Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 228 of 373
Found at i:77507695 original size:31 final size:31
Alignment explanation
Indices: 77507590--77507706 Score: 94
Period size: 31 Copynumber: 3.8 Consensus size: 31
77507580 TATATAAAAC
* * * **
77507590 TTAAATTAATTTAAATTTTATGTATTTTTATA
1 TTAAA-TAATTTAAATATAATTTATCATTATA
* * * *
77507622 TTAGATTATTTAAATAGAATTGATCATTATA
1 TTAAATAATTTAAATATAATTTATCATTATA
* *
77507653 TTAAATTATTTAAATATAATTTATTATTATA
1 TTAAATAATTTAAATATAATTTATCATTATA
*
77507684 TTTAAA-AATTTAAA-ATATTTTAT
1 -TTAAATAATTTAAATATAATTTAT
77507707 GTATCACTAT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
30 8 0.12
31 52 0.75
32 9 0.13
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (31 bp):
TTAAATAATTTAAATATAATTTATCATTATA
Found at i:77507720 original size:25 final size:24
Alignment explanation
Indices: 77507692--77507755 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
77507682 TATTTAAAAA
* *
77507692 TTTAAAATATTTTATGTATCACTAT
1 TTTAAAATATTTTATAT-TAACTAT
* *
77507717 TTTACAAATAATTTATATTAATTAT
1 TTTA-AAATATTTTATATTAACTAT
77507742 TTTGAAAATATTTT
1 TTT-AAAATATTTT
77507756 GAATTTTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTAAAATATTTTATATTAACTAT
Found at i:77511929 original size:26 final size:26
Alignment explanation
Indices: 77511900--77511953 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
77511890 CACTGTTGAT
77511900 GCGGCCATTAGCAACTATTGAATTAA
1 GCGGCCATTAGCAACTATTGAATTAA
77511926 GCGGCCATTAGCAACTATTGAATTAA
1 GCGGCCATTAGCAACTATTGAATTAA
77511952 GC
1 GC
77511954 TTTCACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (26 bp):
GCGGCCATTAGCAACTATTGAATTAA
Found at i:77514988 original size:27 final size:27
Alignment explanation
Indices: 77514957--77515134 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
77514947 TAAATTGTAC
77514957 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
77514984 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77515010 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
77515038 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
77515066 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77515093 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
77515120 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77515135 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:77515071 original size:82 final size:81
Alignment explanation
Indices: 77514958--77515113 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
77514948 AAATTGTACA
* *
77514958 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77515022 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
77515039 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77515104 TGCGAGTTGA
65 TGCGAATTGA
77515114 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77515125 original size:82 final size:81
Alignment explanation
Indices: 77514954--77515134 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
77514944 GATTAAATTG
* *
77514954 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77515019 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
77515035 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77515099 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
77515117 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
77515135 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77523128 original size:27 final size:27
Alignment explanation
Indices: 77523097--77523274 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
77523087 TAAATTGTAC
77523097 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
77523124 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77523150 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
77523178 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
77523206 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77523233 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
77523260 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77523275 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:77523211 original size:82 final size:81
Alignment explanation
Indices: 77523098--77523253 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
77523088 AAATTGTACA
* *
77523098 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77523162 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
77523179 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77523244 TGCGAGTTGA
65 TGCGAATTGA
77523254 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77523265 original size:82 final size:81
Alignment explanation
Indices: 77523094--77523274 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
77523084 GATTAAATTG
* *
77523094 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77523159 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
77523175 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77523239 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
77523257 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
77523275 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77530994 original size:47 final size:47
Alignment explanation
Indices: 77530931--77531049 Score: 211
Period size: 47 Copynumber: 2.5 Consensus size: 47
77530921 CGAACGTCCA
* *
77530931 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCATCCG
77530978 AACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCATCCG
*
77531025 AACTCATTGAGTTGAGTCTGAGTTC
1 AACTCGTTGAGTTGAGTCTGAGTTC
77531050 ACTTATGGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCATCCG
Found at i:77534089 original size:15 final size:15
Alignment explanation
Indices: 77534069--77534133 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
77534059 GTATCTTGGG
77534069 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
77534084 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
77534099 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
*
77534114 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
77534128 TTTCTT
1 TTTCTT
77534134 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 12 0.29
15 25 0.61
16 4 0.10
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:77534101 original size:30 final size:31
Alignment explanation
Indices: 77534065--77534133 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
77534055 TATCGTATCT
* *
77534065 TGGGTTTCTTTATTC-TGGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTGGATTTCTTTATTC
77534095 TGGGTTTC-TCAATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTGGATTTCTTTATTC
*
77534125 -GGTTTTCTT
1 TGGGTTTCTT
77534134 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.58
Consensus pattern (31 bp):
TGGGTTTCTTCAATCTTGGATTTCTTTATTC
Found at i:77536918 original size:46 final size:46
Alignment explanation
Indices: 77536866--77537131 Score: 247
Period size: 46 Copynumber: 5.7 Consensus size: 46
77536856 TTGGGCATCT
77536866 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
77536912 GAACTCGTTGAGTTGAGTTCGAGTTCA-TGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * *
77536959 GAACGCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * * * * * *
77537005 GAACTCGTTGAGTTGAGTCCGAGCTC-GTGAAATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCC
* *
77537052 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* **
77537098 GAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77537132 GCGGGTTACA
Statistics
Matches: 172, Mismatches: 34, Indels: 28
0.74 0.15 0.12
Matches are distributed among these distances:
42 3 0.02
43 4 0.02
45 4 0.02
46 90 0.52
47 60 0.35
48 4 0.02
50 4 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:77536971 original size:93 final size:93
Alignment explanation
Indices: 77536859--77537122 Score: 429
Period size: 93 Copynumber: 2.8 Consensus size: 93
77536849 CAGATATTTG
*
77536859 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
77536924 TTGAGTTCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
* * *
77536952 GGCATCCGAACGCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
77537017 TTGAGTCCGAGCTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
* * *
77537045 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
77537110 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
77537123 TGCTTATGGG
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 156 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAAATGTAACTA
Found at i:77554616 original size:12 final size:13
Alignment explanation
Indices: 77554599--77554635 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
77554589 GAACCGGACA
77554599 CGAACCGAA-CTC
1 CGAACCGAAGCTC
77554611 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
77554623 CGAACCGTAGCTC
1 CGAACCGAAGCTC
77554636 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:77562590 original size:42 final size:42
Alignment explanation
Indices: 77562538--77562710 Score: 170
Period size: 42 Copynumber: 4.1 Consensus size: 42
77562528 ACACATAGAA
* **
77562538 TCATACCAATGCCATATCCCAGATATGGTCTTACATGGGATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACATGAAATC
* * * * * *
77562580 TCATATCAATGTCAATAGCCTAGCTATGGTCTTACA-CAATTC
1 TCATATCAATG-CCATATCCCAGATATGGTCTTACATGAAATC
* * *
77562622 TCATATCGATGCCATATCCCAGACATGGTCTTACACGAAATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACATGAAATC
* * * *
77562664 TCATAAT-GATACCATATCCCAGATATGGTCTTACATGTAAGC
1 TCAT-ATCAATGCCATATCCCAGATATGGTCTTACATGAAATC
77562706 TCATA
1 TCATA
77562711 ACCCTAATGT
Statistics
Matches: 106, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
41 20 0.19
42 64 0.60
43 22 0.21
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
TCATATCAATGCCATATCCCAGATATGGTCTTACATGAAATC
Found at i:77566408 original size:49 final size:49
Alignment explanation
Indices: 77566331--77566468 Score: 163
Period size: 50 Copynumber: 2.8 Consensus size: 49
77566321 AGACGAAGCT
* * * *
77566331 ATCTGGTACGCATAGTAGTCTGCGCTTAGTACTACACA-ATGCACC-AAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATG-ACCTAAC
* *
77566379 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTTACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACC-TAAC
**
77566430 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
77566469 GTGATCACAG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
48 1 0.01
49 36 0.46
50 38 0.49
51 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAC
Found at i:77569955 original size:24 final size:24
Alignment explanation
Indices: 77569928--77570025 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 24
77569918 TCCAAGCCAA
*
77569928 ATAATAGAAAGCTCATGTGAGCTT
1 ATAATAGAAAGCTCATGCGAGCTT
* * * * *
77569952 ATAACAGGAAGCTTATCCGAGCTCA
1 ATAATAGAAAGCTCATGCGAGCT-T
* **
77569977 ATAATAGGAAGCTCATAAGAGCTT
1 ATAATAGAAAGCTCATGCGAGCTT
* *
77570001 A-AATCAAAAAGCGCATGCGAGCTT
1 ATAAT-AGAAAGCTCATGCGAGCTT
77570025 A
1 A
77570026 ACAGGTAACT
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 3 0.05
24 34 0.61
25 19 0.34
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (24 bp):
ATAATAGAAAGCTCATGCGAGCTT
Found at i:77569998 original size:25 final size:24
Alignment explanation
Indices: 77569927--77569999 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 24
77569917 TTCCAAGCCA
* **
77569927 AATAATAGAAAGCTCATGTGAGCT
1 AATAATAGGAAGCTCATAAGAGCT
* * * **
77569951 TATAACAGGAAGCTTATCCGAGCT
1 AATAATAGGAAGCTCATAAGAGCT
77569975 CAATAATAGGAAGCTCATAAGAGCT
1 -AATAATAGGAAGCTCATAAGAGCT
77570000 TAAATCAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 18 0.49
25 19 0.51
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
AATAATAGGAAGCTCATAAGAGCT
Found at i:77571467 original size:9 final size:9
Alignment explanation
Indices: 77571453--77571478 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
77571443 ACTTCCTCAT
77571453 TGATTTCAC
1 TGATTTCAC
77571462 TGATTTCAC
1 TGATTTCAC
77571471 TGATTTCA
1 TGATTTCA
77571479 GAGGTTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (9 bp):
TGATTTCAC
Found at i:77573223 original size:21 final size:21
Alignment explanation
Indices: 77573181--77573223 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
77573171 GTAAACCGAT
* **
77573181 AACTTAGGAAATTTTTGGAAA
1 AACTTAGAAAATTTTTAAAAA
77573202 AACTTAGAAAATTTTTAAAAA
1 AACTTAGAAAATTTTTAAAAA
77573223 A
1 A
77573224 CAAGGGACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.33
Consensus pattern (21 bp):
AACTTAGAAAATTTTTAAAAA
Found at i:77576546 original size:25 final size:24
Alignment explanation
Indices: 77576502--77576554 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
77576492 AAGTTCAAGC
77576502 GAGCCATATCAAGAAGCTCATAAA
1 GAGCCATATCAAGAAGCTCATAAA
*
77576526 GAGCCTATATCAGGACA-CTCATAAA
1 GAGCC-ATATCAAGA-AGCTCATAAA
77576551 GAGC
1 GAGC
77576555 TGCATTTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAAGAAGCTCATAAA
Found at i:77582384 original size:38 final size:38
Alignment explanation
Indices: 77582342--77582418 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
77582332 TGTTAAGGCT
77582342 TATATGAGTTTTTAAATGATTAGATTATATGAAATGTG
1 TATATGAGTTTTTAAATGATTAGATTATATGAAATGTG
77582380 TATATGAGTTTTTAAATGATTAGATTATATGAAATGTG
1 TATATGAGTTTTTAAATGATTAGATTATATGAAATGTG
77582418 T
1 T
77582419 TTCATGGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (38 bp):
TATATGAGTTTTTAAATGATTAGATTATATGAAATGTG
Found at i:77587029 original size:12 final size:13
Alignment explanation
Indices: 77587001--77587039 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
77586991 AAAATAAGAT
77587001 AAAAAATAAATAG
1 AAAAAATAAATAG
* *
77587014 AAAAAATAATTAA
1 AAAAAATAAATAG
77587027 AAAAACATAAATA
1 AAAAA-ATAAATA
77587040 TCTAAAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAAAATAAATAG
Found at i:77587542 original size:13 final size:14
Alignment explanation
Indices: 77587519--77587547 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
77587509 ATAAAAAACC
77587519 AAAAAACCAAAAAT
1 AAAAAACCAAAAAT
77587533 AAAAAA-CAAAAAT
1 AAAAAACCAAAAAT
77587546 AA
1 AA
77587548 GTAATAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAAACCAAAAAT
Found at i:77588790 original size:20 final size:23
Alignment explanation
Indices: 77588762--77588808 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
77588752 AAGTTTTCTA
*
77588762 TTTATATAATTCA-TT-AT-TTT
1 TTTAGATAATTCACTTAATATTT
77588782 TTTAGATAATTCACTTAATATTT
1 TTTAGATAATTCACTTAATATTT
77588805 TTTA
1 TTTA
77588809 TATGTGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
22 2 0.09
23 7 0.30
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAGATAATTCACTTAATATTT
Found at i:77589634 original size:12 final size:12
Alignment explanation
Indices: 77589617--77589641 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77589607 CATTTGTTTT
77589617 TTTTTGTATTGA
1 TTTTTGTATTGA
77589629 TTTTTGTATTGA
1 TTTTTGTATTGA
77589641 T
1 T
77589642 ATACCAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTTTGTATTGA
Found at i:77592506 original size:47 final size:47
Alignment explanation
Indices: 77592447--77592746 Score: 465
Period size: 47 Copynumber: 6.4 Consensus size: 47
77592437 GATGTACAAG
* * * *
77592447 GTGTGTATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
77592494 GTGTATATATGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
77592541 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
77592588 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
77592635 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
77592682 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
77592729 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
77592747 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 234 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:77604360 original size:47 final size:47
Alignment explanation
Indices: 77604279--77604673 Score: 549
Period size: 47 Copynumber: 8.4 Consensus size: 47
77604269 AATGTGAAAG
*
77604279 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
77604327 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
77604374 TGTGTATGTGTGAATAGGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
77604422 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
77604469 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
77604516 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
77604563 TGTGTATGTGAGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
77604610 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
77604656 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
77604674 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 265 0.83
48 53 0.17
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:77604848 original size:37 final size:37
Alignment explanation
Indices: 77604792--77604908 Score: 182
Period size: 37 Copynumber: 3.2 Consensus size: 37
77604782 CCGGGCTCTA
* * * *
77604792 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTTCGTGTGGAG-ATTATGTCCGGGT
77604829 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
77604866 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
77604903 AAGACT
1 AAGACT
77604909 TCGTAATAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
37 74 0.99
38 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
Found at i:77606753 original size:40 final size:40
Alignment explanation
Indices: 77606704--77607126 Score: 783
Period size: 40 Copynumber: 10.6 Consensus size: 40
77606694 TCGAATGATG
*
77606704 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
77606744 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
77606784 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
77606824 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
77606864 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
77606904 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
77606944 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
77606984 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
77607024 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
77607064 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
77607104 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
77607127 ATCATGCTGG
Statistics
Matches: 375, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 375 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:77611527 original size:47 final size:47
Alignment explanation
Indices: 77611446--77611840 Score: 549
Period size: 47 Copynumber: 8.4 Consensus size: 47
77611436 AATGTGAAAG
*
77611446 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
77611494 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
77611541 TGTGTATGTGTGAATAGGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
77611589 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
77611636 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
77611683 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
77611730 TGTGTATGTGAGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
77611777 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
77611823 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
77611841 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 265 0.83
48 53 0.17
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:77612015 original size:37 final size:37
Alignment explanation
Indices: 77611959--77612075 Score: 182
Period size: 37 Copynumber: 3.2 Consensus size: 37
77611949 CCGGGCTCTA
* * * *
77611959 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTTCGTGTGGAG-ATTATGTCCGGGT
77611996 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
77612033 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
77612070 AAGACT
1 AAGACT
77612076 TCGTAATAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
37 74 0.99
38 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
Found at i:77615720 original size:3 final size:3
Alignment explanation
Indices: 77615708--77615746 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
77615698 TTCATCTATA
77615708 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
77615747 TATTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:77615801 original size:38 final size:38
Alignment explanation
Indices: 77615749--77615828 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
77615739 TTCTTCTTTA
* *
77615749 TTTTTTTTTGTAAAGAA-CATTTATTATTCATTTTCGTC
1 TTTTTCTTTATAAAGAATCA-TTATTATTCATTTTCGTC
*
77615787 TTTTTCTTTATAAAGAATCATTATTGTTCATTTTCGTC
1 TTTTTCTTTATAAAGAATCATTATTATTCATTTTCGTC
77615825 TTTT
1 TTTT
77615829 AAATTTTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 36 0.95
39 2 0.05
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (38 bp):
TTTTTCTTTATAAAGAATCATTATTATTCATTTTCGTC
Found at i:77621379 original size:17 final size:15
Alignment explanation
Indices: 77621352--77621394 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
77621342 AACAATTAGT
*
77621352 AAGAATGAAAATAAA
1 AAGATTGAAAATAAA
*
77621367 ATAGATTTGAAAATAGA
1 A-AGA-TTGAAAATAAA
77621384 AAGATTGAAAA
1 AAGATTGAAAA
77621395 AACAAGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (15 bp):
AAGATTGAAAATAAA
Found at i:77627115 original size:46 final size:46
Alignment explanation
Indices: 77627045--77627318 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
77627035 TTTGACATGA
* * * * * *
77627045 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * * *** *
77627091 TGCCATGGTGTCTTTTAATCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
77627137 TGCCATGGTATCTTTCAACCATAGTCTTACACAATTCTTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77627183 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77627229 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77627275 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
77627319 AGAGCACACT
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 202 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:77640275 original size:13 final size:13
Alignment explanation
Indices: 77640259--77640283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77640249 AATTTATGGT
77640259 AAAAATTGATAAA
1 AAAAATTGATAAA
77640272 AAAAATTGATAA
1 AAAAATTGATAA
77640284 TGGGTTAGGT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAATTGATAAA
Found at i:77641992 original size:54 final size:54
Alignment explanation
Indices: 77641893--77642037 Score: 238
Period size: 54 Copynumber: 2.7 Consensus size: 54
77641883 TGGAGGAAGC
*
77641893 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
77641948 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
77642002 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
77642038 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 6 0.07
54 59 0.69
55 21 0.24
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:77642034 original size:27 final size:27
Alignment explanation
Indices: 77641896--77642055 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
77641886 AGGAAGCGTC
* *
77641896 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
*
77641924 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
77641951 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
77641978 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
77642005 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
77642032 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
77642056 GCAGCTTCAC
Statistics
Matches: 116, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 88 0.76
28 17 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:77642049 original size:81 final size:81
Alignment explanation
Indices: 77641896--77642055 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 81
77641886 AGGAAGCGTC
* *
77641896 CTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
77641961 TGCCACAATTATCTGAT
66 TGCCACAA-TATCTGAT
* ** *
77641978 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
77642041 -TCGTCACAATATCTG
65 AT-GCCACAATATCTG
77642056 GCAGCTTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 15 0.22
81 39 0.57
82 15 0.22
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
TGCCACAATATCTGAT
Found at i:77644688 original size:17 final size:17
Alignment explanation
Indices: 77644666--77644700 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
77644656 CATTCTATAA
77644666 GCTTTAAGCATGAAATT
1 GCTTTAAGCATGAAATT
77644683 GCTTTAAGCATGAAATT
1 GCTTTAAGCATGAAATT
77644700 G
1 G
77644701 GAGGGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (17 bp):
GCTTTAAGCATGAAATT
Found at i:77646079 original size:45 final size:44
Alignment explanation
Indices: 77645979--77646136 Score: 142
Period size: 45 Copynumber: 3.5 Consensus size: 44
77645969 TAGAAATCTG
* *
77645979 AGCTCGTTGAGTTGGT-TCAAGTTCGTGATATATGTGAGAAATCCAA
1 AGCTCATTGAGTTGGTCT-AAGTTCGTGATATATGTGAG-CAT-CAA
** *
77646025 A-CTTGTTGAGTTGGTCTAAGTTCGCGATATATGTGAAGCATCAA
1 AGCTCATTGAGTTGGTCTAAGTTCGTGATATATGTG-AGCATCAA
* * ** **
77646069 AGCTCATTGAGTTGGTCTGAGTTCATTG-TGGATGTGAGCATCTG
1 AGCTCATTGAGTTGGTCTAAGTTC-GTGATATATGTGAGCATCAA
*
77646113 AGCTCATTGAGTTGGTCTGAGTTC
1 AGCTCATTGAGTTGGTCTAAGTTC
77646137 ATTATGGATG
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
44 34 0.35
45 57 0.59
46 5 0.05
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (44 bp):
AGCTCATTGAGTTGGTCTAAGTTCGTGATATATGTGAGCATCAA
Found at i:77646096 original size:19 final size:19
Alignment explanation
Indices: 77646072--77646139 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 19
77646062 GCATCAAAGC
77646072 TCATTGAGTTGGTCTGAGT
1 TCATTGAGTTGGTCTGAGT
* *
77646091 TCATTGTGGATGTGAGCATCTGAGC
1 TCATTG-AG-T-TG-G--TCTGAGT
77646116 TCATTGAGTTGGTCTGAGT
1 TCATTGAGTTGGTCTGAGT
77646135 TCATT
1 TCATT
77646140 ATGGATGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
19 17 0.44
20 1 0.03
21 2 0.05
22 4 0.10
23 2 0.05
24 1 0.03
25 12 0.31
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (19 bp):
TCATTGAGTTGGTCTGAGT
Found at i:77646124 original size:44 final size:45
Alignment explanation
Indices: 77646055--77646146 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 45
77646045 TTCGCGATAT
*
77646055 ATGTGAAGCATCAAAGCTCATTGAGTTGGTCTGAGTTCATTGTGG
1 ATGTGAAGCATCAAAGCTCATTGAGTTGGTCTGAGTTCATTATGG
**
77646100 ATGTG-AGCATCTGAGCTCATTGAGTTGGTCTGAGTTCATTATGG
1 ATGTGAAGCATCAAAGCTCATTGAGTTGGTCTGAGTTCATTATGG
77646144 ATG
1 ATG
77646147 CAATGCATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 39 0.89
45 5 0.11
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (45 bp):
ATGTGAAGCATCAAAGCTCATTGAGTTGGTCTGAGTTCATTATGG
Found at i:77649520 original size:21 final size:21
Alignment explanation
Indices: 77649460--77649520 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
77649450 TTCGAGGCTA
* *
77649460 ATTTAAAAGTGATTTAAAGATCC
1 ATTTAAAA-T-ATTTAAAAATAC
* **
77649483 ATTAAAAATATGGAAAAATAC
1 ATTTAAAATATTTAAAAATAC
77649504 ATTTAAAATATTTAAAA
1 ATTTAAAATATTTAAAA
77649521 TTCCTATAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 22 0.73
22 1 0.03
23 7 0.23
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (21 bp):
ATTTAAAATATTTAAAAATAC
Found at i:77651505 original size:13 final size:12
Alignment explanation
Indices: 77651481--77651520 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 12
77651471 GTGAAAACTA
77651481 TTTTT-TTTTTG
1 TTTTTCTTTTTG
77651492 TTTTTCTCTTTTG
1 TTTTTCT-TTTTG
*
77651505 TTTTTGTTTTTG
1 TTTTTCTTTTTG
77651517 TTTT
1 TTTT
77651521 GTTTGTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 5 0.19
12 10 0.38
13 11 0.42
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTG
Found at i:77651508 original size:5 final size:6
Alignment explanation
Indices: 77651481--77651524 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
77651471 GTGAAAACTA
*
77651481 TTTTT- TTTTTG TTTTTC TCTTTTG TTTTTG TTTTTG -TTTTG TTT
1 TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG TTT
77651525 GTCTTTACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 10 0.29
6 19 0.56
7 5 0.15
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:77651551 original size:30 final size:30
Alignment explanation
Indices: 77651479--77651552 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
77651469 TGGTGAAAAC
* *
77651479 TATTTTTTTTTTGTTTTTCTCTTTTGTTTT
1 TATTTTTTTTTTGTTTGTCTCTTCTGTTTT
* *
77651509 TGTTTTTGTTTTGTTTGTCT-TTACT-TTTT
1 TATTTTTTTTTTGTTTGTCTCTT-CTGTTTT
77651538 TATTATTTTTTTTGT
1 TATT-TTTTTTTTGT
77651553 GCAAATGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.80
Consensus pattern (30 bp):
TATTTTTTTTTTGTTTGTCTCTTCTGTTTT
Found at i:77652166 original size:50 final size:50
Alignment explanation
Indices: 77652104--77652201 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
77652094 ACCTTATTCT
* * *
77652104 AATCAATGTCAAATAAAAGGAAAGAAGTTTTATACGGATTCTACTTGTAC
1 AATCAATATCAAATAAAAGAAAAGAAGTTCTATACGGATTCTACTTGTAC
* *
77652154 AATCAATATCAAATAGAAGAAAAGTAGTTCTATACGGATTCTACTTGT
1 AATCAATATCAAATAAAAGAAAAGAAGTTCTATACGGATTCTACTTGT
77652202 GCCACTGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAAAAGAAAAGAAGTTCTATACGGATTCTACTTGTAC
Found at i:77665083 original size:46 final size:46
Alignment explanation
Indices: 77665030--77665120 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
77665020 CATGAATTGG
*
77665030 CCAACTTCCCAAAACACTGGTAGCAATTCAATCATTCCAACAACTT
1 CCAACTTCCCAAAACACTGGCAGCAATTCAATCATTCCAACAACTT
77665076 CCAACTTCCCAAAACACTGGCAGCAATTCAATCATTCCAACAACT
1 CCAACTTCCCAAAACACTGGCAGCAATTCAATCATTCCAACAACT
77665121 AAGAGCATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.34, G:0.07, T:0.22
Consensus pattern (46 bp):
CCAACTTCCCAAAACACTGGCAGCAATTCAATCATTCCAACAACTT
Found at i:77676033 original size:33 final size:34
Alignment explanation
Indices: 77675991--77676058 Score: 111
Period size: 36 Copynumber: 2.0 Consensus size: 34
77675981 TCAATCTCAT
77675991 AAGT-AAAAAAATATGAATTTAAAATAATCCCAA
1 AAGTAAAAAAAATATGAATTTAAAATAATCCCAA
77676024 AAGTAAAAAAAAAATATGAATTTAAAATAATCCCA
1 AAGT--AAAAAAAATATGAATTTAAAATAATCCCA
77676059 TCAATTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 4 0.12
36 28 0.88
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.24
Consensus pattern (34 bp):
AAGTAAAAAAAATATGAATTTAAAATAATCCCAA
Found at i:77681018 original size:21 final size:21
Alignment explanation
Indices: 77680993--77681037 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
77680983 TATTTATGGT
*
77680993 GTTAGGGTTTTTTATTTTAAG
1 GTTAGGGTTTTATATTTTAAG
* *
77681014 GTTAGTGTTTTATATTTTAGG
1 GTTAGGGTTTTATATTTTAAG
77681035 GTT
1 GTT
77681038 TGAGATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (21 bp):
GTTAGGGTTTTATATTTTAAG
Found at i:77682565 original size:21 final size:21
Alignment explanation
Indices: 77682553--77682612 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
77682543 GCCTAAAACA
77682553 ACACACGAGGTGCCTGATACG
1 ACACACGAGGTGCCTGATACG
*
77682574 ACACACGAGGTGCTTGATACG
1 ACACACGAGGTGCCTGATACG
77682595 ACACACGAGGTGCCTGAT
1 ACACACGAGGTGCCTGAT
77682613 CGATAAAGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.17
Consensus pattern (21 bp):
ACACACGAGGTGCCTGATACG
Found at i:77683006 original size:15 final size:15
Alignment explanation
Indices: 77682981--77683038 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
77682971 TCATATATAT
77682981 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
77682997 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
77683012 AATAATTTCAATCAA
1 TATAAATTCAATCAA
77683027 TATAAATTCAAT
1 TATAAATTCAAT
77683039 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:77689501 original size:18 final size:18
Alignment explanation
Indices: 77689478--77689514 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
77689468 ATAATCTGAA
77689478 GGATGTACGCCCGAATGT
1 GGATGTACGCCCGAATGT
*
77689496 GGATGTACGCCCGAGTGT
1 GGATGTACGCCCGAATGT
77689514 G
1 G
77689515 TTATTCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.22
Consensus pattern (18 bp):
GGATGTACGCCCGAATGT
Found at i:77691109 original size:18 final size:18
Alignment explanation
Indices: 77691081--77691118 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
77691071 AAAAGTGTTT
77691081 AATATATTATT-ATAAAA
1 AATATATTATTCATAAAA
77691098 AATATAATTATTCATAAAA
1 AATAT-ATTATTCATAAAA
77691117 AA
1 AA
77691119 ATGTTATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATTATTCATAAAA
Found at i:77692400 original size:19 final size:18
Alignment explanation
Indices: 77692369--77692408 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
77692359 TTTTTATGAG
77692369 TATTTTATATTTGAGATT
1 TATTTTATATTTGAGATT
*
77692387 TATTTTATTATTTGATATT
1 TATTTTA-TATTTGAGATT
77692406 TAT
1 TAT
77692409 AAATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TATTTTATATTTGAGATT
Found at i:77693188 original size:15 final size:16
Alignment explanation
Indices: 77693161--77693190 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77693151 CGTGGGTGTG
77693161 ATAAAATCTAGTATTA
1 ATAAAATCTAGTATTA
77693177 ATAAAA-CTAGTATT
1 ATAAAATCTAGTATT
77693191 CATCCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (16 bp):
ATAAAATCTAGTATTA
Found at i:77706372 original size:21 final size:20
Alignment explanation
Indices: 77706338--77706380 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
77706328 GAATGAGCTG
77706338 AAACGAGCTAAATTCGAACTC
1 AAACGAGCTAAATT-GAACTC
* * *
77706359 AAACGAGTTGAATTGAGCTC
1 AAACGAGCTAAATTGAACTC
77706379 AA
1 AA
77706381 GTGAGCTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AAACGAGCTAAATTGAACTC
Found at i:77708008 original size:18 final size:19
Alignment explanation
Indices: 77707985--77708023 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
77707975 TTTATCTCAA
*
77707985 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
77708003 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
77708022 TT
1 TT
77708024 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:77708051 original size:30 final size:30
Alignment explanation
Indices: 77708017--77708083 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
77708007 TTGTTCACAT
**
77708017 TCTTTTTCTCTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** *
77708047 TCTTTTTCAATCTCATTTTCTTTTTCATTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
77708077 TCTTTTT
1 TCTTTTT
77708084 GTTTTTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:77708083 original size:18 final size:18
Alignment explanation
Indices: 77708041--77708092 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
77708031 AAACTCTTTT
*
77708041 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* *
77708059 TCATTTTCTTTTTCATTT
1 TCATTTTCTTTTTCAATC
* *
77708077 TCTTTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
77708093 AGGCTTTTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:77708090 original size:12 final size:12
Alignment explanation
Indices: 77708059--77708083 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77708049 TTTTTCAATC
77708059 TCATTTTCTTTT
1 TCATTTTCTTTT
77708071 TCATTTTCTTTT
1 TCATTTTCTTTT
77708083 T
1 T
77708084 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:77708100 original size:12 final size:12
Alignment explanation
Indices: 77708085--77708116 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
77708075 TTTCTTTTTG
77708085 TTTTTCAAAGGC
1 TTTTTCAAAGGC
*
77708097 TTTTCCAAAGGC
1 TTTTTCAAAGGC
77708109 TTTTTCAA
1 TTTTTCAA
77708117 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:77708174 original size:5 final size:5
Alignment explanation
Indices: 77708164--77708220 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
77708154 CTTTTGCCTC
*
77708164 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCCTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T--CTTT TCTTT
77708211 TCTTT TCTTT
1 TCTTT TCTTT
77708221 GTTTTCTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 30 0.68
6 4 0.09
7 6 0.14
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:77708220 original size:15 final size:14
Alignment explanation
Indices: 77708164--77708228 Score: 67
Period size: 16 Copynumber: 4.3 Consensus size: 14
77708154 CTTTTGCCTC
77708164 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
77708179 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
77708194 TCTTTTGCCTTTTCTTT
1 TCTTTT--CTTTT-TTT
*
77708211 TCTTTTCTTTGTTT
1 TCTTTTCTTTTTTT
77708225 TCTT
1 TCTT
77708229 GTTACAAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 9 0.21
16 15 0.35
17 8 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.75
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:77710638 original size:21 final size:20
Alignment explanation
Indices: 77710612--77710654 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
77710602 GAATGAGCTG
77710612 AAACGAGCTAAATTCGAACTC
1 AAACGAGCTAAATT-GAACTC
* *
77710633 AAACGAGCTGAATTGAGCTC
1 AAACGAGCTAAATTGAACTC
77710653 AA
1 AA
77710655 GTGAGCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
AAACGAGCTAAATTGAACTC
Found at i:77720192 original size:21 final size:21
Alignment explanation
Indices: 77720167--77720206 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
77720157 ATAAAATTGA
77720167 ATAAAAAACTCAAAAATAACC
1 ATAAAAAACTCAAAAATAACC
** *
77720188 ATAAATTACTTAAAAATAA
1 ATAAAAAACTCAAAAATAA
77720207 GACCTAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAAAACTCAAAAATAACC
Found at i:77722325 original size:22 final size:22
Alignment explanation
Indices: 77722295--77722342 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
77722285 CTTCTGTATT
* *
77722295 ATGTGCTCGTTGAATTGTGAAA
1 ATGTACTCGTTGAATTGTAAAA
77722317 ATGTACTCGTTGAATTGTAAAA
1 ATGTACTCGTTGAATTGTAAAA
77722339 ATGT
1 ATGT
77722343 GTATTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (22 bp):
ATGTACTCGTTGAATTGTAAAA
Found at i:77723989 original size:41 final size:40
Alignment explanation
Indices: 77723683--77723991 Score: 325
Period size: 41 Copynumber: 7.6 Consensus size: 40
77723673 TAATAAACAT
* * *
77723683 TAGCGGCG--TTTGTCCTAAACGCCACTAAAAACTAAACTA
1 TAGCGGCGTTTTTGTCC-AAACGCCACTAAAAACTGATCAA
* * * *
77723722 TAACGGCGTTTTTGGCAAAAACGCCACTAAAAACTGGTCAA
1 TAGCGGCGTTTTTGTC-CAAACGCCACTAAAAACTGATCAA
* * *
77723763 TAGCTGCGTTTTTGGCCAAAACGCCACTAAAAACTGGTCAA
1 TAGCGGCGTTTTTGTCC-AAACGCCACTAAAAACTGATCAA
* * * *
77723804 TAGCGGTGTTTTTCTCCAAATGCCACTAAAAGCTGATCAA
1 TAGCGGCGTTTTTGTCCAAACGCCACTAAAAACTGATCAA
* ** *
77723844 TAGTGGCGTTTTAATCCCAAACACCACTAAAAACTGATCAA
1 TAGCGGCGTTTTTGT-CCAAACGCCACTAAAAACTGATCAA
* * *
77723885 TTGCGGCATTTTTATCCCAAACGCCACTAAAAACTGATCAA
1 TAGCGGCGTTTTTGT-CCAAACGCCACTAAAAACTGATCAA
* * *
77723926 TTGTGGCGTTTTTATCCAAAACGCCACTAAAAACTGATCAA
1 TAGCGGCGTTTTTGTCC-AAACGCCACTAAAAACTGATCAA
77723967 TAGCGGCGTTTTTGGTCCAAACGCC
1 TAGCGGCGTTTTT-GTCCAAACGCC
77723992 GCAAAAAGTT
Statistics
Matches: 229, Mismatches: 34, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
39 7 0.03
40 33 0.14
41 186 0.81
42 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
TAGCGGCGTTTTTGTCCAAACGCCACTAAAAACTGATCAA
Found at i:77724319 original size:21 final size:21
Alignment explanation
Indices: 77724280--77724342 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
77724270 TAGCTTTCTG
* *
77724280 TAAACCCTTAAATCTTAAACAT
1 TAAACCC-TAAACCATAAACAT
* **
77724302 TAAACCCTAAACCCTAAATTT
1 TAAACCCTAAACCATAAACAT
* *
77724323 TAAAACATAAACCATAAACA
1 TAAACCCTAAACCATAAACA
77724343 CTAATCCATA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 25 0.78
22 7 0.22
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACAT
Found at i:77724325 original size:28 final size:28
Alignment explanation
Indices: 77724280--77724346 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
77724270 TAGCTTTCTG
*
77724280 TAAACCCTTAAATCTT-AAACATTAAACCC
1 TAAACCC-TAAATCTTAAAACA-TAAACCA
*
77724309 TAAACCCTAAATTTTAAAACATAAACCA
1 TAAACCCTAAATCTTAAAACATAAACCA
*
77724337 TAAACACTAA
1 TAAACCCTAA
77724347 TCCATAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAAACATAAACCA
Found at i:77724578 original size:41 final size:42
Alignment explanation
Indices: 77724527--77724612 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 42
77724517 TATGGTTTAG
* * *
77724527 GGTTCAATGG-TAGAATATATTTTAAGTTTATGGTTTAGGCC
1 GGTTCAATGGATAGAATATATATTAAGTTAATGGTATAGGCC
* *
77724568 GGTTCAATGGTATAGTATATATATTAAGTTAATGGTATGGGCC
1 GGTTCAATGG-ATAGAATATATATTAAGTTAATGGTATAGGCC
77724611 GG
1 GG
77724613 GTTTGTTATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 10 0.26
43 28 0.74
ACGTcount: A:0.28, C:0.07, G:0.27, T:0.38
Consensus pattern (42 bp):
GGTTCAATGGATAGAATATATATTAAGTTAATGGTATAGGCC
Found at i:77724981 original size:5 final size:5
Alignment explanation
Indices: 77724971--77724995 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
77724961 ATCAATTTTA
77724971 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
77724996 TAGTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:77725733 original size:40 final size:40
Alignment explanation
Indices: 77725674--77725784 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
77725664 GTGCAGAGGC
* *
77725674 ATTAGCGGCGTTTTTGTAAAAATGCCACTAAAAA-TAGAGA
1 ATTAGCGGCGCTTTTGTAAAAACGCCACTAAAAACT-GAGA
* * *
77725714 ATTAGTGGCGCTTTCGTAAAAAACGCCGC-AAAAACTGAGA
1 ATTAGCGGCGCTTTTGT-AAAAACGCCACTAAAAACTGAGA
*
77725754 ATTAGCGACGCTTTTGT-AAAACGCCACTAAA
1 ATTAGCGGCGCTTTTGTAAAAACGCCACTAAA
77725785 TGTTTAATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
38 9 0.15
39 3 0.05
40 37 0.63
41 10 0.17
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTGTAAAAACGCCACTAAAAACTGAGA
Found at i:77726394 original size:18 final size:19
Alignment explanation
Indices: 77726360--77726395 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
77726350 CTTCTTTCTG
77726360 TAGAATTGCAAAGATGAAA
1 TAGAATTGCAAAGATGAAA
*
77726379 TAGAATTG-AGAGATGAA
1 TAGAATTGCAAAGATGAA
77726396 GAATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.22
Consensus pattern (19 bp):
TAGAATTGCAAAGATGAAA
Found at i:77726790 original size:11 final size:11
Alignment explanation
Indices: 77726774--77726823 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
77726764 CAACTTGTAT
77726774 ATTTGTCAAGA
1 ATTTGTCAAGA
77726785 ATTTGTCAAGA
1 ATTTGTCAAGA
* *
77726796 ATTTGACAAAATA
1 ATTTGTC--AAGA
77726809 ATTTGTCAAGA
1 ATTTGTCAAGA
77726820 ATTT
1 ATTT
77726824 TTAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 24 0.73
13 9 0.27
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (11 bp):
ATTTGTCAAGA
Found at i:77730507 original size:241 final size:241
Alignment explanation
Indices: 77730083--77730759 Score: 1203
Period size: 241 Copynumber: 2.8 Consensus size: 241
77730073 ATGAATTAAT
*
77730083 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATATAGCTGACCTTCTCTCCAACC
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAAC-A-ATAGCTGACTTTCTCTCCAACC
77730148 -TTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
64 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
* *
77730212 AGCTGTAAGATAAAATGGATCCTCCATAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
129 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
77730277 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
194 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
77730325 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACTTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACTTTCTCTCCAACCTT
* *
77730390 TTTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAAACTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
77730455 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCATGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
77730520 AAAAAGACTTGAAAAAAGTTCTATCGAGCTTATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* * *
77730566 TTTATTACCATGTAGTTTGCTTGTCCATTAAAATTACAACAATAGCTTACTTTCTCTCTAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACTTTCTCTCCAACCTT
* *
77730631 TTTTCAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* *
77730696 CTGTAAGATATAATGGATCCTTCCTAAGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
77730760 ACTATATTCA
Statistics
Matches: 417, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
240 21 0.05
241 356 0.85
242 40 0.10
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACTTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:77730902 original size:9 final size:9
Alignment explanation
Indices: 77730879--77731006 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
77730869 ATTGGTCATT
*
77730879 ACTTAAATA
1 ACTTACATA
*
77730888 AATTACATA
1 ACTTACATA
77730897 ACTTACATA
1 ACTTACATA
* *
77730906 ACTCATATA
1 ACTTACATA
77730915 ACTTACATA
1 ACTTACATA
*
77730924 ATTTACATAACA
1 ACTTACAT---A
77730936 ACTTACATA
1 ACTTACATA
*
77730945 ACTCACATA
1 ACTTACATA
77730954 ACTTACATA
1 ACTTACATA
*
77730963 ATTTACATA
1 ACTTACATA
* *
77730972 ACTCATATA
1 ACTTACATA
*
77730981 ACGTACATAACA
1 ACTTACAT---A
77730993 ACTTACATA
1 ACTTACATA
77731002 ACTTA
1 ACTTA
77731007 ACTAATACAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 78 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:77730948 original size:39 final size:39
Alignment explanation
Indices: 77730896--77730973 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
77730886 TAAATTACAT
*
77730896 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
77730935 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
77730974 TCATATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:77730973 original size:57 final size:57
Alignment explanation
Indices: 77730892--77731004 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
77730882 TAAATAAATT
* * **
77730892 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * *
77730949 ACATAACTTACATAATTTACATAACTCATATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
77731005 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:77739318 original size:15 final size:16
Alignment explanation
Indices: 77739293--77739323 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
77739283 GCAACAACTT
77739293 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
77739309 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
77739324 CTGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:77739648 original size:31 final size:31
Alignment explanation
Indices: 77739602--77739668 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
77739592 TTGTTGTATT
* * *
77739602 TTTTATGTTAAATTTGCTGTTTTTGGCTGTA
1 TTTTATATTAAATTTGCTGTATTTGGCTGGA
* * *
77739633 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGGA
77739664 TTTTA
1 TTTTA
77739669 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.61
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGGA
Found at i:77739768 original size:43 final size:42
Alignment explanation
Indices: 77739721--77739818 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
77739711 TCTGCCAAAA
77739721 TTAGCGGCG-TTTGTAGAAAAAGCGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCGCTTTGTAG-AAAA-CGCCGCTAAAAGCCTTGACCT
* * * *
77739764 TTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAAGCGTTGACCT
1 TTAGCGGCGC-TTTGTAGAAAACGCCGCTAAAAGCCTTGACCT
77739807 TTAGCGGCGCTT
1 TTAGCGGCGCTT
77739819 CTCCTACAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.04
43 39 0.80
44 3 0.06
45 5 0.10
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.27
Consensus pattern (42 bp):
TTAGCGGCGCTTTGTAGAAAACGCCGCTAAAAGCCTTGACCT
Found at i:77739829 original size:43 final size:43
Alignment explanation
Indices: 77739743--77739832 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
77739733 GTAGAAAAAG
** *
77739743 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTTTCGCAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCTCACAAA
*
77739786 CGCCGCTAAAAGCGTTGACCTTTAGCGGCGCTTCTCCT-ACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTT-TCCTCACAAA
77739829 CGCC
1 CGCC
77739833 ACAAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 40 0.95
44 2 0.05
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTCCTCACAAA
Found at i:77740509 original size:24 final size:24
Alignment explanation
Indices: 77740456--77740514 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
77740446 TCTTGTATTC
* *
77740456 ATCTTCATCTCAACCCTCGTCTTT
1 ATCTTTATCTCAACCCCCGTCTTT
*
77740480 ATCTTTATCTCTACCCCCGTCTTT
1 ATCTTTATCTCAACCCCCGTCTTT
* *
77740504 GTCTTTGTCTC
1 ATCTTTATCTC
77740515 CATTTTCTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.12, C:0.36, G:0.07, T:0.46
Consensus pattern (24 bp):
ATCTTTATCTCAACCCCCGTCTTT
Found at i:77742602 original size:39 final size:39
Alignment explanation
Indices: 77742550--77742720 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
77742540 GGACTAAGAT
77742550 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
77742589 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * * *
77742629 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
77742669 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
77742708 CCGAAGGCATTTG
1 CCGAAGGCATTTG
77742721 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
39 66 0.57
40 50 0.43
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:77742633 original size:79 final size:79
Alignment explanation
Indices: 77742497--77742720 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 79
77742487 TTGAATGCTG
* * * * * * *
77742497 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
77742560 TTGTGCGAGATA-CAAA
63 TTGTGCGAGATATCAAA
* * *
77742576 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* * *
77742640 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * *
77742656 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
77742721 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 89 0.73
80 31 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:77745692 original size:49 final size:49
Alignment explanation
Indices: 77745626--77745863 Score: 278
Period size: 49 Copynumber: 4.8 Consensus size: 49
77745616 TAGCCAAAGC
* * *
77745626 TATCTGGTACGCATAGTAGCCTGCACTTAGTAATACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
77745675 TATCCGGTACACGTAGTAGCCTGCACTTAGTATTACACATGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * ** * *
77745725 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACCCGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * *
77745776 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
77745825 AATCTGGTATACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
77745864 CGTGACCTCA
Statistics
Matches: 156, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 75 0.48
50 45 0.29
51 36 0.23
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:77745858 original size:100 final size:99
Alignment explanation
Indices: 77745639--77745870 Score: 304
Period size: 100 Copynumber: 2.3 Consensus size: 99
77745629 CTGGTACGCA
* * * *
77745639 TAGTAGCCTGCACTTAGTAATACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* * *
77745704 GTATTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACAATCTGATACACG
* * * *
77745738 TAGTAGCCTGCACTTAGTACTACACCCGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * * *
77745803 TAGTACTACATATGCGACC-AATAATCTGGTATACG
64 TAGTACTACACATGCGACCTAACAATCTGATACACG
77745838 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
77745871 TCACAATAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 28 0.25
100 45 0.39
101 41 0.36
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTAACAATCTGATACACG
Found at i:77756301 original size:12 final size:13
Alignment explanation
Indices: 77756284--77756315 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
77756274 AATATTTTCA
77756284 AAAAATAT-TAAT
1 AAAAATATCTAAT
77756296 AAAAAT-TCTAAT
1 AAAAATATCTAAT
77756308 AAAAATAT
1 AAAAATAT
77756316 AATCTAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 16 0.89
13 1 0.06
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATATCTAAT
Found at i:77758376 original size:3 final size:3
Alignment explanation
Indices: 77758368--77758423 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
77758358 GTAAATTAAA
77758368 TAT TAT TA- TAT TAT TAT TAT TAT TAT GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
77758413 TAAT T-T TAT TA
1 T-AT TAT TAT TA
77758424 ACTAATACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.08
3 39 0.80
4 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:77758400 original size:19 final size:18
Alignment explanation
Indices: 77758368--77758423 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
77758358 GTAAATTAAA
77758368 TATTATTA-TATTATTAT
1 TATTATTATTATTATTAT
77758385 TATTATTATGTATTATTAT
1 TATTATTAT-TATTATTAT
77758404 TATTATTATTAATT-TTAT
1 TATTATTATT-ATTATTAT
77758422 TA
1 TA
77758424 ACTAATACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.22
18 7 0.19
19 21 0.58
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TATTATTATTATTATTAT
Found at i:77758460 original size:22 final size:22
Alignment explanation
Indices: 77758432--77758473 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
77758422 TAACTAATAC
* *
77758432 ATAAAAGAAATAAAGTAAAAGA
1 ATAAAAGAAACAAAGAAAAAGA
77758454 ATAAAAGAAACAAAGAAAAA
1 ATAAAAGAAACAAAGAAAAA
77758474 AAGAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (22 bp):
ATAAAAGAAACAAAGAAAAAGA
Found at i:77759372 original size:23 final size:23
Alignment explanation
Indices: 77759346--77759392 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
77759336 ATTCAAAGAA
77759346 TTTGGGTGGATTA-TTCTGGTGTG
1 TTTGGGTGGATTATTTC-GGTGTG
*
77759369 TTTGGTTGGATTATTTCGGTGTG
1 TTTGGGTGGATTATTTCGGTGTG
77759392 T
1 T
77759393 GATGCGATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.09, C:0.04, G:0.36, T:0.51
Consensus pattern (23 bp):
TTTGGGTGGATTATTTCGGTGTG
Found at i:77765508 original size:21 final size:21
Alignment explanation
Indices: 77765474--77765529 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
77765464 TGCCAACAGA
77765474 AGCTCG-AA-AGCTGAAC-AG
1 AGCTCGTAAGAGCTGAACAAG
* *
77765492 AAGTTTGTAAGAGCTGAACAAG
1 -AGCTCGTAAGAGCTGAACAAG
77765514 AGCTCGTAAGAGCTGA
1 AGCTCGTAAGAGCTGA
77765530 TCCACCCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.13
20 2 0.07
21 22 0.73
22 2 0.07
ACGTcount: A:0.38, C:0.16, G:0.29, T:0.18
Consensus pattern (21 bp):
AGCTCGTAAGAGCTGAACAAG
Found at i:77766072 original size:17 final size:18
Alignment explanation
Indices: 77766033--77766073 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
77766023 AGTTAATATA
*
77766033 TCAAATTAACTAATTTTC
1 TCAAATTAACTAATTGTC
77766051 TCAAATTAA-TAATCTGTC
1 TCAAATTAACTAAT-TGTC
77766069 -CAAAT
1 TCAAAT
77766074 ATTCTAGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (18 bp):
TCAAATTAACTAATTGTC
Found at i:77769710 original size:16 final size:15
Alignment explanation
Indices: 77769689--77769718 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
77769679 GGGAGACATG
77769689 CTCGGTCTAATAAACC
1 CTCGGTCTAA-AAACC
77769705 CTCGGTCTAAAAAC
1 CTCGGTCTAAAAAC
77769719 TCTTGCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.23
Consensus pattern (15 bp):
CTCGGTCTAAAAACC
Found at i:77780086 original size:21 final size:22
Alignment explanation
Indices: 77780060--77780101 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
77780050 CAAAAAATAT
*
77780060 ATGCTATTTT-TTGTTGTTTTA
1 ATGCTATTTTCTTGTTATTTTA
77780081 ATGCTATTTTCTTGTTATTTT
1 ATGCTATTTTCTTGTTATTTT
77780102 CTTCTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (22 bp):
ATGCTATTTTCTTGTTATTTTA
Found at i:77791742 original size:109 final size:109
Alignment explanation
Indices: 77791510--77791906 Score: 411
Period size: 109 Copynumber: 3.6 Consensus size: 109
77791500 GATGATACAA
* * * *** * * * *
77791510 ACCGTAGCGATGGCTGAGATCCTGCATATGTTTTAGATTTTCTACAGTTTGTGTGAGCAGTATCG
1 ACCGTAGTGATGGTTGAGATCTTGCATATGTTGCGGATTCTCTACAGCTTGTGTGAGTAGCATCG
* * * * ** *
77791575 TGAGATGGGTGATTACTTAGCATGTACTATGTACCAATGATACAG
66 TGAGA-CGATGATTATTTAGCAGGTACTATGTACCGGTGATATAG
* ** * *
77791620 GCCGTAGCAATGGTTGAGATCTTGCATATGTTACGGATTCTCTATAGCTTGTGTGAGTAGCA-CT
1 ACCGTAGTGATGGTTGAGATCTTGCATATGTTGCGGATTCTCTACAGCTTGTGTGAGTAGCATC-
* *
77791684 GTGAGACGATGATTGTTTAGTAGGTACTATGTACCGGTGATATAG
65 GTGAGACGATGATTATTTAGCAGGTACTATGTACCGGTGATATAG
* * * **
77791729 ACCGTATTGATGGTTGAGATCTT-CAATATGTTGCGGATTCTCTACAGCTCGTGTGAGCAATATC
1 ACCGTAGTGATGGTTGAGATCTTGC-ATATGTTGCGGATTCTCTACAGCTTGTGTGAGTAGCATC
* * * *
77791793 GTGAGATGATGGTTATTTAGCAGGTATTATGTACTGGTGATATAG
65 GTGAGACGATGATTATTTAGCAGGTACTATGTACCGGTGATATAG
* ** * *
77791838 ACCGTAGTGATGGCTGAGATCTTGCATATGTTGCATATTCTTTGCAGCTTGTGTGAGTAGCATCG
1 ACCGTAGTGATGGTTGAGATCTTGCATATGTTGCGGATTCTCTACAGCTTGTGTGAGTAGCATCG
77791903 TGAG
66 TGAG
77791907 CTGGTAATGA
Statistics
Matches: 236, Mismatches: 47, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
108 1 0.00
109 177 0.75
110 58 0.25
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (109 bp):
ACCGTAGTGATGGTTGAGATCTTGCATATGTTGCGGATTCTCTACAGCTTGTGTGAGTAGCATCG
TGAGACGATGATTATTTAGCAGGTACTATGTACCGGTGATATAG
Found at i:77793013 original size:37 final size:37
Alignment explanation
Indices: 77792954--77793096 Score: 225
Period size: 37 Copynumber: 3.9 Consensus size: 37
77792944 AGCTCAGATG
* *
77792954 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
77792991 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
77793027 TATATTTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
77793065 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
77793097 AGAATATATT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.01
37 95 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:77793052 original size:74 final size:74
Alignment explanation
Indices: 77792959--77793110 Score: 268
Period size: 74 Copynumber: 2.1 Consensus size: 74
77792949 AGATGAAATC
* *
77792959 TCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
77793024 GAATATATT
66 GAATATATT
* *
77793033 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCA
1 TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
77793098 GAATATATT
66 GAATATATT
77793107 TCCA
1 TCCA
77793111 AGTTTCATGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (74 bp):
TCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCA
GAATATATT
Found at i:77793300 original size:48 final size:48
Alignment explanation
Indices: 77793246--77793499 Score: 409
Period size: 48 Copynumber: 5.3 Consensus size: 48
77793236 ACACACCTCC
* * * *
77793246 TACATATTTCACACTAGCCCTTCGGCTTTATCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
77793294 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
77793342 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
77793390 TACATATTTCACATTAGCCATTCTGCTTTACCACATACACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
77793438 TATATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
77793486 TACATATTTCACAT
1 TACATATTTCACAT
77793500 ACACATATCT
Statistics
Matches: 194, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 194 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:77793489 original size:13 final size:13
Alignment explanation
Indices: 77793471--77793515 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
77793461 GGCTTGACCA
77793471 CATACACATATCT
1 CATACACATATCT
* * *
77793484 CATACATATTTCA
1 CATACACATATCT
77793497 CATACACATATCT
1 CATACACATATCT
77793510 CATACA
1 CATACA
77793516 TATTTCACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (13 bp):
CATACACATATCT
Found at i:77793499 original size:26 final size:26
Alignment explanation
Indices: 77793469--77793525 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
77793459 TCGGCTTGAC
77793469 CACATACACATATCTCATACATATTT
1 CACATACACATATCTCATACATATTT
77793495 CACATACACATATCTCATACATATTT
1 CACATACACATATCTCATACATATTT
77793521 CACAT
1 CACAT
77793526 TAGCCATTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (26 bp):
CACATACACATATCTCATACATATTT
Found at i:77793499 original size:74 final size:74
Alignment explanation
Indices: 77793421--77793573 Score: 288
Period size: 74 Copynumber: 2.1 Consensus size: 74
77793411 TCTGCTTTAC
*
77793421 CACATACACATATCTCATATATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCA
1 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCA
77793486 TACATATTT
66 TACATATTT
*
77793495 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCTCA
1 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCA
77793560 TACATATTT
66 TACATATTT
77793569 CACAT
1 CACAT
77793574 TAGCCATTCG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (74 bp):
CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCA
TACATATTT
Found at i:77793508 original size:122 final size:122
Alignment explanation
Indices: 77793373--77793603 Score: 408
Period size: 122 Copynumber: 1.9 Consensus size: 122
77793363 TCGGCTTTAC
* *
77793373 CACATATACATATCTCATACATATTTCACATTAGCCATTCTGCTTTACCACATACACATATCTCA
1 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCTCA
*
77793438 TATATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCATACATATTT
66 TACATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCATACATATTT
77793495 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCTCA
1 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCTCA
* * *
77793560 TACATATTTCACATTAGCCATTCGGCTTTACCATATATACATAT
66 TACATATTTCACATTAGCCATTCGGCTTGACCACATACACATAT
77793604 ATTTATCTTG
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 103 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (122 bp):
CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCTCA
TACATATTTCACATTAGCCATTCGGCTTGACCACATACACATATCTCATACATATTT
Found at i:77793547 original size:48 final size:48
Alignment explanation
Indices: 77793495--77793603 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
77793485 ATACATATTT
77793495 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
1 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
77793543 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
1 CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
* *
77793591 CATATATACATAT
1 CACATACACATAT
77793604 ATTTATCTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
CACATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC
Found at i:77800197 original size:22 final size:20
Alignment explanation
Indices: 77800140--77800182 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
77800130 CTACACGCCT
*
77800140 GTGCGAAGAAGCACACACCC
1 GTGCAAAGAAGCACACACCC
77800160 GTGCAAAGAAGCACACACCC
1 GTGCAAAGAAGCACACACCC
77800180 GTG
1 GTG
77800183 TGAAAGGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.26, T:0.07
Consensus pattern (20 bp):
GTGCAAAGAAGCACACACCC
Found at i:77809209 original size:17 final size:17
Alignment explanation
Indices: 77809182--77809224 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
77809172 AGGGATTAGG
* *
77809182 AATTAGAAGTAAAAATC
1 AATTAGGAGTAAAAATA
*
77809199 AATTGGGAGTAAAAATA
1 AATTAGGAGTAAAAATA
77809216 AATTAGGAG
1 AATTAGGAG
77809225 AGAATAGGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.23
Consensus pattern (17 bp):
AATTAGGAGTAAAAATA
Found at i:77816979 original size:40 final size:40
Alignment explanation
Indices: 77816896--77817105 Score: 205
Period size: 40 Copynumber: 5.3 Consensus size: 40
77816886 ACCCAAGTAT
* ** *
77816896 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
77816934 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
77816974 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTCGCACAAATGC
* * *
77817014 CTTCGGGACTTAGCCCGGA-ATTTGTAACTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * * *
77817054 CTTCAGGACTTAGCCCGGA-ATTAATCACTAGCACACATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
77817094 CTTCGGGACTTA
1 CTTCGGGACTTA
77817106 ACCCCATTAG
Statistics
Matches: 143, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
38 11 0.08
39 17 0.12
40 115 0.80
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:77822396 original size:11 final size:11
Alignment explanation
Indices: 77822380--77822418 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
77822370 TATATAAATA
*
77822380 TATAAATTAGT
1 TATAAATTAAT
77822391 TATAAATTATAT
1 TATAAATTA-AT
77822403 TATTAAATTAAT
1 TA-TAAATTAAT
77822415 TATA
1 TATA
77822419 TTATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 11 0.44
12 7 0.28
13 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:77822430 original size:14 final size:17
Alignment explanation
Indices: 77822395--77822435 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
77822385 ATTAGTTATA
77822395 AATTATATTATTAAATT
1 AATTATATTATTAAATT
77822412 AATTATATTA-TAAA-T
1 AATTATATTATTAAATT
77822427 -ATTATATTA
1 AATTATATTA
77822436 AGAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.38
15 1 0.04
16 4 0.17
17 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTATATTATTAAATT
Found at i:77822447 original size:31 final size:28
Alignment explanation
Indices: 77822367--77822448 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
77822357 TACATGATTT
* * * *
77822367 AATTATATAAATATATAAATTAGTTATA
1 AATTATATTAAGAAATAAATTAATTATA
** *
77822395 AATTATATTATTAAATTAATTATATTATAA
1 AATTATATTAAGAAATAAATTA-ATTAT-A
77822425 ATATTATATTAAGAAATAAATTAA
1 A-ATTATATTAAGAAATAAATTAA
77822449 ATAAAGACAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 18 0.42
29 4 0.09
30 3 0.07
31 18 0.42
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
AATTATATTAAGAAATAAATTAATTATA
Found at i:77823526 original size:44 final size:44
Alignment explanation
Indices: 77823463--77823550 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
77823453 TGTTTAGGGA
77823463 TACTTCGACCTTGAGTCGATGAGGCA-CTATAAGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGAGGCATC-ATAAGTGTCGTACTGT
**
77823507 TACTTCGA-CTTCGAGTCGATGAGGCATCATGTGTGTCGTACTGT
1 TACTTCGACCTT-GAGTCGATGAGGCATCATAAGTGTCGTACTGT
77823551 AACTGTTACT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 3 0.08
44 36 0.90
45 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCATCATAAGTGTCGTACTGT
Found at i:77828735 original size:7 final size:7
Alignment explanation
Indices: 77828725--77828754 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
77828715 AGCCACTACA
77828725 ATCAACT
1 ATCAACT
77828732 ATCAACT
1 ATCAACT
77828739 ATCAACT
1 ATCAACT
77828746 ATCAACT
1 ATCAACT
77828753 AT
1 AT
77828755 TAACCAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
ATCAACT
Found at i:77834088 original size:24 final size:24
Alignment explanation
Indices: 77834034--77834089 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
77834024 AGTAGAAGAC
* *
77834034 GCTCCAAAAGCTGGAGTGCTAGAT
1 GCTCCAAAAGCAGGAGTGCTAGAA
* *
77834058 G-TGCCAAAAGCAGGTGTGCTTGAA
1 GCT-CCAAAAGCAGGAGTGCTAGAA
77834082 GCTCCAAA
1 GCTCCAAA
77834090 TGCTGGGGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (24 bp):
GCTCCAAAAGCAGGAGTGCTAGAA
Found at i:77834180 original size:24 final size:24
Alignment explanation
Indices: 77834150--77834403 Score: 307
Period size: 24 Copynumber: 10.5 Consensus size: 24
77834140 TTCCAGTTGA
*
77834150 ACCAAAGGCAGGGGTGCTTGTGGA
1 ACCAAAGGCAGGGGTGCTTGTGGC
* * **
77834174 ACCAAAGGCTGGGGTACCAGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
77834198 ACCGAAA-GCAGGGGTGCTTGTGGC
1 ACC-AAAGGCAGGGGTGCTTGTGGC
77834222 ACCGAAA-GCAGGGGTGCTTGTGGC
1 ACC-AAAGGCAGGGGTGCTTGTGGC
*
77834246 ACCAAAAGCAGGGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
77834270 ACCGAAA-GCAGGGGTGCTTGTGGC
1 ACC-AAAGGCAGGGGTGCTTGTGGC
* * *
77834294 ACCGAAGGCAGGGGTACTAGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
* *
77834318 ACCAAAGGCAGGGGTACTGGTGGCGGC
1 ACCAAAGGCAGGGGTGCT--T-GTGGC
*
77834345 ACCAAACGCAGGGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
*
77834369 ACCAAACGCAGGGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
*
77834393 ACCAAACGCAG
1 ACCAAAGGCAG
77834404 ACTGTGTTGA
Statistics
Matches: 205, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
23 5 0.02
24 173 0.84
25 7 0.03
27 20 0.10
ACGTcount: A:0.24, C:0.22, G:0.39, T:0.15
Consensus pattern (24 bp):
ACCAAAGGCAGGGGTGCTTGTGGC
Found at i:77839454 original size:29 final size:28
Alignment explanation
Indices: 77839418--77839495 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
77839408 TCATGAGATT
77839418 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
77839448 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
77839475 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
77839496 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Done.