Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 136 of 253
Found at i:43550069 original size:173 final size:174
Alignment explanation
Indices: 43549755--43550081 Score: 575
Period size: 173 Copynumber: 1.9 Consensus size: 174
43549745 AAATTGTACA
* *
43549755 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
43549820 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
43549885 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
43549929 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
43549994 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
43550058 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
43550082 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
173 81 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:43557930 original size:29 final size:28
Alignment explanation
Indices: 43557897--43557974 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
43557887 CATGGAGATT
43557897 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
43557927 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
43557954 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
43557975 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:43558248 original size:173 final size:174
Alignment explanation
Indices: 43557927--43558253 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
43557917 AAATTGTACA
* *
43557927 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
43557992 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
43558057 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
43558101 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
43558166 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
43558230 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
43558254 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:43568345 original size:56 final size:56
Alignment explanation
Indices: 43568285--43568421 Score: 193
Period size: 56 Copynumber: 2.4 Consensus size: 56
43568275 TCCCAAACGG
* * * * * *
43568285 GGTCTTACTTGCACACATATATCGGAGTCGCATATCGATGCCCATGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAATGT
*
43568341 GGTCTTACTCGCACACAAATATCGAAGTCACATATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAATGT
* *
43568397 GGTTTTACTCGTACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
43568422 TGCCATGGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAATGT
Found at i:43576270 original size:48 final size:48
Alignment explanation
Indices: 43575781--43576262 Score: 766
Period size: 48 Copynumber: 10.0 Consensus size: 48
43575771 CAAGATAAAT
* * *
43575781 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
*
43575829 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
*
43575877 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
43575925 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
43575973 ATATATATATGTGGTAAATCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * * *
43576021 ATATATATATGCGGTAAATCCGAATGGCTAATGTGAAATATGTTTGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
43576069 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
*
43576117 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * *
43576165 ATATATATATGCGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * *
43576213 ATATGTATATGTGGTAAAGCCGTATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
43576261 AT
1 AT
43576263 GTGTATATAT
Statistics
Matches: 404, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 404 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:43594174 original size:15 final size:15
Alignment explanation
Indices: 43594136--43594214 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
43594126 GTATCTTGGG
*
43594136 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
43594151 TCT-TTTATTCTGGA
1 TTTCTTTATTCTGGA
*
43594165 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
43594180 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
43594195 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
43594209 TTTCTT
1 TTTCTT
43594215 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 22 0.42
15 29 0.55
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:43594178 original size:29 final size:30
Alignment explanation
Indices: 43594127--43594213 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
43594117 CATAGTATCG
* *
43594127 TATCTTGGGTTTCTTTATCCTGGATCTT-T-
1 TATCTTGGATTTCTTTATTCTGGAT-TTCTC
*
43594156 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
43594186 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
43594214 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.06
29 28 0.56
30 18 0.36
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:43598821 original size:40 final size:40
Alignment explanation
Indices: 43598766--43598982 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
43598756 CGGATGATAA
* *
43598766 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
43598806 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43598846 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43598886 CCGGGCTAGGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43598925 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
43598965 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43598983 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 54 0.33
40 111 0.67
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43598934 original size:79 final size:80
Alignment explanation
Indices: 43598762--43598982 Score: 342
Period size: 79 Copynumber: 2.8 Consensus size: 80
43598752 TATCCGGATG
* *
43598762 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
43598826 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* *
43598842 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
43598906 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
43598921 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
43598983 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
78 8 0.06
79 72 0.55
80 49 0.38
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:43615082 original size:19 final size:20
Alignment explanation
Indices: 43615058--43615107 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
43615048 TACAAGATAT
43615058 AAAATAAAAATATATTTT-A
1 AAAATAAAAATATATTTTCA
* *
43615077 AAAATAATACAATTTATTTTCT
1 AAAATAA-A-AATATATTTTCA
43615099 AAAATAAAA
1 AAAATAAAA
43615108 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.27
20 2 0.08
21 10 0.38
22 7 0.27
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAAAAATATATTTTCA
Found at i:43615102 original size:22 final size:19
Alignment explanation
Indices: 43615057--43615116 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
43615047 ATACAAGATA
43615057 TAAAATAAAAATATATTTT
1 TAAAATAAAAATATATTTT
* *
43615076 AAAAATAATACAATTTATTTT
1 TAAAATAA-A-AATATATTTT
*
43615097 CTAAAATAAAATTA-ATTTT
1 -TAAAATAAAAATATATTTT
43615116 T
1 T
43615117 TTATTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 3 0.09
21 10 0.30
22 7 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAATAAAAATATATTTT
Found at i:43619358 original size:25 final size:25
Alignment explanation
Indices: 43619330--43619382 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
43619320 TAAGTCAAAA
* * *
43619330 TTTTTTTCTCCTTGTAATTTG-ACT
1 TTTTTTTGTCTTTGTAAATTGAACT
43619354 TTTTTTTGTCTTTGTAAATTGAACT
1 TTTTTTTGTCTTTGTAAATTGAACT
43619379 TTTT
1 TTTT
43619383 GTCCCCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.64
Consensus pattern (25 bp):
TTTTTTTGTCTTTGTAAATTGAACT
Found at i:43619498 original size:24 final size:24
Alignment explanation
Indices: 43619444--43619499 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
43619434 TCAATTTTTC
*
43619444 CCCTATAATTCAACCTTTTTTTGT
1 CCCTGTAATTCAACCTTTTTTTGT
** *
43619468 CATTGTAATTCAACTTTTTTTTGT
1 CCCTGTAATTCAACCTTTTTTTGT
43619492 CCCTGTAA
1 CCCTGTAA
43619500 ATCGATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (24 bp):
CCCTGTAATTCAACCTTTTTTTGT
Found at i:43619509 original size:24 final size:24
Alignment explanation
Indices: 43619453--43619511 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
43619443 CCCCTATAAT
* * *
43619453 TCAACCTTTTTTTGTCATTGTAAT
1 TCAACTTTTTTTTGTCACTGTAAA
*
43619477 TCAACTTTTTTTTGTCCCTGTAAA
1 TCAACTTTTTTTTGTCACTGTAAA
*
43619501 TCGA-TTTTTTT
1 TCAACTTTTTTT
43619512 GAAATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (24 bp):
TCAACTTTTTTTTGTCACTGTAAA
Found at i:43626047 original size:49 final size:49
Alignment explanation
Indices: 43625975--43626161 Score: 275
Period size: 49 Copynumber: 3.8 Consensus size: 49
43625965 TGAGGTCACG
*
43625975 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGTA
* * ** * *
43626024 TGTGTAGTACTAGGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGTA
*
43626074 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGTA
* *
43626123 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
43626162 GCTTCGGCTA
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
49 79 0.66
50 41 0.34
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGTA
Found at i:43626140 original size:99 final size:99
Alignment explanation
Indices: 43625967--43626148 Score: 328
Period size: 99 Copynumber: 1.8 Consensus size: 99
43625957 AGCTATTGTG
43625967 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
*
43626032 ACTAGGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
* * *
43626066 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGTATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
43626131 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
43626149 TGCGTACCAG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 79 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:43627603 original size:30 final size:30
Alignment explanation
Indices: 43627564--43627632 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
43627554 GTACAGGGCT
*
43627564 CACACGCCCGTGTGGTCAGGCCATGTACTA
1 CACACGCCCGTATGGTCAGGCCATGTACTA
* *
43627594 CACATGCCCGTATGGTCAGGCCGTGTACTA
1 CACACGCCCGTATGGTCAGGCCATGTACTA
43627624 CACACGCCC
1 CACACGCCC
43627633 ATATTCGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (30 bp):
CACACGCCCGTATGGTCAGGCCATGTACTA
Found at i:43630144 original size:49 final size:49
Alignment explanation
Indices: 43630091--43630305 Score: 270
Period size: 49 Copynumber: 4.3 Consensus size: 49
43630081 CTGGTACGCA
* *
43630091 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
* *
43630140 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
* * *
43630189 TAGTAGCCTGCACTTAGTACTGCACACGTGACCTAATCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCAG-TACACG
* * ** * *
43630239 TAGTAGCCTGCACTTAGTACTACACACGTGGTCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGT-GACCAA-TTATCCAGTACACG
43630290 TAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTA
43630306 TTCATCATAT
Statistics
Matches: 145, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
49 78 0.54
50 41 0.28
51 25 0.17
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
Found at i:43630258 original size:99 final size:100
Alignment explanation
Indices: 43630072--43630305 Score: 303
Period size: 99 Copynumber: 2.4 Consensus size: 100
43630062 ACATATGTAG
* * * * *
43630072 CCAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTAC
1 CCAAGTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATCATCCAGTAC
43630137 ACGTAGTAGCCTGCACTTAGTACTACACACAT-GA
66 ACGTAGTAGCCTGCACTTAGTACTACACACATGGA
* * * *
43630171 CCAA-TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTGCACACGTGACCTAATCAT-CTGAT
1 CCAAGTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATCATCCAG-T
* *
43630234 ACACGTAGTAGCCTGCACTTAGTACTACACACGTGGT
64 ACACGTAGTAGCCTGCACTTAGTACTACACACATGGA
* * *
43630271 CGAAGTTATCGGGTACGCATAGTAGCCTGCACTTA
1 CCAAGTTATCCGGTACACATAGTAGCCTGCACTTA
43630306 TTCATCATAT
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
98 42 0.36
99 43 0.37
100 4 0.03
101 27 0.23
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
CCAAGTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATCATCCAGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACATGGA
Found at i:43632710 original size:25 final size:22
Alignment explanation
Indices: 43632681--43632726 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
43632671 AACATGATTC
43632681 ATAACTAACAAATTACCGAATAAAG
1 ATAAC-AACAAA--ACCGAATAAAG
*
43632706 ATAACAAGAAAACCGAATAAA
1 ATAACAACAAAACCGAATAAA
43632727 AAATCCAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
24 5 0.25
25 5 0.25
ACGTcount: A:0.61, C:0.15, G:0.09, T:0.15
Consensus pattern (22 bp):
ATAACAACAAAACCGAATAAAG
Found at i:43632766 original size:15 final size:15
Alignment explanation
Indices: 43632711--43632774 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
43632701 TAAAGATAAC
*
43632711 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43632725 AA-AAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
43632739 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
43632754 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
43632769 AAGAAA
1 AAGAAA
43632775 CCCAAGATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
13 6 0.14
14 7 0.17
15 28 0.67
16 1 0.02
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43632776 original size:30 final size:30
Alignment explanation
Indices: 43632711--43632778 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
43632701 TAAAGATAAC
*
43632711 AAGAAAACC-GAATAAAAAATCCAAGATAG
1 AAGAAACCCAGAATAAAAAATCCAAGATAG
43632740 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAA-AAATCCAAG-ATAG
43632769 AAGAAACCCA
1 AAGAAACCCA
43632779 AGATATAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 5 0.15
29 13 0.38
30 16 0.47
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAAAATCCAAGATAG
Found at i:43635893 original size:50 final size:49
Alignment explanation
Indices: 43635720--43635945 Score: 258
Period size: 48 Copynumber: 4.6 Consensus size: 49
43635710 GTAGCCTAGC
* * * *
43635720 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
43635769 TATCTGGTACATGTAGTAG-CTGCACTTAGTACTACACATGTGAACAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
43635817 TAT-TCGGTACACGTACTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
43635867 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGGTCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT-GACCAA-T
* * *
43635918 TATCGGGTACGCATAGTAGCCTGCACTT
1 TATCTGGTACACGTAGTAGCCTGCACTT
43635946 GTTCATCACA
Statistics
Matches: 150, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
47 1 0.01
48 42 0.28
49 40 0.27
50 41 0.27
51 26 0.17
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:43643323 original size:38 final size:38
Alignment explanation
Indices: 43643288--43643437 Score: 169
Period size: 38 Copynumber: 3.9 Consensus size: 38
43643278 CGTAGGCTAT
*
43643288 ATGCTGGAATTATATCCAGGTTAAATCCGGCAGGCTTC
1 ATGCTGGAATTATATCCAGGTTAAATCCCGCAGGCTTC
*
43643326 GTGCTGGTAA-TATATCCAGGTTAAATCCCGCAGGCTTC
1 ATGCTGG-AATTATATCCAGGTTAAATCCCGCAGGCTTC
* * * *
43643364 ATGTTGGTATTATATCCGGGTTAAATCCCGCAGGCCT-
1 ATGCTGGAATTATATCCAGGTTAAATCCCGCAGGCTTC
* * *
43643401 AGTGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGG
1 A-TGCTGGAATTATATC-CAGGTTAAA-TCCCGCAGG
43643438 TTTTGTGTTG
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
37 2 0.02
38 77 0.80
39 8 0.08
40 9 0.09
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (38 bp):
ATGCTGGAATTATATCCAGGTTAAATCCCGCAGGCTTC
Found at i:43651370 original size:38 final size:38
Alignment explanation
Indices: 43651309--43651466 Score: 212
Period size: 38 Copynumber: 4.1 Consensus size: 38
43651299 ATTTGATGTG
* *
43651309 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
43651349 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
*
43651387 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
43651425 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
43651463 TATC
1 TATC
43651467 TGAGCTTAAA
Statistics
Matches: 110, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
37 2 0.02
38 93 0.85
39 7 0.06
40 8 0.07
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:43651408 original size:76 final size:78
Alignment explanation
Indices: 43651309--43651486 Score: 236
Period size: 76 Copynumber: 2.3 Consensus size: 78
43651299 ATTTGATGTG
*
43651309 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCC
*
43651373 TCGTGCTGGTAATA
65 TAGTGCTGGTAATA
* * *
43651387 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCT
*
43651450 AGTGCTGGTATTA
66 AGTGCTGGTAATA
* * **
43651463 TATCTGAGCTTAAAGTTCCGCAGG
1 TATCCGGGCTTAAAGACCCGCAGG
43651487 TTTTGTGCTG
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
75 1 0.01
76 61 0.69
77 10 0.11
78 16 0.18
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (78 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCT
AGTGCTGGTAATA
Found at i:43659122 original size:43 final size:42
Alignment explanation
Indices: 43659065--43659152 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 42
43659055 TTTGTGATCT
*
43659065 ATGCGGCATCCGAGCTCATTGAGAGGTCTGAGTGCATTATGG
1 ATGCGGCATCCGAGCTCATTGAGAGGTCCGAGTGCATTATGG
* *
43659107 ATGCGAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGG
1 ATGCG-GCATCCGAGCTCATTGAGAGGTCCGAGTGCATTATGG
43659150 ATG
1 ATG
43659153 TATACATGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (42 bp):
ATGCGGCATCCGAGCTCATTGAGAGGTCCGAGTGCATTATGG
Found at i:43660655 original size:33 final size:33
Alignment explanation
Indices: 43660617--43660682 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
43660607 GTTGATAATG
* *
43660617 TTTGAACTTGAATACTTGATGTTGATTGAAGCT
1 TTTGAACATGAATACTTGATGCTGATTGAAGCT
*
43660650 TTTGAACATGAATCCTTGATGCTGATTGAAGCT
1 TTTGAACATGAATACTTGATGCTGATTGAAGCT
43660683 ACTTGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (33 bp):
TTTGAACATGAATACTTGATGCTGATTGAAGCT
Found at i:43663140 original size:15 final size:15
Alignment explanation
Indices: 43663104--43663147 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
43663094 TATGATATTG
* *
43663104 TATCTTAGATTTCTT
1 TATCTTGGATTTCTC
43663119 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
*
43663134 TATCTTGGACTTCT
1 TATCTTGGATTTCT
43663148 TAATCCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:43665891 original size:43 final size:42
Alignment explanation
Indices: 43665826--43665917 Score: 130
Period size: 43 Copynumber: 2.2 Consensus size: 42
43665816 GGAATTTAGA
43665826 AATCCGAACTCGTTAAGCGGTCCAAGTTCGTGATATATGTGAG
1 AATCCGAACTCGTTAAGCGGTCCAAGTTCGTGATATATGTG-G
* * * *
43665869 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATCTATGTGG
1 AATCCGAACTCGTTAAGCGGTCCAAGTTCGTGATATATGTGG
*
43665911 CATCCGA
1 AATCCGA
43665918 GCTCATTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.16
43 37 0.84
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
AATCCGAACTCGTTAAGCGGTCCAAGTTCGTGATATATGTGG
Found at i:43666030 original size:51 final size:50
Alignment explanation
Indices: 43665954--43666052 Score: 162
Period size: 51 Copynumber: 2.0 Consensus size: 50
43665944 TAGATACGAG
* *
43665954 CATCTGAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGTGATTCATGTAA
1 CATCTGAGCTCGTTGAAAGGTCTGAGTTCATAATGGATGT-ATACATGTAA
*
43666005 CATCTGAGCTCGTTGAAAGGTCTGAGTTCATTATGGATGTATACATGT
1 CATCTGAGCTCGTTGAAAGGTCTGAGTTCATAATGGATGTATACATGT
43666053 TATGAGGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 7 0.16
51 38 0.84
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (50 bp):
CATCTGAGCTCGTTGAAAGGTCTGAGTTCATAATGGATGTATACATGTAA
Found at i:43678241 original size:33 final size:32
Alignment explanation
Indices: 43678201--43678266 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
43678191 TGCTTGAAAC
*
43678201 ACATACCAAATCATATCATTCTATAAGCCA-AAT
1 ACATACCAAAACATATCATT-TATAA-CCATAAT
*
43678234 ACATACCAAAACATATGATTTATAACCATAAT
1 ACATACCAAAACATATCATTTATAACCATAAT
43678266 A
1 A
43678267 TCCATAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 3 0.10
32 9 0.30
33 18 0.60
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.27
Consensus pattern (32 bp):
ACATACCAAAACATATCATTTATAACCATAAT
Found at i:43679037 original size:42 final size:42
Alignment explanation
Indices: 43678991--43679088 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
43678981 TCCCTGACGT
* * *
43678991 GGTCTTACATGTAATCAAATATC-ATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGCCAATGTCCAAGACAG
* *
43679033 GGTCTTACACGAAATCAAATACGATGCCAATGTCCAAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATGTCCAAGACAG
43679075 GGTCTTACACGTAA
1 GGTCTTACACGTAA
43679089 ATCATACGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATGTCCAAGACAG
Found at i:43679122 original size:44 final size:42
Alignment explanation
Indices: 43678990--43679127 Score: 127
Period size: 42 Copynumber: 3.2 Consensus size: 42
43678980 ATCCCTGACG
* * ** *
43678990 TGGTCTTACATGTAATCAAATATC-ATGCCACTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATA-CGATGCCAAAGTCCAAGACA
* *
43679032 GGGTCTTACACGAAATCAAATACGATGCCAATGTCCAAGACA
1 TGGTCTTACACGAAATCAAATACGATGCCAAAGTCCAAGACA
* * * *
43679074 TGGTCTTACACGTAAATCATACGT-CGATGCCAAAGTCCTATACG
1 TGGTCTTACACG-AAATCA-A-ATACGATGCCAAAGTCCAAGACA
43679118 TGGTCTTACA
1 TGGTCTTACA
43679128 TGATAACACA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 46 0.57
43 6 0.07
44 27 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGATGCCAAAGTCCAAGACA
Found at i:43688265 original size:53 final size:53
Alignment explanation
Indices: 43688065--43688269 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
43688055 ATTAGGGTTT
* * * * * * *
43688065 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG-CTCATAAGGC
* * * * * *
43688119 AAGG-TAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGAT-ACCATGTAAGACCATGCCAAGACATGACAATGGTAAGCT-C-ATAAGGC
* * * *
43688174 AAAGATCCCATGTAAGACTATGCCAAGGA-ATGGA-AATGGTTAGCTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACAT-GACAATGGTAAGCTCATAAGGC
*
43688227 AAGGATACCATGTAAGACCATGTCAAGACATGACAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG
43688270 TTTAAGAAAA
Statistics
Matches: 119, Mismatches: 24, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
52 4 0.03
53 41 0.34
54 36 0.30
55 34 0.29
56 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGCTCATAAGGC
Found at i:43702184 original size:48 final size:48
Alignment explanation
Indices: 43702092--43702462 Score: 403
Period size: 48 Copynumber: 7.8 Consensus size: 48
43702082 ACTGTGCTAA
* * *
43702092 ATGTGACTGTGTAAGACCATGTCGGGGAAATGGCATC-AGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATAT
* *
43702140 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGGATCGATGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * * *
43702188 GTGTGCCTGTTTAAGA-CATGCCTAGGACATGGCATC-AGGGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATAT
**
43702235 ATGTG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
43702283 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * * * *
43702331 GTGTTCCTGTGTAAGACCATGTATGGGACATGTCATCGGCGATAATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * * * *
43702379 GTGTGCCAGTGTATGACCATGTTTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* ** *
43702427 GTG-GATTTATGTAAGACCATGT-TGGGGACATGGCAT
1 ATGTG-CCTGTGTAAGACCATGTCT-GGGACATGGCAT
43702463 TGGTGCTTTA
Statistics
Matches: 278, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
46 3 0.01
47 38 0.14
48 234 0.84
49 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
Found at i:43702458 original size:144 final size:143
Alignment explanation
Indices: 43702100--43702462 Score: 462
Period size: 143 Copynumber: 2.5 Consensus size: 143
43702090 AAATGTGACT
* * * *
43702100 GTGTAAGACCATGTCGGGGAAATGGCATCAGCGATGATATATGTGCCTGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTATGTAAGACCATGTCTG
* * * *
43702165 GGACATGGGATCGATGATGATATGTGTGCCTGTTTAAGACATGCCTAGGACATGGCATCAGGGAT
66 GGACATGGCATCGACGATGATATGTGTGCCTGTGTAAGACATGCATAGGACATGGCATCAGGGAT
* *
43702230 GATATATGTGCTA
131 AATATATGTGCCA
* *
43702243 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCTGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTATGTAAGACCATGTCTG
* * * *
43702308 GGACATGGCATCGACGATGATATGTGTTCCTGTGTAAGACCATGTATGGGACATGTCATC-GGCG
66 GGACATGGCATCGACGATGATATGTGTGCCTGTGTAAGA-CATGCATAGGACATGGCATCAGG-G
*
43702372 ATAATATGTGTGCCA
129 ATAATATATGTGCCA
* * * * **
43702387 GTGTATGACCATGTTTGGGACATGGCATTGGCGATGATATGTG-GATTTATGTAAGACCATGT-T
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTG-CCTATGTAAGACCATGTCT
43702450 GGGGACATGGCAT
65 -GGGACATGGCAT
43702463 TGGTGCTTTA
Statistics
Matches: 193, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
143 100 0.52
144 93 0.48
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (143 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTATGTAAGACCATGTCTG
GGACATGGCATCGACGATGATATGTGTGCCTGTGTAAGACATGCATAGGACATGGCATCAGGGAT
AATATATGTGCCA
Found at i:43705798 original size:43 final size:43
Alignment explanation
Indices: 43705649--43705807 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
43705639 TATGTGTTTT
* *
43705649 CGTGTAAGACCACGTTTGGGACGTTGGCATCGACT-TATAATTTA
1 CGTGTAAGACCACGTTTGGGACGTTGGCATCGA-TATTTGA-TTA
* * * *
43705693 CGTGTAAGACCACGTCTAGGATGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTTTGGGACGTTGGCATCGATATTTGATTA
43705735 CGTGTAAGACC-C-TATCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCACGT-T-TGGGAC-GTTGGCATCGATATTTGATTA
*
43705778 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGTGTAAGACCACGTTTGGGACGTTGGCAT
43705808 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 27 0.28
43 35 0.36
44 31 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTTTGGGACGTTGGCATCGATATTTGATTA
Found at i:43717115 original size:14 final size:14
Alignment explanation
Indices: 43717096--43717122 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43717086 CCCTCTGTCG
43717096 ATGGGGTAAAAATC
1 ATGGGGTAAAAATC
43717110 ATGGGGTAAAAAT
1 ATGGGGTAAAAAT
43717123 ATGTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.30, T:0.22
Consensus pattern (14 bp):
ATGGGGTAAAAATC
Found at i:43720391 original size:15 final size:13
Alignment explanation
Indices: 43720360--43720392 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
43720350 GCTCTGTGTT
43720360 ACACACGGCCAAG
1 ACACACGGCCAAG
*
43720373 ACACACTGCCAAG
1 ACACACGGCCAAG
43720386 ACACACG
1 ACACACG
43720393 CCTGTGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.39, G:0.18, T:0.03
Consensus pattern (13 bp):
ACACACGGCCAAG
Found at i:43727477 original size:40 final size:40
Alignment explanation
Indices: 43727420--43727568 Score: 235
Period size: 40 Copynumber: 3.7 Consensus size: 40
43727410 CTAACGGGGT
* * *
43727420 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTTCGGGC
* *
43727460 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTTCGGGC
*
43727500 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTTCGGGC
*
43727540 TAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGAC
43727569 CATATCCGGG
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTTCGGGC
Found at i:43727579 original size:40 final size:40
Alignment explanation
Indices: 43727420--43727589 Score: 234
Period size: 40 Copynumber: 4.2 Consensus size: 40
43727410 CTAACGGGGT
* * * *
43727420 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
43727460 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
43727500 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
43727540 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
*
43727580 TAAGACCCGA
1 TAAGTCCCGA
43727590 TGTCCTTGCA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.02
40 116 0.98
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:43735866 original size:40 final size:40
Alignment explanation
Indices: 43735712--43735875 Score: 197
Period size: 40 Copynumber: 4.1 Consensus size: 40
43735702 CTAACAGGGT
* * * * *
43735712 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCTGGGC
1 TAAGTCCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
43735752 TAAGTCCCAAAGGCATTTGTGCGAGTTACTAATTTCGGGC
1 TAAGTCCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
43735792 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
43735832 TAAGTCCCAAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
43735872 TAAG
1 TAAG
43735876 ACCCGATGGC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.02
40 108 0.98
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
TAAGTCCCAAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:43735871 original size:80 final size:80
Alignment explanation
Indices: 43735712--43735881 Score: 218
Period size: 80 Copynumber: 2.1 Consensus size: 80
43735702 CTAACAGGGT
* * *
43735712 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCTGGGCTAAGTCCCAAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAG
* * *
43735777 TTACTAATTTCGGGC
66 TGACCAATTCCGGGC
* * *
43735792 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTA
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCAAAGGCATTTGTGCGA
43735856 GTGACC-ATATCCGGGC
65 GTGACCAAT-TCCGGGC
*
43735872 TAAGACCCGA
1 TAAGTCCCGA
43735882 TGGCCTTGCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 4 0.05
80 74 0.95
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCAAAGGCATTTGTGCGAG
TGACCAATTCCGGGC
Found at i:43737503 original size:15 final size:15
Alignment explanation
Indices: 43737483--43737538 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
43737473 GTATCTTGGG
43737483 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
43737498 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
43737513 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
43737528 TTTCTTTATTC
1 TTTCTTTATTC
43737539 AGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:43740009 original size:46 final size:46
Alignment explanation
Indices: 43739956--43740131 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
43739946 TATTTGGGCA
43739956 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
43740002 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * *
43740047 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
43740095 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43740132 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
45 1 0.01
46 63 0.56
47 26 0.23
48 1 0.01
49 1 0.01
50 6 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:43740111 original size:93 final size:93
Alignment explanation
Indices: 43739952--43740123 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
43739942 AGGATATTTG
* *
43739952 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCGTTGAG
43740017 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
43740045 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCGTTGAG
43740110 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
43740124 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:43744081 original size:30 final size:31
Alignment explanation
Indices: 43744012--43744081 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
43744002 CTTACTTGCA
*
43744012 CCAACC-TACACA-ATATCAACCAAAACCAAT
1 CCAACCATA-ACATATATCAACCAAAACCAAC
*
43744042 CCAAGCATAACATATAT-AACCAAAACC-AC
1 CCAACCATAACATATATCAACCAAAACCAAC
43744071 CACAACCATAA
1 C-CAACCATAA
43744082 GAAATTTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 2 0.06
30 26 0.76
31 6 0.18
ACGTcount: A:0.51, C:0.34, G:0.01, T:0.13
Consensus pattern (31 bp):
CCAACCATAACATATATCAACCAAAACCAAC
Found at i:43744887 original size:96 final size:96
Alignment explanation
Indices: 43744717--43744991 Score: 290
Period size: 96 Copynumber: 2.9 Consensus size: 96
43744707 GGTGAATTGC
** * *
43744717 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTAACATG-CGAAGGCCGATGCCATGTCCCAG
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGATG-TGGCCGATGCCATGTCCCAG
** * * * *
43744781 ACATATTCTTACACTAGCTCTCGTCTCAATA-C-T
65 ACATGGTCTTACACT-G-GC-AGTCACAACATCGT
* * * * *
43744814 -GATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATGATGTGGCCGATGCCATGTCCTAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCCCAGA
43744878 CATGGTCTTACACTGGCAGTCACAACATCGT
66 CATGGTCTTACACTGGCAGTCACAACATCGT
* * ** *
43744909 CGATGCCATGTTCCAAACATGGTCTTACAGTGGCTCTCAT-ATCATGGCAAATGCCATGACCCAG
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCCAG
43744973 ACATGGTCTTACACTGGCA
65 ACATGGTCTTACACTGGCA
43744992 CACATATCAC
Statistics
Matches: 148, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
93 7 0.05
94 2 0.01
95 4 0.03
96 134 0.91
97 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCAGTCACAACATCGT
Found at i:43744998 original size:48 final size:47
Alignment explanation
Indices: 43744717--43745000 Score: 193
Period size: 48 Copynumber: 5.9 Consensus size: 47
43744707 GGTGAATTGC
* * * *
43744717 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTA-ACAT-GCGAAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACACATATC-ATGG
** * * * * * *
43744764 CCGATGCCATGTCCCAGACATATTCTTACACTAGCTCTCGTCTCAAT-A
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-ATGG
* * * * *
43744812 CTGATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATGAT-GTGG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT-ATCATGG
* *
43744860 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCAGTCACA-A-CATCGT
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCAT-GG
* * * * *
43744909 CGATGCCATGTTCCAAACATGGTCTTACAGTGGCTCTCATATCATGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATGG
* *
43744956 CAAATGCCATGACCCAGACATGGTCTTACACTGGCACACATATCA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
43745001 CGTAAATGGC
Statistics
Matches: 183, Mismatches: 40, Indels: 26
0.73 0.16 0.10
Matches are distributed among these distances:
46 3 0.02
47 5 0.03
48 167 0.91
49 5 0.03
50 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATGG
Found at i:43746808 original size:29 final size:29
Alignment explanation
Indices: 43746766--43746824 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
43746756 TTTCTCTGAG
43746766 TTCAGTCCAAGACAAGGGCGTTTGGCACT
1 TTCAGTCCAAGACAAGGGCGTTTGGCACT
43746795 TTCAGTCCAAGACAAGGGCGTTTGGCACT
1 TTCAGTCCAAGACAAGGGCGTTTGGCACT
43746824 T
1 T
43746825 ACACCCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (29 bp):
TTCAGTCCAAGACAAGGGCGTTTGGCACT
Found at i:43751265 original size:21 final size:21
Alignment explanation
Indices: 43751214--43751257 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
43751204 TCAAGCTGAC
43751214 AAGGGC-ACACGCCCGTGTGG
1 AAGGGCGACACGCCCGTGTGG
*
43751234 AAGGGCGACACGTCCGTGTGG
1 AAGGGCGACACGCCCGTGTGG
43751255 AAG
1 AAG
43751258 TGTGACACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.23, C:0.25, G:0.41, T:0.11
Consensus pattern (21 bp):
AAGGGCGACACGCCCGTGTGG
Found at i:43754066 original size:47 final size:47
Alignment explanation
Indices: 43754007--43754197 Score: 265
Period size: 47 Copynumber: 4.1 Consensus size: 47
43753997 TTAGGATTTT
** * *
43754007 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
43754054 ATGTGATTAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
43754101 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
43754148 ATGTGGTGAATATGAACATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
43754195 ATG
1 ATG
43754198 CGAAATATGT
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:43754156 original size:25 final size:25
Alignment explanation
Indices: 43754081--43754156 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
43754071 ATGCATATAT
43754081 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
43754106 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
43754128 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
43754153 GTGA
1 GTGA
43754157 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:43754227 original size:48 final size:48
Alignment explanation
Indices: 43754170--43754401 Score: 378
Period size: 48 Copynumber: 4.8 Consensus size: 48
43754160 TGAACATGTA
*
43754170 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
43754218 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
43754266 TATATGTGGTAAAGCCGAATGGCT-ATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
43754313 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
43754363 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
43754402 GGCGATGTGC
Statistics
Matches: 173, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.01
47 43 0.25
48 83 0.48
49 4 0.02
50 41 0.24
51 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:43754308 original size:95 final size:97
Alignment explanation
Indices: 43754170--43754401 Score: 380
Period size: 95 Copynumber: 2.4 Consensus size: 97
43754160 TGAACATGTA
* *
43754170 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCT-ATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
*
43754235 AATGG-CTAATGCG-AA-ATATGTATGAGATATG
65 AATGGTC-AATGCGAAATATATATATGAGATATG
43754266 TATATGTGGTAAAGCCGAATGGCTATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGA
1 TATATGTGGTAAAGCCGAATGGCTATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGA
*
43754331 ATGGTCAATGTGAAATATATATATGAGATATG
66 ATGGTCAATGCGAAATATATATATGAGATATG
43754363 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTA-TGTGAAATATGTA
43754402 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
95 48 0.38
96 27 0.21
97 40 0.31
98 13 0.10
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (97 bp):
TATATGTGGTAAAGCCGAATGGCTATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGA
ATGGTCAATGCGAAATATATATATGAGATATG
Found at i:43754654 original size:37 final size:37
Alignment explanation
Indices: 43754547--43754654 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
43754537 GGAAATATAT
*
43754547 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
43754583 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
43754620 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
43754655 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 11 0.17
37 55 0.83
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:43766304 original size:56 final size:56
Alignment explanation
Indices: 43766213--43766335 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
43766203 GAGATTGGCG
* * *
43766213 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
43766270 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
43766325 CTGAGTGTGCG
1 CTAAGTGTGCG
43766336 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:43766322 original size:27 final size:28
Alignment explanation
Indices: 43766213--43766335 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
43766203 GAGATTGGCG
* * * *
43766213 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
43766242 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
43766270 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
43766298 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
43766325 CTGAGTGTGCG
1 CTAAGTGTGCG
43766336 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:43766346 original size:27 final size:27
Alignment explanation
Indices: 43766238--43766348 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
43766228 TAAATTGTAC
* * *
43766238 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43766266 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43766294 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43766321 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43766348 A
1 A
43766349 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43774502 original size:56 final size:56
Alignment explanation
Indices: 43774411--43774533 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
43774401 GAGATTGGCG
* * *
43774411 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
43774468 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
43774523 CTGAGTGTGCG
1 CTAAGTGTGCG
43774534 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:43774520 original size:27 final size:28
Alignment explanation
Indices: 43774411--43774533 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
43774401 GAGATTGGCG
* * * *
43774411 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
43774440 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
43774468 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
43774496 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
43774523 CTGAGTGTGCG
1 CTAAGTGTGCG
43774534 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:43774544 original size:27 final size:27
Alignment explanation
Indices: 43774436--43774546 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
43774426 TAAATTGTAC
* * *
43774436 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43774464 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43774492 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43774519 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43774546 A
1 A
43774547 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43778203 original size:27 final size:27
Alignment explanation
Indices: 43778073--43778203 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
43778063 ATTACCAAAG
* * *
43778073 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
43778100 TACACTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
43778127 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
43778154 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
43778181 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
43778204 AAAATACCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:43778211 original size:27 final size:27
Alignment explanation
Indices: 43778181--43778484 Score: 181
Period size: 27 Copynumber: 11.2 Consensus size: 27
43778171 ATTACTGTTT
**
43778181 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * *
43778208 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
43778234 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTA-AAA
* *
43778261 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
43778288 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACTAAAA
* * *
43778315 TACCACT-GGTTTGTGAAATTA-TCGAAA
1 TACC-CTCGATTTGTAAAATTACT-AAAA
* *
43778342 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
** * *
43778369 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTGTAAAATTACTAAAA
* *
43778396 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTGT-AAAATTACTA-AAA
* * * ** *
43778425 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * * * *
43778452 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
*
43778479 CACCCT
1 TACCCT
43778485 TGTAGGATGA
Statistics
Matches: 217, Mismatches: 45, Indels: 30
0.74 0.15 0.10
Matches are distributed among these distances:
26 27 0.12
27 164 0.76
28 10 0.05
29 16 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:43778231 original size:26 final size:26
Alignment explanation
Indices: 43778195--43778373 Score: 198
Period size: 27 Copynumber: 6.7 Consensus size: 26
43778185 CTCGATTTAC
* *
43778195 AAAATTACTAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
43778221 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
*
43778248 AAAATTA-CAGAAATACCCTCAATTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGT
43778275 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
43778302 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
43778329 GAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
43778356 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
43778374 CTGATTTACA
Statistics
Matches: 129, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
26 23 0.18
27 100 0.78
28 6 0.05
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:43778292 original size:54 final size:52
Alignment explanation
Indices: 43778195--43778484 Score: 202
Period size: 54 Copynumber: 5.3 Consensus size: 52
43778185 CTCGATTTAC
* * * *
43778195 AAAATTACTAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTAC-AAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
** * *
43778248 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACA-AAATACCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* * * ***
43778302 AAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGT
1 AAAATTA-CAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* ** * * * *
43778356 AAAATTACCAAAATACCCCTGATTTACAAAGTTACAAAAATACCCTTGACTTTCT
1 AAAATTA-CAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCTTG-GTTTGT
* * ** **
43778411 AAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACA-AAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* * *
43778466 AGATTTACCAAAACACCCT
1 AAAATTA-CAAAATACCCT
43778485 TGTAGGATGA
Statistics
Matches: 188, Mismatches: 39, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
52 1 0.01
53 18 0.10
54 114 0.61
55 18 0.10
56 37 0.20
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (52 bp):
AAAATTACAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
Found at i:43778326 original size:81 final size:81
Alignment explanation
Indices: 43778181--43778428 Score: 283
Period size: 81 Copynumber: 3.0 Consensus size: 81
43778171 ATTACTGTTT
* ** * * *
43778181 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
43778245 TGTAAAATTA-CAGAAA
66 TGTAAAATTATC-GAAA
*
43778261 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
*
43778325 TTGTGAAATTATCGAAA
65 TTGTAAAATTATCGAAA
*
43778342 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GAT-T-TACAAAGTTACAAAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TCTGTA-AAA-TTACCAAAATACCCTTG
* * *
43778404 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTATCGAAA
43778425 TACC
1 TACC
43778429 ATTGGTTTAC
Statistics
Matches: 146, Mismatches: 13, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
79 2 0.01
80 31 0.21
81 92 0.63
82 6 0.04
83 15 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTATCGAAA
Found at i:43778581 original size:27 final size:27
Alignment explanation
Indices: 43778504--43778581 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
43778494 AAATGACTAA
* * *
43778504 AATACCCCTAT-TAGGTAAAAAGACCTT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
43778531 AAAACCCCTGTAGGGTAAAGTGACCGT
1 AATACCCCTGTATGGTAAAATGACCGT
43778558 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
43778582 GAATATGCCC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:43779747 original size:25 final size:25
Alignment explanation
Indices: 43779718--43779765 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43779708 TTATAACATG
* * *
43779718 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43779743 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43779766 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43779937 original size:25 final size:24
Alignment explanation
Indices: 43779879--43780024 Score: 172
Period size: 25 Copynumber: 6.0 Consensus size: 24
43779869 AGGAAGTGCA
43779879 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
43779902 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
43779927 GAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTA-TAT
* *
43779952 AAGGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
43779976 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
43780000 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
43780025 GATAAAGCAG
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
23 22 0.21
24 30 0.28
25 54 0.51
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:43779990 original size:49 final size:48
Alignment explanation
Indices: 43779878--43780023 Score: 170
Period size: 49 Copynumber: 3.0 Consensus size: 48
43779868 GAGGAAGTGC
* *
43779878 AAAAGGGCTTATGCCCCAGTTA-TTAAAGGGCTTATGCCCCAGTTATGA
1 AAAAGGGCTTATGCCCCAGTTACATAAGGGGCTTATGCCCCAGTTAT-A
**
43779926 TGAAGGGCTTATGCCCCAGTTACGATAAGGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTAC-ATAAGGGGCTTATGCCCCAGTTATA
* * * *
43779975 AAAAGGGCTTTTGCCCCAGTTACTAAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTAC-ATAAGGGGCTTATGCC-CCAGTTATA
43780024 TGATAAAGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 25 0.30
49 37 0.44
50 22 0.26
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTACATAAGGGGCTTATGCCCCAGTTATA
Found at i:43780252 original size:31 final size:31
Alignment explanation
Indices: 43780216--43780279 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43780206 CATTTACAGT
*
43780216 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
43780247 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43780278 AA
1 AA
43780280 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43781299 original size:48 final size:48
Alignment explanation
Indices: 43781193--43781525 Score: 228
Period size: 48 Copynumber: 6.9 Consensus size: 48
43781183 TGGTGAATTA
* * * * * * * *
43781193 CCGATACCATGTTCCAAACATGGTATTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATG
* * * * *
43781241 TCTATACCATGTCCCAAACATGGTCTTACACTAGATCTCATCTCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATG
* * * * * *
43781289 CCGACGCCATGTCCTAGAA-ATTGTCTTACATTGGCTTTCATA--ATATG
1 CCGATGCCATGTCCCA-AACATGGTCTTACACTAGCTCTCATATCA-ATG
* * *
43781336 CCCGATGCCATGTTCCATACATGGTCTTACACTAG-TGCACATATCAATG
1 -CCGATGCCATGTCCCAAACATGGTCTTACACTAGCT-CTCATATCAATG
** * * * * *
43781385 ATGATGCCATGTCCCAGACATTGTCTTACACTAGCTTTAATAAC-ATCG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAT-G
* * * * *
43781433 CTGATGCCATGTTCCAAACATGGTTTTACACTGGCTCTCATATC-GTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAT-G
* * * *
43781481 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
43781526 CCCAACTGGC
Statistics
Matches: 217, Mismatches: 58, Indels: 19
0.74 0.20 0.06
Matches are distributed among these distances:
46 1 0.00
47 7 0.03
48 202 0.93
49 6 0.03
50 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATG
Found at i:43781363 original size:96 final size:95
Alignment explanation
Indices: 43781247--43781515 Score: 290
Period size: 96 Copynumber: 2.8 Consensus size: 95
43781237 GAGGTCTATA
* * * *
43781247 CCATGTCCCAAACATGGTCTTACACTAGATCTCATCTCAATGCCGACGCCATGTCCTAGAAATTG
1 CCATGTTCCAAACATGGTCTTACACTAG-TCTCATATCAATGACGACGCCATGTCCCAGAAATTG
* * * *
43781312 TCTTACATTGGCTTTCATAATAT-GCCCGATG
65 TCTTACACTAGCTTTAATAACATCG-CCGATG
* * * * *
43781343 CCATGTTCCATACATGGTCTTACACTAGTGCACATATCAATGATGATGCCATGTCCCAGACATTG
1 CCATGTTCCAAACATGGTCTTACACTAGT-CTCATATCAATGACGACGCCATGTCCCAGAAATTG
*
43781408 TCTTACACTAGCTTTAATAACATCGCTGATG
65 TCTTACACTAGCTTTAATAACATCGCCGATG
* * * * * * *
43781439 CCATGTTCCAAACATGGTTTTACACTGGCTCTCATATC-GTGGTCGATGCCATGTCCCAGACATG
1 CCATGTTCCAAACATGGTCTTACACTAG-TCTCATATCAAT-GACGACGCCATGTCCCAGAAATT
43781503 GTCTTACACTAGC
64 GTCTTACACTAGC
43781516 ACACATATCA
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
95 2 0.01
96 143 0.97
97 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (95 bp):
CCATGTTCCAAACATGGTCTTACACTAGTCTCATATCAATGACGACGCCATGTCCCAGAAATTGT
CTTACACTAGCTTTAATAACATCGCCGATG
Found at i:43783035 original size:48 final size:48
Alignment explanation
Indices: 43782953--43783182 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 48
43782943 TAGGGTTATG
* * *
43782953 TGTGATACCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * ** *
43783001 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGATATCTATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
43783049 TGTGATCTCGTTTAAAACCATGTTTGGG--A---CA-TGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
43783091 TGAGA-CATCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGAGA
1 TGTGATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
43783139 TGTGATTCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
43783183 TTACTATGTG
Statistics
Matches: 147, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.20
43 2 0.01
44 1 0.01
46 1 0.01
47 2 0.01
48 110 0.75
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:43783159 original size:90 final size:90
Alignment explanation
Indices: 43783009--43783175 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 90
43782999 TATGTGATCC
* * * * * * * *
43783009 CATGTAAGACCATATCTGGGATATGGCATTGATATCTATATGTGATCTCGTTTAAAACCATGTTT
1 CATGTAAGACCATATCTGGGACATGGCATTGACATCGAGATGTGATCTCATGTAAAACCATATCT
43783074 GGGACATGGCATCGATATGAGACAT
66 GGGACATGGCATCGATATGAGACAT
* * * *
43783099 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCGAGATGTGAT-TCCATGTAAGACCATATC
1 CATGTAAGACCATATCTGGGACATGGCATTGACATCGAGATGTGATCT-CATGTAAAACCATATC
*
43783163 TGGGATATGGCAT
65 TGGGACATGGCAT
43783176 TGGCATCTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
89 1 0.02
90 62 0.98
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (90 bp):
CATGTAAGACCATATCTGGGACATGGCATTGACATCGAGATGTGATCTCATGTAAAACCATATCT
GGGACATGGCATCGATATGAGACAT
Found at i:43786318 original size:40 final size:40
Alignment explanation
Indices: 43786222--43786324 Score: 93
Period size: 40 Copynumber: 2.6 Consensus size: 40
43786212 TGACGAAAAA
* * *
43786222 TCGACTAT-TTTGGCACTTAGTGTGCGTTTCGAGATAGCT
1 TCGACTATATATGGCACTTAGTGTGCGATTAGAGATAGCT
* * * * *
43786261 TTGGCTATAAATAGCACTTAGTGTGTGAATTAGA-ATAGCT
1 TCGACTATATATGGCACTTAGTGTGCG-ATTAGAGATAGCT
* *
43786301 TCGACTATATGTGGCACTAAGTGT
1 TCGACTATATATGGCACTTAGTGT
43786325 ATGATACTAA
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
39 6 0.12
40 38 0.79
41 4 0.08
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (40 bp):
TCGACTATATATGGCACTTAGTGTGCGATTAGAGATAGCT
Found at i:43791017 original size:48 final size:47
Alignment explanation
Indices: 43790958--43791182 Score: 185
Period size: 48 Copynumber: 4.8 Consensus size: 47
43790948 TAGGGTTATG
* *
43790958 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGGTA
1 TGTGATACCATGTAAGACCATGTCTGGGACATGGCATT-GCATCGATA
* * *
43791006 TGTGATACCATGTAAGACCATAAT-TGGGATATGGCATTGACATCTATA
1 TGTGATACCATGTAAGACCAT-GTCTGGGACATGGCATTG-CATCGATA
** * * * *
43791054 TGTGATTTCGTTTAAGACCATGTTTAGGACAT-G----GCATCGATA
1 TGTGATACCATGTAAGACCATGTCTGGGACATGGCATTGCATCGATA
* * * **
43791096 TGAGACATCATGTAAGACCATGTCTGAAACATGGCATTAGCATCGATA
1 TGTGATACCATGTAAGACCATGTCTGGGACATGGCATT-GCATCGATA
* * *
43791144 TGTGAT-CTCATGTAAGACCATATCTGGGATATAGCATTG
1 TGTGATAC-CATGTAAGACCATGTCTGGGACATGGCATTG
43791183 GCTTCTTACT
Statistics
Matches: 137, Mismatches: 30, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
42 30 0.22
43 2 0.01
47 4 0.03
48 100 0.73
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (47 bp):
TGTGATACCATGTAAGACCATGTCTGGGACATGGCATTGCATCGATA
Found at i:43796244 original size:22 final size:24
Alignment explanation
Indices: 43796207--43796252 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
43796197 ATGACAAAGC
43796207 TAAATAAGAGAATAAAAATAATAA
1 TAAATAAGAGAATAAAAATAATAA
43796231 TAAA-AAG-GAATAAAAATAATAA
1 TAAATAAGAGAATAAAAATAATAA
43796253 AAACAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.68
23 3 0.14
24 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.20
Consensus pattern (24 bp):
TAAATAAGAGAATAAAAATAATAA
Found at i:43796251 original size:9 final size:9
Alignment explanation
Indices: 43796217--43796287 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
43796207 TAAATAAGAG
43796217 AATAA-AAA
1 AATAATAAA
43796225 TAATAATAAA
1 -AATAATAAA
*
43796235 AAGGAATAAA
1 AA-TAATAAA
43796245 AATAATAAA
1 AATAATAAA
*
43796254 AACAAATAAA
1 AA-TAATAAA
*
43796264 CAA-AATAAG
1 -AATAATAAA
43796273 AA-AAT-AA
1 AATAATAAA
43796280 AATAATAA
1 AATAATAA
43796288 TATAAAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
7 3 0.06
8 8 0.16
9 21 0.41
10 17 0.33
11 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (9 bp):
AATAATAAA
Found at i:43796268 original size:22 final size:22
Alignment explanation
Indices: 43796243--43796284 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43796233 AAAAGGAATA
*
43796243 AAAATAATAAAA-ACAAATAAAC
1 AAAATAAGAAAATA-AAATAAAC
43796265 AAAATAAGAAAATAAAATAA
1 AAAATAAGAAAATAAAATAA
43796285 TAATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAATAAGAAAATAAAATAAAC
Found at i:43796295 original size:19 final size:18
Alignment explanation
Indices: 43796221--43796296 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 18
43796211 TAAGAGAATA
43796221 AAAATAATAATAAAAAGGAAT
1 AAAATAATAAT-AAAA--AAT
43796242 AAAAATAATAA-AAACAAAT
1 -AAAATAATAATAAA-AAAT
*
43796261 -AAACAA-AATAAGAAAAT
1 AAAATAATAATAA-AAAAT
43796278 AAAATAATAATATAAAAAT
1 AAAATAATAATA-AAAAAT
43796297 TAACACAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
16 2 0.04
17 11 0.24
18 6 0.13
19 12 0.26
20 4 0.09
21 1 0.02
22 10 0.22
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAATAATAATAAAAAAT
Found at i:43796313 original size:40 final size:36
Alignment explanation
Indices: 43796243--43796346 Score: 97
Period size: 40 Copynumber: 2.8 Consensus size: 36
43796233 AAAAGGAATA
43796243 AAAATAATAA-A-AACAAA-TAAACAAAATAAGAAAAT
1 AAAATAATAATATAA-AAATTAAACAAAATAAG-AAAT
43796278 AAAATAATAATATAAAAATTAACACAAGAATTAAGAAAT
1 AAAATAATAATATAAAAATTAA-ACAA-AA-TAAGAAAT
* * *
43796317 AATAATAAGAATAATAATAATTAAATAAAA
1 AA-AATAATAAT-ATAAAAATTAAACAAAA
43796347 GAGTAGGGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
35 10 0.17
36 4 0.07
37 5 0.09
38 4 0.07
39 10 0.17
40 15 0.26
41 10 0.17
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (36 bp):
AAAATAATAATATAAAAATTAAACAAAATAAGAAAT
Found at i:43799406 original size:30 final size:30
Alignment explanation
Indices: 43799365--43799446 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
43799355 TTTTCGAGCA
* *
43799365 TAGGGGTAAAATGGTCATTTTGTGAATGTC
1 TAGGGGCAAAATAGTCATTTTGTGAATGTC
* *
43799395 TCGGGGCAAAATAGTCATTTTTTGAATGTC
1 TAGGGGCAAAATAGTCATTTTGTGAATGTC
43799425 TAGGGGCAAAATAGTCATTTTG
1 TAGGGGCAAAATAGTCATTTTG
43799447 CCCAATTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTGTGAATGTC
Found at i:43813241 original size:40 final size:40
Alignment explanation
Indices: 43813186--43813452 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
43813176 AACATTGGAT
43813186 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
43813226 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
43813266 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
43813306 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
43813346 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
43813386 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
43813426 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
43813453 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:43822058 original size:40 final size:40
Alignment explanation
Indices: 43822003--43822269 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
43821993 AACATTGGAT
43822003 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
43822043 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
43822083 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
43822123 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
43822163 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
43822203 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
43822243 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
43822270 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:43824762 original size:19 final size:20
Alignment explanation
Indices: 43824738--43824775 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43824728 GGTACCACCA
43824738 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43824757 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43824776 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43825116 original size:47 final size:49
Alignment explanation
Indices: 43824999--43825173 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
43824989 AACCCGCCCC
* * * *
43824999 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
43825044 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
43825092 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
43825137 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
43825174 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:43825162 original size:93 final size:92
Alignment explanation
Indices: 43825004--43825173 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
43824994 GCCCCTAAGT
*
43825004 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
43825069 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
43825096 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43825161 CGAGTTCGGATGC
65 CGAGTTCGGATGC
43825174 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43825626 original size:30 final size:30
Alignment explanation
Indices: 43825592--43825651 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43825582 ATTTAATACG
43825592 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
43825622 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
43825652 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:43832276 original size:19 final size:20
Alignment explanation
Indices: 43832252--43832289 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43832242 GGTACCACCA
43832252 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43832271 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43832290 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43832624 original size:93 final size:93
Alignment explanation
Indices: 43832517--43832687 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
43832507 GCCCCTAAGT
* *
43832517 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43832582 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43832610 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43832675 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43832688 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43832684 original size:46 final size:46
Alignment explanation
Indices: 43832512--43832684 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
43832502 AACCCGCCCC
* * *
43832512 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
43832558 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
43832606 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
43832651 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43832685 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:43840063 original size:25 final size:25
Alignment explanation
Indices: 43840035--43840083 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
43840025 CGTTAACCAT
*
43840035 GACGTTACGAGCAAGTAGGATGGAC
1 GACGTTACGAACAAGTAGGATGGAC
43840060 GACGTTACGAACAAGTAGGATGGA
1 GACGTTACGAACAAGTAGGATGGA
43840084 GATACTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.35, T:0.16
Consensus pattern (25 bp):
GACGTTACGAACAAGTAGGATGGAC
Found at i:43848135 original size:42 final size:43
Alignment explanation
Indices: 43848072--43848188 Score: 114
Period size: 43 Copynumber: 2.7 Consensus size: 43
43848062 GAAGTCTGAA
** *
43848072 CTCATTGAGTGGTCCAGGTTCATGA-GGCATG-TAGCATCCGAG
1 CTCATTGAAAGGTCCAGGTTCATGATGG-ATGCAAGCATCCGAG
*
43848114 CTCATTGAAAGGTCC-GAGTTCATTATGGATGCAAGCATCCGAG
1 CTCATTGAAAGGTCCAG-GTTCATGATGGATGCAAGCATCCGAG
** ** *
43848157 CTCGCTGAGTGGTCCAAGTTCATGATGGATGC
1 CTCATTGAAAGGTCCAGGTTCATGATGGATGC
43848189 GATTCATGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.02
42 23 0.38
43 37 0.61
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
CTCATTGAAAGGTCCAGGTTCATGATGGATGCAAGCATCCGAG
Found at i:43848171 original size:43 final size:45
Alignment explanation
Indices: 43848103--43848238 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 45
43848093 ATGAGGCATG
* *
43848103 TAGCATCCGAGCTCATTGAAAGGTCCGAGTTCATTATGGATGC-A
1 TAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
* * * *
43848147 -AGCATCCGAGCTCGCTGAGTGGTCCAAGTTCATGATGGATGCGA
1 TAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
*
43848191 TTCATGTAACATCCGACCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 -T-A-G---CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
43848239 TGTTACATGT
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
43 36 0.49
44 1 0.01
47 1 0.01
48 1 0.01
51 34 0.47
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (45 bp):
TAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
Found at i:43855999 original size:43 final size:44
Alignment explanation
Indices: 43855951--43856086 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 44
43855941 GTGATGTATG
43855951 TAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGC-
1 TAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCA
** * * * *
43855994 TAGCATTTGAGCTCGTTAAGTGGTCCGAGTTCATGATGGTTGCGA
1 TAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGC-A
*
43856039 TTCATGTAACATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATG
1 -T-A-G---CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
43856087 TGTTACATGT
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
43 37 0.51
46 1 0.01
47 1 0.01
48 1 0.01
51 32 0.44
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (44 bp):
TAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCA
Found at i:43868396 original size:19 final size:19
Alignment explanation
Indices: 43868355--43868396 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
43868345 AATCCACCAA
* *
43868355 AAATTATGGAATTAAAATT
1 AAATAATGGAATTAAAATG
43868374 AAATAATGG-ATTAAATATG
1 AAATAATGGAATTAAA-ATG
43868393 AAAT
1 AAAT
43868397 GAAATCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (19 bp):
AAATAATGGAATTAAAATG
Found at i:43871973 original size:51 final size:50
Alignment explanation
Indices: 43871852--43872096 Score: 262
Period size: 49 Copynumber: 4.9 Consensus size: 50
43871842 TCTATTTTGA
* * * *
43871852 GGTCACGTGTGTAGTACTAAGCGTAGGCTACTACGTGTATCGGATAA-TT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
* * * * *
43871901 GGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTT
* * * * * ** *
43871952 GATCACGTGTGTAGTAATAAGTGCAGGCTACTACATGTATCAAATGGTTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
*
43872002 GGTCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAGATAA-TT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
* * *
43872051 GGTCGA-ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTC-ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
43872097 GCTTTGGCTA
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 80 0.50
50 42 0.26
51 37 0.23
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
Found at i:43872048 original size:101 final size:98
Alignment explanation
Indices: 43871854--43872083 Score: 273
Period size: 101 Copynumber: 2.3 Consensus size: 98
43871844 TATTTTGAGG
* * * ** *
43871854 TCACGTGTGTAGTACTAAGCGTAGGCTACTACGTGTATCGGATAATTGGTTACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATAATTGGTCACATGTGTAGTACT
* * *
43871919 AAGTGCAGGCTACTATGCGTACCCGATAACTTTGA
66 AAGTGCAGGCTACAACGCGTACCAGATAA--TTGA
* ** *
43871954 TCACGTGTGTAGTAATAAGTGCAGGCTACTACATGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATAATT-GGTCACATGTGTAGTAC
* *
43872019 TAAGTGCAGGCTACAACGTGTACCAGATAATTGG
65 TAAGTGCAGGCTACAACGCGTACCAGATAATTGA
*
43872053 TCGA-ATGTGTAGTACTAAGTGCAGGCTACTA
1 TC-ACGTGTGTAGTACTAAGTGCAGGCTACTA
43872084 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
99 30 0.27
100 40 0.36
101 41 0.37
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACAACGCGTACCAGATAATTGA
Found at i:43872126 original size:150 final size:150
Alignment explanation
Indices: 43871851--43872128 Score: 400
Period size: 150 Copynumber: 1.9 Consensus size: 150
43871841 ATCTATTTTG
* * * * *
43871851 AGGTCACGTGTGTAGTACTAAGCGTAGGCTACTACGTGTATCGGATAATTGGTTACATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGCGCAGGCTACAACGTGTACCAGATAATTGGTGACATGTGTAGT
* * *
43871916 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACGTGTGTAGTAATAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCT
43871981 ACTACATGTATCAAATGGTT
131 ACTACATGTATCAAATGGTT
*
43872001 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAGATAATTGGTCGA-ATGTGTAG
1 AGGTCACGTGTGTAGTACTAAGCGCAGGCTACAACGTGTACCAGATAATTGGT-GACATGTGTAG
* * *
43872065 TACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG-A-AAATATGTGCAG
65 TACTAAGTGCAGGCTACTATGCGTACCAGATAACTTT-GAT-CAAGTGTGTAGAAATAAGTGCAG
43872128 G
128 G
43872129 AAACTGAGTA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
150 102 0.90
151 4 0.04
152 7 0.06
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGCGCAGGCTACAACGTGTACCAGATAATTGGTGACATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCT
ACTACATGTATCAAATGGTT
Found at i:43874408 original size:29 final size:29
Alignment explanation
Indices: 43874366--43874423 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
43874356 AAATGTATTG
43874366 ATTGAAATTCCCTCATGAATTGGTTTTCT
1 ATTGAAATTCCCTCATGAATTGGTTTTCT
43874395 ATTGAAATTCCCTCATGAATTGGTTTTCT
1 ATTGAAATTCCCTCATGAATTGGTTTTCT
43874424 TAGTAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (29 bp):
ATTGAAATTCCCTCATGAATTGGTTTTCT
Found at i:43877154 original size:49 final size:50
Alignment explanation
Indices: 43877074--43877297 Score: 200
Period size: 49 Copynumber: 4.5 Consensus size: 50
43877064 GAAAGTTAGG
* * * * *
43877074 ACTAAGTGCAGGCTACTACGTGTATCGGATAATT-GGTCGCATGTGTAGT
1 ACTAAGTGCAGGCTACTATGCGTACCGGATAATTAGATCACATGTGTAGT
* * * * *
43877123 ACTAAGTGCAGGATACTATGCATACCTGATAACTTCGATCACGTGTGTAGT
1 ACTAAGTGCAGGCTACTATGCGTACCGGATAA-TTAGATCACATGTGTAGT
*** * * * * *
43877174 ACTAAGTGCAGGCTACTACATGTATCAGATAGTTAGATCACGTGTGCAGT
1 ACTAAGTGCAGGCTACTATGCGTACCGGATAATTAGATCACATGTGTAGT
* * ** * *
43877224 ACTTAGTGTAGGCTACTATATGTACCGGATAATT-GGTCGCATGTGTAGT
1 ACTAAGTGCAGGCTACTATGCGTACCGGATAATTAGATCACATGTGTAGT
*
43877273 ACTCAGTGCAGGCTACTATGCGTAC
1 ACTAAGTGCAGGCTACTATGCGTAC
43877298 TTGATAGCTT
Statistics
Matches: 140, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
49 58 0.41
50 46 0.33
51 36 0.26
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
ACTAAGTGCAGGCTACTATGCGTACCGGATAATTAGATCACATGTGTAGT
Found at i:43879322 original size:12 final size:12
Alignment explanation
Indices: 43879290--43879323 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
43879280 GCCATGACAC
*
43879290 GCCCGTGTCCTA
1 GCCCGTGTGCTA
43879302 GCCCGTGTGCTA
1 GCCCGTGTGCTA
43879314 GCCCGTGTGC
1 GCCCGTGTGC
43879324 AAAAACTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.38, G:0.32, T:0.24
Consensus pattern (12 bp):
GCCCGTGTGCTA
Found at i:43887923 original size:21 final size:22
Alignment explanation
Indices: 43887897--43887937 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43887887 CTCTTAACAC
43887897 AGGGGC-ACACACCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
*
43887918 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACACCCGTGTG
43887938 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:43892696 original size:27 final size:27
Alignment explanation
Indices: 43892663--43892725 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
43892653 TTAAGAGATC
43892663 GCCACAAATGCTTTCATTTCATGATTT
1 GCCACAAATGCTTTCATTTCATGATTT
* * * *
43892690 GCCACAAAGGCTTTCTTTTTATGGTTT
1 GCCACAAATGCTTTCATTTCATGATTT
43892717 GCCACAAAT
1 GCCACAAAT
43892726 CCCATTCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (27 bp):
GCCACAAATGCTTTCATTTCATGATTT
Found at i:43903093 original size:40 final size:41
Alignment explanation
Indices: 43903023--43903100 Score: 115
Period size: 40 Copynumber: 1.9 Consensus size: 41
43903013 ACCTACGTAC
*
43903023 CTGGAAAAGAAATAAGAAAAAACAGAATTAAAAGTTTTAAT
1 CTGGAAAAGAAATAAAAAAAAACAGAATTAAAAGTTTTAAT
*
43903064 CTGG-AAA-AAATAAAATAAAAATAGAATTAAAAGTTTT
1 CTGGAAAAGAAATAAAA-AAAAACAGAATTAAAAGTTTT
43903101 GATTGGGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 7 0.21
40 23 0.68
41 4 0.12
ACGTcount: A:0.59, C:0.04, G:0.13, T:0.24
Consensus pattern (41 bp):
CTGGAAAAGAAATAAAAAAAAACAGAATTAAAAGTTTTAAT
Found at i:43908834 original size:16 final size:17
Alignment explanation
Indices: 43908784--43908834 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
43908774 ATGGAAATAT
*
43908784 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
43908801 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
43908820 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
43908835 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:43908853 original size:22 final size:21
Alignment explanation
Indices: 43908794--43908836 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
43908784 AATCTTTAAG
43908794 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
43908813 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
43908834 GAT
1 GAT
43908837 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:43909603 original size:33 final size:33
Alignment explanation
Indices: 43909561--43909629 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
43909551 TTGTATGGAA
*
43909561 ATGTTAGAATATTTTGTACATCTATGCTTCATG
1 ATGTGAGAATATTTTGTACATCTATGCTTCATG
43909594 ATGTGAGAATATTTTGTACATCTATGCTTCATG
1 ATGTGAGAATATTTTGTACATCTATGCTTCATG
43909627 ATG
1 ATG
43909630 CATTAATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTGAGAATATTTTGTACATCTATGCTTCATG
Found at i:43911952 original size:30 final size:31
Alignment explanation
Indices: 43911876--43911958 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
43911866 TCAGTCTCGA
*
43911876 CATAT-ACTGGGCCGAACCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
43911906 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
43911937 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
43911959 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:43912223 original size:19 final size:19
Alignment explanation
Indices: 43912186--43912224 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
43912176 ATAACTAGGG
*
43912186 CAAAGCCCTTTTTGATAAA
1 CAAAGCCCTTTTCGATAAA
*
43912205 CAAAGCCCTTTTCGGTAAA
1 CAAAGCCCTTTTCGATAAA
43912224 C
1 C
43912225 TGGGGCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (19 bp):
CAAAGCCCTTTTCGATAAA
Found at i:43913079 original size:27 final size:27
Alignment explanation
Indices: 43913049--43913113 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
43913039 GGGCATATTC
43913049 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
43913076 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
43913103 GTCTTTTTACC
1 GTCATTTTACC
43913114 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:43913197 original size:27 final size:27
Alignment explanation
Indices: 43913171--43913396 Score: 158
Period size: 27 Copynumber: 8.3 Consensus size: 27
43913161 ATATACAAAC
* *
43913171 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAT
*
43913198 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTT-TAGTAATTTTGT--AAA-T
43913227 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTGTAAAT
* * **
43913254 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
** ***
43913281 TGAGGGTATTTT-GATAATTTCACAAA-
1 CAAGGGTATTTTAG-TAATTTTGTAAAT
* * **
43913307 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTGTAAAT
* *
43913334 CTAGGGGTATTTTGGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTGTAAAT
*
43913362 TAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
*
43913389 CGAGGGTA
1 CAAGGGTA
43913397 AAATGGTAAT
Statistics
Matches: 164, Mismatches: 24, Indels: 22
0.78 0.11 0.10
Matches are distributed among these distances:
26 5 0.03
27 129 0.79
28 9 0.05
29 20 0.12
30 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTGTAAAT
Found at i:43913370 original size:54 final size:54
Alignment explanation
Indices: 43913144--43913382 Score: 207
Period size: 54 Copynumber: 4.4 Consensus size: 54
43913134 TTTCATCCTA
* * * * * *
43913144 CAAGGGTGTTTTGGTAAATATACAAACCAAGGGTA-TTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGA-TAATTTTGTAAAT
* * * *
43913198 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTT-TGATAATTTTGTAAAT
* * * ***
43913254 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGATAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGATAATTTTGTAAAT
* * *
43913307 CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGATAATTTTGTAAAT
* *
43913362 TAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
43913383 GTAAATCGAG
Statistics
Matches: 146, Mismatches: 30, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
53 3 0.02
54 89 0.61
55 19 0.13
56 31 0.21
57 3 0.02
58 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGATAATTTTGTAAAT
Found at i:43913404 original size:81 final size:79
Alignment explanation
Indices: 43913241--43913490 Score: 205
Period size: 81 Copynumber: 3.1 Consensus size: 79
43913231 GGTATTTCTA
** ** * *
43913241 TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGATAATTTCACAA
1 TAATTTTACAAAT-AGGGGTATTTTGGTAATTTTGTAAATTGAGGGTATTTTG-TAATTTTATAA
* ***
43913306 A-CCAGTGGTATTTTGG
64 ATCAAG-GGTAAAATGG
* *
43913322 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAATTAAGGGTATTTTAGTAATTTTGTAA
1 TAATTTTACAAA-TAGGGGTATTTTGGTAATTTTGTAAATTGAGGGTATTTT-GTAATTTTATAA
*
43913387 ATCGAGGGTAAAATGG
64 ATCAAGGGTAAAATGG
* * * *** * ** * *
43913403 TAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAA
1 TAATTTTACAAATAG-GGGTATTTTGGTAATTTTGTAAATTGAGGGT-ATTTTGTAATTTTATAA
*
43913468 ATCAAGGGTAAAACGG
64 ATCAAGGGTAAAATGG
43913484 TAATTTT
1 TAATTTT
43913491 GTAAATCGAG
Statistics
Matches: 136, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
80 2 0.01
81 127 0.93
82 7 0.05
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (79 bp):
TAATTTTACAAATAGGGGTATTTTGGTAATTTTGTAAATTGAGGGTATTTTGTAATTTTATAAAT
CAAGGGTAAAATGG
Found at i:43913539 original size:81 final size:81
Alignment explanation
Indices: 43913349--43913542 Score: 226
Period size: 81 Copynumber: 2.4 Consensus size: 81
43913339 GGTATTTTGG
* * * * * * * *
43913349 TAATTTTGTAAATTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTGTAAATTGAGGGTAATTTGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAA
* ***
43913414 ATCGAGGGTAAAATGG
66 ATCGAGCGTAAAACAA
** * *
43913430 TAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAA
1 TAATTCTGTAAATTGAGGGTAATTTGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAA
43913495 ATCGAGCGTAAAACAA
66 ATCGAGCGTAAAACAA
* *
43913511 TAATTCTGTAAATCGAGGGTACTTTGGTAATT
1 TAATTCTGTAAATTGAGGGTAATTTGGTAATT
43913543 TTACAAATTG
Statistics
Matches: 93, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 93 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (81 bp):
TAATTCTGTAAATTGAGGGTAATTTGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAA
ATCGAGCGTAAAACAA
Found at i:43913542 original size:27 final size:27
Alignment explanation
Indices: 43913375--43913531 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
43913365 GGGTATTTTA
*
43913375 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
43913402 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
43913429 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
43913456 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * **
43913483 GTAATTTTGTAAATCGAGCGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
43913510 ATAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
43913532 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:43919246 original size:43 final size:42
Alignment explanation
Indices: 43919194--43919296 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
43919184 TTACATAGGA
* *
43919194 TCTCGTATCGATGCCAATAGCCAAGCCATGGTCT-TACACGAAG
1 TCTCATATCGATGCC-ATAGCCAAGACATGGT-TATACACGAAG
* * * *
43919237 TCTCATATCGATTCCATATCCCAGATATGGTTATACACGAAG
1 TCTCATATCGATGCCATAGCCAAGACATGGTTATACACGAAG
* *
43919279 TCTCATATAGATGTCATA
1 TCTCATATCGATGCCATA
43919297 TCCCAGATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 36 0.72
43 13 0.26
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
TCTCATATCGATGCCATAGCCAAGACATGGTTATACACGAAG
Done.