Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 195 of 199
Found at i:56764379 original size:16 final size:17
Alignment explanation
Indices: 56764360--56764392 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
56764350 GAAAATAAAT
56764360 AAGAATATA-TCTAATC
1 AAGAATATATTCTAATC
56764376 AAGAATATATTCTAATC
1 AAGAATATATTCTAATC
56764393 TGCATTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (17 bp):
AAGAATATATTCTAATC
Found at i:56765955 original size:2 final size:2
Alignment explanation
Indices: 56765942--56765975 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
56765932 TTGATTGCTT
56765942 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
56765976 CTGCAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56783217 original size:22 final size:22
Alignment explanation
Indices: 56783190--56783236 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
56783180 TTAAATTTTT
56783190 TAATAATACAAAGACTAAATT-A
1 TAATAATA-AAAGACTAAATTGA
* *
56783212 TAATAATAGAGGACTAAATTGA
1 TAATAATAAAAGACTAAATTGA
56783234 TAA
1 TAA
56783237 CATACCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (22 bp):
TAATAATAAAAGACTAAATTGA
Found at i:56783978 original size:22 final size:22
Alignment explanation
Indices: 56783953--56784014 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
56783943 TGTTCATATT
56783953 TATTTTAGTTTATGTTCCACCG
1 TATTTTAGTTTATGTTCCACCG
* * *
56783975 TATTTAAGTTCATATT------
1 TATTTTAGTTTATGTTCCACCG
56783991 TATTTTAGTTTATGTTCCACCG
1 TATTTTAGTTTATGTTCCACCG
56784013 TA
1 TA
56784015 GTTGCAATGG
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
16 13 0.46
22 15 0.54
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.52
Consensus pattern (22 bp):
TATTTTAGTTTATGTTCCACCG
Found at i:56790041 original size:9 final size:9
Alignment explanation
Indices: 56790027--56790051 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
56790017 AATTTCCGTT
56790027 ACGAATATA
1 ACGAATATA
56790036 ACGAATATA
1 ACGAATATA
56790045 ACGAATA
1 ACGAATA
56790052 AACTAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (9 bp):
ACGAATATA
Found at i:56791265 original size:150 final size:151
Alignment explanation
Indices: 56790746--56791339 Score: 932
Period size: 150 Copynumber: 3.9 Consensus size: 151
56790736 TACTGTATTC
*
56790746 GTATCCCTACAAATAAAACTAGATAATTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
56790811 ATAAAAAAGTGATATTTTCTATTATTATTTTTTCAAGTATTTATGACCATATTTATTTTACGATC
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
* *
56790876 CATGAAGATTAATC-TTTCGA
131 CATGAAGACTAATCTTTTCGG
*
56790896 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATTATTAGCCTTGATA--
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
56790959 ATAAAAAAAGTGATATTTTCTATTATTATTAATATTAAAGTATTTATGACCATATTTATTTTATG
66 AT-AAAAAAGTGATATTTTCTATTATTATT--TTTTTAAGTATTTATGACCATATTTATTTTATG
*
56791024 ATCCATGAAGACTAAAT-TTTTTGG
128 ATCCATGAAGACT-AATCTTTTCGG
* *
56791048 GTATCCCTACAGATAAAACTAGATACTTGTGTTGGGTGTGAATTTACATGATTAGCCTTGATATC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
*
56791113 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGATCATATTTATTTTACT-AT
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTA-TGAT
*
56791177 CCATGAAGGCTAATCTTTTCGG
130 CCATGAAGACTAATCTTTTCGG
* * *
56791199 GTATCCCTACAAAT-AAACTAAATACTTGTGTTGAGTGTGAATTTACATTATTAGCCTTGATGTC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
56791263 ATAAAAAAGTGATATTTTCTATTATTA-TTTTTTAAGTATTTATGATCATATTTATTTTATGGTC
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
56791327 CATGAAGACTAAT
131 CATGAAGACTAAT
56791340 AGACCAATCT
Statistics
Matches: 411, Mismatches: 23, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
148 3 0.01
149 73 0.18
150 137 0.33
151 101 0.25
152 68 0.17
153 27 0.07
154 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (151 bp):
GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
CATGAAGACTAATCTTTTCGG
Found at i:56792017 original size:19 final size:18
Alignment explanation
Indices: 56791995--56792034 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
56791985 TGGGTCTTAT
56791995 AAAATATAATAATAAAT-AA
1 AAAATAT-A-AATAAATGAA
56792014 AAAATATAAATAAATGAA
1 AAAATATAAATAAATGAA
56792032 AAA
1 AAA
56792035 CTTAATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATATAAATAAATGAA
Found at i:56792587 original size:3 final size:3
Alignment explanation
Indices: 56792579--56792608 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
56792569 TTCTTTTGCT
56792579 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
56792609 ATCGTCATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:56792969 original size:31 final size:30
Alignment explanation
Indices: 56792920--56792991 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 30
56792910 CGGGAATTAA
*
56792920 ATATTTTCTATAATTTTTAAAAAGATTAAATT
1 ATATTTT-TATAATTTTTAAAAA-ATTAAAAT
*
56792952 ATATTTTTATTATTTTTAAAAAATTAAAAT
1 ATATTTTTATAATTTTTAAAAAATTAAAAT
*
56792982 ATAATTTTAT
1 ATATTTTTAT
56792992 CTTTATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 16 0.43
31 14 0.38
32 7 0.19
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
ATATTTTTATAATTTTTAAAAAATTAAAAT
Found at i:56793018 original size:16 final size:16
Alignment explanation
Indices: 56792993--56793023 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56792983 TAATTTTATC
*
56792993 TTTATTAATTTAAAAT
1 TTTATAAATTTAAAAT
56793009 TTTATAAATTTAAAA
1 TTTATAAATTTAAAA
56793024 AGTCTAAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTATAAATTTAAAAT
Found at i:56793631 original size:25 final size:26
Alignment explanation
Indices: 56793588--56793636 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
56793578 AGATAAGTAA
* *
56793588 ATTAATTTTTATAGTTAAA-AATTTC
1 ATTAATTTCTATAGATAAACAATTTC
*
56793613 ATTAATTTCTATCGATAAACAATT
1 ATTAATTTCTATAGATAAACAATT
56793637 GCTCTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
ATTAATTTCTATAGATAAACAATTTC
Found at i:56794246 original size:10 final size:11
Alignment explanation
Indices: 56794224--56794252 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
56794214 ACATGATACG
56794224 AAAACAATGAA
1 AAAACAATGAA
56794235 AAAACAAT-AA
1 AAAACAATGAA
56794245 AAAACAAT
1 AAAACAAT
56794253 TTCTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.76, C:0.10, G:0.03, T:0.10
Consensus pattern (11 bp):
AAAACAATGAA
Found at i:56805719 original size:13 final size:13
Alignment explanation
Indices: 56805701--56805725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56805691 CAAATCAAAG
56805701 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
56805714 TTCTTTTTTTCT
1 TTCTTTTTTTCT
56805726 CTCTTATCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:56806253 original size:2 final size:2
Alignment explanation
Indices: 56806246--56806274 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56806236 ATTTGAAATG
56806246 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56806275 TTAACTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56806773 original size:109 final size:110
Alignment explanation
Indices: 56806582--56806782 Score: 311
Period size: 109 Copynumber: 1.8 Consensus size: 110
56806572 GCTATAAATA
*
56806582 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAATGGAGCCAAATCTTGAA
1 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
56806647 ATAATTCTCTCTTCT-AAAAATAAAAACAAAAACAAGTTTATTAG
66 ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
* *
56806691 GCATACCTG-AATGAGTGCAGCTATAGTACCAAAAGAATTCCAC-ACGAAAGGAGCCAAATCTTG
1 GCATACCTGTAA-AAGTGCAGCAATAGTACCAAAAGAATTCCACAAC-AAAGGAGCCAAATCTTG
*
56806754 AAATAATTC-CTTGTTCTAAAAAATAAAAA
64 AAATAATTCTC-TCTTCTAAAAAATAAAAA
56806783 GGTAGACGCT
Statistics
Matches: 84, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
108 5 0.06
109 68 0.81
110 11 0.13
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (110 bp):
GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
Found at i:56807730 original size:113 final size:113
Alignment explanation
Indices: 56807594--56807806 Score: 345
Period size: 113 Copynumber: 1.9 Consensus size: 113
56807584 ATACCATGCA
* ** *
56807594 AGATATTGTGTAGATTGGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCGTAATTAACA
1 AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATTAACA
56807659 TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
66 TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
* *
56807707 AGATATAGTGTAGATCAGCGAGAAGATTCTTAAATTTCAAGGCTCTAGATCGATTATAATTAACA
1 AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATTAACA
* * *
56807772 TATTCTTAATTCAGTCCAAACTTCTAATAATAACC
66 TACTCTTAATTCAATCCAAACTTCTAACAATAACC
56807807 CCTTTCAGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
113 91 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (113 bp):
AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATTAACA
TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
Found at i:56810123 original size:12 final size:13
Alignment explanation
Indices: 56810099--56810153 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
56810089 TAAATAAATT
56810099 ATATATTTT-AAA
1 ATATATTTTAAAA
56810111 ATAT-TTTTAAAA
1 ATATATTTTAAAA
*
56810123 ATTGATATATTTTAAA
1 A-T-ATAT-TTTAAAA
*
56810139 ATATCTTTTAAAA
1 ATATATTTTAAAA
56810152 AT
1 AT
56810154 TGATATTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.11
12 8 0.23
13 9 0.26
14 5 0.14
15 2 0.06
16 7 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
ATATATTTTAAAA
Found at i:56810131 original size:28 final size:29
Alignment explanation
Indices: 56810094--56810159 Score: 118
Period size: 28 Copynumber: 2.3 Consensus size: 29
56810084 TTCCTTAAAT
56810094 AAATT-ATATATTTTAAAATAT-TTTTAA
1 AAATTGATATATTTTAAAATATCTTTTAA
56810121 AAATTGATATATTTTAAAATATCTTTTAA
1 AAATTGATATATTTTAAAATATCTTTTAA
56810150 AAATTGATAT
1 AAATTGATAT
56810160 TTCTTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 5 0.14
28 16 0.43
29 16 0.43
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
AAATTGATATATTTTAAAATATCTTTTAA
Found at i:56810166 original size:17 final size:16
Alignment explanation
Indices: 56810111--56810166 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
56810101 ATATTTTAAA
56810111 ATATTTTTAAAAATTG
1 ATATTTTTAAAAATTG
56810127 ATATATTTT-AAAA-T-
1 ATAT-TTTTAAAAATTG
*
56810141 AT-CTTTTAAAAATTG
1 ATATTTTTAAAAATTG
56810156 ATATTTCTTAA
1 ATATTT-TTAA
56810167 TAAAATTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 3 0.09
15 3 0.09
16 10 0.31
17 8 0.25
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (16 bp):
ATATTTTTAAAAATTG
Found at i:56811413 original size:21 final size:20
Alignment explanation
Indices: 56811377--56811430 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
56811367 ACTAGAGTAG
* *
56811377 GAAAAAGAAAATGAAGTAAAA
1 GAAAAAAAAAAGGAAG-AAAA
56811398 -AATAAAAAAAAGGAAGAAAA
1 GAA-AAAAAAAAGGAAGAAAA
56811418 TGAAAAAAAAAAG
1 -GAAAAAAAAAAG
56811431 AAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 6 0.21
21 20 0.71
22 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
GAAAAAAAAAAGGAAGAAAA
Found at i:56811415 original size:30 final size:31
Alignment explanation
Indices: 56811381--56811444 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
56811371 GAGTAGGAAA
** * *
56811381 AAGAAAATGAAGTAAAAAATAAAA-AAAAGG
1 AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
56811411 AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
1 AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
56811442 AAG
1 AAG
56811445 GGTTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (31 bp):
AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
Found at i:56811423 original size:17 final size:16
Alignment explanation
Indices: 56811396--56811440 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
56811386 AATGAAGTAA
*
56811396 AAAATAAAAAAAAGGAAG
1 AAAAGAAAAAAAA--AAG
56811414 AAAATGAAAAAAAAAAG
1 AAAA-GAAAAAAAAAAG
56811431 AAAAGAAAAA
1 AAAAGAAAAA
56811441 GAAGGGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 7 0.28
18 4 0.16
19 8 0.32
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:56824988 original size:120 final size:118
Alignment explanation
Indices: 56824836--56825067 Score: 313
Period size: 120 Copynumber: 1.9 Consensus size: 118
56824826 ATATCAAGGA
* *
56824836 CTAACTTGGACCAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCTTAACT
1 CTAACTTGGACAAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCCTAACT
* *
56824901 TGGA-CAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGTTCAATGC
66 TGGATC-AAAAAAAATTCAGACCCCAATGTGAGAACAATTGCCAAGTTCAATGC
* * * *
56824954 CTAACTTGGACAAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGTCTAGTTCAGGGCCTAA
1 CTAACTTGGAC-AAAAAAAAA-TTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCCTAA
* * * * *
56825019 TTTGGATCAAAAAAAATTCAGGCCCCAATTTGAGAATAGTTGCCAAGTT
64 CTTGGATCAAAAAAAATTCAGACCCCAATGTGAGAACAATTGCCAAGTT
56825068 TAAGCCCCAA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
118 11 0.11
119 8 0.08
120 78 0.80
121 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (118 bp):
CTAACTTGGACAAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCCTAACT
TGGATCAAAAAAAATTCAGACCCCAATGTGAGAACAATTGCCAAGTTCAATGC
Found at i:56825001 original size:61 final size:59
Alignment explanation
Indices: 56824829--56825067 Score: 309
Period size: 59 Copynumber: 4.0 Consensus size: 59
56824819 CAAATAAATA
* * *
56824829 TCAAGGACTAACTTGGACCAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGT
1 TCAAGGCCTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
*
56824888 TCAAGGCTTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
1 TCAAGGCCTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
* * *
56824947 TCAATGCCTAACTTGGACAAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGTCTAGT
1 TCAAGGCCTAACTTGGAC-AAAAAAAAA-TTCAGACCTCAATGTGGGAACAATTGCCAAGT
* * * * * * * *
56825008 TCAGGGCCTAATTTGGATC-AAAAAAAATTCAGGCCCCAATTTGAGAATAGTTGCCAAGT
1 TCAAGGCCTAACTTGGA-CAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
56825067 T
1 T
56825068 TAAGCCCCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
59 96 0.61
60 17 0.11
61 44 0.28
62 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.23
Consensus pattern (59 bp):
TCAAGGCCTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
Found at i:56836532 original size:22 final size:21
Alignment explanation
Indices: 56836507--56836559 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
56836497 AAATTAAGAA
*
56836507 TATTTTTGAATTTTGTTAAATT
1 TATTTTTAAATTTT-TTAAATT
* *
56836529 TATTATTAAATTTTTTGAATT
1 TATTTTTAAATTTTTTAAATT
56836550 T-TTTTATAAA
1 TATTTT-TAAA
56836560 GTATATATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 11 0.42
22 12 0.46
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TATTTTTAAATTTTTTAAATT
Found at i:56838497 original size:20 final size:19
Alignment explanation
Indices: 56838445--56838497 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
56838435 TTTTATTTTT
56838445 ATTTTTTAATTTTAAAATA
1 ATTTTTTAATTTTAAAATA
*
56838464 ATTTTTTATTTTTAAAATA
1 ATTTTTTAATTTTAAAATA
56838483 ATTTTTTAATGTTTA
1 ATTTTTTAAT-TTTA
56838498 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 27 0.87
20 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTTTAATTTTAAAATA
Found at i:56842965 original size:4 final size:4
Alignment explanation
Indices: 56842956--56842981 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
56842946 CAATTTAACA
56842956 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
56842982 TATTTTTAAC
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:56849130 original size:27 final size:26
Alignment explanation
Indices: 56849091--56849178 Score: 65
Period size: 27 Copynumber: 3.4 Consensus size: 26
56849081 GTAATATCAT
* *
56849091 AAAAGCAACAATTTATTGATTGAATTA
1 AAAATCAATAATTTATTGATT-AATTA
* *
56849118 AAAATCAATAATTAATT--TTATTTA
1 AAAATCAATAATTTATTGATTAATTA
* * *
56849142 AAAA-AAATATATATATCGATTAAATTA
1 AAAATCAATA-ATTTATTGATT-AATTA
56849169 AAAATCAATA
1 AAAATCAATA
56849179 GTTAATTTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
23 4 0.09
24 12 0.26
25 2 0.04
26 2 0.04
27 22 0.48
28 4 0.09
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (26 bp):
AAAATCAATAATTTATTGATTAATTA
Found at i:56849190 original size:28 final size:27
Alignment explanation
Indices: 56849106--56849190 Score: 65
Period size: 28 Copynumber: 3.2 Consensus size: 27
56849096 CAACAATTTA
*
56849106 TTGATTGAATTAAAAATCAATAATTAAT
1 TTGATTAAATTAAAAATCAAT-ATTAAT
*
56849134 TTTATTTAAA--AAAAAT--ATA-T-AT
1 TTGA-TTAAATTAAAAATCAATATTAAT
*
56849156 ATCGATTAAATTAAAAATCAATAGTTAAT
1 -TTGATTAAATTAAAAATCAATA-TTAAT
56849185 TTGATT
1 TTGATT
56849191 TAAAATATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
22 7 0.16
23 3 0.07
24 7 0.16
25 2 0.05
26 3 0.07
27 6 0.14
28 9 0.21
29 6 0.14
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (27 bp):
TTGATTAAATTAAAAATCAATATTAAT
Found at i:56851919 original size:31 final size:31
Alignment explanation
Indices: 56851884--56851948 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
56851874 GATTAGAGGG
* * *
56851884 TTTAATTAAACCTTT-AAAAAATTTGAGAAAA
1 TTTAACTAAAACTTTCAAAAAATTTCA-AAAA
*
56851915 TTTAACTAAAATTTTCAAAAAATTTCAAAAA
1 TTTAACTAAAACTTTCAAAAAATTTCAAAAA
56851946 TTT
1 TTT
56851949 TAAATGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 19 0.66
32 10 0.34
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTAACTAAAACTTTCAAAAAATTTCAAAAA
Found at i:56854031 original size:18 final size:19
Alignment explanation
Indices: 56854008--56854044 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56853998 TTTCAAAACA
56854008 TATAAA-ATTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
56854026 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
56854045 AAAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:56854045 original size:18 final size:19
Alignment explanation
Indices: 56854023--56854080 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
56854013 AATTTAGAAT
*
56854023 TTTTATAAAT-ATTTTGAA
1 TTTTAAAAATGATTTTGAA
*
56854041 TTTTAAAAATGATTTTAAAA
1 TTTTAAAAATGATTTT-GAA
56854061 TTTTAAAAATGA-TTTGAA
1 TTTTAAAAATGATTTTGAA
56854079 TT
1 TT
56854081 CTTTTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.37
19 8 0.23
20 14 0.40
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTTAAAAATGATTTTGAA
Found at i:56856086 original size:60 final size:60
Alignment explanation
Indices: 56856052--56856896 Score: 1035
Period size: 60 Copynumber: 14.1 Consensus size: 60
56856042 CTTGTACACA
* * * * ** *
56856052 TATGGAGGTGGAGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTCG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* ** *
56856112 TATGGAGGAGGTGGTGGTGACTCGTACTTGTATGGAGGGGGAGGTGGTGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* *
56856172 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* * * * * *
56856232 TATGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* * **
56856292 TATGGAGGAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* * ** **
56856352 TATGGAGGAGGAGATGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* *
56856412 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* * * * * * *
56856472 TATGAAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
** * *
56856532 TATGGAGGAGGTGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
*
56856592 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGAGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* * * * *
56856652 TATGGAGGAGGTGGTGGTGACTTATACACATATGGGGGAGGAGGTGGCGACTCATACTTG
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* * * * * * * * *
56856712 TATGGAGGAGGTGGTGGCGAGTTGTACATGTACGGGGGTGGAGGCGGAGACTTATACTTA
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
** * * *
56856772 TATGGAGGAGGTGGTGGTGACTTGTACATATATGGAGGTGGAGGTGGTGACTCGTGCTTA
1 TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
* ** *** * * *
56856832 TAT-GACAGAGGTGGTAATGACTTGTACGTATATGGAGGTGGAGGTGATGACTCGTACTTA
1 TATGGA-GGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
56856892 TATGG
1 TATGG
56856897 CGGAAGCAAT
Statistics
Matches: 677, Mismatches: 106, Indels: 3
0.86 0.13 0.00
Matches are distributed among these distances:
59 2 0.00
60 674 1.00
61 1 0.00
ACGTcount: A:0.22, C:0.09, G:0.41, T:0.28
Consensus pattern (60 bp):
TATGGAGGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGTGACTCATACTTG
Found at i:56856822 original size:30 final size:30
Alignment explanation
Indices: 56856016--56856896 Score: 765
Period size: 30 Copynumber: 29.4 Consensus size: 30
56856006 TGGAGATTCA
*
56856016 TACTTGTATGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*** *
56856046 TACACATATGGAGGTGGAGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*** * *
56856076 TACACATATGGGGGTGGAGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* * *
56856106 TACTCGTATGGAGGAGGTGGTGGTGACTCG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* **
56856136 TACTTGTATGGAGGGGGAGGTGGTGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*
56856166 TACTTGTATGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
** * * * **
56856196 TACACGTATGGGGGTGGAGGTGGAGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* *
56856226 TACTTGTATGGAGGTGGAGGTGGTGATTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*** * **
56856256 TACACATAAGGAGGAGGAGGTGGTGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*
56856286 TACTTGTATGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*** * *
56856316 TACACATATGGGGGTGGAGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* **
56856346 TACTTGTATGGAGGAGGAGATGGTGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* **
56856376 TACTTGTATGGAGGTGGAGGTGGTGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*
56856406 TACTTGTATGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
** * * * **
56856436 TACACGTATGGGGGTGGAGGTGGAGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* * *
56856466 TACTTGTATGAAGGTGGAGGTGGTGATTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*** * **
56856496 TACACATAAGGAGGAGGAGGTGGTGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*
56856526 TACTTGTATGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* **
56856556 TACTTGTATGGAGGAGGTGGTGGTGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*
56856586 TACTTGTATGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
** * * **
56856616 TACACGTATGGAGGTGGAGGTGGAGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* *
56856646 TACTTGTATGGAGGAGGTGGTGGTGACTTA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*** * * **
56856676 TACACATATGGGGGAGGAGGTGGCGACTCA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* * *
56856706 TACTTGTATGGAGGAGGTGGTGGCGAGTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* * * * * * *
56856736 TACATGTACGGGGGTGGAGGCGGAGACTTA
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* *
56856766 TACTTATATGGAGGAGGTGGTGGTGACTTG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* * * *
56856796 TACATATATGGAGGTGGAGGTGGTGACTCG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
* * * * **
56856826 TGCTTATAT-GACAGAGGTGGTAATGACTTG
1 TACTTGTATGGA-GGAGGAGGTGGTGACTTG
* * * * *
56856856 TACGTATATGGAGGTGGAGGTGATGACTCG
1 TACTTGTATGGAGGAGGAGGTGGTGACTTG
*
56856886 TACTTATATGG
1 TACTTGTATGG
56856897 CGGAAGCAAT
Statistics
Matches: 677, Mismatches: 172, Indels: 4
0.79 0.20 0.00
Matches are distributed among these distances:
29 2 0.00
30 673 0.99
31 2 0.00
ACGTcount: A:0.22, C:0.10, G:0.41, T:0.28
Consensus pattern (30 bp):
TACTTGTATGGAGGAGGAGGTGGTGACTTG
Found at i:56862433 original size:48 final size:48
Alignment explanation
Indices: 56862335--56863239 Score: 1227
Period size: 48 Copynumber: 18.9 Consensus size: 48
56862325 TGAAGGTGGA
* * * ** * ** *
56862335 GGTGGAGGTGGAGACTAGTAAATGTAAGGAGGAGAAGGTGATGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
56862383 GGTGGAGGTGGTGACTTGTAGACATATGGTGGAGGTGATG-GGGAAAAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGG-AGAT
* * *
56862431 GGTGGAGGTGGGGACTTGTAGACATATGGTGGAGGTGGTGAGAGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
56862479 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
56862527 GGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
56862575 GGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
56862623 GGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
** *
56862671 GGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
***
56862719 GGTGGAGGTGGTGACTTGTAGGTGTAAGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
***
56862767 GGTGGAGGTGGTGACTTGTAGGTGTAAGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
56862815 GGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
** *
56862863 GGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
56862911 GGTGGAGGTGGAGACTTGTAGACATATGGGGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * **
56862959 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAAAGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
56863007 GGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
56863055 GGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
** *
56863103 GGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
56863151 GGTGGAGGTGGAGACTTGTAGACATATGGGGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
56863199 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGA
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGA
56863240 CTTGTAGATG
Statistics
Matches: 776, Mismatches: 79, Indels: 4
0.90 0.09 0.00
Matches are distributed among these distances:
47 2 0.00
48 772 0.99
49 2 0.00
ACGTcount: A:0.24, C:0.04, G:0.51, T:0.22
Consensus pattern (48 bp):
GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
Found at i:56862672 original size:192 final size:192
Alignment explanation
Indices: 56862335--56863239 Score: 1353
Period size: 192 Copynumber: 4.7 Consensus size: 192
56862325 TGAAGGTGGA
* * ** *
56862335 GGTGGAGGTGGAGACTAGTAAATGTAAGGAGGAGAAGGTGATGGAGATGGTGGAGGTGGTGACTT
1 GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTT
* * * *
56862400 GTAGACATATGGTGGAGGTGATG-GGGAAAATGGTGGAGGTGGGGACTTGTAGACATATGGTGGA
66 GTAGACATATGGTGGAGGTGGTGAGGG-AGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGA
* * * *
56862464 GGTGGTGAGAGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
130 GGTGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGAT
** *
56862527 GGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGATTT
1 GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTT
* *
56862592 GTAAACATAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
66 GTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
* **
56862657 GAGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
131 GTGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGAT
* * *
56862719 GGTGGAGGTGGTGACTTGTAGGTGTAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTT
1 GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTT
*** *
56862784 GTAGGTGTAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
66 GTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
* **
56862849 GAGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
131 GTGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGAT
** * * *
56862911 GGTGGAGGTGGAGACTTGTAGACATATGGGGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
1 GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTT
**
56862976 GTAGACATATGGTGGAGGTGGTGAAAGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
66 GTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
* * * * *
56863041 GTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGAGGTGAGGGAGAT
131 GTGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGAT
* *
56863103 GGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
1 GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTT
* * * *
56863168 GTAGACATATGGGGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAG
66 GTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
56863233 GTGGTGA
131 GTGGTGA
56863240 CTTGTAGATG
Statistics
Matches: 649, Mismatches: 63, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
192 646 1.00
193 3 0.00
ACGTcount: A:0.24, C:0.04, G:0.51, T:0.22
Consensus pattern (192 bp):
GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTT
GTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAG
GTGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGAT
Found at i:56863276 original size:48 final size:48
Alignment explanation
Indices: 56863224--56863561 Score: 487
Period size: 48 Copynumber: 7.0 Consensus size: 48
56863214 TTGTAGACAT
**
56863224 ATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
*** * * *
56863272 ATGGTGGAGGTGGTGACTTGTAGGTGTAAGGTGGAGGAGGTGAAGGAG
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
* * *
56863320 ATGGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
**
56863368 ATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
* * *
56863416 ATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
* *
56863464 ATGGTGGAGGTGGAGACTTGTAGACATATGGAGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
* * *
56863512 ATGGTGGAGGTGGAGACTTGTAGACATATGGGGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
56863560 AT
1 AT
56863562 NNNNNNNNNN
Statistics
Matches: 267, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 267 1.00
ACGTcount: A:0.24, C:0.03, G:0.51, T:0.23
Consensus pattern (48 bp):
ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAG
Found at i:56863406 original size:219 final size:219
Alignment explanation
Indices: 56863005--56863458 Score: 701
Period size: 219 Copynumber: 2.1 Consensus size: 219
56862995 GGTGAAAGAG
* * *
56863005 ATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGAC
1 ATGGTGGAGGTGGTGACTTGTACACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGAC
* * * **
56863070 TTGTACACATAGGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGG
66 TTGTACACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAAACATAAGGAGG
* *
56863135 AGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGGGGAGGTGGTGAGGGAGATG
131 AGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGATG
56863200 GTGGAGGTGGAGACTTGTAGACAT
196 GTGGAGGTGGAGACTTGTAGACAT
* ** *
56863224 ATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGAC
1 ATGGTGGAGGTGGTGACTTGTACACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGAC
**** * *
56863289 TTGTAGGTGTAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGATTTGTAAACATAAGGTGG
66 TTGTACACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAAACATAAGGAGG
* **
56863354 AGGTGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATG
131 AGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGATG
56863419 GTGGAGGTGGAGACTTGTAGACAT
196 GTGGAGGTGGAGACTTGTAGACAT
56863443 ATGGTGGAGGTGGTGA
1 ATGGTGGAGGTGGTGA
56863459 GGGAGATGGT
Statistics
Matches: 212, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
219 212 1.00
ACGTcount: A:0.23, C:0.04, G:0.50, T:0.23
Consensus pattern (219 bp):
ATGGTGGAGGTGGTGACTTGTACACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGGGAC
TTGTACACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAAACATAAGGAGG
AGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGATG
GTGGAGGTGGAGACTTGTAGACAT
Found at i:56863742 original size:48 final size:48
Alignment explanation
Indices: 56863663--56864036 Score: 417
Period size: 48 Copynumber: 7.8 Consensus size: 48
56863653 NNNNNNNNNA
* ** * *
56863663 GGTGAAGGAGATGGTGGAGGTGGGGATTTGTAGATGTATGGAGGAGGA
1 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
* * * ** *
56863711 GGCGAAGGAGATGGTGGAGGAGGTGACTTGTAGATGTAAGGAGGTGGT
1 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
* * * * *
56863759 GGTGAGGGAGATGGTGGAGGTGGGGACTTGTAGACATAGGGTGGGGGA
1 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
* *
56863807 GGTGAGGGAGACGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
1 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
* * * * *
56863855 GATGACGGAGATAGTGGAGGTGGGGACTTGTAGACATAAGGTGGGGGT
1 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
* * * * *
56863903 GGTG-AGGCAGATGGTGGAGGTGGCGACTTGTAGACATAGGGTGGTGGA
1 GGTGAAGG-AGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
* * * * **
56863951 GGCGAATGAGATGGTGGAGGTGGAGATTTGTAGATGTAAGGAGGAGGT
1 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
*
56863999 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGGCATA
1 GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATA
56864037 GGATGGTGGT
Statistics
Matches: 272, Mismatches: 52, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
47 2 0.01
48 268 0.99
49 2 0.01
ACGTcount: A:0.24, C:0.05, G:0.51, T:0.21
Consensus pattern (48 bp):
GGTGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGT
Found at i:56863922 original size:144 final size:144
Alignment explanation
Indices: 56863662--56864036 Score: 534
Period size: 144 Copynumber: 2.6 Consensus size: 144
56863652 NNNNNNNNNN
* * *
56863662 AGGTGAAGGAGATGGTGGAGGTGGGGATTTGTAGATGTATGGAGGAGGAGGCGAAGGAGATGGTG
1 AGGTGAAGGAGATGGTGGAGGTGGGGATTTGTAGATGTAAGGAGGAGGTGGTGAAGGAGATGGTG
* * ** * * *
56863727 GAGGAGGTGACTTGTAGATGTAAGGAGGTGGTGGTGAGGGAGATGGTGGAGGTGGGGACTTGTAG
66 GAGGTGGGGACTTGTAGACATAAGGAGGGGGTGGTGAGGCAGATGGTGGAGGTGGCGACTTGTAG
56863792 ACATAGGGTGGGGG
131 ACATAGGGTGGGGG
* * * ** * * *
56863806 AGGTGAGGGAGACGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGTGATGACGGAGATAGTG
1 AGGTGAAGGAGATGGTGGAGGTGGGGATTTGTAGATGTAAGGAGGAGGTGGTGAAGGAGATGGTG
*
56863871 GAGGTGGGGACTTGTAGACATAAGGTGGGGGTGGTGAGGCAGATGGTGGAGGTGGCGACTTGTAG
66 GAGGTGGGGACTTGTAGACATAAGGAGGGGGTGGTGAGGCAGATGGTGGAGGTGGCGACTTGTAG
*
56863936 ACATAGGGTGGTGG
131 ACATAGGGTGGGGG
* * *
56863950 AGGCGAATGAGATGGTGGAGGTGGAGATTTGTAGATGTAAGGAGGAGGTGGTGAAGGAGATGGTG
1 AGGTGAAGGAGATGGTGGAGGTGGGGATTTGTAGATGTAAGGAGGAGGTGGTGAAGGAGATGGTG
*
56864015 GAGGTGGGGACTTGTAGGCATA
66 GAGGTGGGGACTTGTAGACATA
56864037 GGATGGTGGT
Statistics
Matches: 199, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
144 199 1.00
ACGTcount: A:0.24, C:0.05, G:0.51, T:0.21
Consensus pattern (144 bp):
AGGTGAAGGAGATGGTGGAGGTGGGGATTTGTAGATGTAAGGAGGAGGTGGTGAAGGAGATGGTG
GAGGTGGGGACTTGTAGACATAAGGAGGGGGTGGTGAGGCAGATGGTGGAGGTGGCGACTTGTAG
ACATAGGGTGGGGG
Found at i:56863946 original size:27 final size:26
Alignment explanation
Indices: 56863868--56863942 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 26
56863858 GACGGAGATA
56863868 GTGGAGGTGGGGACTTGTAGACATAAG
1 GTGGAGGTGGGGACTTGTAGACAT-AG
* * * *
56863895 GTGGGGGTGGTGA--GGCAG--AT-G
1 GTGGAGGTGGGGACTTGTAGACATAG
*
56863916 GTGGAGGTGGCGACTTGTAGACATAG
1 GTGGAGGTGGGGACTTGTAGACATAG
56863942 G
1 G
56863943 GTGGTGGAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 11
0.65 0.15 0.20
Matches are distributed among these distances:
21 12 0.34
23 5 0.14
25 5 0.14
26 2 0.06
27 11 0.31
ACGTcount: A:0.21, C:0.08, G:0.49, T:0.21
Consensus pattern (26 bp):
GTGGAGGTGGGGACTTGTAGACATAG
Found at i:56868273 original size:60 final size:60
Alignment explanation
Indices: 56868197--56868313 Score: 173
Period size: 60 Copynumber: 1.9 Consensus size: 60
56868187 TTTAGTAATA
*
56868197 TGGAGGTGGAGGCTTGTAGACATAAGGTGGAGGAAGAGAAGGAGAAGGTGGAGGTGGAGG
1 TGGAGGTGGAGGCTTGTACACATAAGGTGGAGGAAGAGAAGGAGAAGGTGGAGGTGGAGG
* * * *
56868257 TGGAGGTGG-GGACTTGTACACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGG
1 TGGAGGTGGAGG-CTTGTACACATAAGGTGGAGGAAGAGAAGGAGAAGGTGGAGGTGG
56868314 TGACTTATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.26, C:0.04, G:0.51, T:0.18
Consensus pattern (60 bp):
TGGAGGTGGAGGCTTGTACACATAAGGTGGAGGAAGAGAAGGAGAAGGTGGAGGTGGAGG
Found at i:56868294 original size:48 final size:48
Alignment explanation
Indices: 56868236--56868457 Score: 243
Period size: 48 Copynumber: 4.6 Consensus size: 48
56868226 GAGGAAGAGA
* * * * * *
56868236 AGGAGAAGGTGGAGGTGGA-GGTGGAGGTGGGGACTTGTACACATATGG
1 AGGAGGAGGTGGAGG-AGATGGTGGAGGTGGAGACTTATAAACATAAGG
* * * **
56868284 TGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTATAAATGTAAGG
1 AGGAGGAGGTGGAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGG
* * *
56868332 AGGAGGTGGT-GAGGGAGATAGTGGAGGTGGAGACTTGTAAACATAAGG
1 AGGAGGAGGTGGA-GGAGATGGTGGAGGTGGAGACTTATAAACATAAGG
* *
56868380 TGGAGGAGGT-GACAGAGATGGTGGAGGTGGAGACTTATAAACATAAGG
1 AGGAGGAGGTGGA-GGAGATGGTGGAGGTGGAGACTTATAAACATAAGG
*
56868428 AGGAGGAGGTGAAGGAGATGGTGGAGGTGG
1 AGGAGGAGGTGGAGGAGATGGTGGAGGTGG
56868458 TGAGGAAGAT
Statistics
Matches: 144, Mismatches: 27, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
47 3 0.02
48 140 0.97
49 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.48, T:0.19
Consensus pattern (48 bp):
AGGAGGAGGTGGAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGG
Found at i:56868367 original size:96 final size:96
Alignment explanation
Indices: 56868256--56868457 Score: 307
Period size: 96 Copynumber: 2.1 Consensus size: 96
56868246 GGAGGTGGAG
* * * *
56868256 GTGGAGGTGGGGACTTGTACACATATGGTGGAGGAGGTGA-AGGAGATGGTGGAGGTGGTGACTT
1 GTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACA-GAGATGGTGGAGGTGGAGACTT
** * *
56868320 ATAAATGTAAGGAGGAGGTGGTGAGGGAGATA
65 ATAAACATAAGGAGGAGGAGGTGAAGGAGATA
56868352 GTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACAGAGATGGTGGAGGTGGAGACTTA
1 GTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACAGAGATGGTGGAGGTGGAGACTTA
*
56868417 TAAACATAAGGAGGAGGAGGTGAAGGAGATG
66 TAAACATAAGGAGGAGGAGGTGAAGGAGATA
56868448 GTGGAGGTGG
1 GTGGAGGTGG
56868458 TGAGGAAGAT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 95 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (96 bp):
GTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACAGAGATGGTGGAGGTGGAGACTTA
TAAACATAAGGAGGAGGAGGTGAAGGAGATA
Found at i:56868382 original size:27 final size:26
Alignment explanation
Indices: 56868352--56868433 Score: 66
Period size: 27 Copynumber: 3.3 Consensus size: 26
56868342 GAGGGAGATA
56868352 GTGGAGGTGGAGACTTGTAAACATAAG
1 GTGGAGGTGGAGACTT-TAAACATAAG
* * * *
56868379 GTGGAGGAGGTGAC---AGAGAT--G
1 GTGGAGGTGGAGACTTTAAACATAAG
56868400 GTGGAGGTGGAGACTTATAAACATAAG
1 GTGGAGGTGGAGACTT-TAAACATAAG
*
56868427 GAGGAGG
1 GTGGAGG
56868434 AGGTGAAGGA
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
21 13 0.32
23 4 0.10
25 4 0.10
27 19 0.47
ACGTcount: A:0.33, C:0.06, G:0.43, T:0.18
Consensus pattern (26 bp):
GTGGAGGTGGAGACTTTAAACATAAG
Found at i:56868459 original size:21 final size:21
Alignment explanation
Indices: 56868429--56868478 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
56868419 AACATAAGGA
*
56868429 GGAGGAGGTGAAGG-AGATGGT
1 GGAGGTGGTG-AGGAAGATGGT
56868450 GGAGGTGGTGAGGAAGATGGT
1 GGAGGTGGTGAGGAAGATGGT
*
56868471 GGTGGTGG
1 GGAGGTGG
56868479 AGACTTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.22, C:0.00, G:0.60, T:0.18
Consensus pattern (21 bp):
GGAGGTGGTGAGGAAGATGGT
Found at i:56868460 original size:69 final size:69
Alignment explanation
Indices: 56868378--56868526 Score: 228
Period size: 69 Copynumber: 2.2 Consensus size: 69
56868368 GTAAACATAA
*
56868378 GGTGGAGGAGGTGACAG-AGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAG
1 GGTGGAGGTGGTGA-AGAAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAG
56868442 GAGAT
65 GAGAT
* * * * *
56868447 GGTGGAGGTGGTGAGGAAGATGGTGGTGGTGGAGACTTGTAAACATAAGGAGGGGGAGGTGAATG
1 GGTGGAGGTGGTGAAGAAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAGG
56868512 AGAT
66 AGAT
56868516 GGTGGAGGTGG
1 GGTGGAGGTGG
56868527 GGACTTGTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
68 1 0.01
69 72 0.99
ACGTcount: A:0.29, C:0.03, G:0.50, T:0.18
Consensus pattern (69 bp):
GGTGGAGGTGGTGAAGAAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAGG
AGAT
Found at i:56868478 original size:117 final size:117
Alignment explanation
Indices: 56868333--56868574 Score: 351
Period size: 117 Copynumber: 2.1 Consensus size: 117
56868323 AATGTAAGGA
* *
56868333 GGAGGTGGTGAGGGAGATAGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACA-GAG
1 GGAGGTGGTGAGGAAGATAGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGA-ATGAG
*
56868397 ATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAGGAGATGGT
65 ATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAGGAGATGAT
* * *
56868450 GGAGGTGGTGAGGAAGATGGTGGTGGTGGAGACTTGTAAACATAAGGAGGGGGAGGTGAATGAGA
1 GGAGGTGGTGAGGAAGATAGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAATGAGA
* * * * * * *
56868515 TGGTGGAGGTGGGGACTTGTTAACATAGGGTGGAGGTGGTGAGGGAGATGAT
66 TGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAGGAGATGAT
56868567 GGAGGTGG
1 GGAGGTGG
56868575 GGACTTGTAG
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 1 0.01
117 110 0.99
ACGTcount: A:0.28, C:0.04, G:0.49, T:0.19
Consensus pattern (117 bp):
GGAGGTGGTGAGGAAGATAGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAATGAGA
TGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAGGAGATGAT
Found at i:56868534 original size:165 final size:165
Alignment explanation
Indices: 56868280--56868622 Score: 454
Period size: 165 Copynumber: 2.1 Consensus size: 165
56868270 TTGTACACAT
* * ** * *
56868280 ATGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTATAAATGTAAGGAGGAGGTGGTGAG
1 ATGGTGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAA
*
56868345 GGAGATAGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACAGAGATGGTGGAGGTGG
66 GGAGATAGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACAGAGATGATGGAGGTGG
56868410 AGACTTATAAACATAAGGAGGAGGAGGTGAAGGAG
131 AGACTTATAAACATAAGGAGGAGGAGGTGAAGGAG
* * *
56868445 ATGGTGGAGGTGGTG-AGGAAGATGGTGGTGGTGGAGACTTGTAAACATAAGGAGGGGGAGGTGA
1 ATGGTGGAGGTGGTGAAGG-AGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGA
* * * * * * **
56868509 ATGAGATGGTGGAGGTGGGGACTTGTTAACATAGGGTGGAGGTGGTGAGGGAGATGATGGAGGTG
65 AGGAGATAGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACAGAGATGATGGAGGTG
* * * * *
56868574 GGGACTTGTAGATATAAGGTGGAGGAGGTGAAGGAG
130 GAGACTTATAAACATAAGGAGGAGGAGGTGAAGGAG
*
56868610 ATGGCGGAGGTGG
1 ATGGTGGAGGTGG
56868623 AGACTTGTAG
Statistics
Matches: 153, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
164 3 0.02
165 150 0.98
ACGTcount: A:0.28, C:0.03, G:0.48, T:0.20
Consensus pattern (165 bp):
ATGGTGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAA
GGAGATAGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACAGAGATGATGGAGGTGG
AGACTTATAAACATAAGGAGGAGGAGGTGAAGGAG
Found at i:56868555 original size:213 final size:213
Alignment explanation
Indices: 56868255--56868661 Score: 566
Period size: 213 Copynumber: 1.9 Consensus size: 213
56868245 TGGAGGTGGA
* * * * *
56868255 GGTGGAGGTGGGGACTTGTACACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTT
1 GGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGGGACTT
**
56868320 ATAAATGTAAGGAGGAGGTGGTGAGGGAGAT-AGTGGAGGTGGAGACTTGTAAACATAAGGTGGA
66 ATAAACATAAGGAGGAGGTGGTGAGGGAGATGA-TGGAGGTGGAGACTTGTAAACATAAGGTGGA
* *
56868384 GGAGGTGACA-GAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGTGAAGGAGATG
130 GGAGGTGA-AGGAGATGGCGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGAGAAGGAGATG
56868448 GTGGAGGTGGTGAGGAAGAT
194 GTGGAGGTGGTGAGGAAGAT
* * *
56868468 GGTGGTGGTGGAGACTTGTAAACATAAGGAGGGGGAGGTGAATGAGATGGTGGAGGTGGGGACTT
1 GGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGGGACTT
* * * * * * *
56868533 GTTAACATAGGGTGGAGGTGGTGAGGGAGATGATGGAGGTGGGGACTTGTAGATATAAGGTGGAG
66 ATAAACATAAGGAGGAGGTGGTGAGGGAGATGATGGAGGTGGAGACTTGTAAACATAAGGTGGAG
* * * * *
56868598 GAGGTGAAGGAGATGGCGGAGGTGGAGACTTGTAGACATAGGGTGGAGGAGGAGAGGGAGATGG
131 GAGGTGAAGGAGATGGCGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGAGAAGGAGATGG
56868662 CAGAGATGGG
Statistics
Matches: 168, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
212 1 0.01
213 166 0.99
214 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.48, T:0.20
Consensus pattern (213 bp):
GGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGGGACTT
ATAAACATAAGGAGGAGGTGGTGAGGGAGATGATGGAGGTGGAGACTTGTAAACATAAGGTGGAG
GAGGTGAAGGAGATGGCGGAGGTGGAGACTTATAAACATAAGGAGGAGGAGGAGAAGGAGATGGT
GGAGGTGGTGAGGAAGAT
Found at i:56868905 original size:24 final size:24
Alignment explanation
Indices: 56868878--56868957 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
56868868 TGTAGACATA
56868878 AGGTGGAGGTGAGGGAGATGGCGG
1 AGGTGGAGGTGAGGGAGATGGCGG
* * *
56868902 AGGTGGAGACTTGTA--GACATAG-GG
1 AGGTGGAG--GTG-AGGGAGATGGCGG
* *
56868926 TGGTGGAGGAGAGGGAGATGGCGG
1 AGGTGGAGGTGAGGGAGATGGCGG
56868950 AGGTGGAG
1 AGGTGGAG
56868958 ACTTGTATAC
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 5 0.12
24 26 0.63
25 5 0.12
26 2 0.05
27 1 0.02
ACGTcount: A:0.24, C:0.05, G:0.56, T:0.15
Consensus pattern (24 bp):
AGGTGGAGGTGAGGGAGATGGCGG
Found at i:56868978 original size:27 final size:27
Alignment explanation
Indices: 56868900--56869078 Score: 97
Period size: 27 Copynumber: 7.3 Consensus size: 27
56868890 GGGAGATGGC
56868900 GGAGGTGGAGACTTGTAGACATAGGGT
1 GGAGGTGGAGACTTGTAGACATAGGGT
* * * * *
56868927 GGTGGAGGAGA---G-GGAGAT--GGC
1 GGAGGTGGAGACTTGTAGACATAGGGT
*
56868948 GGAGGTGGAGACTTGTATACATAGGGT
1 GGAGGTGGAGACTTGTAGACATAGGGT
* * * *
56868975 GGAGGAGGAGA---G-GGAGAT--GGC
1 GGAGGTGGAGACTTGTAGACATAGGGT
56868996 GGAGGTGGAGACTTGTAGACATAGGGT
1 GGAGGTGGAGACTTGTAGACATAGGGT
* **
56869023 GGAGGTGGTGA-AGGT-G--AT--GGT
1 GGAGGTGGAGACTTGTAGACATAGGGT
* *
56869044 GGTGGTGGGGACTTGTAGACATAGGGT
1 GGAGGTGGAGACTTGTAGACATAGGGT
56869071 GGAGGTGG
1 GGAGGTGG
56869079 TAAAGGTGAT
Statistics
Matches: 106, Mismatches: 28, Indels: 36
0.62 0.16 0.21
Matches are distributed among these distances:
21 35 0.33
22 2 0.02
23 10 0.09
24 4 0.04
25 10 0.09
26 2 0.02
27 43 0.41
ACGTcount: A:0.23, C:0.06, G:0.51, T:0.20
Consensus pattern (27 bp):
GGAGGTGGAGACTTGTAGACATAGGGT
Found at i:56869213 original size:48 final size:48
Alignment explanation
Indices: 56868447--56869210 Score: 879
Period size: 48 Copynumber: 16.0 Consensus size: 48
56868437 TGAAGGAGAT
* * * * * *
56868447 GGTGGAGGTGGTGAGGAAGATGGTGGTGGTGGAGACTTGTAAACATAA
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * ** * *
56868495 GGAGGGGGAGGTGAATGAGATGGTGGAGGTGGGGACTTGTTA-ACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTG-TAGACATAG
* ** * * *
56868543 GGTGGAGGTGGTGAGGGAGATGATGGAGGTGGGGACTTGTAGATATAA
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
*
56868591 GGTGGAGGAGGTGAAGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * * * * *
56868639 GGTGGAGGAGGAGAGGGAGATGGCAGAGATGGGGACTTGTAGATATAA
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
*
56868687 GGTGGAGGAGGTGAAGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * * *
56868735 GGTGGAGGAGGAGAGGGAGATGGCAGAGATGGGGACTTGTAGACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* *
56868783 GGTGGGGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAAACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * *
56868831 GGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGACATAA
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
56868879 GGT---GGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * *
56868924 GGTGGTGGAGGAGAGGGAGATGGCGGAGGTGGAGACTTGTATACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
*
56868972 GGTGGAGGAGGAGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * * * * *
56869020 GGTGGAGGTGGTGAAGGTGATGGTGGTGGTGGGGACTTGTAGACATAG
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * * * * * * * * * *
56869068 GGTGGAGGTGGTAAAGGTGATGGTGGTGGTGTAGACCTGTAAATATAA
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * * * * *
56869116 GGAGGAGGTGGAGAGGGAGATGGTGAAGGTGGAGACTTGTAGACATAA
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
* * * * * *
56869164 GGCGGAAGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGGCATA
1 GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATA
56869211 AGGAGNNNNN
Statistics
Matches: 617, Mismatches: 94, Indels: 10
0.86 0.13 0.01
Matches are distributed among these distances:
45 42 0.07
47 2 0.00
48 571 0.93
49 2 0.00
ACGTcount: A:0.26, C:0.05, G:0.49, T:0.19
Consensus pattern (48 bp):
GGTGGAGGAGGTGAGGGAGATGGCGGAGGTGGAGACTTGTAGACATAG
Found at i:56869516 original size:30 final size:30
Alignment explanation
Indices: 56869482--56869582 Score: 94
Period size: 30 Copynumber: 3.4 Consensus size: 30
56869472 GGAAGGAGAA
* *
56869482 GGTGGCGGTGGGGACTTATAGGCATACGGT
1 GGTGGTGGTGGGGACTTATAGGCATAAGGT
* * * **
56869512 GGTGGAGGTGGGGACTTGTAGACATAAGAA
1 GGTGGTGGTGGGGACTTATAGGCATAAGGT
* * ** *
56869542 GGTGGTGGTGGAGAGTTATAGGTGTATGGT
1 GGTGGTGGTGGGGACTTATAGGCATAAGGT
56869572 GGTGGTGGTGG
1 GGTGGTGGTGG
56869583 TGATGGTAGA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.26
Consensus pattern (30 bp):
GGTGGTGGTGGGGACTTATAGGCATAAGGT
Found at i:56869516 original size:48 final size:48
Alignment explanation
Indices: 56869428--56869519 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 48
56869418 NNNNNNNNNN
* * * *
56869428 GGAGATGGTGGAGGTGGGGACTTGTACACGTAGGGAGGTGGAGGGGAA
1 GGAGAAGGTGGAGGTGGGGACTTATACACATACGGAGGTGGAGGGGAA
* ** *
56869476 GGAGAAGGTGGCGGTGGGGACTTATAGGCATACGGTGGTGGAGG
1 GGAGAAGGTGGAGGTGGGGACTTATACACATACGGAGGTGGAGG
56869520 TGGGGACTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 36 1.00
ACGTcount: A:0.22, C:0.08, G:0.53, T:0.17
Consensus pattern (48 bp):
GGAGAAGGTGGAGGTGGGGACTTATACACATACGGAGGTGGAGGGGAA
Found at i:56872236 original size:23 final size:23
Alignment explanation
Indices: 56872194--56872237 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
56872184 ATACAAGGGT
*
56872194 AAAATTATAGTTTAACTCTCATA
1 AAAATTATAATTTAACTCTCATA
56872217 AAAATATATAATTTAA-TCTCA
1 AAAAT-TATAATTTAACTCTCA
56872238 ACCCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATTATAATTTAACTCTCATA
Found at i:56872416 original size:2 final size:2
Alignment explanation
Indices: 56872409--56872464 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
56872399 TGCAATGTCC
56872409 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56872451 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
56872465 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56877039 original size:14 final size:14
Alignment explanation
Indices: 56877017--56877048 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
56877007 TAAGACCATA
*
56877017 AAATTAAAAATTTT
1 AAATAAAAAATTTT
56877031 AAATAAAAAATTTT
1 AAATAAAAAATTTT
56877045 AAAT
1 AAAT
56877049 TATTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATAAAAAATTTT
Found at i:56878050 original size:8 final size:8
Alignment explanation
Indices: 56878026--56878064 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
56878016 AATTAAAATT
56878026 TTATAAAA
1 TTATAAAA
56878034 TT-TAAAAA
1 TTAT-AAAA
56878042 TTATAAAA
1 TTATAAAA
56878050 TTATAAAA
1 TTATAAAA
56878058 TTATAAA
1 TTATAAA
56878065 TCAATTCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTATAAAA
Found at i:56878840 original size:31 final size:33
Alignment explanation
Indices: 56878787--56878856 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
56878777 TTAATTATAA
56878787 TTTTATTAATAAAATAATATATATCACAATATT
1 TTTTATTAATAAAATAATATATATCACAATATT
56878820 TTTTATTAATAAAATAATATATATCACAATATT
1 TTTTATTAATAAAATAATATATATCACAATATT
56878853 TTTT
1 TTTT
56878857 CTTTTTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (33 bp):
TTTTATTAATAAAATAATATATATCACAATATT
Found at i:56882294 original size:2 final size:2
Alignment explanation
Indices: 56882287--56882316 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56882277 AGTTGGTGTG
56882287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56882317 TTGCAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56886553 original size:18 final size:18
Alignment explanation
Indices: 56886530--56886564 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56886520 GGTCATTGAA
*
56886530 TTTGATAATTAAGTTTAT
1 TTTGATAATTAAATTTAT
*
56886548 TTTGATATTTAAATTTA
1 TTTGATAATTAAATTTA
56886565 AAAAATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTGATAATTAAATTTAT
Found at i:56890260 original size:203 final size:205
Alignment explanation
Indices: 56889865--56890471 Score: 593
Period size: 210 Copynumber: 2.9 Consensus size: 205
56889855 TTAAACACGT
* * * *
56889865 GTTTGATCATTGGGTTTTTTTAATTATTTTATTTAAATATGATATAAAAGTACGAAAAGATAAAA
1 GTTTGATCATT-GG-ATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAAAA
* * * *
56889930 ATGAAATCATAATAATATTAATTATAATTTAAAAGGAGTATTTCTATAATTTCATAATTGAGTTG
64 GTGAAATCACAATAACATTAATTATAATTTAAAAGGAGTATTTCTATAATTTCATAATTAAGTTG
* * * ** * *
56889995 GTGATCCAGTTAAGGGTGACACTAGCTCCTTAAATTGCTTAAATATAAGTATTAGGTTAGATATT
129 GTGATCCAATTAAAGGTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATTAGATATT
*
56890060 -A-A-ATA-TGC
194 AACACATATTCC
* *
56890068 GTTTGATCATTGGATTTGTAATTATATTATTTAAAAATGATATAAAAGTACGAAAAGAGAAAAGT
1 GTTTGATCATTGGATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAAAAGT
* * *
56890133 GACATCACAATAACATTGATTATAATTTTACAAAAGGGGTATTTCTATAATTTCATAATTAAGTT
66 GAAATCACAATAACATTAATTATAA-TTT--AAAAGGAGTATTTCTATAATTTCATAATTAAGTT
* * *
56890198 GGTGA-CCAATTAAAGGTGACACTAACTCAGTAACGTGTTTAAATATAAGTATTATATTAGATAT
128 GGTGATCCAATTAAAGGTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATTAGATAT
56890262 TGAACACATATTCC
193 T-AACACATATTCC
* * **
56890276 GTCCTTGGAT--TTGTAATTTGTAATTATTTTATTTGAAAATGATATAAAAGTATAAAAAGACAA
1 GT--TT-GATCATTG-GATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAA
** *** * * * *
56890339 AAGTGTTATTGTAATAATATTAATTATAATTTAAAAGAAATGATATTTTTATAATTTCATAATTG
62 AAGTGAAATCACAATAACATTAATTATAATTTAAAAG-GA-G-TATTTCTATAATTTCATAATTA
* * * * * * * ** *
56890404 AGTAGG-CAGTTCAATT-AAGAGCGATACTAACTCAGTAAAATACTTAAATACGAGTATTATATT
124 AGTTGGTGA-TCCAATTAAAG-GTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATT
56890467 AGATA
187 AGATA
56890472 CGTTAAATAT
Statistics
Matches: 335, Mismatches: 51, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
201 67 0.20
202 5 0.01
203 61 0.18
204 37 0.11
205 1 0.00
206 1 0.00
207 8 0.02
208 4 0.01
209 8 0.02
210 95 0.28
211 48 0.14
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (205 bp):
GTTTGATCATTGGATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAAAAGT
GAAATCACAATAACATTAATTATAATTTAAAAGGAGTATTTCTATAATTTCATAATTAAGTTGGT
GATCCAATTAAAGGTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATTAGATATTAA
CACATATTCC
Found at i:56900249 original size:16 final size:18
Alignment explanation
Indices: 56900210--56900243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56900200 TAAGTTTATA
56900210 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
56900227 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
56900244 AATTTAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:56901777 original size:16 final size:16
Alignment explanation
Indices: 56901758--56901804 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
56901748 TTTTTAAAAG
56901758 AATATTTATTTATTTT
1 AATATTTATTTATTTT
* *
56901774 AATATTTAATAATTTT
1 AATATTTATTTATTTT
*
56901790 ATACATTT-TTTATTT
1 A-ATATTTATTTATTT
56901805 ATTGAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
AATATTTATTTATTTT
Found at i:56902815 original size:17 final size:19
Alignment explanation
Indices: 56902788--56902823 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
56902778 TCTAGCCTCG
56902788 ATATAATATTAAT-TTTAA
1 ATATAATATTAATATTTAA
56902806 ATAT-ATATTAATATTTAA
1 ATATAATATTAATATTTAA
56902824 TTTCGAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATAATATTAATATTTAA
Found at i:56903037 original size:89 final size:90
Alignment explanation
Indices: 56902900--56903066 Score: 239
Period size: 89 Copynumber: 1.9 Consensus size: 90
56902890 ACTCTTAAAC
* * * * * * * *
56902900 TTTTTCACAAAAAACAATTAAGCTATTGATTTTTTTTTGCATTTAATTGGGTATTTAAACTTTCA
1 TTTTTCACAAAAAACAATTAAGCCATTGATTTTCTCTTACACTCAATTGAGTACTTAAACTTTCA
56902965 AAATGCATCAAAAAGGTCCTCAAAA
66 AAATGCATCAAAAAGGTCCTCAAAA
56902990 TTTTTCA-AAAAAAGCAATTAAGCCATT-ATTTTCTCTTACACTCAATTGAGTACTTAAACTTTC
1 TTTTTCACAAAAAA-CAATTAAGCCATTGATTTTCTCTTACACTCAATTGAGTACTTAAACTTTC
56903053 AAAATGCATCAAAA
65 AAAATGCATCAAAA
56903067 GGCCTTCAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 49 0.72
90 19 0.28
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (90 bp):
TTTTTCACAAAAAACAATTAAGCCATTGATTTTCTCTTACACTCAATTGAGTACTTAAACTTTCA
AAATGCATCAAAAAGGTCCTCAAAA
Found at i:56903133 original size:87 final size:88
Alignment explanation
Indices: 56902908--56903153 Score: 225
Period size: 89 Copynumber: 2.8 Consensus size: 88
56902898 ACTTTTTCAC
* * * * * * *
56902908 AAAAAA-CAATTAAGCTATTGATTTTTTTTTGCATTTAATTGGGTATTTAAACTTTCAAAATGCA
1 AAAAAAGCAATTAAGCCA-TGATTTTCTCTTACACTCAATTGGGTACTTAAACTTTCAAAATGCA
* **
56902972 TCAAAAAGGTCCTCAAAATTTTTCA
65 TC-AAAAGGTCCTCAAAATCTTAAA
* *
56902997 AAAAAAGCAATTAAGCCATTATTTTCTCTTACACTCAATTGAGTACTTAAACTTTCAAAATGCAT
1 AAAAAAGCAATTAAGCCATGATTTTCTCTTACACTCAATTGGGTACTTAAACTTTCAAAATGCAT
56903062 CAAAAGG-CCTTC-AAA-CTTAAA
66 CAAAAGGTCC-TCAAAATCTTAAA
* * * * * *
56903083 AAAAAATCAATTAAGCCCCTGCTTTT-TTTTCCCACTCAATTGGGTACTTAAA-TTGCCAAAATG
1 AAAAAAGCAATTAAG-CCATGATTTTCTCTT-ACACTCAATTGGGTACTTAAACTT-TCAAAATG
*
56903146 CATTAAAA
63 CATCAAAA
56903154 ATATCTTTTG
Statistics
Matches: 131, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
86 22 0.17
87 45 0.34
88 8 0.06
89 46 0.35
90 10 0.08
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (88 bp):
AAAAAAGCAATTAAGCCATGATTTTCTCTTACACTCAATTGGGTACTTAAACTTTCAAAATGCAT
CAAAAGGTCCTCAAAATCTTAAA
Found at i:56904169 original size:21 final size:21
Alignment explanation
Indices: 56904143--56904185 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
56904133 GTTCGGACTC
*
56904143 TAAGAAAGTGTGGGAAAATCT
1 TAAGAAAGTGCGGGAAAATCT
56904164 TAAGAAAGTGCGGGAAAATCT
1 TAAGAAAGTGCGGGAAAATCT
56904185 T
1 T
56904186 GTAACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (21 bp):
TAAGAAAGTGCGGGAAAATCT
Found at i:56909446 original size:3 final size:3
Alignment explanation
Indices: 56909438--56909464 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
56909428 AGAAAAGGTT
56909438 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
56909465 AATAATGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:56924349 original size:3 final size:3
Alignment explanation
Indices: 56924343--56924368 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56924333 ATAAAAAAAA
56924343 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
56924369 AAAGTGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:56931725 original size:21 final size:22
Alignment explanation
Indices: 56931692--56931735 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
56931682 ATACAGCATG
*
56931692 TATATTATTTTAATTTTAATTA
1 TATATTATTTTAATTATAATTA
56931714 TATATT-TTTTAATTATAATTA
1 TATATTATTTTAATTATAATTA
56931735 T
1 T
56931736 TAATTTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTATTTTAATTATAATTA
Found at i:56932377 original size:4 final size:4
Alignment explanation
Indices: 56932368--56932400 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
56932358 AGCCAATTTG
56932368 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
56932401 CATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:56942242 original size:19 final size:19
Alignment explanation
Indices: 56942220--56942257 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56942210 CTGTGTTAAA
* *
56942220 AGTTTTTAAATTTTAAATT
1 AGTTTTCAAACTTTAAATT
56942239 AGTTTTCAAACTTTAAATT
1 AGTTTTCAAACTTTAAATT
56942258 TTTCTAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
AGTTTTCAAACTTTAAATT
Found at i:56968657 original size:2 final size:2
Alignment explanation
Indices: 56968650--56968676 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56968640 AAAACTTTAA
56968650 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
56968677 TTACAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:56969574 original size:29 final size:29
Alignment explanation
Indices: 56969532--56969605 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
56969522 ATAGGTATCT
56969532 AATCAAATTAGTCCCTCTGTTATTAAATG
1 AATCAAATTAGTCCCTCTGTTATTAAATG
56969561 AATCAAATTAGTCCCTCTGTTATTAAATG
1 AATCAAATTAGTCCCTCTGTTATTAAATG
* *
56969590 AAACAATTTAGTCCCT
1 AATCAAATTAGTCCCT
56969606 ATACTAGTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (29 bp):
AATCAAATTAGTCCCTCTGTTATTAAATG
Found at i:56969616 original size:29 final size:29
Alignment explanation
Indices: 56969535--56969631 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
56969525 GGTATCTAAT
* ** * *
56969535 CAAATTAGTCCCTCTGTTATTAAATGAAT
1 CAAATTAGTCCCTATACTAGTAAATGAAA
* ** *
56969564 CAAATTAGTCCCTCTGTTATTAAATGAAA
1 CAAATTAGTCCCTATACTAGTAAATGAAA
* * *
56969593 CAATTTAGTCCCTATACTAGTAAAAGAAT
1 CAAATTAGTCCCTATACTAGTAAATGAAA
*
56969622 CAAATAAGTC
1 CAAATTAGTC
56969632 TAAATTGTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (29 bp):
CAAATTAGTCCCTATACTAGTAAATGAAA
Found at i:56971427 original size:31 final size:31
Alignment explanation
Indices: 56971392--56971465 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
56971382 AAGTATTAAT
56971392 TTGAACCAAAAAGCCAAGTTTAGGTACCAAA
1 TTGAACCAAAAAGCCAAGTTTAGGTACCAAA
** * *
56971423 TTGAA-CATTGAGGCCAAGTTTAGGTACCTAA
1 TTGAACCA-AAAAGCCAAGTTTAGGTACCAAA
* *
56971454 TTGGACAAAAAA
1 TTGAACCAAAAA
56971466 AACCTTATGT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
30 2 0.06
31 29 0.91
32 1 0.03
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (31 bp):
TTGAACCAAAAAGCCAAGTTTAGGTACCAAA
Found at i:56972193 original size:32 final size:33
Alignment explanation
Indices: 56972152--56972233 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
56972142 AATATTAATC
*
56972152 AAGCATCTCAAAAATTTTAAAAATTCTC-ATTA
1 AAGCCTCTCAAAAATTTTAAAAATTCTCTATTA
** * *
56972184 AAGCCTCTCAAATTCTTTTGAAAATTTTCTATTA
1 AAGCCTCTCAAA-AATTTTAAAAATTCTCTATTA
*
56972218 AACCCTC-CAAAAATTT
1 AAGCCTCTCAAAAATTT
56972234 GGAAACTCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 14 0.35
33 16 0.40
34 10 0.25
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.37
Consensus pattern (33 bp):
AAGCCTCTCAAAAATTTTAAAAATTCTCTATTA
Found at i:56973612 original size:19 final size:19
Alignment explanation
Indices: 56973573--56973612 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
56973563 ACTCATTGGT
* *
56973573 TTTTATTTAATATTTAGTA
1 TTTTATATAATATGTAGTA
*
56973592 TTTTATATAATATGTATTA
1 TTTTATATAATATGTAGTA
56973611 TT
1 TT
56973613 CCTTTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATATAATATGTAGTA
Found at i:56977599 original size:137 final size:138
Alignment explanation
Indices: 56977432--56977697 Score: 392
Period size: 137 Copynumber: 1.9 Consensus size: 138
56977422 AATTTATCGA
* * ** * *
56977432 AAACCCAATTTTTTTTAAAAATTAAACATATTATGTCGATTATTCATTCATATCTC-AATTCGAG
1 AAACCCAATTTATTTAAAAAAAAAAACATATTACGTCAATTATTCATTCATATC-CAAATTCGAG
56977496 TAATAAAAAAATTAAAAACAACCATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAA
65 TAATAAAAAAATTAAAAACAACCATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAA
56977561 ATTAATCCG
130 ATTAATCCG
56977570 AAACCCAA-TTATTTAAAAAAAAAAACATATTACGTCAATTATTCATTCATATCCAAATTCGAGT
1 AAACCCAATTTATTTAAAAAAAAAAACATATTACGTCAATTATTCATTCATATCCAAATTCGAGT
* ** * * * *
56977634 AATAAAAAGATTAAAAAGGAGCATGTAAGAATATGAGGATGAGAAAGCAAAGTGAAAAGATAAA
66 AATAAAAAAATTAAAAACAACCATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAA
56977698 GTGATAAAAG
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
136 1 0.01
137 105 0.92
138 8 0.07
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (138 bp):
AAACCCAATTTATTTAAAAAAAAAAACATATTACGTCAATTATTCATTCATATCCAAATTCGAGT
AATAAAAAAATTAAAAACAACCATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAAA
TTAATCCG
Found at i:56993505 original size:20 final size:20
Alignment explanation
Indices: 56993480--56993522 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
56993470 TTAGTTGATG
56993480 TGTGGCATTGATGGACCTTA
1 TGTGGCATTGATGGACCTTA
56993500 TGTGGCATTGATGGACCTTA
1 TGTGGCATTGATGGACCTTA
56993520 TGT
1 TGT
56993523 AATTTTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (20 bp):
TGTGGCATTGATGGACCTTA
Found at i:56996469 original size:21 final size:21
Alignment explanation
Indices: 56996445--56996484 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56996435 GATCAAACAG
*
56996445 AAAACTAAT-CATTTATGTTA
1 AAAAATAATGCATTTATGTTA
*
56996465 AAAAATTATGCATTTATGTT
1 AAAAATAATGCATTTATGTT
56996485 GCTAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
AAAAATAATGCATTTATGTTA
Found at i:56997969 original size:31 final size:30
Alignment explanation
Indices: 56997912--56997971 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
56997902 ATAGCTCAGT
*
56997912 GACTTAAATAAAATTTTAAAATAGTTTAGA
1 GACTTAAATAAAACTTTAAAATAGTTTAGA
**
56997942 GACTTAAATAAAAACTTTCGAATAGTTTAG
1 GACTTAAAT-AAAACTTTAAAATAGTTTAG
56997972 TGACCAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (30 bp):
GACTTAAATAAAACTTTAAAATAGTTTAGA
Found at i:57005844 original size:66 final size:65
Alignment explanation
Indices: 57005754--57005924 Score: 261
Period size: 66 Copynumber: 2.6 Consensus size: 65
57005744 TGGTTAAACA
* * * * *
57005754 GAATAAATTATCGAATTTTTATTTAATTGAATCAATTATGTTTGATTATTTTATTCGGTTTTATG
1 GAATAAATTATCG-ATTTTGATTTAATTGAATAAATTATATTTGATTAGTTTATTCGATTTTATG
57005819 T
65 T
57005820 GAATAAATTATCGATTTTCGATTTAATTGAATAAATTATATTTGATTAGTTTATTCGATTTTATG
1 GAATAAATTATCGATTTT-GATTTAATTGAATAAATTATATTTGATTAGTTTATTCGATTTTATG
57005885 T
65 T
*
57005886 GAATAAATTATCAATTTTTGATTTAATTGAATAAATTAT
1 GAATAAATTATCGA-TTTTGATTTAATTGAATAAATTAT
57005925 CGATTTTATA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
65 5 0.05
66 88 0.91
67 4 0.04
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (65 bp):
GAATAAATTATCGATTTTGATTTAATTGAATAAATTATATTTGATTAGTTTATTCGATTTTATGT
Found at i:57005909 original size:29 final size:28
Alignment explanation
Indices: 57005876--57005931 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
57005866 TAGTTTATTC
*
57005876 GATTTTATGTGAATAAATTATCAATTTTT
1 GATTTAAT-TGAATAAATTATCAATTTTT
*
57005905 GATTTAATTGAATAAATTATCGATTTT
1 GATTTAATTGAATAAATTATCAATTTT
57005932 ATATTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.50
Consensus pattern (28 bp):
GATTTAATTGAATAAATTATCAATTTTT
Found at i:57006733 original size:16 final size:16
Alignment explanation
Indices: 57006712--57006763 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
57006702 TTTAGTTCGC
*
57006712 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
57006728 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
57006744 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
57006760 TGTA
1 TGTA
57006764 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:57006810 original size:45 final size:44
Alignment explanation
Indices: 57006744--57006838 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
57006734 GGATTAGAGG
*
57006744 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
57006789 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
57006833 TGTAAT
1 TGTAAT
57006839 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:57007026 original size:17 final size:16
Alignment explanation
Indices: 57006997--57007036 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
57006987 AATTATTATT
57006997 AAATATA-TTTTAATTA
1 AAATATATTTTTAA-TA
57007013 AAATATATTTTTAATA
1 AAATATATTTTTAATA
57007029 AAAT-TATT
1 AAATATATT
57007037 AATAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 13 0.57
17 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATATTTTTAATA
Found at i:57007123 original size:119 final size:120
Alignment explanation
Indices: 57006982--57007273 Score: 430
Period size: 120 Copynumber: 2.4 Consensus size: 120
57006972 ATCATATTTA
*
57006982 AACATAATTATTATTAAATATATTTTAATTAAAATATAT-TTTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
57007046 TATTCTTACATGAATTTAATCAAATCATAATATATGATACTGTAAA-ATATAAATT-
66 TATTCTTACATGAATTTAATCAAATCATAATATATGATACTATAAAGA-A-AAATTG
* * *
57007101 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
* * *
57007166 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAGAAAATTTG
66 TATTCTTACATGAATTTAATCAAATCATAATATATGATACTATAAAGAAAAATTG
* * *
57007221 AA-ATAATTAATATTAAATATATTTAAATTTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAA-TTAAAATATATAATTTAATAAAATT
57007274 TAAAATAATT
Statistics
Matches: 157, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 64 0.41
120 92 0.59
121 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
TATTCTTACATGAATTTAATCAAATCATAATATATGATACTATAAAGAAAAATTG
Found at i:57007146 original size:14 final size:15
Alignment explanation
Indices: 57007097--57007148 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57007087 GTAAAATATA
57007097 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
57007112 TATTAAATATATTAT
1 AATTAAATATATTAT
57007127 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
57007140 AATTTAATA
1 AATTAAATA
57007149 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:57007414 original size:90 final size:90
Alignment explanation
Indices: 57007289--57007495 Score: 326
Period size: 90 Copynumber: 2.3 Consensus size: 90
57007279 TAATTATAAC
* * *
57007289 TAATAAATTATATTT-TATGAATTTGTATAATTTAAAATAATAAATATTACATATAATTTAATAA
1 TAATAAATT-T-TTTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAA
57007353 TAATATATAATTTCATAAAATTCTTAA
64 TAATATATAATTTCATAAAATTCTTAA
*
57007380 TAATAAATTTTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
1 TAATAAATTTTTTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAATA
57007445 ATATATAATTTCATAAAATTCTTAA
66 ATATATAATTTCATAAAATTCTTAA
*
57007470 TAATAAAATATTCTTATATGAATTTA
1 TAAT-AAAT-TTTTTATATGAATTTA
57007496 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
89 3 0.03
90 77 0.71
91 13 0.12
92 15 0.14
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (90 bp):
TAATAAATTTTTTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:57007416 original size:43 final size:44
Alignment explanation
Indices: 57007358--57007500 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 44
57007348 AATAATAATA
*
57007358 TATAATTTCATAAAATTCTTAATAATAAAT-TTTTTATATGAATT
1 TATAAATT-ATAAAATTCTTAATAATAAATATTTTTATATGAATT
** * * *
57007402 TATACAATT-TAAAATAATTAATATTAAATATAATTTAATAAT-AATA
1 TATA-AATTATAAAATTCTTAATAATAAATAT--TTTTAT-ATGAATT
* *
57007448 TATAATTTCATAAAATTCTTAATAATAAAATATTCTTATATGAATT
1 TATAAATT-ATAAAATTCTTAATAAT-AAATATTTTTATATGAATT
57007494 TACTAAA
1 TA-TAAA
57007501 ATCAATATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
43 17 0.23
44 5 0.07
45 8 0.11
46 21 0.28
47 18 0.24
48 6 0.08
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (44 bp):
TATAAATTATAAAATTCTTAATAATAAATATTTTTATATGAATT
Found at i:57007436 original size:16 final size:16
Alignment explanation
Indices: 57007410--57007454 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
57007400 TTTATACAAT
57007410 TTAAA-ATAATTAATA
1 TTAAATATAATTAATA
57007425 TTAAATATAATTTAATA
1 TTAAATATAA-TTAATA
*
57007442 ATAATATATAATT
1 TTAA-ATATAATT
57007455 TCATAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 5 0.19
16 4 0.15
17 11 0.42
18 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATATAATTAATA
Found at i:57007452 original size:18 final size:17
Alignment explanation
Indices: 57007411--57007460 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
57007401 TTATACAATT
*
57007411 TAAA-ATAA-TTAATAT
1 TAAATATAATTTAATAA
57007426 TAAATATAATTTAATAA
1 TAAATATAATTTAATAA
*
57007443 TAATATATAATTTCATAA
1 TAA-ATATAATTTAATAA
57007461 AATTCTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 9 0.30
18 13 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATATAATTTAATAA
Found at i:57011189 original size:29 final size:29
Alignment explanation
Indices: 57011157--57011213 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
57011147 TATTTTATCC
57011157 TATACTTT-ATAATTAAATTTAAATAAAAG
1 TATACTTTAATAATTAAATTTAAA-AAAAG
* *
57011186 TATATTTTAATTATTAAATTTAAAAAAA
1 TATACTTTAATAATTAAATTTAAAAAAA
57011214 CCCTTGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (29 bp):
TATACTTTAATAATTAAATTTAAAAAAAG
Found at i:57017738 original size:29 final size:30
Alignment explanation
Indices: 57017683--57017745 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
57017673 TTGGTCTTAT
* *
57017683 TTAATTCTTTTTAATAATATAGAGACTAAA
1 TTAATTCTATTTAATAATAAAGAGACTAAA
*
57017713 TTAA-TCTATTTAATAATAAATG-GACTAAT
1 TTAATTCTATTTAATAATAAA-GAGACTAAA
57017742 TTAA
1 TTAA
57017746 ATCAATTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
TTAATTCTATTTAATAATAAAGAGACTAAA
Found at i:57017769 original size:31 final size:29
Alignment explanation
Indices: 57017692--57017769 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
57017682 TTTAATTCTT
* *
57017692 TTTAATAATATAGAGACTAAATTAATCTA
1 TTTAATAATATAGGGACTAAATTAATCAA
* * *
57017721 TTTAATAATAAATGGACTAATTTAAATCAA
1 TTTAATAATATAGGGACTAAATT-AATCAA
57017751 TTCCT-ATAATATAGGGACT
1 TT--TAATAATATAGGGACT
57017770 TCCAAGTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 19 0.49
30 7 0.18
31 12 0.31
32 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (29 bp):
TTTAATAATATAGGGACTAAATTAATCAA
Found at i:57020298 original size:30 final size:29
Alignment explanation
Indices: 57020264--57020346 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
57020254 AATGCTCGAC
*
57020264 CTTTTTAAAAGTGTTCAAATAAAGGTCAAA
1 CTTTTTAAAA-TGATCAAATAAAGGTCAAA
* *
57020294 CTTTTCAAAATGATCCAATAAAGGTCAAA
1 CTTTTTAAAATGATCAAATAAAGGTCAAA
* * *
57020323 CCTTTTCGAAAATGCTCCAATAAA
1 -CTTTT-TAAAATGATCAAATAAA
57020347 AGCTTCTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.37
30 14 0.30
31 15 0.33
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (29 bp):
CTTTTTAAAATGATCAAATAAAGGTCAAA
Found at i:57020313 original size:29 final size:31
Alignment explanation
Indices: 57020281--57020346 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
57020271 AAAGTGTTCA
57020281 AATAAAGGTCAAA-CTTTTC-AAAATGATCC
1 AATAAAGGTCAAACCTTTTCGAAAATGATCC
*
57020310 AATAAAGGTCAAACCTTTTCGAAAATGCTCC
1 AATAAAGGTCAAACCTTTTCGAAAATGATCC
57020341 AATAAA
1 AATAAA
57020347 AGCTTCTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 13 0.38
30 6 0.18
31 15 0.44
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (31 bp):
AATAAAGGTCAAACCTTTTCGAAAATGATCC
Found at i:57024574 original size:9 final size:8
Alignment explanation
Indices: 57024560--57024611 Score: 59
Period size: 9 Copynumber: 5.9 Consensus size: 8
57024550 TTTGGTTAAA
57024560 AATTACGCG
1 AATTAC-CG
57024569 AATTACCCG
1 AATTA-CCG
57024578 AATTATCCG
1 AATTA-CCG
57024587 AATTAACCG
1 AATT-ACCG
57024596 AATTAACCG
1 AATT-ACCG
57024605 AATTACC
1 AATTACC
57024612 AAAAAATACC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
8 3 0.08
9 35 0.88
10 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (8 bp):
AATTACCG
Found at i:57024588 original size:18 final size:18
Alignment explanation
Indices: 57024567--57024611 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
57024557 AAAAATTACG
*
57024567 CGAATTACCCGAATTATC
1 CGAATTACCCGAATTAAC
*
57024585 CGAATTAACCGAATTAAC
1 CGAATTACCCGAATTAAC
57024603 CGAATTACC
1 CGAATTACC
57024612 AAAAAATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (18 bp):
CGAATTACCCGAATTAAC
Found at i:57024667 original size:9 final size:8
Alignment explanation
Indices: 57024652--57024677 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
57024642 ATTTTTTATT
57024652 TTTAAAAA
1 TTTAAAAA
57024660 TTTAAAAA
1 TTTAAAAA
57024668 TTTAAAAA
1 TTTAAAAA
57024676 TT
1 TT
57024678 ATTAAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTTAAAAA
Found at i:57024794 original size:13 final size:13
Alignment explanation
Indices: 57024776--57024805 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
57024766 TTTTAGTTTT
57024776 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
57024789 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
57024802 ATTG
1 ATTG
57024806 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:57025676 original size:31 final size:31
Alignment explanation
Indices: 57025582--57025677 Score: 120
Period size: 31 Copynumber: 3.1 Consensus size: 31
57025572 TTTTTCTTTA
* *
57025582 TTTTTTGGGTTTTGTATTAATTTTCTATATG
1 TTTTATGGGTTTTGTATTAATTTTCGATATG
* * * * *
57025613 TCTAATGGATTTTGTTTTACTTTTCGATATG
1 TTTTATGGGTTTTGTATTAATTTTCGATATG
*
57025644 TTTTGTGGGTTTTGTATTAATTTTCGATATG
1 TTTTATGGGTTTTGTATTAATTTTCGATATG
57025675 TTT
1 TTT
57025678 GGTGTTTCTT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.17, C:0.05, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATGGGTTTTGTATTAATTTTCGATATG
Found at i:57030380 original size:2 final size:2
Alignment explanation
Indices: 57030373--57030405 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57030363 TTCCACCTCA
57030373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57030406 AAAGTCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57036296 original size:34 final size:34
Alignment explanation
Indices: 57036253--57036317 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
57036243 TAAGGCAGAA
57036253 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
*
57036287 TTGTAGTAAAATTCAAGTTACCATTGTTCTT
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTT
57036318 CTTCTTACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (34 bp):
TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
Found at i:57040970 original size:22 final size:22
Alignment explanation
Indices: 57040915--57040971 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
57040905 ACTTTTATAA
*
57040915 ATAATAAAAATTATAAATATTT
1 ATAATAAAATTTATAAATATTT
* * * * *
57040937 ATATTTATATTTATATATTTTT
1 ATAATAAAATTTATAAATATTT
57040959 ATAATAAAATTTA
1 ATAATAAAATTTA
57040972 AATTAATTTT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAATAAAATTTATAAATATTT
Found at i:57041386 original size:20 final size:22
Alignment explanation
Indices: 57041353--57041402 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
57041343 AAAGAATTCA
*
57041353 ATAAATA-AAAAATATATT-AT
1 ATAAATATTAAAATATATTAAT
*
57041373 -TAAATATTAAAATATTTTAAT
1 ATAAATATTAAAATATATTAAT
57041394 ATAAATATT
1 ATAAATATT
57041403 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 9 0.36
21 2 0.08
22 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAATATTAAAATATATTAAT
Found at i:57047284 original size:18 final size:18
Alignment explanation
Indices: 57047262--57047297 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57047252 TTTTTTATAA
*
57047262 AAAAATTATTAATTATTTC
1 AAAAATT-TTAATAATTTC
57047281 AAAAATTTTAATAATTT
1 AAAAATTTTAATAATTT
57047298 TAATTAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAAATTTTAATAATTTC
Found at i:57048820 original size:4 final size:4
Alignment explanation
Indices: 57048811--57048835 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
57048801 AAACAAGATA
57048811 GCAT GCAT GCAT GCAT GCAT GCAT G
1 GCAT GCAT GCAT GCAT GCAT GCAT G
57048836 TAAATCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (4 bp):
GCAT
Found at i:57060696 original size:10 final size:10
Alignment explanation
Indices: 57060681--57060706 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
57060671 AGCCAGTACC
57060681 TGTATTGATA
1 TGTATTGATA
57060691 TGTATTGATA
1 TGTATTGATA
57060701 TGTATT
1 TGTATT
57060707 AACCCATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (10 bp):
TGTATTGATA
Found at i:57063845 original size:12 final size:12
Alignment explanation
Indices: 57063828--57063852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57063818 TCTCCGACAC
57063828 TGATTGTTAAAT
1 TGATTGTTAAAT
57063840 TGATTGTTAAAT
1 TGATTGTTAAAT
57063852 T
1 T
57063853 TAACTCAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGATTGTTAAAT
Found at i:57065445 original size:22 final size:21
Alignment explanation
Indices: 57065404--57065445 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
57065394 TTGAGTATCA
* *
57065404 AAATATATAACTTTGTCAAAT
1 AAATATATAAATTTGACAAAT
57065425 AAATATATCAAATTTGACAAA
1 AAATATAT-AAATTTGACAAA
57065446 AATAATACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
AAATATATAAATTTGACAAAT
Found at i:57074801 original size:1 final size:1
Alignment explanation
Indices: 57074790--57074819 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
57074780 TGGGACTTTC
*
57074790 TTTTGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57074820 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:57081734 original size:10 final size:10
Alignment explanation
Indices: 57081721--57081745 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57081711 AAATGTAAAA
57081721 AAAAACTTAT
1 AAAAACTTAT
57081731 AAAAACTTAT
1 AAAAACTTAT
57081741 AAAAA
1 AAAAA
57081746 ATATTTTAAA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAACTTAT
Found at i:57081757 original size:23 final size:22
Alignment explanation
Indices: 57081699--57081798 Score: 76
Period size: 23 Copynumber: 4.3 Consensus size: 22
57081689 TGAAATCAAT
57081699 AATATTATTAAAAAATGTA-AAAA
1 AATATT-TTAAAAAAT-TATAAAA
* * *
57081722 AAAACTTATAAAAACTTATAAAA
1 AATA-TTTTAAAAAATTATAAAA
*
57081745 AATATTTTAAAAAAGTTTTAAAA
1 AATATTTTAAAAAA-TTATAAAA
* * *
57081768 TATTTTTTTATAAAATTATAAAA
1 -AATATTTTAAAAAATTATAAAA
57081791 AAGTATTT
1 AA-TATTT
57081799 AAATTTCAAG
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
22 11 0.19
23 35 0.59
24 13 0.22
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (22 bp):
AATATTTTAAAAAATTATAAAA
Found at i:57081963 original size:7 final size:7
Alignment explanation
Indices: 57081951--57081984 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
57081941 TTTAAATTTG
57081951 TTATATA
1 TTATATA
57081958 TTATATA
1 TTATATA
57081965 TTATATA
1 TTATATA
57081972 TTATATA
1 TTATATA
*
57081979 TGATAT
1 TTATAT
57081985 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (7 bp):
TTATATA
Found at i:57082002 original size:6 final size:7
Alignment explanation
Indices: 57081985--57082014 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
57081975 TATATGATAT
57081985 TTTTTTA
1 TTTTTTA
57081992 TTTTTTA
1 TTTTTTA
57081999 TTTTTTA
1 TTTTTTA
57082006 TTTTTTA
1 TTTTTTA
57082013 TT
1 TT
57082015 GGCAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:57082226 original size:3 final size:3
Alignment explanation
Indices: 57082220--57082254 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
57082210 AAAAAAATTG
57082220 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
57082255 TAAATTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.