAGATAAAAATAAA
Found at i:47157939 original size:7 final size:6
Alignment explanation
Indices: 47157920--47157983 Score: 83
Period size: 6 Copynumber: 10.3 Consensus size: 6
47157910 TAACAAAAAG
*
47157920 AATAAA AATAAA AATAAA AATAAA AGATAAA AGATAAA AATAAA GATAAA
1 AATAAA AATAAA AATAAA AATAAA A-ATAAA A-ATAAA AATAAA AATAAA
* *
47157970 CATAAA CATAAA AA
1 AATAAA AATAAA AA
47157984 ATAATTAGAC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
6 41 0.76
7 13 0.24
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Done.