Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 232 of 255
Found at i:76628171 original size:93 final size:93
Alignment explanation
Indices: 76628058--76628229 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
76628048 GCCCATAAGT
* * *
76628058 GAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76628123 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
76628151 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
76628216 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
76628230 CAAATATCCC
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:0.27, C:0.31, G:0.23, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:76628225 original size:46 final size:46
Alignment explanation
Indices: 76628050--76628225 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
76628040 TGTAACCCGC
* * *
76628050 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
76628096 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
76628146 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
76628189 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
76628226 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:76628244 original size:46 final size:45
Alignment explanation
Indices: 76628101--76628244 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
76628091 CGCATCCATA
* * *
76628101 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
76628149 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
76628194 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
76628240 AGTGA
1 AGTGA
76628245 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.48
47 30 0.39
48 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:76631544 original size:64 final size:64
Alignment explanation
Indices: 76631431--76631551 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
76631421 CTCGTATCTA
* * * *
76631431 TGCTTGTGCCAAATAATTAGGATGCCATGCTCAAAATGAGTCAAATGCTCCTAACTAGATGTGG
1 TGCTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGG
* * * *
76631495 TGCTTATGTCAAATAATTAGAATGCTATGATCAAAGTGAATCAAGTGCTCCTAACTA
1 TGCTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAATGCTCCTAACTA
76631552 AATGAATGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (64 bp):
TGCTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGG
Found at i:76636989 original size:48 final size:48
Alignment explanation
Indices: 76636916--76637012 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
76636906 ATTGAAGAAG
76636916 ATATAATTGTCGGCACTTATATTGCTAACCAAACGGTCCATCTTGTTA
1 ATATAATTGTCGGCACTTATATTGCTAACCAAACGGTCCATCTTGTTA
*
76636964 ATATAATTGTCGGCACTTATGTTGCTAACCAAACGGTCCATCTTGTTA
1 ATATAATTGTCGGCACTTATATTGCTAACCAAACGGTCCATCTTGTTA
76637012 A
1 A
76637013 CGGAGATATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (48 bp):
ATATAATTGTCGGCACTTATATTGCTAACCAAACGGTCCATCTTGTTA
Found at i:76643099 original size:131 final size:132
Alignment explanation
Indices: 76642814--76643212 Score: 354
Period size: 131 Copynumber: 3.0 Consensus size: 132
76642804 TTGCCTCGCC
* * * * * ** * **
76642814 TTAGAAAATACGAGTGAAATTTCGAAGGGAA-ATTCGATTATTTTGAACAAACGGGAGATTGCAA
1 TTAGAAAACATGAATGAAATTT-TAAAGGAACATTCGATTATTTTGAACAAACGAAAAAGCGCAA
* * * * * * ** * * *
76642878 TCCAGCACGATAGGGCGCTATTCCCTGAATTTCCAGACATCGAACATTTCCCTCGTTTTAAAGAG
65 CCCAACACGATAGGGCACAATTCTCAGAATAGCCAAACATCGAACATTTCCTTCGTTTTAAAAAG
*
76642943 TTA
130 TTT
* * *
76642946 TTAGAAAACATGAGTGAAATTTTAAAGGAATC-TTCGATTGTTTTGAACAAATGAAAAAGCGCAA
1 TTAGAAAACATGAATGAAATTTTAAAGGAA-CATTCGATTATTTTGAACAAACGAAAAAGCGCAA
* *
76643010 CCCAACACGATAGGGCACGATTCTCA-AATAGCCAAACATCGAACATTTCCTTCGTTTCAAAAAG
65 CCCAACACGATAGGGCACAATTCTCAGAATAGCCAAACATCGAACATTTCCTTCGTTTTAAAAAG
76643074 TTT
130 TTT
* * * ** * **
76643077 TTAGAAAACGTGAATGAAATTTTAAAGGGACATTCGGTTATTTTGAGGAAACGAGAAATTGCAAC
1 TTAGAAAACATGAATGAAATTTTAAAGGAACATTCGATTATTTTGAACAAACGAAAAAGCGCAAC
* * * * * * ** *
76643142 CCAGCACGTTAGGGCACAATTCTGAGAATTGTCAAATATCGAACATCGCCTTCGTTTTAATAAAA
66 CCAACACGATAGGGCACAATTCTCAGAATAGCCAAACATCGAACATTTCCTTCGTTTTAA-AAAG
76643207 TTT
130 TTT
76643210 TTA
1 TTA
76643213 AATGAATAAT
Statistics
Matches: 216, Mismatches: 46, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
130 1 0.00
131 113 0.52
132 93 0.43
133 9 0.04
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (132 bp):
TTAGAAAACATGAATGAAATTTTAAAGGAACATTCGATTATTTTGAACAAACGAAAAAGCGCAAC
CCAACACGATAGGGCACAATTCTCAGAATAGCCAAACATCGAACATTTCCTTCGTTTTAAAAAGT
TT
Found at i:76645341 original size:19 final size:17
Alignment explanation
Indices: 76645296--76645342 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
76645286 GTACGTTGTC
76645296 GTGT-GTACGGGAGTGG
1 GTGTCGTACGGGAGTGG
*
76645312 GCTGGCGTACGGGAGCTGG
1 G-TGTCGTACGGGAG-TGG
76645331 TGTGTCGTACGG
1 -GTGTCGTACGG
76645343 TGCGAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 2 0.08
18 9 0.36
19 12 0.48
20 1 0.04
ACGTcount: A:0.11, C:0.15, G:0.51, T:0.23
Consensus pattern (17 bp):
GTGTCGTACGGGAGTGG
Found at i:76646664 original size:13 final size:13
Alignment explanation
Indices: 76646643--76646683 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
76646633 TCTTTTCATT
76646643 TTTTCTATATTTTA
1 TTTT-TATATTTTA
76646657 TTTTTATATTTTA
1 TTTTTATATTTTA
*
76646670 TTTTTATCTTTTA
1 TTTTTATATTTTA
76646683 T
1 T
76646684 CATAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATATTTTA
Found at i:76647555 original size:20 final size:19
Alignment explanation
Indices: 76647530--76647582 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
76647520 ATTTAAATCT
76647530 TTTATTTATTTATTTATCCG
1 TTTATTT-TTTATTTATCCG
** *
76647550 TTTATTTGTTTACATATTCG
1 TTTATTT-TTTATTTATCCG
76647570 -TTATTTTTTATTT
1 TTTATTTTTTATTT
76647583 TATTTGTTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 16 0.59
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.68
Consensus pattern (19 bp):
TTTATTTTTTATTTATCCG
Found at i:76649049 original size:255 final size:256
Alignment explanation
Indices: 76648608--76649070 Score: 775
Period size: 255 Copynumber: 1.8 Consensus size: 256
76648598 TTTTAACATA
*
76648608 AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCTTACGTGCTAGGTTTCGATTTA
1 AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCCTACGTGCTAGGTTTCGATTTA
**
76648673 TTGTTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
66 TCATTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
* *
76648738 TGATTTTGATATCGAAGGTTTGAAATATCGTGTCCTACGAGTTGGATGTAATATTTTATTTCTTC
131 TGATTTTGATATCGAAGGTTTGAAATATCGTGTCATACGAGCTGGATGTAATATTTTATTTCTTC
76648803 GAAACAAGAGAATTTTAATCGTTTCATATTATTGCATTTTTACTCAAGACTTTTTAAAAAC
196 GAAACAAGAGAATTTTAATCGTTTCATATTATTGCATTTTTACTCAAGACTTTTTAAAAAC
* ** * * *
76648864 AAGGCAATATTCCGTTGTTTGGAATTTTCGAG-AAATTGTGCCCTACGTGCTGGGTTTTGATTTA
1 AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCCTACGTGCTAGGTTTCGATTTA
*
76648928 TCATTTGACTAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
66 TCATTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
* * * *
76648993 TGATTTTGATATCGAAGGTTTGAAATGTTGTGTCATACGTGCTGGATGTGATATTTTATTTCTTC
131 TGATTTTGATATCGAAGGTTTGAAATATCGTGTCATACGAGCTGGATGTAATATTTTATTTCTTC
76649058 GAAACAAGAGAAT
196 GAAACAAGAGAAT
76649071 CTAAATATCC
Statistics
Matches: 191, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
255 160 0.84
256 31 0.16
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (256 bp):
AAGGCAATATTCCGTTGTTTGGAAATTTCGAGAAAATCATACCCTACGTGCTAGGTTTCGATTTA
TCATTTGACCAAACGACCGAATATCCTTCTTAAAATTTCAATACATAAATTTGGAAATTATGAGA
TGATTTTGATATCGAAGGTTTGAAATATCGTGTCATACGAGCTGGATGTAATATTTTATTTCTTC
GAAACAAGAGAATTTTAATCGTTTCATATTATTGCATTTTTACTCAAGACTTTTTAAAAAC
Found at i:76650834 original size:24 final size:24
Alignment explanation
Indices: 76650793--76650839 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
76650783 CTGTCAGGAG
**
76650793 AGGATTTAAGAGTTGATAAGGGAT
1 AGGATTTAAGAGCAGATAAGGGAT
*
76650817 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAAGAGCAGATAAGGGA
76650840 GGAAATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.23
Consensus pattern (24 bp):
AGGATTTAAGAGCAGATAAGGGAT
Found at i:76652289 original size:27 final size:26
Alignment explanation
Indices: 76652249--76652360 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
76652239 AGGAAGCGTC
* *
76652249 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGAT
* *
76652276 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACAT-TATCTGAT
*
76652303 CTGGTGATTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTG-AT
* *
76652331 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGAT
76652357 CTGG
1 CTGG
76652361 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGAT
Found at i:76654837 original size:30 final size:30
Alignment explanation
Indices: 76654798--76654872 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
76654788 GCACATGGGG
76654798 GTGTGGCTAG-CTCGTGTAACTCACACGAGT
1 GTGTGGCTAGCCT-GTGTAACTCACACGAGT
* * * *
76654828 GTGTTGCTAGCCTGTGTGACTCACACGGGC
1 GTGTGGCTAGCCTGTGTAACTCACACGAGT
*
76654858 GTGTGGCTAACCTGT
1 GTGTGGCTAGCCTGT
76654873 ATCGATCACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (30 bp):
GTGTGGCTAGCCTGTGTAACTCACACGAGT
Found at i:76654882 original size:30 final size:30
Alignment explanation
Indices: 76654848--76654952 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 30
76654838 CCTGTGTGAC
76654848 TCACACGGGCGTGTGGCTAACCTGTATCGA
1 TCACACGGGCGTGTGGCTAACCTGTATCGA
* * * * * *
76654878 TCACATGGGCATGTAGCTAGCCCGTGTCGA
1 TCACACGGGCGTGTGGCTAACCTGTATCGA
* * * * *
76654908 TTACACAGGTGTGTGGCTAGCCCATGTA--GG
1 TCACACGGGCGTGTGGCTA-ACC-TGTATCGA
76654938 TCACACGGGCGTGTG
1 TCACACGGGCGTGTG
76654953 ACGAGCCGGT
Statistics
Matches: 54, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
30 50 0.93
31 2 0.04
32 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.24
Consensus pattern (30 bp):
TCACACGGGCGTGTGGCTAACCTGTATCGA
Found at i:76658503 original size:15 final size:15
Alignment explanation
Indices: 76658479--76658518 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
76658469 AACAAGTAAG
*
76658479 AATAATAATCAAATA
1 AATAAAAATCAAATA
76658494 AATAAAAATCAAATA
1 AATAAAAATCAAATA
76658509 AATAATAAAT
1 AATAA-AAAT
76658519 AATGGACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAAAAATCAAATA
Found at i:76660287 original size:28 final size:29
Alignment explanation
Indices: 76660255--76660322 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
76660245 TACATATATG
76660255 CATATGGCCCACTAGGCCC-AATCT-CATT
1 CATATGGCCCACTAGGCCCAAAT-TACATT
* *
76660283 CATATGGCCTATTAGGCCCAAATTACATT
1 CATATGGCCCACTAGGCCCAAATTACATT
*
76660312 CATATAGCCCA
1 CATATGGCCCA
76660323 TCTGGCTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATTACATT
Found at i:76664083 original size:29 final size:29
Alignment explanation
Indices: 76664011--76664085 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
76664001 TAAGTCTACA
* * *
76664011 TACATGCATATAGCCCACTAGGCCCAATC
1 TACATTCATATGGCCCATTAGGCCCAATC
76664040 T-CATTCATATGGCCCATTAGGCCCAAAT-
1 TACATTCATATGGCCCATTAGGCCC-AATC
76664068 TACATTCATATGGCCCAT
1 TACATTCATATGGCCCAT
76664086 CTGGCCCGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
TACATTCATATGGCCCATTAGGCCCAATC
Found at i:76664091 original size:29 final size:30
Alignment explanation
Indices: 76664011--76664097 Score: 103
Period size: 29 Copynumber: 3.0 Consensus size: 30
76664001 TAAGTCTACA
* *
76664011 TACATGCATATAGCCCA-CTAGGCCCAATC
1 TACATTCATATGGCCCATCTAGGCCCAATC
76664040 T-CATTCATATGGCCCAT-TAGGCCCAAAT-
1 TACATTCATATGGCCCATCTAGGCCC-AATC
76664068 TACATTCATATGGCCCATCT-GGCCCGAATC
1 TACATTCATATGGCCCATCTAGGCCC-AATC
76664098 AATTCCAAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
28 21 0.42
29 28 0.56
30 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (30 bp):
TACATTCATATGGCCCATCTAGGCCCAATC
Found at i:76677448 original size:45 final size:45
Alignment explanation
Indices: 76677362--76677457 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
76677352 GAGGACTCAT
* * * ***
76677362 ACATGTGGATTCATAAAAGAAACTTCATGGGTATAGCAAATTCAA
1 ACATGCGGATACATAAAAAAAACTTCATGAACATAGCAAATTCAA
* *
76677407 ACATGCGGATACATAAAAAAAACTTCATGAACATAGTAAATTCAT
1 ACATGCGGATACATAAAAAAAACTTCATGAACATAGCAAATTCAA
76677452 ACATGC
1 ACATGC
76677458 AGACTTTGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.25
Consensus pattern (45 bp):
ACATGCGGATACATAAAAAAAACTTCATGAACATAGCAAATTCAA
Found at i:76682187 original size:13 final size:13
Alignment explanation
Indices: 76682169--76682194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76682159 TATTCATCCA
76682169 ACCAAATTAATTT
1 ACCAAATTAATTT
76682182 ACCAAATTAATTT
1 ACCAAATTAATTT
76682195 TGATTAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
ACCAAATTAATTT
Found at i:76692889 original size:22 final size:21
Alignment explanation
Indices: 76692848--76692889 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
76692838 TATTATTTCC
**
76692848 TTTTATATTTATTTTATTATA
1 TTTTATATTTACATTATTATA
76692869 TTTTATATGTTACATTATTAT
1 TTTTATAT-TTACATTATTAT
76692890 TATCATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATATTTACATTATTATA
Found at i:76700499 original size:19 final size:19
Alignment explanation
Indices: 76700474--76700653 Score: 243
Period size: 19 Copynumber: 9.9 Consensus size: 19
76700464 ATAATCTTCA
76700474 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
76700493 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
76700512 GTGATATGCAATCTTAGAC
1 ATGATATGCAATCTTAGAT
76700531 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
76700548 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
76700566 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
76700583 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
76700601 ATGATA--CAATCTTAGAA
1 ATGATATGCAATCTTAGAT
76700618 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
76700636 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
76700654 AGATATGATT
Statistics
Matches: 143, Mismatches: 9, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
17 45 0.31
18 46 0.32
19 52 0.36
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:76700564 original size:35 final size:35
Alignment explanation
Indices: 76700474--76700653 Score: 261
Period size: 35 Copynumber: 5.0 Consensus size: 35
76700464 ATAATCTTCA
*
76700474 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATA--CAATCTTAGAT
* *
76700512 GTGATATGCAATCTTAGACATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
76700548 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
* *
76700583 ATAATTGCAATCTTAGATATGATACAATCTTAGAA
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
76700618 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
76700654 AGATATGATT
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
35 82 0.62
36 15 0.11
37 13 0.10
38 22 0.17
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:76701152 original size:17 final size:16
Alignment explanation
Indices: 76701139--76701196 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
76701129 CCAATATATT
76701139 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
76701155 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
76701171 -TATATTTTTATTATATA
1 TTATATTTTTA-TATA-A
76701188 TTATATTTT
1 TTATATTTT
76701197 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.20
15 4 0.11
16 6 0.17
17 10 0.29
18 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:76701197 original size:17 final size:17
Alignment explanation
Indices: 76701132--76701197 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
76701122 TTCTAAACCA
*
76701132 ATATATTTTATATTT-TT
1 ATATATTATAT-TTTATT
76701149 ATATAATTATTATTCTTA-T
1 ATAT-ATTA-TATT-TTATT
*
76701168 AAATA-TAT-TTTTATT
1 ATATATTATATTTTATT
76701183 ATATATTATATTTTA
1 ATATATTATATTTTA
76701198 AATTTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 4 0.10
17 11 0.28
18 5 0.13
19 9 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATATTTTATT
Found at i:76706075 original size:12 final size:11
Alignment explanation
Indices: 76706060--76706116 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
76706050 AAAAAAGGAA
76706060 AAAAACAAATAG
1 AAAAACAAA-AG
*
76706072 AAAATCAAAAG
1 AAAAACAAAAG
76706083 AAAAA-AAAA-
1 AAAAACAAAAG
76706092 AAAAA-AAAA-
1 AAAAACAAAAG
76706101 AAAAA-AAAAGG
1 AAAAACAAAA-G
76706112 AAAAA
1 AAAAA
76706117 AGAGAGAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 18 0.44
10 4 0.10
11 11 0.27
12 8 0.20
ACGTcount: A:0.86, C:0.04, G:0.07, T:0.04
Consensus pattern (11 bp):
AAAAACAAAAG
Found at i:76706075 original size:29 final size:27
Alignment explanation
Indices: 76706042--76706117 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 27
76706032 TTGAGGTTTC
76706042 GAAAATCAAAAAAAGGAAAAAAACAAATA
1 GAAAATCAAAAAAAGGAAAAAAA-AAA-A
76706071 GAAAATCAAAAGAAA--AAAAAAAAAAA
1 GAAAATCAAAA-AAAGGAAAAAAAAAAA
**
76706097 -AAAAAAAAAAAAAGGAAAAAA
1 GAAAATCAAAAAAAGGAAAAAA
76706118 GAGAGAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 3 0.07
25 8 0.19
26 7 0.17
27 3 0.07
28 7 0.17
29 11 0.26
30 3 0.07
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (27 bp):
GAAAATCAAAAAAAGGAAAAAAAAAAA
Found at i:76706092 original size:11 final size:11
Alignment explanation
Indices: 76706049--76706109 Score: 54
Period size: 10 Copynumber: 5.5 Consensus size: 11
76706039 TTCGAAAATC
*
76706049 AAAAAAAGGAAA
1 AAAAAAAAG-AA
76706061 AAAACAAATAGAA
1 AAAA-AAA-AGAA
**
76706074 AATCAAAAGAA
1 AAAAAAAAGAA
76706085 AAAAAAAA-AA
1 AAAAAAAAGAA
76706095 AAAAAAAA-AA
1 AAAAAAAAGAA
76706105 AAAAA
1 AAAAA
76706110 GGAAAAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
10 17 0.40
11 10 0.24
12 7 0.17
13 7 0.17
14 1 0.02
ACGTcount: A:0.87, C:0.03, G:0.07, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:76706115 original size:11 final size:10
Alignment explanation
Indices: 76706078--76706117 Score: 57
Period size: 9 Copynumber: 4.1 Consensus size: 10
76706068 ATAGAAAATC
76706078 AAAAGAAAAA
1 AAAAGAAAAA
76706088 AAAA-AAAAA
1 AAAAGAAAAA
76706097 AAAA-AAAAA
1 AAAAGAAAAA
76706106 AAAAGGAAAAA
1 AAAA-GAAAAA
76706117 A
1 A
76706118 GAGAGAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 18 0.64
10 4 0.14
11 6 0.21
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:76706117 original size:1 final size:1
Alignment explanation
Indices: 76706078--76706109 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
76706068 ATAGAAAATC
*
76706078 AAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
76706110 GGAAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:76706136 original size:10 final size:9
Alignment explanation
Indices: 76706081--76706142 Score: 50
Period size: 7 Copynumber: 7.8 Consensus size: 9
76706071 GAAAATCAAA
76706081 AGAAAAAA-
1 AGAAAAAAG
76706089 A-AAAAAA-
1 AGAAAAAAG
76706096 A-AAAAAA-
1 AGAAAAAAG
76706103 A-AAAAAAG
1 AGAAAAAAG
76706111 -GAAAAAAG
1 AGAAAAAAG
* *
76706119 AGAGAAGAG
1 AGAAAAAAG
76706128 -GAAAAAAG
1 AGAAAAAAG
76706136 AGAAAAA
1 AGAAAAA
76706143 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
7 20 0.43
8 14 0.30
9 12 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AGAAAAAAG
Found at i:76707366 original size:206 final size:205
Alignment explanation
Indices: 76707003--76707554 Score: 773
Period size: 206 Copynumber: 2.7 Consensus size: 205
76706993 GCAGATCTGG
*
76707003 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAA-TCAAGACATAGCT
* *
76707068 GATTTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
64 GATTTAGCTTTCTCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * **
76707133 AGAACAAATCGAAGTTTGGCGTCTCCATATTTGACGAAGAGCAGACACATAGCAAATCTGGCCCT
129 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACGAAGAGCAGACACATAGCAAATCTAACCCT
* *
76707198 CAGATGTTTATA
194 CAGATGATTAGA
* * * * * *
76707210 CTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATCAAAATCATAGTTA
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAGA-CATAGCTG
* *
76707275 ATTTAGCTTTCTCGTGCTTACGCTGAGGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
65 ATTTAGCTTTCTCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
76707340 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTT
130 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGAAGAGCAGACACATAGCAAATCTAACCCTC
76707405 AGATGATTAGA
195 AGATGATTAGA
* * * *
76707416 CTGAAACATATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATC-AAGACATAGCTG
* * * * * *
76707481 ATTT-GGTTTTTGCGTGTTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGGATTGTCAA
65 ATTTAGCTTTCT-CGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
76707545 AGAACAAATC
129 AGAACAAATC
76707555 AAAGAAGAAG
Statistics
Matches: 303, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
205 9 0.03
206 284 0.94
207 10 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAGACATAGCTGA
TTTAGCTTTCTCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCATCTCCATATTCGACGAAGAGCAGACACATAGCAAATCTAACCCTCA
GATGATTAGA
Found at i:76713457 original size:23 final size:23
Alignment explanation
Indices: 76713413--76713457 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
76713403 TACTTTAGCC
*
76713413 ATTTTTATTTTTTCTTTCATTTT
1 ATTTTTATTTTTTCTTTAATTTT
*
76713436 ATTTTTGTTTTTAT-TTTAATTT
1 ATTTTTATTTTT-TCTTTAATTT
76713458 ACTAACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (23 bp):
ATTTTTATTTTTTCTTTAATTTT
Found at i:76720200 original size:20 final size:19
Alignment explanation
Indices: 76720167--76720214 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
76720157 TTCTTTATTT
76720167 ATTTTATTTTATTTAGTATC
1 ATTTTATTTTATTTAG-ATC
76720187 -TTTTATTATTATTTAGATC
1 ATTTTATT-TTATTTAGATC
76720206 ATTTTATTT
1 ATTTTATTT
76720215 CTTTATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTATTTTATTTAGATC
Found at i:76721908 original size:6 final size:6
Alignment explanation
Indices: 76721893--76721971 Score: 97
Period size: 6 Copynumber: 13.3 Consensus size: 6
76721883 GTCCATTTCA
* *
76721893 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATC TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
76721940 TTTATC TTTATC TTTCTG TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
76721972 ATTAAACTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
5 4 0.06
6 64 0.94
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:76728048 original size:29 final size:28
Alignment explanation
Indices: 76728006--76728074 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
76727996 CGGTTTTCTA
* *
76728006 AAAAATTATAAAAGCATA-GAGAATTGTTT
1 AAAAATTATTAAAG-ATATGAAAATT-TTT
*
76728035 AAAAATTATTAAAGATATTAAAATTTTT
1 AAAAATTATTAAAGATATGAAAATTTTT
76728063 -AAAATTATTAAA
1 AAAAATTATTAAA
76728075 AAATTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 12 0.33
28 6 0.17
29 18 0.50
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (28 bp):
AAAAATTATTAAAGATATGAAAATTTTT
Found at i:76728064 original size:9 final size:9
Alignment explanation
Indices: 76728036--76728075 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
76728026 GAATTGTTTA
76728036 AAAATTATT
1 AAAATTATT
76728045 AAAGA-TATT
1 AAA-ATTATT
*
76728054 AAAATTTTT
1 AAAATTATT
76728063 AAAATTATT
1 AAAATTATT
76728072 AAAA
1 AAAA
76728076 AATTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:76728195 original size:10 final size:10
Alignment explanation
Indices: 76728180--76728260 Score: 69
Period size: 10 Copynumber: 8.3 Consensus size: 10
76728170 TAATTTTTTA
76728180 AATAATTATT
1 AATAATTATT
76728190 AATAATTA-T
1 AATAATTATT
*
76728199 AA-AA-TATA
1 AATAATTATT
*
76728207 AAAAATTAATT
1 AATAATT-ATT
*
76728218 AAAAATTATT
1 AATAATTATT
* *
76728228 AAGAATTATA
1 AATAATTATT
*
76728238 AATAATTATA
1 AATAATTATT
*
76728248 AATAATGATT
1 AATAATTATT
76728258 AAT
1 AAT
76728261 TTTTATATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
9 5 0.08
10 40 0.67
11 9 0.15
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
AATAATTATT
Found at i:76728238 original size:31 final size:28
Alignment explanation
Indices: 76728178--76728245 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 28
76728168 AGTAATTTTT
*
76728178 TAAATAATT-ATTAATAATTATAAAATA
1 TAAATAATTAATTAAAAATTATAAAATA
*
76728205 TAAAAAATTAATTAAAAATTATTAAGAATTA
1 TAAATAATTAATTAAAAATTA-TAA-AA-TA
76728236 TAAATAATTA
1 TAAATAATTA
76728246 TAAATAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.24
28 10 0.29
29 3 0.09
30 2 0.06
31 11 0.32
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
TAAATAATTAATTAAAAATTATAAAATA
Found at i:76728521 original size:20 final size:19
Alignment explanation
Indices: 76728496--76728582 Score: 58
Period size: 19 Copynumber: 4.6 Consensus size: 19
76728486 ATTAACATTG
76728496 TTTTTAATAGTTTTAAATAA
1 TTTTTAATA-TTTTAAATAA
* *
76728516 TTTTTAATAATTTAAAAAA
1 TTTTTAATATTTTAAATAA
* **
76728535 ATCATAAT-TTCTT-AA-AA
1 TTTTTAATATT-TTAAATAA
76728552 TTTTTAATAGTTTTTAAAT-A
1 TTTTTAATA--TTTTAAATAA
76728572 TTTTT-ATATTT
1 TTTTTAATATTT
76728583 ATTTCAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
17 10 0.19
18 3 0.06
19 20 0.38
20 19 0.37
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTTAATATTTTAAATAA
Found at i:76729702 original size:127 final size:128
Alignment explanation
Indices: 76729509--76729825 Score: 366
Period size: 128 Copynumber: 2.5 Consensus size: 128
76729499 ACAAAAAACT
* * * * ** * * ** *
76729509 GAAACCCATCACGGTAGGGCACGATTCCTTGAACTTCTAAACATTGAACATTTCCTTGTTTTAGA
1 GAAACACAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATCAAACATTACCTTGTTTTAGA
* * * * *
76729574 ATTT-GAAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAATAAATGAGAAATC
66 ATTTAGAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATC
** * * *
76729636 GAAACACAGCACGATAGGGCACGGTTCCCCGAATTTCCAAGCTTCAAACATTGCCTTGTTTTAGA
1 GAAACACAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATCAAACATTACCTTGTTTTAGA
* * *
76729701 ATTTAGAAAAACACGAGTGAAATTCTAAAGGAATGTTCGATTATTTTGAACAAACGGGAAATC
66 ATTTAGAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATC
* * * * *
76729764 GAAACCCAGCACGGTAGGGCACAATTTCCCGAATTTTCAAACATCAAACATTACCTTCTTTT
1 GAAACACAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATCAAACATTACCTTGTTTT
76729826 TAAGGAATTT
Statistics
Matches: 158, Mismatches: 31, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
127 56 0.35
128 102 0.65
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (128 bp):
GAAACACAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATCAAACATTACCTTGTTTTAGA
ATTTAGAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATC
Found at i:76735021 original size:25 final size:25
Alignment explanation
Indices: 76734995--76735043 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
76734985 AAGGTAACTA
76734995 TTTGATATACAACT-TGTATAGTTTAT
1 TTTGATATA-AA-TGTGTATAGTTTAT
*
76735021 TTTTATATAAATGTGTATAGTTT
1 TTTGATATAAATGTGTATAGTTT
76735044 TTATACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 12 0.57
26 8 0.38
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (25 bp):
TTTGATATAAATGTGTATAGTTTAT
Found at i:76736184 original size:23 final size:23
Alignment explanation
Indices: 76736155--76736199 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
76736145 ATGATATTAA
*
76736155 TTAATAAAATTTAGATAATATTT
1 TTAATAAAATTTAGAAAATATTT
*
76736178 TTAATAAAATTTATAAAATATT
1 TTAATAAAATTTAGAAAATATT
76736200 ACCAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAATAAAATTTAGAAAATATTT
Found at i:76736195 original size:32 final size:32
Alignment explanation
Indices: 76736153--76736262 Score: 89
Period size: 36 Copynumber: 3.2 Consensus size: 32
76736143 TAATGATATT
*
76736153 AATTAATAAAATTTAGATAATATTTTTAATAA
1 AATTTATAAAATTTAGATAATATTTTTAATAA
*
76736185 AATTTATAAAATATTACCA-ATATATTTTTATATAA
1 AATTTATAAAAT-TTA-GATA-ATATTTTTA-ATAA
**
76736220 AATTTAATTATTTTATTTAGATAATA-TTTTAACTAA
1 AATTT-A-TA--AAATTTAGATAATATTTTTAA-TAA
76736256 AATTTAT
1 AATTTAT
76736263 GATTTTAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
32 11 0.17
33 4 0.06
34 11 0.17
35 11 0.17
36 14 0.22
37 6 0.10
38 4 0.06
39 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (32 bp):
AATTTATAAAATTTAGATAATATTTTTAATAA
Found at i:76736206 original size:23 final size:23
Alignment explanation
Indices: 76736157--76736206 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
76736147 GATATTAATT
* ***
76736157 AATAAAATTTAGATAATATTTTT
1 AATAAAATTTAGAAAATATTACC
*
76736180 AATAAAATTTATAAAATATTACC
1 AATAAAATTTAGAAAATATTACC
76736203 AATA
1 AATA
76736207 TATTTTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
AATAAAATTTAGAAAATATTACC
Found at i:76736497 original size:29 final size:28
Alignment explanation
Indices: 76736464--76736525 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 28
76736454 TTAAAAAATA
*
76736464 TATA-TAAATTTTGGTTTAATGTGTAATTT
1 TATAGTAAATTTTGATTT--TGTGTAATTT
76736493 TATATGTAAATTTTGATTTTGTGTAATTT
1 TATA-GTAAATTTTGATTTTGTGTAATTT
76736522 TATA
1 TATA
76736526 CATGATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 18 0.60
31 12 0.40
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (28 bp):
TATAGTAAATTTTGATTTTGTGTAATTT
Found at i:76736497 original size:31 final size:29
Alignment explanation
Indices: 76736462--76736525 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 29
76736452 TCTTAAAAAA
*
76736462 TATATATAAATTTTGGTTTAATGTGTAATTT
1 TATATATAAATTTTGATTT--TGTGTAATTT
*
76736493 TATATGTAAATTTTGATTTTGTGTAATTT
1 TATATATAAATTTTGATTTTGTGTAATTT
76736522 TATA
1 TATA
76736526 CATGATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 14 0.45
31 17 0.55
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (29 bp):
TATATATAAATTTTGATTTTGTGTAATTT
Found at i:76737829 original size:18 final size:18
Alignment explanation
Indices: 76737806--76737843 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
76737796 AATATATATT
76737806 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
76737824 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
76737842 AA
1 AA
76737844 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:76737836 original size:13 final size:13
Alignment explanation
Indices: 76737820--76737844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76737810 CAAGTACCCA
76737820 ACCCAACCCAATT
1 ACCCAACCCAATT
76737833 ACCCAACCCAAT
1 ACCCAACCCAAT
76737845 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:76737880 original size:6 final size:6
Alignment explanation
Indices: 76737869--76737895 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
76737859 ATAATTTAAT
76737869 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
76737896 GCATATAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:76745879 original size:73 final size:72
Alignment explanation
Indices: 76745744--76745922 Score: 279
Period size: 73 Copynumber: 2.5 Consensus size: 72
76745734 GTTTTGTTAT
*
76745744 TTTTTTGAAGAATTACTAATATTTTTGTACATATAAAAAAATCAATAACAACGTAATTTAAAGAA
1 TTTTTTGAAGAATTACTAATA-TTTT-TACACATAAAAAAATCAATAACAACGTAATTTAAAGAA
*
76745809 TTACTAATA
64 TAACTAATA
* *
76745818 TTGTTTTGAAGAATTACTAATATTTTTACACATAAACAAATCAATAACAACGTCATTTAAAGAAT
1 TT-TTTTGAAGAATTACTAATATTTTTACACATAAAAAAATCAATAACAACGTAATTTAAAGAAT
76745883 AACTAAT-
65 AACTAATA
*
76745890 TTTTTTGAAAAATTACTAATATTTTTACACATA
1 TTTTTTGAAGAATTACTAATATTTTTACACATA
76745923 TTTTTCAAAA
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
71 30 0.30
72 2 0.02
73 42 0.42
74 6 0.06
75 19 0.19
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (72 bp):
TTTTTTGAAGAATTACTAATATTTTTACACATAAAAAAATCAATAACAACGTAATTTAAAGAATA
ACTAATA
Found at i:76749212 original size:13 final size:13
Alignment explanation
Indices: 76749190--76749222 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
76749180 ACGGGTTTGT
76749190 TTAT-TAAACTAA
1 TTATCTAAACTAA
76749202 TTATCTAAACTAA
1 TTATCTAAACTAA
*
76749215 TTAACTAA
1 TTATCTAA
76749223 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:76752138 original size:6 final size:6
Alignment explanation
Indices: 76752119--76752176 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
76752109 CTTTATAACG
* * *
76752119 AAAAAT AAACAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAG AGAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
76752166 AAAAAT AAAAA
1 AAAAAT AAAAA
76752177 GATAAGAGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:76752142 original size:18 final size:17
Alignment explanation
Indices: 76752120--76752175 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
76752110 TTTATAACGA
*
76752120 AAAATAAACATAAAAAT
1 AAAATAAAAATAAAAAT
76752137 AAAAATAAAAATAAAAAT
1 -AAAATAAAAATAAAAAT
* *
76752155 AAAAGAGAAATAAAAAT
1 AAAATAAAAATAAAAAT
76752172 AAAA
1 AAAA
76752176 AGATAAGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:76752183 original size:23 final size:23
Alignment explanation
Indices: 76752139--76752184 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
76752129 ATAAAAATAA
*
76752139 AAATAAAAATAAAAATAAAAGAG
1 AAATAAAAATAAAAAGAAAAGAG
*
76752162 AAATAAAAATAAAAAGATAAGAG
1 AAATAAAAATAAAAAGAAAAGAG
76752185 GATTCAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (23 bp):
AAATAAAAATAAAAAGAAAAGAG
Found at i:76754350 original size:15 final size:15
Alignment explanation
Indices: 76754330--76754364 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
76754320 CAACACGGCC
*
76754330 GTCTCGCACGGTCGT
1 GTCTCGCACGGTCAT
*
76754345 GTCTCGTACGGTCAT
1 GTCTCGCACGGTCAT
76754360 GTCTC
1 GTCTC
76754365 TTCCCCTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.31, G:0.29, T:0.31
Consensus pattern (15 bp):
GTCTCGCACGGTCAT
Found at i:76757570 original size:13 final size:13
Alignment explanation
Indices: 76757548--76757580 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
76757538 ATAGGTTTTT
76757548 TTAT-TAAACTAA
1 TTATCTAAACTAA
76757560 TTATCTAAACTAA
1 TTATCTAAACTAA
*
76757573 TTAACTAA
1 TTATCTAA
76757581 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:76762817 original size:20 final size:19
Alignment explanation
Indices: 76762766--76762824 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
76762756 TCCCTTCTTA
*
76762766 TTCCCTTTTCTTCTCTTCCT
1 TTCCTTTTTCTT-TCTTCCT
* *
76762786 ATCCTCTATTCTTTCTTCCT
1 TTCCT-TTTTCTTTCTTCCT
*
76762806 CTTCCTTTTTCTTTTTTCC
1 -TTCCTTTTTCTTTCTTCC
76762825 CCTCTCTTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (19 bp):
TTCCTTTTTCTTTCTTCCT
Found at i:76763070 original size:14 final size:12
Alignment explanation
Indices: 76763029--76763104 Score: 62
Period size: 14 Copynumber: 5.8 Consensus size: 12
76763019 TTGTTTTTCC
76763029 TTTCTTTATTTT
1 TTTCTTTATTTT
*
76763041 TATTCTTAATTTTT
1 T-TTCTTTA-TTTT
*
76763055 TTTACTTTATTCT
1 TTT-CTTTATTTT
76763068 TTTCTTTATTTAT
1 TTTCTTTATTT-T
*
76763081 GTTTGTTTATTTT
1 -TTTCTTTATTTT
76763094 CTTTCATTTAT
1 -TTTC-TTTAT
76763105 GTTTATTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
12 8 0.16
13 19 0.37
14 24 0.47
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTCTTTATTTT
Found at i:76763097 original size:23 final size:23
Alignment explanation
Indices: 76763060--76763116 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
76763050 TTTTTTTTAC
*
76763060 TTTATTCTTTTCTTT-ATTTATG
1 TTTATTATTTTCTTTCATTTATG
*
76763082 TTTGTTTATTTTCTTTCATTTATG
1 TTT-ATTATTTTCTTTCATTTATG
76763106 TTTATTATTTT
1 TTTATTATTTT
76763117 GATTTGGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.10
23 17 0.57
24 10 0.33
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTATTATTTTCTTTCATTTATG
Found at i:76765338 original size:39 final size:39
Alignment explanation
Indices: 76765284--76765500 Score: 272
Period size: 39 Copynumber: 5.5 Consensus size: 39
76765274 GCATGATATT
76765284 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
76765323 TGGAAATATATCCGGACTTAAGGTCCACAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
* ***
76765362 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
* * ** *
76765401 TGAAAAAATATCCGGACTTAAGGTTTGTAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
* * * ***
76765440 TGGAATTATAATCCAGACTTAAGGTCCGCAGGTTGCGTGC
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGCTATATGC
*
76765480 TGGAAATATATCCGGGCTTAA
1 TGGAAATATATCCGGACTTAA
76765501 AGTTCCGAAG
Statistics
Matches: 148, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 118 0.80
40 30 0.20
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
Found at i:76765492 original size:79 final size:78
Alignment explanation
Indices: 76765284--76765500 Score: 308
Period size: 78 Copynumber: 2.8 Consensus size: 78
76765274 GCATGATATT
* ***
76765284 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAATATATCCGGACTTAAGGTCC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAAGGTCC
76765349 ACAGGCTATATGC
66 ACAGGCTATATGC
* * **
76765362 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGAAAAAATATCCGGACTTAAGGTTT
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAAGGTCC
**
76765427 GTAGGCTATATGC
66 ACAGGCTATATGC
* * *
76765440 TGGAATTATAATCCAGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGGCTTAA
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAA
76765501 AGTTCCGAAG
Statistics
Matches: 123, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 76 0.62
79 47 0.38
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (78 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAAGGTCC
ACAGGCTATATGC
Found at i:76773104 original size:39 final size:39
Alignment explanation
Indices: 76773050--76773266 Score: 263
Period size: 39 Copynumber: 5.5 Consensus size: 39
76773040 GTATGATATT
*
76773050 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTATATGC
* * *
76773089 TGGAAATATATCCGGACTTAAGGTCCGTAAGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTATATGC
***
76773128 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTATATGC
** * **
76773167 TAAAAATATCTCCGGACTTAAGGTTTGCAGGTTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTATATGC
* * ***
76773206 TGGAATTATAATCCGGACTTAAGGTCCACAGGTTGCGTGC
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGTTATATGC
*
76773246 TGGAAATATATCCGGGCTTAA
1 TGGAAATATATCCGGACTTAA
76773267 AGTTCCGAAG
Statistics
Matches: 149, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 118 0.79
40 31 0.21
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGTTATATGC
Found at i:76773181 original size:78 final size:78
Alignment explanation
Indices: 76773050--76773266 Score: 290
Period size: 78 Copynumber: 2.8 Consensus size: 78
76773040 GTATGATATT
* ***
76773050 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAATATATCCGGACTTAAGGTCC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAAGGTCC
*
76773115 GTAAGCTATATGC
66 GCAAGCTATATGC
** * **
76773128 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTAAAAATATCTCCGGACTTAAGGTTT
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAAGGTCC
* *
76773193 GCAGGTTATATGC
66 GCAAGCTATATGC
* * *
76773206 TGGAATTATAATCCGGACTTAAGGTCCACAGGTTGCGTGCTGGAAATATATCCGGGCTTAA
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAA
76773267 AGTTCCGAAG
Statistics
Matches: 120, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 74 0.62
79 46 0.38
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (78 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGTTGCGTGCTGGAAATATATCCGGACTTAAGGTCC
GCAAGCTATATGC
Found at i:76775070 original size:20 final size:20
Alignment explanation
Indices: 76775045--76775093 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
76775035 TTCGGCCTTT
76775045 TCGACACTCCAAAGATGTCA
1 TCGACACTCCAAAGATGTCA
76775065 TCGACACTCCAAAGATGTCA
1 TCGACACTCCAAAGATGTCA
*
76775085 TCAACACTC
1 TCGACACTC
76775094 ATATTAGTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.20
Consensus pattern (20 bp):
TCGACACTCCAAAGATGTCA
Found at i:76781288 original size:27 final size:26
Alignment explanation
Indices: 76781239--76781319 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
76781229 TTTTTGAAAT
* **
76781239 TTTACCGAGAGTAAAATCATCAAAAAA
1 TTTA-CGAGGGTAAAATTGTCAAAAAA
*
76781266 TTTATCGAGGGTAAAATTGTC-AAAAT
1 TTTA-CGAGGGTAAAATTGTCAAAAAA
*
76781292 TTTACTG-CGGTAAAATTGTCAAAAAA
1 TTTAC-GAGGGTAAAATTGTCAAAAAA
76781318 TT
1 TT
76781320 GGGATGAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 13 0.29
26 15 0.33
27 17 0.38
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (26 bp):
TTTACGAGGGTAAAATTGTCAAAAAA
Found at i:76783782 original size:23 final size:23
Alignment explanation
Indices: 76783756--76783799 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
76783746 AGTATTATTA
* * *
76783756 ATGATTACTTAATTTAATTAAAC
1 ATGATTAATTAAGTAAATTAAAC
76783779 ATGATTAATTAAGTAAATTAA
1 ATGATTAATTAAGTAAATTAA
76783800 GGTTTAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (23 bp):
ATGATTAATTAAGTAAATTAAAC
Found at i:76786148 original size:17 final size:17
Alignment explanation
Indices: 76786128--76786205 Score: 70
Period size: 17 Copynumber: 4.4 Consensus size: 17
76786118 ATTTTAATAG
76786128 ATTTAATATTAAATTTA
1 ATTTAATATTAAATTTA
**
76786145 ATTTAAGTATTTTA-TTA
1 ATTTAA-TATTAAATTTA
*
76786162 AATTAATATTAAAGTGATT-
1 ATTTAATATTAAA-T--TTA
76786181 ATCTTAATATTAAATTTA
1 AT-TTAATATTAAATTTA
76786199 ATTTAAT
1 ATTTAAT
76786206 GTTTATCTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
16 5 0.10
17 21 0.44
18 7 0.15
19 2 0.04
20 13 0.27
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
ATTTAATATTAAATTTA
Found at i:76786298 original size:59 final size:62
Alignment explanation
Indices: 76786184--76786298 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 62
76786174 AGTGATTATC
* * * *
76786184 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTAATTTAATAAGAT
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
76786246 TTAAGATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAA
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAA
76786299 GGGTTAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 21 0.43
60 1 0.02
61 1 0.02
62 26 0.53
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (62 bp):
TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:76786549 original size:16 final size:15
Alignment explanation
Indices: 76786524--76786557 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
76786514 ATTCCTATTA
76786524 TCTTCCCTTTTTCTTT
1 TCTTCCC-TTTTCTTT
*
76786540 TCTTCTCTTTTCTTT
1 TCTTCCCTTTTCTTT
76786555 TCT
1 TCT
76786558 GGTCTGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTTCCCTTTTCTTT
Found at i:76792881 original size:73 final size:73
Alignment explanation
Indices: 76792780--76793012 Score: 340
Period size: 73 Copynumber: 3.2 Consensus size: 73
76792770 GTGCTTAATG
* * * *
76792780 AAAAGAAAGTATAAGTAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAA
1 AAAACAAA-TATAAGTAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAATAAA
* *
76792845 TAGATAGAT
65 TAAATCGAT
* * * *
76792854 AAAACTAATATACGTAATATTAAATTTAAGTATTTAAGAAGTAAAAGAATATTAAACAAATAAAT
1 AAAACAAATATAAGTAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAATAAAT
76792919 AAATCGAT
66 AAATCGAT
* * *
76792927 AAAACAAATATAAATAATATTAAATTTAAGTGTTTAAAAAGTAAAAGAATAATAAACGAATAAAT
1 AAAACAAATATAAGTAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAATAAAT
76792992 AAATCGAT
66 AAATCGAT
76793000 AAAACAAATATAA
1 AAAACAAATATAA
76793013 AAGATGAAAT
Statistics
Matches: 142, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
73 136 0.96
74 6 0.04
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (73 bp):
AAAACAAATATAAGTAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAATAAAT
AAATCGAT
Found at i:76793888 original size:22 final size:22
Alignment explanation
Indices: 76793860--76793909 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
76793850 TTTTTGCTCA
76793860 ATATTTTGTATTCAATATGTGT
1 ATATTTTGTATTCAATATGTGT
* * **
76793882 ATATTTTTTTTTCTTTATGTGT
1 ATATTTTGTATTCAATATGTGT
76793904 ATATTT
1 ATATTT
76793910 GTTCTTCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.64
Consensus pattern (22 bp):
ATATTTTGTATTCAATATGTGT
Found at i:76794230 original size:7 final size:7
Alignment explanation
Indices: 76794218--76794259 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
76794208 TGGACCGTTT
76794218 TTTATTA
1 TTTATTA
76794225 TTTATTA
1 TTTATTA
76794232 TTTATTA
1 TTTATTA
76794239 -TT-TTA
1 TTTATTA
*
76794244 GTT-TTA
1 TTTATTA
76794250 TTTATTA
1 TTTATTA
76794257 TTT
1 TTT
76794260 TTTAGTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 3 0.09
6 9 0.28
7 20 0.62
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:76794250 original size:21 final size:21
Alignment explanation
Indices: 76794215--76794270 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
76794205 ACTTGGACCG
*
76794215 TTTTTTATTATTTA-TTATTTA
1 TTTTTTAGTATTTATTTA-TTA
76794236 TTATTTTAGT-TTTATTTATTA
1 TT-TTTTAGTATTTATTTATTA
76794257 TTTTTTAGTATTTA
1 TTTTTTAGTATTTA
76794271 GGTTTCGAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTTAGTATTTATTTATTA
Found at i:76796830 original size:14 final size:15
Alignment explanation
Indices: 76796801--76796856 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
76796791 TAAACACACC
*
76796801 CTTAGTTTTTCAATA
1 CTTAATTTTTCAATA
76796816 CTTAATTTTTC-ATA
1 CTTAATTTTTCAATA
*
76796830 CTTCAA-TTTTCAACA
1 CTT-AATTTTTCAATA
76796845 CTTAATTTTTCA
1 CTTAATTTTTCA
76796857 CTTTATCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.52
Consensus pattern (15 bp):
CTTAATTTTTCAATA
Found at i:76797623 original size:17 final size:17
Alignment explanation
Indices: 76797601--76797633 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
76797591 ACAATCTTCT
76797601 TTTTATATAAACTTACC
1 TTTTATATAAACTTACC
76797618 TTTTATATAAACTTAC
1 TTTTATATAAACTTAC
76797634 ATTGATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATATAAACTTACC
Found at i:76797643 original size:16 final size:17
Alignment explanation
Indices: 76797605--76797644 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
76797595 TCTTCTTTTT
* *
76797605 ATATAAACTTACCTTTT
1 ATATAAACTTACCATTG
76797622 ATATAAACTTA-CATTG
1 ATATAAACTTACCATTG
76797638 ATATAAA
1 ATATAAA
76797645 TATTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (17 bp):
ATATAAACTTACCATTG
Found at i:76797874 original size:17 final size:15
Alignment explanation
Indices: 76797854--76797892 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
76797844 TTTAATTACT
76797854 TTTTAAATTTTAAATTA
1 TTTTAAATTTTAAA--A
*
76797871 TTTTAATTTTTAAAA
1 TTTTAAATTTTAAAA
76797886 TTTTAAA
1 TTTTAAA
76797893 AAATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
17 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTAAATTTTAAAA
Found at i:76801388 original size:22 final size:21
Alignment explanation
Indices: 76801357--76801397 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
76801347 ATTAGGGCTA
76801357 AATTAAAAATAAATAAAAATGG
1 AATTAAAAAT-AATAAAAATGG
* *
76801379 AATTATAAATATTAAAAAT
1 AATTAAAAATAATAAAAAT
76801398 ACAAGAGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AATTAAAAATAATAAAAATGG
Found at i:76804057 original size:18 final size:18
Alignment explanation
Indices: 76804034--76804069 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
76804024 GTAATTAAAC
76804034 AGGTTATACTACAATGAT
1 AGGTTATACTACAATGAT
*
76804052 AGGTTATACTATAATGAT
1 AGGTTATACTACAATGAT
76804070 TTATGACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (18 bp):
AGGTTATACTACAATGAT
Found at i:76806191 original size:13 final size:13
Alignment explanation
Indices: 76806165--76806205 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
76806155 ACTAGAGGCT
76806165 TAACAAAAAT-GA
1 TAACAAAAATGGA
76806177 TAACAAAAATGGA
1 TAACAAAAATGGA
* *
76806190 TAATAGAAATGG-
1 TAACAAAAATGGA
76806202 TAAC
1 TAAC
76806206 TACTCATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.20
Consensus pattern (13 bp):
TAACAAAAATGGA
Found at i:76809650 original size:37 final size:37
Alignment explanation
Indices: 76809563--76809650 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
76809553 TGTGACACAA
** * * *
76809563 GTTTAGCTTGGATGAGTAACTTGATGTCCTTTTTTAG
1 GTTTAGCTAAGATGAGTAAATTGATGTCATTTTATAG
* * *
76809600 GTTCAGTTCAGATGAGTAAATTGATGTCATTTTATAG
1 GTTTAGCTAAGATGAGTAAATTGATGTCATTTTATAG
76809637 GTTTAGCTAAGATG
1 GTTTAGCTAAGATG
76809651 GCTAAACTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTTAGCTAAGATGAGTAAATTGATGTCATTTTATAG
Found at i:76821854 original size:254 final size:254
Alignment explanation
Indices: 76821405--76821911 Score: 834
Period size: 254 Copynumber: 2.0 Consensus size: 254
76821395 CAACTGTAGT
* * *
76821405 TCAACATGTGTTTTGAAACACAATAAGGCTTGCAATGCATCAAACTTTTTCTTAAGAAAATTAAT
1 TCAACATGTGTTTTGAAACACAAAAAGGCTTGCAATGCATCAAACTTTTGCTTAAAAAAATTAAT
*
76821470 CCAAGTATGAATTAAAAATGCATCCACAAAGGAGATATAGTATTAATAGCCTGAAGAGTAACAAG
66 CCAAGTATGAATTAAAAATGCATCCACAAAGGAGATATAGTATTAATAGCCTGAAAAGTAACAAG
* * * * * *
76821535 GGGCTAGACCCCACAAGTCAGTAACAATGAACTCAAGAGGAGCATAGTACACTGATTTAATGGAC
131 AGGCCAAACCCCACAAGTCAATAAAAATGAACTCAAGAGGAGCAAAGTACACTGATTTAATGGAC
*
76821600 ACAAATGGCAGTTTGTGGCTTTTGCCAAGCTCACAAGCATTACACAAAGAGAATGACTA
196 ACAAATGGCAGTTTGTGGCTTTTACCAAGCTCACAAGCATTACACAAAGAGAATGACTA
*
76821659 TCAACATGTGTTTTGAAAGACAAAAAGGCTTGCAATGCATCAAACTTTTGCTTAAAAAAATTAAT
1 TCAACATGTGTTTTGAAACACAAAAAGGCTTGCAATGCATCAAACTTTTGCTTAAAAAAATTAAT
* * *
76821724 CCAAGTATGAATTGAAAATGTATCCACAAAGGAGATATAGTATTGATAGCCTGAAAAGTAACAAG
66 CCAAGTATGAATTAAAAATGCATCCACAAAGGAGATATAGTATTAATAGCCTGAAAAGTAACAAG
* * *
76821789 AGGCCAAACCCTATAAGTTAATAAAAATGAACTCAAGAGGAGCAAAGTACACTGATTTAATGGAC
131 AGGCCAAACCCCACAAGTCAATAAAAATGAACTCAAGAGGAGCAAAGTACACTGATTTAATGGAC
* *
76821854 ATATATGGCAGTTTGTGGCTTTTACCAAGCTCACAAGCATTACACAAAGAGAATGACT
196 ACAAATGGCAGTTTGTGGCTTTTACCAAGCTCACAAGCATTACACAAAGAGAATGACT
76821912 TATTTTTGGG
Statistics
Matches: 233, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
254 233 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (254 bp):
TCAACATGTGTTTTGAAACACAAAAAGGCTTGCAATGCATCAAACTTTTGCTTAAAAAAATTAAT
CCAAGTATGAATTAAAAATGCATCCACAAAGGAGATATAGTATTAATAGCCTGAAAAGTAACAAG
AGGCCAAACCCCACAAGTCAATAAAAATGAACTCAAGAGGAGCAAAGTACACTGATTTAATGGAC
ACAAATGGCAGTTTGTGGCTTTTACCAAGCTCACAAGCATTACACAAAGAGAATGACTA
Found at i:76825176 original size:616 final size:609
Alignment explanation
Indices: 76823503--76825224 Score: 2246
Period size: 614 Copynumber: 2.8 Consensus size: 609
76823493 ACAATAAATT
* * *
76823503 ACTATCATCTATAAGAATTCCCACTTTTTTGAGAAGCAAAGGTAAGGGGTTTGAAGAACTTTCCA
1 ACTATCATCTACAAGAATTCCCAC-TTTTTGAGAAGCAAATGTAAGGGGATTGAAGAAC-TTCCA
* * * *
76823568 TTTGTTGATTTTA-CTGAGACTACAGAACCCATGATTGAAGCAATGATCAACAAAAAAAATAACT
64 TTTGTTGATTTTATC-GAGACTGCAGAATCCATGATTGAAGCAACGATCAA-AAAAAAAATAGCT
* *
76823632 TTGATACCATACTAGAAATATAAAAGAAAAAGAGTAATTCATTAATCATACTCTTAAAATACAAG
127 TTGATACCATACTAGAAATAT-AGAGAAGAAGAGTAATTCATTAATCATACTCTTAAAATACAAG
* * * *
76823697 GGCCTTTGTGTATTTATACACTAGAGGCTTAATAAAAGTTATAACAAAAATGGATAACATAAATG
191 GGCC-TTGTGTATTTATACACTGGAGGCTTAATAGAAGTGATAACAAAAATGGATAACAGAAATG
* **
76823762 GAAACTACTCATAACTAGATTTAGTTGAGCTTAACTTACAACAATTGTCTAGTTACTTATTCTAA
255 GAAACTACTCATAACTAGATTTAGTTGAGCCTAACTT---ACAA--GT-TAGTTACTTCCTCTAA
* * * *
76823827 TATTCCATAAGTACAAGTAGGGAAACCAAGTAGCTAATAGTATGGTTGCCTTTGTTGGAAATCTC
314 TATTCCATAGGTACAAGAAGGGGAACCAAGTAGCTAATAGCATGGTTGCCTTTGTTGGAAATCTC
* *
76823892 CCTTTACGCCTTCATGTTTATGCACCTCCCTATGACTTTATTTTAAAAGGCTCTATATGATGATT
379 CCTTTACGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATT
* * *
76823957 GCAGCATGGTTTTGCCTAGATTAGTTACTATGTAATTTTTTTATTTTCCCCATTTAAAAAAAAAT
444 GTAGCATGGTTTTGCCTAGATTAGTTACTATGTAATTATTCTATTTTCCCCATTTAAAAAAAAAT
*
76824022 TCAATGGCTGAAATGCAATCAATCATAAAAAAAAATTGAGAATTTTTTTTGGGTGTAAATTCAAT
509 TCAATGACTGAAATGCAATCAATCATAAAAAAAAATTGAGAATTTTTTTTGGGTGTAAATTCAAT
* * *
76824087 GTGTTTGGAAGTTACATTTAACTTGAGACGTAAGTT
574 GTGTTTGGAAGTTACATTCAACTTGAGACGCAAGTA
* * * *
76824123 ACTATCATCTACCAGAATTTCCACTTTTTGAGAAGC-AATGGCAAGGGGATTGGAGAA----C-T
1 ACTATCATCTACAAGAATTCCCACTTTTTGAGAAGCAAAT-GTAAGGGGATTGAAGAACTTCCAT
* * * ** *
76824182 TTGTTAATTTTGTCGAGACTGTAGAATCCATGATTGAAGCAACGATTGACAAAAAAATAGCTTTG
65 TTGTTGATTTTATCGAGACTGCAGAATCCATGATTGAAGCAACGATCAAAAAAAAAATAGCTTTG
* * * *
76824247 ATACCATGCTAGAAATATAGTAGAAGAAGAGTAATTCATTAATAATACTCTTAGAATACAGGGGA
130 ATACCATACTAGAAATATAG-AGAAGAAGAGTAATTCATTAATCATACTCTTAAAATACA-AGG-
*
76824312 GCCCTTGTGTATTTATACACTGAAGGCTTAATAGAAGTGATAACAAAAATGGATAACAGAAATGG
192 G-CCTTGTGTATTTATACACTGGAGGCTTAATAGAAGTGATAACAAAAATGGATAACAGAAATGG
* *
76824377 AAACTAATCATAACTACATTTAGTTGAGCCTAACTTACAGAAGTTATCTAGTTACTTCCTCTAAT
256 AAACTACTCATAACTAGATTTAGTTGAGCCTAACTTAC--AAG---T-TAGTTACTTCCTCTAAT
* * * * * *
76824442 ATTTCATAGGTATAAAAAGGGGAACCAAGTAGCTAATAACATGGTTGTCTTTGATGGAAATCTCC
315 ATTCCATAGGTACAAGAAGGGGAACCAAGTAGCTAATAGCATGGTTGCCTTTGTTGGAAATCTCC
* *
76824507 CTTTACGCCTTCATGTTTATTCATCTTTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTG
380 CTTTACGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTG
* ** * *
76824572 TAGCACGACTTTGCCTAGATTAGTTACTGTGTAATTATTCTATTTTCCCTCTTTTTTAAAAAAAA
445 TAGCATGGTTTTGCCTAGATTAGTTACTATGTAATTATTCTATTTTCCC-C--ATTT--AAAAAA
* * * *
76824637 TAAATTCAACT-ATTGAAATGCATTCAATCATACAAAAAAATTTGATACATTTTCTTTT-GGTGT
505 -AAATTCAA-TGACTGAAATGCAATCAATCATA-AAAAAAAATTGAGA-ATTTT-TTTTGGGTGT
76824700 AAATTCAA-GATGTTTGGAAGTTACATTCAACTTGAGACGCAAGTA
565 AAATTCAATG-TGTTTGGAAGTTACATTCAACTTGAGACGCAAGTA
* *
76824745 ACTATCATTTACAAGAATTGCCACTTTTTGAGAAGCAAATGTAAGGGGATTGAAGAACTTCCCAT
1 ACTATCATCTACAAGAATTCCCACTTTTTGAGAAGCAAATGTAAGGGGATTGAAGAACTT-CCAT
* * * * *
76824810 TTGTCGATTCTATCGATACTGCAGAATCCATGATTGAAGCAACGATCAATAAAAAAGTAGCTTTG
65 TTGTTGATTTTATCGAGACTGCAGAATCCATGATTGAAGCAACGATCAAAAAAAAAATAGCTTTG
* * *
76824875 ATACCATACTAAAAATATAGAGTGAGAAGAGTAATTCATTAATCGTACTCTTAAAATACAAGGGC
130 ATACCATACTAGAAATATAGAG-AAGAAGAGTAATTCATTAATCATACTCTTAAAATACAAGGGC
* * * *
76824940 CTTGTGTATTTATACATTGGAGGCTTAACAGAAGTGATAACAAAAATGGATAATAGAAATGGGAA
194 CTTGTGTATTTATACACTGGAGGCTTAATAGAAGTGATAACAAAAATGGATAACAGAAATGGAAA
* *
76825005 CTACTCATAACTAGATTTAGTTTAGCCTAACTTAC-AG-TAGTT-CTTCCTCTACTATTCCATAG
259 CTACTCATAACTAGATTTAGTTGAGCCTAACTTACAAGTTAGTTACTTCCTCTAATATTCCATAG
* * * * * *
76825067 GTACAAGGAGGGGAGCCAAGTAGCTAATAGCATAGTTGCCTGTGTTGGAAATCTCCTTTTATGCC
324 GTACAAGAAGGGGAACCAAGTAGCTAATAGCATGGTTGCCTTTGTTGGAAATCTCCCTTTACGCC
*
76825132 TTCATGTTTATGCATCTCTCTATGACTTCATTTTAAAAGGCTCTATATGATGATTGTAGCATGGT
389 TTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTGTAGCATGGT
*
76825197 TTTACCTAGATTAGTTACTATGTAATTA
454 TTTGCCTAGATTAGTTACTATGTAATTA
76825225 CTTTATTCCC
Statistics
Matches: 958, Mismatches: 114, Indels: 64
0.84 0.10 0.06
Matches are distributed among these distances:
611 4 0.00
612 67 0.07
613 44 0.05
614 267 0.28
615 3 0.00
616 157 0.16
617 8 0.01
618 2 0.00
619 32 0.03
620 47 0.05
621 14 0.01
622 100 0.10
623 7 0.01
625 93 0.10
626 1 0.00
627 5 0.01
628 107 0.11
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (609 bp):
ACTATCATCTACAAGAATTCCCACTTTTTGAGAAGCAAATGTAAGGGGATTGAAGAACTTCCATT
TGTTGATTTTATCGAGACTGCAGAATCCATGATTGAAGCAACGATCAAAAAAAAAATAGCTTTGA
TACCATACTAGAAATATAGAGAAGAAGAGTAATTCATTAATCATACTCTTAAAATACAAGGGCCT
TGTGTATTTATACACTGGAGGCTTAATAGAAGTGATAACAAAAATGGATAACAGAAATGGAAACT
ACTCATAACTAGATTTAGTTGAGCCTAACTTACAAGTTAGTTACTTCCTCTAATATTCCATAGGT
ACAAGAAGGGGAACCAAGTAGCTAATAGCATGGTTGCCTTTGTTGGAAATCTCCCTTTACGCCTT
CATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTGTAGCATGGTTT
TGCCTAGATTAGTTACTATGTAATTATTCTATTTTCCCCATTTAAAAAAAAATTCAATGACTGAA
ATGCAATCAATCATAAAAAAAAATTGAGAATTTTTTTTGGGTGTAAATTCAATGTGTTTGGAAGT
TACATTCAACTTGAGACGCAAGTA
Found at i:76828145 original size:47 final size:47
Alignment explanation
Indices: 76828091--76828284 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
76828081 TTAGGATTTT
** *
76828091 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
76828138 ATGTGATGAATGTGAACATGCATGTATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
76828185 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * ** *
76828232 ATGTGATGAATATGAACATGCATATATGTGGTAAAACCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
76828279 ATGTGA
1 ATGTGA
76828285 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:76828191 original size:22 final size:22
Alignment explanation
Indices: 76828163--76828238 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
76828153 ACATGCATGT
76828163 ATGTGATAAGGTCGAATGGCCA
1 ATGTGATAAGGTCGAATGGCCA
*
76828185 ATGTGATGAATGT-GAGCAT-G-CA
1 ATGTGAT-AAGGTCGA--ATGGCCA
*
76828207 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGTCGAATGGCCA
76828232 ATGTGAT
1 ATGTGAT
76828239 GAATATGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGTCGAATGGCCA
Found at i:76828320 original size:48 final size:48
Alignment explanation
Indices: 76828242--76828550 Score: 503
Period size: 48 Copynumber: 6.4 Consensus size: 48
76828232 ATGTGATGAA
* *
76828242 TATGA-ACATGCATATATGTGGTAAAACCGAATGGCTAATGTGAAATATG
1 TATGAGACATGC--ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
*
76828291 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATA
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
*
76828339 TATGAGACATGCATATGTGGTAAAGCCGAATGACTAGTGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
* * *
76828387 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
76828435 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
*
76828483 TATGAGACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
* *
76828531 TATGAGATATGTATATGTGG
1 TATGAGACATGCATATGTGG
76828551 ACATGCATAT
Statistics
Matches: 243, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
48 232 0.95
49 5 0.02
50 6 0.02
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (48 bp):
TATGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
Found at i:76828369 original size:96 final size:96
Alignment explanation
Indices: 76828197--76828690 Score: 656
Period size: 96 Copynumber: 5.0 Consensus size: 96
76828187 GTGATGAATG
* * *
76828197 TGAG-CATGCATATGTGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATATGA-ACATGCATAT
1 TGAGACATGCATATGTG-G-TAAAGCCGAATGGCTAGTGTGAAAT-ATATATGAGACATGC--AT
* *
76828257 ATGTGGTAAAACCGAATGGCTAATGTGAAATATGTA
61 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
76828293 TGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGACATGCATATGTG
1 TGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGACATGCATATGTG
*
76828358 GTAAAGCCGAATGACTAGTGTGAAATATGTA
66 GTAAAGCCGAATGGCTAGTGTGAAATATGTA
* * * *
76828389 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGCATATGTG
1 TGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGACATGCATATGTG
76828454 GTAAAGCCGAATGGCTAGTGTGAAATATGTA
66 GTAAAGCCGAATGGCTAGTGTGAAATATGTA
*
76828485 TGAGACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 TGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-A--TAT---ATATG---A----
76828550 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
52 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
* * *
76828595 TGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 TGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGACATGCATATGTG
76828660 GTAAAGCCGAATGGCTAGTGTGAAATATGTA
66 GTAAAGCCGAATGGCTAGTGTGAAATATGTA
76828691 GGCGATGTGC
Statistics
Matches: 359, Mismatches: 20, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
95 18 0.05
96 210 0.58
97 22 0.06
98 7 0.02
100 4 0.01
103 8 0.02
106 4 0.01
108 1 0.00
109 2 0.01
110 83 0.23
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (96 bp):
TGAGACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGACATGCATATGTG
GTAAAGCCGAATGGCTAGTGTGAAATATGTA
Found at i:76828561 original size:62 final size:62
Alignment explanation
Indices: 76828488--76828612 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
76828478 ATATGTATGA
* *
76828488 GACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 GACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTG
*
76828550 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTG
1 GACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTG
76828612 G
1 G
76828613 TAAAGCCGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (62 bp):
GACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTG
Found at i:76828578 original size:110 final size:110
Alignment explanation
Indices: 76828440--76828660 Score: 433
Period size: 110 Copynumber: 2.0 Consensus size: 110
76828430 ATATGTATGA
76828440 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTA
1 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTA
76828505 AAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
66 AAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
*
76828550 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTGGTA
1 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTA
76828615 AAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
66 AAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
76828660 G
1 G
76828661 TAAAGCCGAA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (110 bp):
GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTA
AAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
Found at i:76828611 original size:48 final size:48
Alignment explanation
Indices: 76828550--76828690 Score: 264
Period size: 48 Copynumber: 2.9 Consensus size: 48
76828540 TGTATATGTG
76828550 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
1 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
76828598 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
1 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
* *
76828646 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
76828691 GGCGATGTGC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (48 bp):
GACATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
Found at i:76828687 original size:158 final size:158
Alignment explanation
Indices: 76828399--76828690 Score: 548
Period size: 158 Copynumber: 1.8 Consensus size: 158
76828389 TGAGATATGT
76828399 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGCATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGCATATGTGGTAAAGCCGA
76828464 ATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATA
66 ATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATA
76828529 TGTATGAGATATGTATATGTGGACATGC
131 TGTATGAGATATGTATATGTGGACATGC
*
76828557 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGCATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGCATATGTGGTAAAGCCGA
* * *
76828622 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
66 ATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATA
76828687 TGTA
131 TGTA
76828691 GGCGATGTGC
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 130 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (158 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGCATATGTGGTAAAGCCGA
ATGGCTAGTGTGAAATATGTATGAGACATGCATATGTCGTAAAGCCGAATGGCTAGTGTGAAATA
TGTATGAGATATGTATATGTGGACATGC
Found at i:76828945 original size:37 final size:37
Alignment explanation
Indices: 76828837--76828945 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
76828827 GGAAATATAT
*
76828837 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
76828874 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
76828911 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
76828946 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:76829875 original size:18 final size:19
Alignment explanation
Indices: 76829827--76829874 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
76829817 AGTATTCCCT
76829827 TATAATTTTTTATGCATCC
1 TATAATTTTTTATGCATCC
76829846 TCATAATTTTTTATGCATCC
1 T-ATAATTTTTTATGCATCC
76829866 T-T-ATTTTTT
1 TATAATTTTTT
76829875 TTGATGTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.25
18 1 0.04
19 1 0.04
20 19 0.68
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (19 bp):
TATAATTTTTTATGCATCC
Found at i:76829876 original size:20 final size:20
Alignment explanation
Indices: 76829828--76829866 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
76829818 GTATTCCCTT
76829828 ATAATTTTTTATGCATCCTC
1 ATAATTTTTTATGCATCCTC
76829848 ATAATTTTTTATGCATCCT
1 ATAATTTTTTATGCATCCT
76829867 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (20 bp):
ATAATTTTTTATGCATCCTC
Found at i:76830374 original size:21 final size:21
Alignment explanation
Indices: 76830333--76830374 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76830323 TTTTTTAATT
** *
76830333 TATAAAAATATTATTAGTATA
1 TATAAAAATATTAAAAATATA
76830354 TATAAAAATATTAAAAATATA
1 TATAAAAATATTAAAAATATA
76830375 AAAATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TATAAAAATATTAAAAATATA
Found at i:76830782 original size:15 final size:15
Alignment explanation
Indices: 76830762--76830792 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
76830752 CCGTACAAAG
76830762 CCTCATGGGTCATAC
1 CCTCATGGGTCATAC
76830777 CCTCATGGGTCATAC
1 CCTCATGGGTCATAC
76830792 C
1 C
76830793 GATGCGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.26
Consensus pattern (15 bp):
CCTCATGGGTCATAC
Found at i:76832012 original size:33 final size:34
Alignment explanation
Indices: 76831948--76832022 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 34
76831938 CTTAAAAATT
* *
76831948 AAAAAAAAATATTTTTAGGTCTATTATAAGTTGGTA
1 AAAAAAAAATATTTTTAGGTCCATTAAAAGTT-G-A
*
76831984 AAAAAAAAAT-TTTTTA-G-CCCTTAAAAGTTGA
1 AAAAAAAAATATTTTTAGGTCCATTAAAAGTTGA
76832015 AAAAAAAA
1 AAAAAAAA
76832023 TTAACCCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 9 0.25
32 1 0.03
33 9 0.25
34 1 0.03
35 6 0.17
36 10 0.28
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (34 bp):
AAAAAAAAATATTTTTAGGTCCATTAAAAGTTGA
Found at i:76842343 original size:49 final size:49
Alignment explanation
Indices: 76842223--76842328 Score: 133
Period size: 49 Copynumber: 2.2 Consensus size: 49
76842213 TGCATGATCG
* * * * *
76842223 CATAATCAACATCAACTGGGGGCTCGAGTTATACCTCAACCTGTGACCA
1 CATAACCACCATCAACTGGGAGCGCTAGTTATACCTCAACCTGTGACCA
*
76842272 CATAACCACCATCAACTGGGAGCGCTAGTTATACTTCAA-CTCGTGACCA
1 CATAACCACCATCAACTGGGAGCGCTAGTTATACCTCAACCT-GTGACCA
*
76842321 TATAACCA
1 CATAACCA
76842329 TGGTGAACTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
48 2 0.04
49 47 0.96
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (49 bp):
CATAACCACCATCAACTGGGAGCGCTAGTTATACCTCAACCTGTGACCA
Found at i:76849220 original size:16 final size:15
Alignment explanation
Indices: 76849196--76849225 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
76849186 AACTATTTTA
76849196 TTACAAATTTCACTC
1 TTACAAATTTCACTC
76849211 TTACATAATTTCACT
1 TTACA-AATTTCACT
76849226 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:76849540 original size:50 final size:49
Alignment explanation
Indices: 76849414--76849661 Score: 257
Period size: 50 Copynumber: 5.0 Consensus size: 49
76849404 AACTGAAGCT
* * * *
76849414 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
* *
76849462 AATCTGGTACATGTAGTAGCCTGCACTTAGAACTACACACGTGACCTAACC
1 -ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-C
* * * * *
76849513 ATTTGATACACGTAGTAGCCTGCACTTAGTACTACACAAGTGA-TTGAAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA--C
* * * * * *
76849564 GTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
**
76849613 TATCTGGTACACGTAGTAGCCTATACTTAGTACTACACACGTGACCTAA
1 -ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
76849662 AATCATCTTA
Statistics
Matches: 161, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
49 40 0.25
50 82 0.51
51 38 0.24
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
Found at i:76849599 original size:101 final size:101
Alignment explanation
Indices: 76849475--76849656 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
76849465 CTGGTACATG
* * *
76849475 TAGTAGCCTGCACTTAGAACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGAACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTACACTT
76849540 AGTACTACACAAGTGATTGAAGTTGTCGGGTACGCA
66 AGTACTACACAAGTGATTGAAGTTGTCGGGTACGCA
* * * * *
76849576 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTATACTT
1 TAGTAGCCTGCACTTAGAACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTACACTT
*
76849641 AGTACTACACACGTGA
66 AGTACTACACAAGTGA
76849657 CCTAAAATCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGAACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTACACTT
AGTACTACACAAGTGATTGAAGTTGTCGGGTACGCA
Found at i:76853109 original size:5 final size:5
Alignment explanation
Indices: 76853107--76853141 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
76853097 TATTTTATAT
76853107 TATTA TATTA TATTA TATTA -A-TA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
76853142 ATAAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:76853117 original size:13 final size:13
Alignment explanation
Indices: 76853097--76853140 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
76853087 AAGTAAATGT
76853097 TATT-TTATATTA
1 TATTATTATATTA
76853109 T-TATATTATATTA
1 TAT-TATTATATTA
*
76853122 TATTAATATATTA
1 TATTATTATATTA
76853135 TATTAT
1 TATTAT
76853141 AATAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.04
12 2 0.07
13 23 0.85
14 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:76853122 original size:18 final size:18
Alignment explanation
Indices: 76853096--76853141 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
76853086 TAAGTAAATG
* *
76853096 TTATTTTATATTATTATA
1 TTATATTATATTAATATA
76853114 TTATATTATATTAATATA
1 TTATATTATATTAATATA
76853132 TTATATTATA
1 TTATATTATA
76853142 ATAAAAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATTATATTAATATA
Found at i:76853152 original size:23 final size:23
Alignment explanation
Indices: 76853107--76853152 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
76853097 TATTTTATAT
* * **
76853107 TATTATATTATATTATATTAATA
1 TATTATATTATAATAAAAGAATA
76853130 TATTATATTATAATAAAAGAATA
1 TATTATATTATAATAAAAGAATA
76853153 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTATATTATAATAAAAGAATA
Found at i:76853189 original size:17 final size:16
Alignment explanation
Indices: 76853141--76853194 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
76853131 ATTATATTAT
*
76853141 AATAAAAGAATAAAAA-
1 AATAAAGGAA-AAAAAG
*
76853157 AATAAAGTAAATAAAAG
1 AATAAAGGAAA-AAAAG
76853174 AATAAAGGAACAAAAAG
1 AATAAAGGAA-AAAAAG
76853191 AATA
1 AATA
76853195 GAAAAAGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.03
16 12 0.38
17 18 0.56
18 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (16 bp):
AATAAAGGAAAAAAAG
Found at i:76855231 original size:31 final size:31
Alignment explanation
Indices: 76855166--76855232 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
76855156 TTAGTGACGC
* *
76855166 TTTTAAGCGCCGCTAAAACTATTTGTGGCGT
1 TTTTAAGCGCCGCTAAAACTATTTGCGCCGT
** *
76855197 TTTTAAGCGTTGCTAAAACTATTTGCGCCTT
1 TTTTAAGCGCCGCTAAAACTATTTGCGCCGT
76855228 TTTTA
1 TTTTA
76855233 CAAGCGCTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (31 bp):
TTTTAAGCGCCGCTAAAACTATTTGCGCCGT
Found at i:76855350 original size:43 final size:43
Alignment explanation
Indices: 76855302--76855398 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 43
76855292 AAAAAATGCT
*
76855302 GCTAAAAGTCATGACCTTTAGCGGCGC-TTTCTCCACAAAC-CC
1 GCTAAAAGTCATGACCTTTAGCCGCGCTTTTC-CCACAAACGCC
* * * * *
76855344 AGCTAAAGGCCACGGCTTTTAGCCGCGCTTTTCCCACAAACGCC
1 -GCTAAAAGTCATGACCTTTAGCCGCGCTTTTCCCACAAACGCC
76855388 GCT-AAAGTCAT
1 GCTAAAAGTCAT
76855399 AAAAATTTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
42 5 0.12
43 32 0.74
44 6 0.14
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (43 bp):
GCTAAAAGTCATGACCTTTAGCCGCGCTTTTCCCACAAACGCC
Found at i:76855539 original size:6 final size:6
Alignment explanation
Indices: 76855528--76855581 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
76855518 ATTCATTATC
* *
76855528 AAATAA AAATAA AAATAA AAATATA GAATCAA AACT-A AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATA-A AAAT-AA AAATAA AAATAA A-AATAA
76855578 AAAT
1 AAAT
76855582 TAGATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 22 0.55
7 13 0.32
8 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:76855605 original size:31 final size:31
Alignment explanation
Indices: 76855528--76855605 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
76855518 ATTCATTATC
76855528 AAATAAAAATAAA-AATAAAAATATAGAATCA
1 AAAT-AAAATAAATAATAAAAATATAGAATCA
*
76855559 AAACTAAAATAAATAATAAAAAT-TAG-ATTA
1 AAA-TAAAATAAATAATAAAAATATAGAATCA
76855589 AATATAAATATAAATAA
1 AA-ATAAA-ATAAATAA
76855606 AATACAACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 9 0.21
31 23 0.55
32 10 0.24
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (31 bp):
AAATAAAATAAATAATAAAAATATAGAATCA
Found at i:76858605 original size:2 final size:2
Alignment explanation
Indices: 76858598--76858652 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
76858588 TCATAAGAAA
* * * *
76858598 AC AC AC AC AC AC AC AC AT AC AC AC AC AC AT AC AC AT AC AC AT
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
76858640 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
76858653 GAAATACCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.42, G:0.00, T:0.07
Consensus pattern (2 bp):
AC
Found at i:76858619 original size:12 final size:12
Alignment explanation
Indices: 76858598--76858650 Score: 88
Period size: 12 Copynumber: 4.4 Consensus size: 12
76858588 TCATAAGAAA
*
76858598 ACACACACACAC
1 ACACATACACAC
76858610 ACACATACACAC
1 ACACATACACAC
*
76858622 ACACATACACAT
1 ACACATACACAC
76858634 ACACATACACAC
1 ACACATACACAC
76858646 ACACA
1 ACACA
76858651 CAGAAATACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.51, C:0.42, G:0.00, T:0.08
Consensus pattern (12 bp):
ACACATACACAC
Found at i:76860930 original size:3 final size:3
Alignment explanation
Indices: 76860924--76860952 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
76860914 TTTTTCTCTT
76860924 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
76860953 TACTAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:76861759 original size:15 final size:15
Alignment explanation
Indices: 76861739--76861768 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
76861729 ACTATTTATT
76861739 ATATAAATTAAAAAA
1 ATATAAATTAAAAAA
76861754 ATATAAATTAAAAAA
1 ATATAAATTAAAAAA
76861769 CAATCACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATATAAATTAAAAAA
Found at i:76862082 original size:7 final size:7
Alignment explanation
Indices: 76862044--76862075 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
76862034 CACACTAATT
76862044 ACCCTAA
1 ACCCTAA
76862051 ACCCTAA
1 ACCCTAA
76862058 ACCCTAA
1 ACCCTAA
76862065 ACCCTAA
1 ACCCTAA
76862072 ACCC
1 ACCC
76862076 CTAACCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.47, G:0.00, T:0.12
Consensus pattern (7 bp):
ACCCTAA
Found at i:76862090 original size:21 final size:21
Alignment explanation
Indices: 76862044--76862083 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
76862034 CACACTAATT
76862044 ACCCTAAACCCTAAACCCTAA
1 ACCCTAAACCCTAAACCCTAA
76862065 ACCCTAAACCCCT-AACCCT
1 ACCCTAAA-CCCTAAACCCT
76862084 TAGCCCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (21 bp):
ACCCTAAACCCTAAACCCTAA
Found at i:76862186 original size:14 final size:15
Alignment explanation
Indices: 76862149--76862189 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
76862139 TTCTAAACCT
76862149 TAAACCCCATAACTCA
1 TAAACCCC-TAACTCA
76862165 TAAACCCCTAACTC-
1 TAAACCCCTAACTCA
*
76862179 TTAACCCCTAA
1 TAAACCCCTAA
76862190 ACCCTAAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
15 6 0.25
16 8 0.33
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCCCTAACTCA
Found at i:76862552 original size:15 final size:14
Alignment explanation
Indices: 76862533--76862573 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
76862523 CCATGGCCAT
76862533 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
76862547 TAAAACTCTAAACCA
1 TAAACCT-TAAACCA
*
76862562 TAGACCTTAAAC
1 TAAACCTTAAAC
76862574 TTTAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:76862809 original size:45 final size:44
Alignment explanation
Indices: 76862700--76862812 Score: 130
Period size: 38 Copynumber: 2.7 Consensus size: 44
76862690 CCATCTGATT
* * *
76862700 TTTTTGGGGTTTAAGTTTTTAGGGGTTATAGTTTAGTGTTTATA
1 TTTTTGGGGTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTATA
*
76862744 -GTTT----TTTAGGG-TTTAGGGGTTATAGATTAGTGTTTATGA
1 TTTTTGGGGTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAT-A
*
76862783 TTTTTGGGGTTTAGGGTTTTAAGGGTTATA
1 TTTTTGGGGTTTAGGGTTTTAGGGGTTATA
76862813 TGACTTTTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
38 25 0.45
39 6 0.11
40 3 0.05
43 3 0.05
44 7 0.12
45 12 0.21
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (44 bp):
TTTTTGGGGTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTATA
Done.