Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 199 of 284
Found at i:66714401 original size:28 final size:25
Alignment explanation
Indices: 66714348--66714401 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 25
66714338 GCAAGTTTTT
*
66714348 TCCTTTTGAAATAGGAAAAATGTCA
1 TCCTTTTGAAATAGGAAAAATATCA
*
66714373 TCCTTTTGGAAACTAAGGAATAATATCA
1 TCCTTTT-GAAA-T-AGGAAAAATATCA
66714401 T
1 T
66714402 TTTTGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 4 0.17
27 1 0.04
28 12 0.50
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (25 bp):
TCCTTTTGAAATAGGAAAAATATCA
Found at i:66717319 original size:3 final size:3
Alignment explanation
Indices: 66717311--66717337 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
66717301 AAAATGGAGT
66717311 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
66717338 AAAAACCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66730912 original size:2 final size:2
Alignment explanation
Indices: 66730905--66730942 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
66730895 TTGTTTTAGA
66730905 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
66730943 CTTAGAACGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:66733516 original size:19 final size:19
Alignment explanation
Indices: 66733492--66733535 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
66733482 CATATCATAT
66733492 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
66733511 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
66733530 CATATC
1 CATATC
66733536 CTTAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:66733521 original size:5 final size:5
Alignment explanation
Indices: 66732662--66733502 Score: 1682
Period size: 5 Copynumber: 168.2 Consensus size: 5
66732652 TTCAAGATTG
66732662 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66732712 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66732762 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66732812 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66732862 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66732912 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66732962 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733012 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733062 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733112 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733162 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733212 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733262 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733312 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733362 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733412 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
66733462 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
66733503 TAAGATTGCA
Statistics
Matches: 836, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 836 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
CATAT
Found at i:66743097 original size:38 final size:36
Alignment explanation
Indices: 66743053--66743126 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
66743043 ATTATATATT
*
66743053 TAATTTAAATTAATAAATCATT-GTAATATATGTAAAAA
1 TAATTTAAAAT-ATAAAT--TTAGTAATATATGTAAAAA
*
66743091 TAATTTAAAATATAAATTTATTAATATATGTAAAAA
1 TAATTTAAAATATAAATTTAGTAATATATGTAAAAA
66743127 CAGCTTTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 2 0.06
36 15 0.45
37 6 0.18
38 10 0.30
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (36 bp):
TAATTTAAAATATAAATTTAGTAATATATGTAAAAA
Found at i:66743247 original size:14 final size:15
Alignment explanation
Indices: 66743228--66743259 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
66743218 TCAGAAAAGT
66743228 AAATTATTTTTC-AA
1 AAATTATTTTTCGAA
66743242 AAATTATTTTTCGAA
1 AAATTATTTTTCGAA
66743257 AAA
1 AAA
66743260 CATTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATTATTTTTCGAA
Found at i:66743372 original size:3 final size:3
Alignment explanation
Indices: 66743366--66743395 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
66743356 GTTCAGGTCA
66743366 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
66743396 CAACAACTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:66752087 original size:27 final size:27
Alignment explanation
Indices: 66752057--66752110 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
66752047 TCAAAGAGAT
66752057 TGCTTGCAAGTCAAGCTAAACAAAATA
1 TGCTTGCAAGTCAAGCTAAACAAAATA
*
66752084 TGCTTGCAAGTCAAGTTAAACAAAATA
1 TGCTTGCAAGTCAAGCTAAACAAAATA
66752111 CATTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (27 bp):
TGCTTGCAAGTCAAGCTAAACAAAATA
Found at i:66758856 original size:20 final size:20
Alignment explanation
Indices: 66758820--66758870 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
66758810 ATTTTTTTAT
66758820 AAAAATA-AAAATCATAATTCA
1 AAAAATATAAAA-CATAATT-A
66758841 AAAAATATAAAA-ATAATTA
1 AAAAATATAAAACATAATTA
*
66758860 TAAAAT-TAAAA
1 AAAAATATAAAA
66758871 GAAGTTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 6 0.21
21 7 0.25
22 4 0.14
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAATATAAAACATAATTA
Found at i:66759207 original size:17 final size:17
Alignment explanation
Indices: 66759169--66759207 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
66759159 TATCTTTATT
*
66759169 ATTTTATTTTATTTTTG
1 ATTTTATTTTATTTTTA
*
66759186 GTTTTATTTTATTTTTA
1 ATTTTATTTTATTTTTA
66759203 ATTTT
1 ATTTT
66759208 TGGTTTGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (17 bp):
ATTTTATTTTATTTTTA
Found at i:66759948 original size:22 final size:21
Alignment explanation
Indices: 66759920--66759969 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
66759910 TGTGCCTTAA
*
66759920 TCACACGATCGTGTGCCTCTCT-
1 TCACACGAGCGTGTG-CT-TCTG
*
66759942 TCACACGGGCGTGTGCTTCTG
1 TCACACGAGCGTGTGCTTCTG
66759963 TCACACG
1 TCACACG
66759970 GCCATGTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 9 0.36
22 13 0.52
ACGTcount: A:0.14, C:0.34, G:0.24, T:0.28
Consensus pattern (21 bp):
TCACACGAGCGTGTGCTTCTG
Found at i:66759968 original size:21 final size:22
Alignment explanation
Indices: 66759920--66759979 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
66759910 TGTGCCTTAA
**
66759920 TCACACGATCGTGTGCCTCTCT
1 TCACACGGGCGTGTGCCTCTCT
66759942 TCACACGGGCGTGTG-CT-TCT
1 TCACACGGGCGTGTGCCTCTCT
* *
66759962 GTCACACGGCCATGTGCC
1 -TCACACGGGCGTGTGCC
66759980 CCTTTTTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.09
21 15 0.47
22 14 0.44
ACGTcount: A:0.13, C:0.35, G:0.25, T:0.27
Consensus pattern (22 bp):
TCACACGGGCGTGTGCCTCTCT
Found at i:66769100 original size:46 final size:46
Alignment explanation
Indices: 66769033--66769394 Score: 289
Period size: 46 Copynumber: 7.8 Consensus size: 46
66769023 TGTAACCGGC
* *
66769033 CCATAAGTGAACTCAGACTCAACTCAACGACCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
66769079 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * * * * *
66769129 -C-TCA-CGAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
66769172 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * * * * *
66769222 -C-TCA-CGAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
66769265 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * * * * *
66769315 -C-TCA-CGAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
66769358 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
66769395 TGCTCAACCA
Statistics
Matches: 247, Mismatches: 42, Indels: 54
0.72 0.12 0.16
Matches are distributed among these distances:
42 6 0.02
43 9 0.04
44 6 0.02
45 6 0.02
46 114 0.46
47 78 0.32
48 6 0.02
49 6 0.02
50 9 0.04
51 7 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:66769153 original size:93 final size:93
Alignment explanation
Indices: 66769041--66769397 Score: 651
Period size: 93 Copynumber: 3.8 Consensus size: 93
66769031 GCCCATAAGT
* * ** * *
66769041 GAACTCAGACTCAACTCAACGACCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66769106 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
66769134 GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66769199 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
66769227 GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66769292 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
66769320 GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
66769385 CGAGTTCGGATGC
66 CGAGCTCGGATGC
66769398 TCAACCATCC
Statistics
Matches: 257, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 257 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGGCTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:66769154 original size:47 final size:47
Alignment explanation
Indices: 66769087--66769342 Score: 253
Period size: 47 Copynumber: 5.5 Consensus size: 47
66769077 ATCCATAAGT
66769087 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * * *
66769134 GAACTCGGGCTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
66769180 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * * *
66769227 GAACTCGGGCTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
66769273 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
*
66769320 GAACTCGGGCTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
66769343 TTCGAACATT
Statistics
Matches: 166, Mismatches: 25, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
44 4 0.02
45 4 0.02
46 52 0.31
47 74 0.45
48 4 0.02
49 4 0.02
50 8 0.05
51 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:66771609 original size:14 final size:14
Alignment explanation
Indices: 66771590--66771623 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
66771580 AAGTTTTAAA
66771590 GAAATCTCGACACT
1 GAAATCTCGACACT
66771604 GAAATCTCGACACT
1 GAAATCTCGACACT
66771618 GAAATC
1 GAAATC
66771624 CCCACACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (14 bp):
GAAATCTCGACACT
Found at i:66772875 original size:46 final size:46
Alignment explanation
Indices: 66772780--66772991 Score: 198
Period size: 46 Copynumber: 4.6 Consensus size: 46
66772770 CCGTGCTGAC
* * *
66772780 GCATGTCCCAGGCATGTCTTACACTAGC-A-CATCTCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTGGCTATCATCTCG-AGGCCGAT
* *
66772824 GCATGTCCTAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAGGCCGAT
* * *
66772870 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTATCAT-CTCGAGGCCGAT
* * ** * * * *
66772916 ACATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGTCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAGGCCGAT
* *
66772962 GCCATGTCCCATACATGGTCTTACATTGGC
1 G-CATGTCCCAGACAT-GTCTTACACTGGC
66772992 ACACAAATCT
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
44 24 0.17
45 4 0.03
46 84 0.61
47 15 0.11
48 11 0.08
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAGGCCGAT
Found at i:66778805 original size:30 final size:30
Alignment explanation
Indices: 66778771--66778831 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66778761 TCCTTAACTC
66778771 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
66778801 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
66778831 A
1 A
66778832 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:66783824 original size:9 final size:9
Alignment explanation
Indices: 66783812--66783836 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
66783802 ACATAGCTTA
66783812 CATTTTATT
1 CATTTTATT
66783821 CATTTTATT
1 CATTTTATT
66783830 CATTTTA
1 CATTTTA
66783837 GTCCCTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
CATTTTATT
Found at i:66787255 original size:17 final size:17
Alignment explanation
Indices: 66787207--66787255 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 17
66787197 TAAAATTTTA
66787207 AAATTCAAAATATATAA--
1 AAATT-AAAATATA-AACT
66787224 AAATTAAAA-AT-AACT
1 AAATTAAAATATAAACT
66787239 AAATTAAAATATAAACT
1 AAATTAAAATATAAACT
66787256 TACATTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.07
15 11 0.39
16 6 0.21
17 9 0.32
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTAAAATATAAACT
Found at i:66790672 original size:19 final size:19
Alignment explanation
Indices: 66790648--66790700 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
66790638 TATTATATTG
*
66790648 ATATTTTATTATGTGTCAT
1 ATATTTTATTATATGTCAT
* *
66790667 ATATTTTTACTATATGTTAT
1 ATA-TTTTATTATATGTCAT
*
66790687 TTATTTTATTATAT
1 ATATTTTATTATAT
66790701 TTTATATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (19 bp):
ATATTTTATTATATGTCAT
Found at i:66790716 original size:11 final size:10
Alignment explanation
Indices: 66790689--66790741 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
66790679 TATGTTATTT
66790689 ATTTTATTAT-
1 ATTTTA-TATC
66790699 ATTTTATATC
1 ATTTTATATC
66790709 ATTTT-TAT-
1 ATTTTATATC
66790717 ATTTTATATC
1 ATTTTATATC
66790727 ATTTT-TAT-
1 ATTTTATATC
66790735 ATTTTAT
1 ATTTTAT
66790742 CTATCATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 10 0.26
9 13 0.33
10 16 0.41
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTATATC
Found at i:66790748 original size:20 final size:18
Alignment explanation
Indices: 66790695--66790741 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
66790685 ATTTATTTTA
66790695 TTATATTTTATATCATTT
1 TTATATTTTATATCATTT
66790713 TTATATTTTATATCATTT
1 TTATATTTTATATCATTT
66790731 TTATATTTTAT
1 TTATATTTTAT
66790742 CTATCATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATTTTATATCATTT
Found at i:66793066 original size:26 final size:25
Alignment explanation
Indices: 66793031--66793080 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
66793021 ATATATATCA
*
66793031 TAAAATAGCACATAAAAGAAATAAT
1 TAAAATAGCACATAAAAAAAATAAT
*
66793056 TAAACATAGCATATAAAAAAAATAA
1 TAAA-ATAGCACATAAAAAAAATAA
66793081 AACTATGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.66, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAAATAGCACATAAAAAAAATAAT
Found at i:66793621 original size:19 final size:19
Alignment explanation
Indices: 66793586--66793683 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
66793576 AGATTACAAA
*
66793586 ATCATATCTTCAAGATTGCGT
1 ATCATATC-T-AAGATTGCAT
66793607 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
66793626 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
66793643 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
66793662 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
66793681 ATC
1 ATC
66793684 CTTAAAGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:66793649 original size:36 final size:36
Alignment explanation
Indices: 66793586--66793677 Score: 139
Period size: 36 Copynumber: 2.4 Consensus size: 36
66793576 AGATTACAAA
66793586 ATCATATCTTCAAGATTGCGTATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATT--GTATCATATCTAAGATTGCAT
*
66793626 ATCATATCTAAGATTGTATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
66793662 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
66793678 CATATCCTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 36 0.71
38 6 0.12
39 1 0.02
40 8 0.16
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (36 bp):
ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
Found at i:66793823 original size:7 final size:7
Alignment explanation
Indices: 66793806--66793834 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
66793796 TTGAACTTTG
66793806 TTTTA-T
1 TTTTATT
66793812 TTTTATT
1 TTTTATT
66793819 TTTTATT
1 TTTTATT
66793826 TTTTATT
1 TTTTATT
66793833 TT
1 TT
66793835 AGTTTAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:66795078 original size:168 final size:162
Alignment explanation
Indices: 66794798--66795373 Score: 666
Period size: 168 Copynumber: 3.5 Consensus size: 162
66794788 AAAAAAGGAT
* ** *
66794798 TTTTTTTTGTGCTGGCCTGTCAATTCCCGGCACCAGTAATTTTAAAAAAATTCAAATTTTTTTGG
1 TTTTTTTTGTGCTGGCCTATCAATGGCCGGCACCAGT-A-TTAAAAAAAATTCAAATTTTTTTGG
* * * * ** ** *
66794863 TGGTGGTCTGTCAATGGCCGGCACCAGAATACAATTTTTTTAAAAAAAAAATGGTATTGGCTTGT
64 TGCTGGTCTGTCAATGGCCGGCACCAGAATACGA-GTTTTCAAAAAAAATTTGGTGCTGGCCTGT
* *
66794928 CAATAGTCGGCACCAGTAATTTAAAAAAAAATTTTAA
128 CAAT-GCCGGCAACAGTAATTT-AAAAAAAATTTTAA
* * *
66794965 TTTTTTTTGTGCTGGTCTGTCAATGACCGGCACCAGTAATTTAAAAAAAAATTCAAATTTTTTTG
1 TTTTTTTTGTGCTGGCCTATCAATGGCCGGCACCAGT-A-TT-AAAAAAAATTCAAATTTTTTTG
*
66795030 GTGCTGGCCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAAAATTTGGTGCTGGCCTG
63 GTGCTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTTTC-AAAAAAAATTTGGTGCTGGCCTG
* *
66795095 TCAATGGCCGGCAACAATAATTTAAAAAAAA-TTAAA
127 TCAAT-GCCGGCAACAGTAATTTAAAAAAAATTTTAA
* * *
66795131 TTTTTTTGGTGCTGGCCTATCAATGGCTGGCACCAGTATT-AAAAAAA-T--GATTTTTTT-GTG
1 TTTTTTTTGTGCTGGCCTATCAATGGCCGGCACCAGTATTAAAAAAAATTCAAATTTTTTTGGTG
66795191 CTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAAATTTGGTGCTGGCCTGTCAA
66 CTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAAATTTGGTGCTGGCCTGTCAA
*** *
66795256 TGGCTAACATCAGT-A-TT-AAAAAAATTTTGAA
131 T-GCCGGCAACAGTAATTTAAAAAAAATTTT-AA
* * * * *
66795287 TTTTTTTTATGCTGGCCTATCAATGGTCGACACCAGTATTAAAAAAAATTCAAAATTTTTTGGAG
1 TTTTTTTTGTGCTGGCCTATCAATGGCCGGCACCAGTATTAAAAAAAATTCAAATTTTTTTGGTG
* *
66795352 CTGGTTTGTTAATGGCCGGCAC
66 CTGGTCTGTCAATGGCCGGCAC
66795374 TAAATTTGAG
Statistics
Matches: 358, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
154 7 0.02
155 4 0.01
156 38 0.11
157 43 0.12
158 41 0.11
159 8 0.02
160 7 0.02
161 23 0.06
162 7 0.02
164 2 0.01
165 1 0.00
166 36 0.10
167 51 0.14
168 90 0.25
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (162 bp):
TTTTTTTTGTGCTGGCCTATCAATGGCCGGCACCAGTATTAAAAAAAATTCAAATTTTTTTGGTG
CTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAAAATTTGGTGCTGGCCTGTCAA
TGCCGGCAACAGTAATTTAAAAAAAATTTTAA
Found at i:66795203 original size:49 final size:55
Alignment explanation
Indices: 66794798--66795373 Score: 341
Period size: 54 Copynumber: 10.6 Consensus size: 55
66794788 AAAAAAGGAT
* ** *
66794798 TTTTTTTTGTGCTGGCCTGTCAATTCCCGGCACCAGTAATTTTAAAAAAATTCAAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATT-AAA
* * *
66794854 TTTTTTTGGTGGTGGTCTGTCAATGGCCGGCACCAGAATACAATTTTTTTAAAAAAA--AAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAG--T--AA---TTTAAAAAAAATTAAA
** * * * *
66794914 ------TGGTATTGGCTTGTCAATAGTCGGCACCAGTAATTTAAAAAAAAATTTTAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT-AAAAAAAA-TTAAA
* * *
66794965 TTTTTTTTGTGCTGGTCTGTCAATGACCGGCACCAGTAATTTAAAAAAAAATTCAAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTT-AAAAAAAATT-AAA
**
66795022 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACGAGTTTTCAAAAAA--AAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAG--TA--A-TTTAAAAAAAATTAAA
* *
66795080 ----TTTGGTGCTGGCCTGTCAATGGCCGGCAACAATAATTTAAAAAAAATTAAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATTAAA
* * *
66795131 TTTTTTTGGTGCTGGCCTATCAATGGCTGGCACCAGT-A-TT-AAAAAAA-T-GA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATTAAA
* **
66795181 TTTTTTT-GTGCTGGTCTGTCAATGGCCGGCACCAGAATACGAGTTT-TCAAAAA--AAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAG--TA--A-TTTAAAAAAAATTAAA
*** * * *
66795237 ----TTTGGTGCTGGCCTGTCAATGGCTAACATCAGT-A-TTAAAAAAATTTTGAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAA-ATTAAA
** * * *
66795287 TTTTTTTTATGCTGGCCTATCAATGGTCGACACCAGT-A-TTAAAAAAAATTCAAA
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATT-AAA
* * ** *
66795341 ATTTTTTGGAGCTGGTTTGTTAATGGCCGGCAC
1 TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCAC
66795374 TAAATTTGAG
Statistics
Matches: 403, Mismatches: 70, Indels: 96
0.71 0.12 0.17
Matches are distributed among these distances:
46 2 0.00
47 7 0.02
48 8 0.02
49 34 0.08
50 13 0.03
51 8 0.02
52 13 0.03
53 27 0.07
54 117 0.29
55 29 0.07
56 41 0.10
57 72 0.18
58 4 0.01
59 2 0.00
60 5 0.01
61 7 0.02
62 3 0.01
63 11 0.03
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (55 bp):
TTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATTAAA
Found at i:66798851 original size:131 final size:131
Alignment explanation
Indices: 66798688--66798943 Score: 410
Period size: 131 Copynumber: 2.0 Consensus size: 131
66798678 AGTTTAGAAA
* *
66798688 ACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCAC
*
66798753 GATAGGGC-CTGATTCCCCGAATCGCCAAACGTCGAACACTT-CCTTCATTTTAAAGAATTTCTA
66 GATAGGGCAC-GATTCCCCGAATCGCCAAACATCGAACA-TTGCCTTCATTTTAAAGAATTTCTA
66798816 AGG
129 AGG
*
66798819 ACATGAGTGAAATTAC-AAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAATCCAGCA
1 ACATGAGTGAAATT-CTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCA
* *
66798883 CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTT
65 CGATAGGGCACGATTCCCCGAATCGCCAAACATCGAACATTGCCTTCATTTTAAAGAATTT
66798944 TTAAATGAAT
Statistics
Matches: 116, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
130 2 0.02
131 112 0.97
132 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (131 bp):
ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCAC
GATAGGGCACGATTCCCCGAATCGCCAAACATCGAACATTGCCTTCATTTTAAAGAATTTCTAAG
G
Found at i:66800207 original size:130 final size:130
Alignment explanation
Indices: 66800033--66800527 Score: 384
Period size: 130 Copynumber: 3.8 Consensus size: 130
66800023 TTGCCCTCAT
* * *
66800033 TTTAAAGGATTTTTAAAAGAGCCGAGTGAAATTTTGAAGGGATATTTGATTACTTTAAAC-AATC
1 TTTAAGGGA-TTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTTGATTACTTTAAACAAAT-
* * * * * * **
66800097 GAGAAATTGCTACTCAACACGTTAGGGCGCGATCCCACGAAATGCCAAATACCACATATTGCCTT
64 GAGAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATGCCAAACACCAAATATCACCTT
66800162 CG
129 CG
* * * * *
66800164 TTTTAGGGATTTTAAAAGA-CACGAGCGAAATTTTAAAGTGATATTTGATTATTTTGAGCAAATG
1 TTTAAGGGATTTTAAAAGAGC-CGAGCGAAATTTTAAAGGGATATTTGATTACTTTAAACAAATG
* * * * * * *
66800228 CGAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCAAACATCAAATCTCATCTTC
65 AGAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATGCCAAACACCAAATATCACCTTC
66800293 G
130 G
*** *** ** * * * * * *
66800294 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGC
1 TTTAAGGGATTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTTGATTACTTTAAACAAATGA
* * * * ** * * *
66800359 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCTGAACATCAAATCTCATCTTCG
66 GAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATGCCAAACACCAAATATCACCTTCG
*** *** ** * * * *
66800424 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTA-TCTTGAGCAAATG
1 TTTAAGGGATTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTTGATTACT-TTAAACAAATG
* * *
66800488 TGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAA
65 AGAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAA
66800528 TTGTCGAACA
Statistics
Matches: 321, Mismatches: 39, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
129 2 0.01
130 309 0.96
131 10 0.03
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (130 bp):
TTTAAGGGATTTTAAAAGAGCCGAGCGAAATTTTAAAGGGATATTTGATTACTTTAAACAAATGA
GAAATTGCAACCCAACACGTTAAGGCACGATCCCACGAAATGCCAAACACCAAATATCACCTTCG
Found at i:66800556 original size:130 final size:130
Alignment explanation
Indices: 66800099--66800543 Score: 602
Period size: 130 Copynumber: 3.4 Consensus size: 130
66800089 AAACAATCGA
* * * * * * * * * ***
66800099 GAAATTGCTACTCAACACGTTAGGGCGCGATCCCACGAAATGCCAAATACCACATATTGCCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
* * * *** ** * * *
66800164 TTTTAGGGATTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTTGATTATTTTGAGCAAATGC
66 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGC
* *
66800229 GAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCAAACATCAAATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
66800294 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGC
66 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGC
* **
66800359 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCTGAACATCAAATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
* *
66800424 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATCTTGAGCAAATGT
66 TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGC
* *
66800489 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGTCGAACATCAAAT
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAAT
66800544 TTTGTCTTCG
Statistics
Matches: 282, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 282 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (130 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAACATCAAATCTCATCTTCG
TTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGC
Found at i:66801142 original size:17 final size:18
Alignment explanation
Indices: 66801108--66801155 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 18
66801098 AAAAGTTAAC
66801108 AAAATATATGATAGTACAAA
1 AAAATATATG--AGTACAAA
66801128 AAAATATATGA-TACAAA
1 AAAATATATGAGTACAAA
66801145 AAAATATATGA
1 AAAATATATGA
66801156 CAAAAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.61
18 1 0.04
20 10 0.36
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (18 bp):
AAAATATATGAGTACAAA
Found at i:66804048 original size:44 final size:43
Alignment explanation
Indices: 66803986--66804576 Score: 244
Period size: 44 Copynumber: 13.4 Consensus size: 43
66803976 GTCGTCTTCG
*
66803986 ATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGAT-TATAATTTCA
* * * * * * * * *
66804030 ACCTACTCCACTACAACTTTAGGG-AGCTAGGTTAGTAACTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGATTA-TAATTTCA
* * * * ** *
66804073 ATCTGCTTCGCTGCAACTTCA-GGAAGTCAAGATTCATTGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAA-ACGAGATT-ATAAT-TTCA
* *
66804118 ATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGAT-TATAATTTCA
* * * * * * * * *
66804162 ACCTACTCCACTACAACTTTAGGG-AGCTAGGTTAGTAACTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGATTA-TAATTTCA
* * * * ** *
66804205 ATCTGCTTCGCTGCAACTTCA-GGAAGTCAAGATTCATTGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAA-ACGAGATT-ATAAT-TTCA
* *
66804250 ATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGAT-TATAATTTCA
* * * * * * * * *
66804294 ACCTACTCCACTACAACTTTAGGG-AGCTAGGTTAGTAACTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGATTA-TAATTTCA
* * * * ** *
66804337 ATCTGCTTCGCTGCAACTTCA-GGAAGTCAAGATTCATTGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAA-ACGAGATT-ATAAT-TTCA
* *
66804382 ATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGAT-TATAATTTCA
* * * * * * * * *
66804426 ACCTACTCCACTACAACTTTAGGG-AGCTAGGTTAGTAACTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGATTA-TAATTTCA
* * * * ** *
66804469 ATCTGCTTCGCTGCAACTTCA-GGAAGTCAAGATTCATTGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAA-ACGAGATT-ATAAT-TTCA
* * *
66804514 ATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAAACGAGAT-TATAATTTCA
* * *
66804558 ACCTACTCCACTACAACTT
1 ATCTGCTCCACTGCAACTT
66804577 TAAGGAGCTA
Statistics
Matches: 379, Mismatches: 140, Indels: 56
0.66 0.24 0.10
Matches are distributed among these distances:
42 16 0.04
43 104 0.27
44 127 0.34
45 112 0.30
46 20 0.05
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAAACGAGATTATAATTTCA
Found at i:66804090 original size:87 final size:86
Alignment explanation
Indices: 66803986--66804623 Score: 230
Period size: 87 Copynumber: 7.3 Consensus size: 86
66803976 GTCGTCTTCG
* *
66803986 ATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTA
1 ATCTGCTTCACTGCAACTTCAGGGAAACGAGAT-TAAAATTTCAACCTACTCCACTACAACTTCA
*
66804051 GGGAGCTAGGTTAGTAACTTAA
65 GGGAGCTAGATTAGTAACTTAA
* * * *** * * ** *
66804073 ATCTGCTTCGCTGCAACTTCA-GGAAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTT
1 ATCTGCTTCACTGCAACTTCAGGGAA-ACGAGATT-AAAAT-TTCAACCTACTCCACTACAACTT
* * * * *
66804137 CAGGGAAACGAGATCTA-AAATTTCA
63 CAGGG-AGCTAGAT-TAGTAACTTAA
* * * * * * * * * * * * * * * *
66804162 ACCTACTCCACTACAACTTTAGGG-AGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCA
1 ATCTGCTTCACTGCAACTTCAGGGAAACGAGATTA-AAATTTCAACCTACTCCACTACAACTTCA
* * * ** **
66804226 GGAAGTCAAGATTCATTGTCTTCG
65 GGGAG-CTAGATT-AGTAACTTAA
*
66804250 ATCTG-TTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTCAACCTACTCCACTACAACTTT
1 ATCTGCTT-CACTGCAACTTCAGGGAAACGAGAT-TAAAATTTCAACCTACTCCACTACAACTTC
*
66804314 AGGGAGCTAGGTTAGTAACTTAA
64 AGGGAGCTAGATTAGTAACTTAA
* * * *** * * ** *
66804337 ATCTGCTTCGCTGCAACTTCA-GGAAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTT
1 ATCTGCTTCACTGCAACTTCAGGGAA-ACGAGATT-AAAAT-TTCAACCTACTCCACTACAACTT
* * * * *
66804401 CAGGGAAACGAGATCTA-AAATTTCA
63 CAGGG-AGCTAGAT-TAGTAACTTAA
* * * * * * * * * * * * * * * *
66804426 ACCTACTCCACTACAACTTTAGGG-AGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCA
1 ATCTGCTTCACTGCAACTTCAGGGAAACGAGATTA-AAATTTCAACCTACTCCACTACAACTTCA
* * * ** **
66804490 GGAAGTCAAGATTCATTGTCTTCG
65 GGGAG-CTAGATT-AGTAACTTAA
* *
66804514 ATCTG-TTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTTAACCTACTCCACTACAACTTT
1 ATCTGCTT-CACTGCAACTTCAGGGAAACGAGAT-TAAAATTTCAACCTACTCCACTACAACTTC
* * *
66804578 AAGGAGCTAGGTTAGTGACTTAA
64 AGGGAGCTAGATTAGTAACTTAA
*
66804601 ATCTGCTTCGCTGCAACTTCAGG
1 ATCTGCTTCACTGCAACTTCAGG
66804624 AAGTCAAGAT
Statistics
Matches: 385, Mismatches: 138, Indels: 56
0.66 0.24 0.10
Matches are distributed among these distances:
86 14 0.04
87 140 0.36
88 110 0.29
89 109 0.28
90 12 0.03
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (86 bp):
ATCTGCTTCACTGCAACTTCAGGGAAACGAGATTAAAATTTCAACCTACTCCACTACAACTTCAG
GGAGCTAGATTAGTAACTTAA
Found at i:66804137 original size:45 final size:45
Alignment explanation
Indices: 66804083--66804536 Score: 197
Period size: 45 Copynumber: 10.3 Consensus size: 45
66804073 ATCTGCTTCG
* *
66804083 CTGCAACTTCAGGAAGTCAAGATTCATTGTCTTCGATCTGTTCCA
1 CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTGTTCCA
* * ** * **
66804128 CTGCAACTTCAGGGAA-ACGAGA-TCTAAAAT-TTCAACCTACTCCA
1 CTGCAACTTCA-GGAAGTCAAGATTC-ATTATCTTCAATCTGTTCCA
* * * * * * * * *
66804172 CTACAACTTTAGGGAG-CTAGGTT-AGTAACTTAAATCTGCTT-CG
1 CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTG-TTCCA
* *
66804215 CTGCAACTTCAGGAAGTCAAGATTCATTGTCTTCGATCTGTTCCA
1 CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTGTTCCA
* * ** * **
66804260 CTGCAACTTCAGGGAA-ACGAGA-TCTAAAAT-TTCAACCTACTCCA
1 CTGCAACTTCA-GGAAGTCAAGATTC-ATTATCTTCAATCTGTTCCA
* * * * * * * * *
66804304 CTACAACTTTAGGGAG-CTAGGTT-AGTAACTTAAATCTGCTT-CG
1 CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTG-TTCCA
* *
66804347 CTGCAACTTCAGGAAGTCAAGATTCATTGTCTTCGATCTGTTCCA
1 CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTGTTCCA
* * ** * **
66804392 CTGCAACTTCAGGGAA-ACGAGA-TCTAAAAT-TTCAACCTACTCCA
1 CTGCAACTTCA-GGAAGTCAAGATTC-ATTATCTTCAATCTGTTCCA
* * * * * * * * *
66804436 CTACAACTTTAGGGAG-CTAGGTT-AGTAACTTAAATCTGCTT-CG
1 CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTG-TTCCA
* *
66804479 CTGCAACTTCAGGAAGTCAAGATTCATTGTCTTCGATCTGTTCCA
1 CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTGTTCCA
66804524 CTGCAACTTCAGG
1 CTGCAACTTCAGG
66804537 GAAACGAGAT
Statistics
Matches: 283, Mismatches: 99, Indels: 54
0.65 0.23 0.12
Matches are distributed among these distances:
42 6 0.02
43 78 0.28
44 90 0.32
45 97 0.34
46 12 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
CTGCAACTTCAGGAAGTCAAGATTCATTATCTTCAATCTGTTCCA
Found at i:66804704 original size:132 final size:132
Alignment explanation
Indices: 66803500--66804671 Score: 1796
Period size: 132 Copynumber: 8.9 Consensus size: 132
66803490 CAATCGTCAG
** * * * * *
66803500 CCTACTCCACTACAACTTTAGGGAGCTAGGGCAAT-AGTCTAAATCTACTTCACTGCAACATCAG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACT-TAAATCTGCTTCGCTGCAACTTCAG
* * ** * * * * * *
66803564 GAAGCCTAGATTCACCGTCTTTGATCTGTTCCACTGCAA-TCCCAGGGAAACAAAATCTATATTT
65 GAAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACT-TCAGGGAAACGAGATCTAAAATT
*
66803628 CTCAG
129 -TCAA
*
66803633 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTCCGCTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
* * * * * * *
66803698 AAGTCAAGATTCGTTGTCTTTGATCTGTTCCACTGCAA-TCCCAGGGAAACAAAATCTATATTTC
66 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACT-TCAGGGAAACGAGATCTAAAATT-
*
66803762 TCAG
129 TCAA
*
66803766 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTCCGCTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
* * * * * * *
66803831 AAGTCAAGATTCGTTGTCTTTGATCTGTTCCACTGCAA-TCCCAGGGAAACAAAATCTATATTTC
66 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACT-TCAGGGAAACGAGATCTAAAATT-
*
66803895 TCAG
129 TCAA
* * *
66803899 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAAG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
* * * *
66803964 AAGTTAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66804029 AA
131 AA
66804031 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
66804096 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66804161 AA
131 AA
66804163 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
66804228 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66804293 AA
131 AA
66804295 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
66804360 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66804425 AA
131 AA
66804427 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
*
66804492 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTT
66 AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
66804557 AA
131 AA
* *
66804559 CCTACTCCACTACAACTTTAAGGAGCTAGGTTAGTGACTTAAATCTGCTTCGCTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
** *
66804624 AAGTCAAGATTTGTCGTCTTCGATCTGCTT-CACTGCAACTTCAGGGAA
66 AAGTCAAGATTCATTGTCTTCGATCTG-TTCCACTGCAACTTCAGGGAA
66804672 GCAGCATCTT
Statistics
Matches: 996, Mismatches: 40, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
132 628 0.63
133 365 0.37
134 3 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTAACTTAAATCTGCTTCGCTGCAACTTCAGG
AAGTCAAGATTCATTGTCTTCGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTTC
AA
Found at i:66816642 original size:130 final size:129
Alignment explanation
Indices: 66816508--66816905 Score: 562
Period size: 130 Copynumber: 3.1 Consensus size: 129
66816498 CACATATCGC
* * * *** * *
66816508 CTTCGTTTTAGGGATTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTCGATTATTTTGAGCA
1 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAG-GAAATTCGATTATTTTGAGCA
* * * *
66816573 AATACAAAATTGCAACCCAACACGTTAAAGCACGATTCCGCGAATTACCAAACATCAAATCTCAT
65 AATGCAAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCGAACATCAAATCTCAT
*
66816638 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGAAAATTCAATTATTTTGAGCA
1 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGG-AAATTCGATTATTTTGAGCA
* ** * *
66816703 AATGCGAAATTATAACCCAACACGTTACGGCACGATTCCACGAATTGCCGAACATCAAATCTCAT
65 AATGCAAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCGAACATCAAATCTCAT
* * *
66816768 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCGAAGGGAAATTAGATTATCTTGAGCA
1 CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTC-AAAGGAAATTCGATTATTTTGAGCA
* *
66816833 AATGCAAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCGAACATCAAATTTCGT
65 AATGCAAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCGAACATCAAATCTCAT
66816898 CTTCGTTT
1 CTTCGTTT
66816906 TGAAGAATTT
Statistics
Matches: 237, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
129 1 0.00
130 232 0.98
131 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (129 bp):
CTTCGTTTAAGGGATTTTAAAAGATATGAATAAAATTTCAAAGGAAATTCGATTATTTTGAGCAA
ATGCAAAATTGCAACCCAACACGTTAAGGCACGATTCCGCGAATTGCCGAACATCAAATCTCAT
Found at i:66817482 original size:20 final size:18
Alignment explanation
Indices: 66817457--66817504 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
66817447 AAAAGTTAAC
*
66817457 AAAATATATGATAGTACAAA
1 AAAATATATGA-A-CACAAA
66817477 AAAATATATG-ACACAAA
1 AAAATATATGAACACAAA
66817494 AAAATATATGA
1 AAAATATATGA
66817505 CAAAAACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 15 0.58
18 1 0.04
20 10 0.38
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAATATATGAACACAAA
Found at i:66817492 original size:17 final size:17
Alignment explanation
Indices: 66817472--66817510 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
66817462 ATATGATAGT
66817472 ACAAAAAAATATATGAC
1 ACAAAAAAATATATGAC
66817489 ACAAAAAAATATATGAC
1 ACAAAAAAATATATGAC
66817506 A-AAAA
1 ACAAAA
66817511 CATGAGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (17 bp):
ACAAAAAAATATATGAC
Found at i:66820797 original size:6 final size:7
Alignment explanation
Indices: 66820770--66820796 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
66820760 AAGAAAAGGG
66820770 GAAAAAA
1 GAAAAAA
66820777 GAAAAAA
1 GAAAAAA
66820784 GAAAAAA
1 GAAAAAA
66820791 GAAAAA
1 GAAAAA
66820797 GGATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:66821348 original size:22 final size:23
Alignment explanation
Indices: 66821313--66821362 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
66821303 TAAATGAAAT
**
66821313 AAAATTAGATAAATTGTATGAGAA
1 AAAATTAGATAAATTACATG-GAA
66821337 AAAATT-GA-AAATTACATGGAA
1 AAAATTAGATAAATTACATGGAA
66821358 AAAAT
1 AAAAT
66821363 GATAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 8 0.33
23 2 0.08
24 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.14, T:0.26
Consensus pattern (23 bp):
AAAATTAGATAAATTACATGGAA
Found at i:66821385 original size:27 final size:26
Alignment explanation
Indices: 66821355--66821570 Score: 82
Period size: 27 Copynumber: 8.5 Consensus size: 26
66821345 AAATTACATG
66821355 GAAAAAATGATAATTTAAATGAAATGA
1 GAAAAAA-GATAATTTAAATGAAATGA
* *
66821382 GAAAAAA-ATAAATTGAAATGAAACG-
1 GAAAAAAGAT-AATTTAAATGAAATGA
* *
66821407 G--TACA-A-AATTTAAATGAAAATTGA
1 GAAAAAAGATAATTTAAATG-AAA-TGA
*
66821431 -AAGAAAGATAAATTTAAATGAAATGA
1 GAAAAAAGAT-AATTTAAATGAAATGA
*** * *
66821457 GGAAAAATTTTAATTGAAATGAAATAA
1 -GAAAAAAGATAATTTAAATGAAATGA
* *
66821484 GAAAAAA-ATGAAATTAAAT---TTGA
1 GAAAAAAGAT-AATTTAAATGAAATGA
* *
66821507 -AAGAAAGATAAATTTAAATGAAATGG
1 GAAAAAAGAT-AATTTAAATGAAATGA
****
66821533 GAGAAACTTTTAATTTAAAT-AAGATGA
1 GA-AAAAAGATAATTTAAATGAA-ATGA
66821560 GAAAAAA-ATAA
1 GAAAAAAGATAA
66821571 ATGGAAAGAT
Statistics
Matches: 136, Mismatches: 34, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
21 9 0.07
22 8 0.06
23 16 0.12
25 9 0.07
26 37 0.27
27 39 0.29
28 18 0.13
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (26 bp):
GAAAAAAGATAATTTAAATGAAATGA
Found at i:66821449 original size:22 final size:23
Alignment explanation
Indices: 66821424--66821480 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
66821414 ATTTAAATGA
*
66821424 AAATTGAAA-GAAAGATAAATTT
1 AAATTGAAATGAAAGAAAAATTT
*
66821446 AAA-TGAAATG-AGGAAAAATTT
1 AAATTGAAATGAAAGAAAAATTT
*
66821467 TAATTGAAATGAAA
1 AAATTGAAATGAAA
66821481 TAAGAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 16 0.57
22 11 0.39
23 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (23 bp):
AAATTGAAATGAAAGAAAAATTT
Found at i:66821464 original size:49 final size:48
Alignment explanation
Indices: 66821366--66821475 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 48
66821356 AAAAAATGAT
*
66821366 AATTTAAATG-AAATGAGAAAAAAATAAATTGAAATGAAACGGTACAA
1 AATTTAAATGAAAATGAGAAAAAAATAAATTGAAATGAAACGGGACAA
* * *
66821413 AATTTAAATGAAAATTGA-AAGAAAGATAAATTTAAATGAAATGAGGA-AA
1 AATTTAAATGAAAA-TGAGAA-AAAAATAAATTGAAATGAAACG-GGACAA
*
66821462 AATTTTAATTGAAA
1 AA-TTTAAATGAAA
66821476 TGAAATAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
47 10 0.19
48 5 0.09
49 26 0.49
50 12 0.23
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (48 bp):
AATTTAAATGAAAATGAGAAAAAAATAAATTGAAATGAAACGGGACAA
Found at i:66821510 original size:76 final size:75
Alignment explanation
Indices: 66821333--66821572 Score: 233
Period size: 76 Copynumber: 3.2 Consensus size: 75
66821323 AAATTGTATG
* * * ** *
66821333 AGAAAAAATTGAAAATTACATGGAAA-AAATGAT-AATTTAAATGAAATGA-GAAAAAAATAAAT
1 AGAAAAAAATG-AAATTAAATTGAAAGAAA-GATAAATTTAAATGAAATGAGGAAAAATTTTAAT
*
66821395 TGAAATGAAA-C
64 TGAAATGAAATA
* * * * *
66821406 GGTACAAAATTTAAATGAAAATTGAAAGAAAGATAAATTTAAATGAAATGAGGAAAAATTTTAAT
1 AG-AAAAAAATGAAAT-TAAATTGAAAGAAAGATAAATTTAAATGAAATGAGGAAAAATTTTAAT
66821471 TGAAATGAAATA
64 TGAAATGAAATA
*
66821483 AGAAAAAAATGAAATTAAATTTGAAAGAAAGATAAATTTAAATGAAATG-GGAGAAACTTTTAAT
1 AGAAAAAAATGAAATTAAA-TTGAAAGAAAGATAAATTTAAATGAAATGAGGA-AAAATTTTAAT
* *
66821547 TTAAAT-AAGATG
64 TGAAATGAA-ATA
66821559 AGAAAAAAAT-AAAT
1 AGAAAAAAATGAAAT
66821573 GGAAAGATAG
Statistics
Matches: 140, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
73 5 0.04
74 17 0.12
75 31 0.22
76 86 0.61
77 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.25
Consensus pattern (75 bp):
AGAAAAAAATGAAATTAAATTGAAAGAAAGATAAATTTAAATGAAATGAGGAAAAATTTTAATTG
AAATGAAATA
Found at i:66821529 original size:17 final size:17
Alignment explanation
Indices: 66821489--66821529 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
66821479 AATAAGAAAA
*
66821489 AAATGAAATTAAATTTG
1 AAATGAAAATAAATTTG
66821506 AAA-GAAAGATAAATTT-
1 AAATGAAA-ATAAATTTG
66821522 AAATGAAA
1 AAATGAAA
66821530 TGGGAGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (17 bp):
AAATGAAAATAAATTTG
Found at i:66821691 original size:22 final size:21
Alignment explanation
Indices: 66821666--66821732 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
66821656 AATTAAAATT
*
66821666 AAAATAATATAAATGAATTGA
1 AAAAAAATATAAATGAATTGA
* *
66821687 GAAAAAAATA-AATTTAAATTGAA
1 -AAAAAAATATAA-ATGAATTG-A
* *
66821710 AAAAAAATTTAAATGAAATGA
1 AAAAAAATATAAATGAATTGA
66821731 AA
1 AA
66821733 TTAGAATGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
21 5 0.14
22 27 0.77
23 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (21 bp):
AAAAAAATATAAATGAATTGA
Found at i:66821717 original size:18 final size:18
Alignment explanation
Indices: 66821689--66821727 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
66821679 TGAATTGAGA
66821689 AAAAAATAAATTTAAATTG
1 AAAAAATAAATTTAAA-TG
66821708 AAAAAA-AAATTTAAATG
1 AAAAAATAAATTTAAATG
66821725 AAA
1 AAA
66821728 TGAAATTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAATAAATTTAAATG
Found at i:66821740 original size:16 final size:15
Alignment explanation
Indices: 66821721--66821796 Score: 73
Period size: 16 Copynumber: 4.8 Consensus size: 15
66821711 AAAAAATTTA
66821721 AATGAAATGAAATTAG
1 AATGAAATGAAATT-G
*
66821737 AATGAAATGAAGTTG
1 AATGAAATGAAATTG
*
66821752 AAATGAAAT-AAAATG
1 -AATGAAATGAAATTG
*
66821767 AAAATGAAATGAAAATG
1 --AATGAAATGAAATTG
66821784 AATAGAAATGAAA
1 AAT-GAAATGAAA
66821797 AAAAAAGTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
15 8 0.15
16 39 0.74
17 6 0.11
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (15 bp):
AATGAAATGAAATTG
Found at i:66821745 original size:21 final size:20
Alignment explanation
Indices: 66821720--66821796 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 20
66821710 AAAAAAATTT
*
66821720 AAATGAAATGAAATTAGAATG
1 AAATGAAATGAAATGA-AATG
* *
66821741 AAATGAAGTTGAAATGAAATA
1 AAATGAA-ATGAAATGAAATG
66821762 AAATGAAAATGAAATGAAAATG
1 AAATG-AAATGAAATG-AAATG
66821784 -AATAGAAATGAAA
1 AAAT-GAAATGAAA
66821797 AAAAAAGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
21 33 0.70
22 14 0.30
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (20 bp):
AAATGAAATGAAATGAAATG
Found at i:66821791 original size:11 final size:11
Alignment explanation
Indices: 66821720--66821785 Score: 73
Period size: 11 Copynumber: 6.2 Consensus size: 11
66821710 AAAAAAATTT
66821720 AAATG-AAATG
1 AAATGAAAATG
* *
66821730 AAATTAGAATG
1 AAATGAAAATG
**
66821741 AAATGAAGTTG
1 AAATGAAAATG
*
66821752 AAATG-AAATA
1 AAATGAAAATG
66821762 AAATGAAAATG
1 AAATGAAAATG
66821773 AAATGAAAATG
1 AAATGAAAATG
66821784 AA
1 AA
66821786 TAGAAATGAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
10 11 0.25
11 33 0.75
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (11 bp):
AAATGAAAATG
Found at i:66822095 original size:18 final size:17
Alignment explanation
Indices: 66822071--66822121 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 17
66822061 GACCACTTCT
66822071 AATTAATTTGAAAAAAA
1 AATTAATTTGAAAAAAA
*
66822088 ATATTAATATGAAAAAAA
1 A-ATTAATTTGAAAAAAA
*
66822106 AATGAA-TTGAAAAAAA
1 AATTAATTTGAAAAAAA
66822122 TAATATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
AATTAATTTGAAAAAAA
Found at i:66822118 original size:14 final size:13
Alignment explanation
Indices: 66822101--66822225 Score: 68
Period size: 14 Copynumber: 9.2 Consensus size: 13
66822091 TTAATATGAA
66822101 AAAAAAATGAATTG
1 AAAAAAAT-AATTG
66822115 AAAAAAATAATATG
1 AAAAAAATAAT-TG
*
66822129 AAAATAAT-A-TG
1 AAAAAAATAATTG
66822140 AAAAAAAATAA-T-
1 -AAAAAAATAATTG
66822152 ATAAAAAATAATATG
1 A-AAAAAATAAT-TG
66822167 AAAAGAAAATAATAATATG
1 ---A-AAAA-AATAAT-TG
66822186 AAAAAAATAATATG
1 AAAAAAATAAT-TG
66822200 ----AAATGAATTG
1 AAAAAAAT-AATTG
66822210 AAAAAAATAATTG
1 AAAAAAATAATTG
66822223 AAA
1 AAA
66822226 TGAAATAAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 33
0.72 0.02 0.26
Matches are distributed among these distances:
10 6 0.07
11 6 0.07
12 16 0.17
13 14 0.15
14 31 0.34
15 4 0.04
16 1 0.01
18 5 0.05
19 9 0.10
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (13 bp):
AAAAAAATAATTG
Found at i:66822132 original size:11 final size:11
Alignment explanation
Indices: 66822118--66822143 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66822108 TGAATTGAAA
66822118 AAAATAATATG
1 AAAATAATATG
66822129 AAAATAATATG
1 AAAATAATATG
66822140 AAAA
1 AAAA
66822144 AAAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAATAATATG
Found at i:66822132 original size:12 final size:12
Alignment explanation
Indices: 66822117--66822170 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
66822107 ATGAATTGAA
66822117 AAAAATAATATG
1 AAAAATAATATG
66822129 -AAAATAATATG
1 AAAAATAATATG
*
66822140 AAAAAAAATAATATA
1 ---AAAAATAATATG
66822155 AAAAATAATATG
1 AAAAATAATATG
66822167 AAAA
1 AAAA
66822171 GAAAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 11 0.31
12 15 0.42
15 10 0.28
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (12 bp):
AAAAATAATATG
Found at i:66822132 original size:27 final size:27
Alignment explanation
Indices: 66822102--66822180 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
66822092 TAATATGAAA
66822102 AAAAAATGAAT-TG-AAAAAAATAATAT
1 AAAAAAT-AATATGAAAAAAAATAATAT
*
66822128 -GAAAATAATATGAAAAAAAATAATAT
1 AAAAAATAATATGAAAAAAAATAATAT
66822154 AAAAAATAATATGAAAAGAAAATAATA
1 AAAAAATAATATGAAAA-AAAATAATA
66822181 ATATGAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.06
25 7 0.15
26 13 0.28
27 15 0.32
28 9 0.19
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (27 bp):
AAAAAATAATATGAAAAAAAATAATAT
Found at i:66822158 original size:38 final size:40
Alignment explanation
Indices: 66822092--66822170 Score: 119
Period size: 38 Copynumber: 2.0 Consensus size: 40
66822082 AAAAAAATAT
66822092 TAATATGAAAAAAAAATGAATTGAAAAAAATAATATGAAAA
1 TAATATGAAAAAAAAATGAATT-AAAAAAATAATATGAAAA
66822133 TAATATG-AAAAAAAAT-AA-TATAAAAAATAATATGAAAA
1 TAATATGAAAAAAAAATGAATTA-AAAAAATAATATGAAAA
66822171 GAAAATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
37 1 0.03
38 18 0.49
39 2 0.05
40 9 0.24
41 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.23
Consensus pattern (40 bp):
TAATATGAAAAAAAAATGAATTAAAAAAATAATATGAAAA
Found at i:66822206 original size:38 final size:38
Alignment explanation
Indices: 66822101--66822253 Score: 92
Period size: 38 Copynumber: 4.1 Consensus size: 38
66822091 TTAATATGAA
* *
66822101 AAAAAAATGAATTGAAA-AAAATAATATGAAAAT-AATATG
1 AAAAAAAT-AATTGAAATAAAATAAAATG-AAATGAA-AAG
*
66822140 -AAAAAA-AA-T--AATATAA-AAAAT-AATATGAAAAG
1 AAAAAAATAATTGAAATAAAATAAAATGAA-ATGAAAAG
* * **
66822172 AAAATAATAATATGAAA-AAAATAATATGAAATGAATTG
1 AAAAAAATAAT-TGAAATAAAATAAAATGAAATGAAAAG
* * *
66822210 AAAAAAATAATTGAAATGAAATAAAATTAAATTAAAATG
1 AAAAAAATAATTGAAATAAAATAAAATGAAATGAAAA-G
66822249 AAAAA
1 AAAAA
66822254 TAAAAGGGTT
Statistics
Matches: 86, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
31 2 0.02
32 4 0.05
33 13 0.15
34 5 0.06
35 1 0.01
36 3 0.03
37 8 0.09
38 42 0.49
39 8 0.09
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (38 bp):
AAAAAAATAATTGAAATAAAATAAAATGAAATGAAAAG
Found at i:66822241 original size:24 final size:24
Alignment explanation
Indices: 66822105--66822235 Score: 93
Period size: 24 Copynumber: 5.6 Consensus size: 24
66822095 TATGAAAAAA
*
66822105 AAATGAATTGAAAAAAATAATATG
1 AAATGAAATGAAAAAAATAATATG
66822129 AAAAT-AATATGAAAAAAAATAATAT-
1 -AAATGAA-ATG-AAAAAAATAATATG
* *
66822154 AAA--AAAT-AATATGAAAAGAAAAT-
1 AAATGAAATGAA-A--AAAATAATATG
66822177 -AAT-AATATGAAAAAAATAATATG
1 AAATGAA-ATGAAAAAAATAATATG
*
66822200 AAATGAATTGAAAAAAATAAT-TG
1 AAATGAAATGAAAAAAATAATATG
66822223 AAATGAAAT-AAAA
1 AAATGAAATGAAAA
66822236 TTAAATTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 25
0.73 0.06 0.21
Matches are distributed among these distances:
20 2 0.02
21 1 0.01
22 16 0.18
23 22 0.25
24 24 0.27
25 10 0.11
26 13 0.15
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (24 bp):
AAATGAAATGAAAAAAATAATATG
Found at i:66822242 original size:21 final size:21
Alignment explanation
Indices: 66822190--66822251 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
66822180 AATATGAAAA
* * *
66822190 AAATAATATGAAA-TGAATTG
1 AAATAAAATTAAATTGAAATG
66822210 AAA-AAAA-T-AATTGAAATG
1 AAATAAAATTAAATTGAAATG
*
66822228 AAATAAAATTAAATTAAAATG
1 AAATAAAATTAAATTGAAATG
66822249 AAA
1 AAA
66822252 AATAAAAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 2 0.06
18 9 0.26
19 7 0.21
20 4 0.12
21 12 0.35
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (21 bp):
AAATAAAATTAAATTGAAATG
Found at i:66825993 original size:45 final size:45
Alignment explanation
Indices: 66825938--66826256 Score: 304
Period size: 45 Copynumber: 7.1 Consensus size: 45
66825928 GGAAGGCGAT
* * * *
66825938 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
66825983 ATCTGTTATCTTCAATCTGCTTCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * **
66826028 ATCTGCT-TCTTCAATCTGCTCCTTGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * **
66826072 ATCTGTTATCTCCGATTTGCTCTTCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
66826117 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
66826162 ATCTATCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * * *
66826207 ATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAAAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
66826254 ATC
1 ATC
66826257 ATCTTGGATC
Statistics
Matches: 228, Mismatches: 37, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.03
44 44 0.19
45 146 0.64
46 1 0.00
47 20 0.09
48 5 0.02
49 6 0.03
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:66826057 original size:89 final size:91
Alignment explanation
Indices: 66825938--66826184 Score: 302
Period size: 89 Copynumber: 2.7 Consensus size: 91
66825928 GGAAGGCGAT
*** * * *
66825938 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTCAATCTGC
1 ATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
66826003 TTC-CCGTCTAATACAGAGACGCCAA
66 TTCTCCGTCTAATACAGAGACGCCAA
* ** * *
66826028 ATCTGCT-TCTTCAATCTGCTCCTTGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
* *
66826092 -TCTTCGTCTAATACAGAGATGCCAA
66 TTCTCCGTCTAATACAGAGACGCCAA
* * * * * *
66826117 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTATCATCTTGGATCTGC
1 ATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
66826182 TTC
66 TTC
66826185 GATGTAAACA
Statistics
Matches: 132, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
88 2 0.02
89 74 0.56
90 54 0.41
91 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (91 bp):
ATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
TTCTCCGTCTAATACAGAGACGCCAA
Found at i:66826459 original size:234 final size:234
Alignment explanation
Indices: 66826196--66826617 Score: 695
Period size: 234 Copynumber: 1.8 Consensus size: 234
66826186 ATGTAAACAC
*
66826196 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTC-CTCGTCTAATATAAAGATGCCAAATCATC
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCTC-CGTCGAATATAAAGATGCCAAATCATC
* * *
66826260 TTGGATCTGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGA
65 TTGAATCTGCTTCAATGAAAGT-CAGATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGA
* *
66826324 GATACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCTATCTGCTCCC
129 GATACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
66826389 CGTCTAATACAGAGATGCTAAATCATCTTGGATCTGCTTCA
194 CGTCTAATACAGAGATGCTAAATCATCTTGGATCTGCTTCA
* **
66826430 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAAAGATGCCAAATCATCT
*
66826495 TGAATCTGCTTCAATGAAAGTCAGATCTGTTGTGTCTTCGATCTGCTCCCTGTCTAATACAGAGA
66 TGAATCTGCTTCAATGAAAGTCAGATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGA
* * *
66826560 TGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTG
131 TACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTG
66826618 TTCTCCGTTG
Statistics
Matches: 173, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
233 2 0.01
234 170 0.98
235 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (234 bp):
ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAAAGATGCCAAATCATCT
TGAATCTGCTTCAATGAAAGTCAGATCTGTTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGA
TACCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
TCTAATACAGAGATGCTAAATCATCTTGGATCTGCTTCA
Found at i:66826638 original size:78 final size:77
Alignment explanation
Indices: 66826196--66826646 Score: 627
Period size: 78 Copynumber: 5.8 Consensus size: 77
66826186 ATGTAAACAC
* * *
66826196 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCTCGTCTAATATAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC-CGTCTAATACAGAGATGCCAAATCATCT
66826261 TGGATCTGCTTCA
65 TGGATCTGCTTCA
* * *
66826274 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGATACCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAAATCATC
66826338 TTGGATCTGCTTCA
64 TTGGATCTGCTTCA
* * * *
66826352 ATAAAGGTCAGATCTGCTGTGTCTTCTATCTGCTCCCCGTCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCT
66826417 TGGATCTGCTTCA
65 TGGATCTGCTTCA
* **
66826430 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAAATCATCT
*
66826495 TGAATCTGCTTCA
65 TGGATCTGCTTCA
* * *
66826508 ATGAAAGTCAGATCTGTTGTGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAAATCATCT
*
66826573 TGGATTTGCTTCA
65 TGGATCTGCTTCA
* **
66826586 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTCTCCGT-TGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCT-AATACAGAGATGCCAAATC
66826647 TGTTTCTTCG
Statistics
Matches: 331, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
77 7 0.02
78 317 0.96
79 7 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (77 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCA
Found at i:66835576 original size:47 final size:49
Alignment explanation
Indices: 66835454--66835632 Score: 205
Period size: 47 Copynumber: 3.8 Consensus size: 49
66835444 TGTAACCCGC
* * *
66835454 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
* *
66835500 CCATAAGTGAAGTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
66835550 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
66835594 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
66835633 GTCAACCATC
Statistics
Matches: 113, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 36 0.32
47 57 0.50
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:66835622 original size:94 final size:93
Alignment explanation
Indices: 66835462--66835632 Score: 288
Period size: 94 Copynumber: 1.8 Consensus size: 93
66835452 GCCCATAAGT
* * *
66835462 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAGTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
66835527 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
66835555 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
66835620 ACGAGTTCGGATG
65 ACGAGTTCGGATG
66835633 GTCAACCATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 28 0.39
94 44 0.61
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66836086 original size:30 final size:30
Alignment explanation
Indices: 66836052--66836111 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
66836042 CCTTAATACG
66836052 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
66836082 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
66836112 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:66841549 original size:22 final size:21
Alignment explanation
Indices: 66841514--66841589 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
66841504 AAAAGGTATC
* *
66841514 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
66841535 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
66841558 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
66841577 TGC-AATCATATCT
1 TACAAATCATATCT
66841590 ATGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:66841574 original size:19 final size:19
Alignment explanation
Indices: 66841550--66841621 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
66841540 AATCATATCT
66841550 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
66841569 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
66841587 TCTATGATTG--TATCATA
1 TCTAAGATTGCATATCATA
66841604 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
66841622 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 15 0.31
19 18 0.38
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:66842039 original size:56 final size:56
Alignment explanation
Indices: 66841846--66842233 Score: 309
Period size: 56 Copynumber: 6.9 Consensus size: 56
66841836 ACTTGTATTT
* * * *
66841846 TGGTGCCGGCCATTGACAGGCCAACGCCAAAAATATTTCAAAATTTTTTTTT-AA-TAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATT---AATTTTTTTTTAAATTAC
* * * *
66841903 TAGTGCCGACCATTAACAGGCCAGCACC---AAAAATT--TTTTTTTCTGAAAACTCGTATTC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTAATTTTTTT-T-TAAA-T--TA--C
* *
66841961 TGGTGCCGGCAATTGACAGGCCAGCACCAAAAAAAATTAAATTTTTTTTAAATTAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTAATTTTTTTTTAAATTAC
* * *
66842017 TGGTGTCGGCCATTGACAGGCCAACACC-----AAATT--TTTTTTTATAAACTCTTATTC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTAATTTTTTTTTAAA---TTA--C
* * *
66842071 TGGTGTCGGCCATTGACAAGCCAGCACCAAAAAAATTTAATTTTTTTTTTTAAATTAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTAA--TTTTTTTTTAAATTAC
* * *
66842129 TGGTGCCGACCATTGACAGGCCAGCACCAAAAAAATTTGATTTTTTTTTAAATTAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTAATTTTTTTTTAAATTAC
* * * * *
66842185 TGGTGCTGGCCATTGATAGGACAACACCAAAAAAAATTTATTTTTTTTT
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTAATTTTTTTTT
66842234 GAAAACTCGT
Statistics
Matches: 269, Mismatches: 34, Indels: 57
0.75 0.09 0.16
Matches are distributed among these distances:
49 17 0.06
50 1 0.00
51 5 0.02
52 5 0.02
54 32 0.12
56 86 0.32
57 23 0.09
58 64 0.24
59 4 0.01
60 4 0.01
61 10 0.04
62 1 0.00
63 17 0.06
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (56 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAATTAATTTTTTTTTAAATTAC
Found at i:66842142 original size:58 final size:57
Alignment explanation
Indices: 66842070--66842233 Score: 224
Period size: 58 Copynumber: 2.9 Consensus size: 57
66842060 AACTCTTATT
* *
66842070 CTGGTGTCGGCCATTGACAAGCCAGCACCAAAAAAATTTAATTTTTTTTTTTAAATTA
1 CTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTT-ATTTTTTTTTTTAAATTA
*
66842128 CTGGTGCCGACCATTGACAGGCCAGCACCAAAAAAATTTGA--TTTTTTTTTAAATTA
1 CTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTT-ATTTTTTTTTTTAAATTA
* * * *
66842184 CTGGTGCTGGCCATTGATAGGACAACACCAAAAAAAATTTATTTTTTTTT
1 CTGGTGCCGGCCATTGACAGGCCAGCACC-AAAAAAATTTATTTTTTTTT
66842234 GAAAACTCGT
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
56 40 0.43
57 10 0.11
58 44 0.47
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (57 bp):
CTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTATTTTTTTTTTTAAATTA
Found at i:66842145 original size:112 final size:110
Alignment explanation
Indices: 66841821--66842159 Score: 407
Period size: 112 Copynumber: 3.0 Consensus size: 110
66841811 AGCCATTGAC
* * * *
66841821 AATTTTTTTTTGA-AAACT-TGTATTTTGGTGCCGGCCATTGACAGGCCAACGCCAAAAATATTT
1 AATTTTTTTTT-ATAAACTCT-TATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTT
* *
66841884 CAAAATTTTTTTTT-AA-TACTAGTGCCGACCATTAACAGGCCAGCACCAAA
64 ---AATTTTTTTTTAAATTACTGGTGCCGACCATTGACAGGCCAGCACC--A
* * * *
66841934 AATTTTTTTTTCTGAAAACTCGTATTCTGGTGCCGGCAATTGACAGGCCAGCACCAAAAAAAATT
1 AATTTTTTTTTAT--AAACTCTTATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTT
* * * *
66841999 AAATTTTTTTTAAATTACTGGTGTCGGCCATTGACAGGCCAACACCA
64 AATTTTTTTTTAAATTACTGGTGCCGACCATTGACAGGCCAGCACCA
* *
66842046 AATTTTTTTTTATAAACTCTTATTCTGGTGTCGGCCATTGACAAGCCAGCACCAAAAAAATTTAA
1 AATTTTTTTTTATAAACTCTTATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAA
66842111 TTTTTTTTTTTAAATTACTGGTGCCGACCATTGACAGGCCAGCACCA
66 --TTTTTTTTTAAATTACTGGTGCCGACCATTGACAGGCCAGCACCA
66842158 AA
1 AA
66842160 AAAATTTGAT
Statistics
Matches: 194, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
110 47 0.24
112 66 0.34
113 13 0.07
114 26 0.13
115 42 0.22
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (110 bp):
AATTTTTTTTTATAAACTCTTATTCTGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAA
TTTTTTTTTAAATTACTGGTGCCGACCATTGACAGGCCAGCACCA
Found at i:66843644 original size:67 final size:67
Alignment explanation
Indices: 66843570--66843705 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
66843560 GCAAAGTTGT
*
66843570 TTAGTAATGCCATGTTAACTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTTC
1 TTAGTAATGCCATGTTAACTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGC
66843635 TA
66 TA
66843637 TTAGTAATGCCATGTTAACTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGC
1 TTAGTAATGCCATGTTAACTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGC
66843702 TA
66 TA
66843704 TT
1 TT
66843706 TTATAAGAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (67 bp):
TTAGTAATGCCATGTTAACTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGC
TA
Found at i:66843885 original size:129 final size:129
Alignment explanation
Indices: 66843655--66843906 Score: 486
Period size: 129 Copynumber: 2.0 Consensus size: 129
66843645 GCCATGTTAA
66843655 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGCTATTTTATAAGAGTGCTG
1 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGCTATTTTATAAGAGTGCTG
66843720 TATGATATGTGGGAAGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGCTCATCT
66 TATGATATGTGGGAAGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGCTCATCT
*
66843784 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTTCTATTTTATAAGAGTGCTG
1 CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGCTATTTTATAAGAGTGCTG
*
66843849 TATGATATGTGGGATGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGC
66 TATGATATGTGGGAAGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGC
66843907 ACTGCAAATT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 121 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (129 bp):
CTAAAATGCATCATCAAAGTAGTTGTTTATTAATAGAAACTCATTGCTATTTTATAAGAGTGCTG
TATGATATGTGGGAAGCTCATCTCTAGAATTTCATTTATCAAACACACCTTTGAATGCTCATCT
Found at i:66852472 original size:46 final size:46
Alignment explanation
Indices: 66852420--66852679 Score: 288
Period size: 46 Copynumber: 5.6 Consensus size: 46
66852410 GCTTTCTGAA
* *
66852420 ATGAAATGTGTAAGACCATGGTTGAGAGATATCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
66852466 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAATATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
66852512 ATGAAATGTGTAAAACCATGGTTGAAAGTTACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
66852558 ATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACATGACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-T
** ** * * * *
66852605 GGGAAATGAATAAGATCGTGGTTGAAAGATACCATAGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
66852651 A-GAAAATGAGTAAGACCGTAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
66852680 CACTAAGGCA
Statistics
Matches: 184, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 144 0.78
47 39 0.21
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:66857508 original size:87 final size:87
Alignment explanation
Indices: 66857359--66857669 Score: 471
Period size: 87 Copynumber: 3.6 Consensus size: 87
66857349 NNNNNNNNNN
* *
66857359 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAA
1 TTCGATCTGCTTCACTGTTAATGCAGGAAGGCAAGATCTGTTATCTTTGACCAGCTCCACTGCAA
*
66857424 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * * * **
66857446 TTCGATCGGCTCCACTGTTAACGCAGGAAGGTAAGATTTGTTATCTTTAACCAGCTGGACTGCAA
1 TTCGATCTGCTTCACTGTTAATGCAGGAAGGCAAGATCTGTTATCTTTGACCAGCTCCACTGCAA
66857511 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
**
66857533 TTCGATCTGCTTCGGTGTTAATGCAGGAAGGCAAGATCTGTTATCTTTGACCAGCTCCACTGCAA
1 TTCGATCTGCTTCACTGTTAATGCAGGAAGGCAAGATCTGTTATCTTTGACCAGCTCCACTGCAA
*
66857598 CCGATGGAGGCAAAGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
66857620 TTCGATCTTCTTCACTGTTAATGCAGGAAGGCAAGATCTGCTT-TCTTTGA
1 TTCGATCTGCTTCACTGTTAATGCAGGAAGGCAAGATCTG-TTATCTTTGA
66857670 TCTATTCTCT
Statistics
Matches: 198, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
87 196 0.99
88 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTTAATGCAGGAAGGCAAGATCTGTTATCTTTGACCAGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:66865103 original size:9 final size:9
Alignment explanation
Indices: 66865065--66865113 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
66865055 ATAAAGATAT
66865065 ATACTAATA
1 ATACTAATA
*
66865074 CATAATAATA
1 -ATACTAATA
* **
66865084 ATAATGGTA
1 ATACTAATA
66865093 ATACTAATA
1 ATACTAATA
66865102 ATACTAATA
1 ATACTAATA
66865111 ATA
1 ATA
66865114 TAAAAATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (9 bp):
ATACTAATA
Found at i:66865598 original size:11 final size:12
Alignment explanation
Indices: 66865584--66865618 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
66865574 AGAAAAAAAA
66865584 AAGAGAG-AGGG
1 AAGAGAGAAGGG
66865595 AAGAGAGAAGGG
1 AAGAGAGAAGGG
66865607 -AGAGAGAAGGG
1 AAGAGAGAAGGG
66865618 A
1 A
66865619 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:66866662 original size:19 final size:19
Alignment explanation
Indices: 66866634--66866671 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
66866624 TAGTCACACC
66866634 ACACAAAATAAAAAATTTA
1 ACACAAAATAAAAAATTTA
*
66866653 ACACACAATAAAAAATTTA
1 ACACAAAATAAAAAATTTA
66866672 TGTATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (19 bp):
ACACAAAATAAAAAATTTA
Found at i:66873078 original size:3 final size:3
Alignment explanation
Indices: 66873072--66873366 Score: 160
Period size: 3 Copynumber: 99.3 Consensus size: 3
66873062 TTTTATTCAA
* ** *
66873072 ATT ATT AAT ATT ATT ATT ATT CCT ATGT -GT ATT ATT ATT ACTT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT
* * *
66873117 ATG ATT GTT ATT -TCT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
66873162 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
66873210 A-T ATC AGT ATT ATA AAT A-T ATT GTT ATT ATT AGT ATT ATT GTC AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
66873256 GTC AGT ATT ATT -TT CGTT ACCTT TTT ATT TTT ATT TTT ATT ATT -TCT
1 ATT ATT ATT ATT ATT -ATT A--TT ATT ATT ATT ATT ATT ATT ATT AT-T
* * * * *
66873303 ATT ATT GTT ATT ATT -TT -TT ATT ACT ATT ATT GTT A-T ATT ATC GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
66873348 ATT ATC CTT ACT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
66873367 CTGTTAATGA
Statistics
Matches: 213, Mismatches: 63, Indels: 32
0.69 0.20 0.10
Matches are distributed among these distances:
2 17 0.08
3 187 0.88
4 7 0.03
5 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:66873684 original size:17 final size:18
Alignment explanation
Indices: 66873654--66873690 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
66873644 GTATTTCTAC
66873654 TACTATATTACA-TTTAT
1 TACTATATTACATTTTAT
66873671 TACT-TATTACCATTTTAT
1 TACTATATTA-CATTTTAT
66873689 TA
1 TA
66873691 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 6 0.33
18 7 0.39
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (18 bp):
TACTATATTACATTTTAT
Found at i:66881782 original size:86 final size:86
Alignment explanation
Indices: 66881673--66881845 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
66881663 TTATTTGTAA
66881673 AGAAATTAAAAATGTTGGTCATTAACCATGGGACTCACATTATTTTAATATTATTATAGATTATG
1 AGAAATTAAAAATGTTGGTCATTAACCATGGGACTCACATTATTTTAATATTATTATAGATTATG
66881738 TATTAATTGAATAGAGTGTCC
66 TATTAATTGAATAGAGTGTCC
66881759 AGAAATTAAAAATGTTGGTCATTAACCATGGGACTCACATTATTTTAATATTATTATAGATTATG
1 AGAAATTAAAAATGTTGGTCATTAACCATGGGACTCACATTATTTTAATATTATTATAGATTATG
66881824 TATTAATTGAATAGAGTGTCC
66 TATTAATTGAATAGAGTGTCC
66881845 A
1 A
66881846 TTTGTCATAG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (86 bp):
AGAAATTAAAAATGTTGGTCATTAACCATGGGACTCACATTATTTTAATATTATTATAGATTATG
TATTAATTGAATAGAGTGTCC
Found at i:66882603 original size:9 final size:9
Alignment explanation
Indices: 66882589--66882630 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
66882579 AACCCAAAAT
*
66882589 AAAAAATTA
1 AAAAAATGA
*
66882598 AAAAAAAGA
1 AAAAAATGA
66882607 AAAAAATGA
1 AAAAAATGA
66882616 AGAAAAA-GA
1 A-AAAAATGA
66882625 AAAAAA
1 AAAAAA
66882631 CCTAACCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 5 0.17
9 19 0.66
10 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (9 bp):
AAAAAATGA
Found at i:66882612 original size:18 final size:18
Alignment explanation
Indices: 66882589--66882630 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
66882579 AACCCAAAAT
*
66882589 AAAAAATTAAAAAAAAGA
1 AAAAAATGAAAAAAAAGA
*
66882607 AAAAAATGAAGAAAAAGA
1 AAAAAATGAAAAAAAAGA
66882625 AAAAAA
1 AAAAAA
66882631 CCTAACCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAAAATGAAAAAAAAGA
Found at i:66883823 original size:19 final size:19
Alignment explanation
Indices: 66883799--66883836 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
66883789 TTGAGATTGC
*
66883799 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
66883818 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
66883837 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:66887487 original size:20 final size:20
Alignment explanation
Indices: 66887462--66887502 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
66887452 AGTAGTAGAC
66887462 TACTTGCAAACTTTAGCGGT
1 TACTTGCAAACTTTAGCGGT
66887482 TACTTGCAAACTTTAGCGGT
1 TACTTGCAAACTTTAGCGGT
66887502 T
1 T
66887503 CAGACGGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TACTTGCAAACTTTAGCGGT
Found at i:66896139 original size:44 final size:44
Alignment explanation
Indices: 66896078--66897978 Score: 1877
Period size: 44 Copynumber: 44.4 Consensus size: 44
66896068 AATCCAAGAT
* ** * *
66896078 GATTTGGCGTCTTTGTAGCGGTAGAGAGCAGATCCAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66896122 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66896166 GATTTGGCGTCTCTGTAGTGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66896210 GATTTGGCGTCTCTATAGCGGCGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66896254 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATTC-AAAATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TCGAAGATAACA
*
66896298 GATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66896342 GATTTGGTGTCTCTGTAGCGGCGGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66896386 GATTTGGCGTCTCTCTAGCGGCGGAGAACAGA-C--AGAT--C-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * ** *
66896424 -ATGTT--C--CTCAG-AG-GACAGTGCAGTAGAATCGGTGAATTCACA
1 GAT-TTGGCGTCTCTGTAGCGGCGGAG-AGCAG-ATCGAAG-A-TAACA
** * * * ** * * * *
66896466 -AGTCTTAAC-CCCCT-AAGCAGTAGG-GCAACA-AGCTAAAGATATCCAAGA
1 GA-T-TTGGCGTCTCTGTAGC-GGCGGAG-AGCAGATC-GAAG--AT--AACA
* * * * * *
66896514 TGATTTGGCATTTCTGTATCAAGCGGGGAGCAGATCGAAGATATAGCT
1 -GATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGATA-A-CA
* * ** * *
66896562 GATTTGGCTTTCACGTGTTTA-C-GTTGA-AGCAAATCCAAGAT----
1 GATTTGGC-GTCTC-TG--TAGCGGCGGAGAGCAGATCGAAGATAACA
* ** * *
66896603 GATTTGGCGTCTTTGTAGCGGTAGAGAGCAGATCCAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
66896647 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66896691 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
66896735 GATTTAGCGTCTCTGTAGCGGCAAAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * **
66896775 GATTTGGCATCTTTGTAGTGGCGGAGAGTAAATCGAAGATAGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
66896819 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
66896863 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66896903 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66896947 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66896987 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897031 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897071 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897115 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897155 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897199 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897239 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897283 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897323 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897367 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897407 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897451 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897491 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897535 AATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897575 GATTTGGCATCTCTATAGCCGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
66897619 -A------GTCTCTGTAGCGGCGGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
66897656 TATTTGGCGTCTCTCTAGCGGCGGAGAACAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
66897700 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897740 GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
66897784 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
66897828 GATTTGGCGTCTCCGTAGCGGCGGTGAGCAGATCGAAGATAACAGA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC--A
*
66897874 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
66897918 GATTTGGCGTCTTTATAGCGGCAGAGAACAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
66897962 GATTTGGCATCTCTGTA
1 GATTTGGCGTCTCTGTA
66897979 TTAGACGGAT
Statistics
Matches: 1539, Mismatches: 222, Indels: 192
0.79 0.11 0.10
Matches are distributed among these distances:
32 4 0.00
33 5 0.00
34 4 0.00
35 1 0.00
36 1 0.00
37 37 0.02
38 5 0.00
39 8 0.01
40 400 0.26
41 13 0.01
42 1 0.00
43 7 0.00
44 938 0.61
45 5 0.00
46 48 0.03
47 26 0.02
48 13 0.01
49 5 0.00
50 13 0.01
51 5 0.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:66896907 original size:84 final size:84
Alignment explanation
Indices: 66896604--66897978 Score: 1921
Period size: 84 Copynumber: 16.2 Consensus size: 84
66896594 ATCCAAGATG
* ** * *
66896604 ATTTGGCGTCTTTGTAGCGGTAGAGAGCAGATCCAAGATA-ATAGATTTGGCATCTCTGTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT-C--GA-ACAT-GATTTGGCATCTCTATAGCCG
*
66896668 CGGAGAGCAGATCGAAGATAACAG
61 CGGAGAGCAGATCGAAGATAACAA
* * * * * * *
66896692 ATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----GATTTGGCATCTCTATAGCCGC
** *
66896757 AAAGAGCAGATCGAAGAT----G
62 GGAGAGCAGATCGAAGATAACAA
* * * * * * * * *
66896776 ATTTGGCATCTTTGTAGTGGCGGAGAGTAAATCGAAGATAGTAGATTTGGCGTCTCTGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG-A-ACA-T-GATTTGGCATCTCTATAGCCGC
* *
66896841 GAAGAGCAGATCGAAGATAACAG
62 GGAGAGCAGATCGAAGATAACAA
66896864 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66896929 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66896948 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897013 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66897032 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897097 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66897116 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897181 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66897200 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897265 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66897284 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897349 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66897368 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897433 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66897452 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897517 AGCAGATCGAAGATAACAA
66 AGCAGATCGAAGATAACAA
66897536 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
66897601 AGCAGATCGAAGATAAC-A
66 AGCAGATCGAAGATAACAA
* * * *
66897619 A------GTCTCTGTAGCGGCGGAAAGCAGATCGAAGATAACAT-ATTTGGCGTCTCTCTAGCGG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATC---G--AACATGATTTGGCATCTCTATAGCCG
* *
66897677 CGGAGAACAGATCGAAGATAACAG
61 CGGAGAGCAGATCGAAGATAACAA
* * * *
66897701 ATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAG
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
* *
66897766 AGTAGATCGAAGATAACAG
66 AGCAGATCGAAGATAACAA
* * ** *
66897785 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGGC
1 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACAT----GATTTGGCATCTCTATAGCCGC
*
66897850 GGTGAGCAGATCGAAGATAACAGA
62 GGAGAGCAGATCGAAGATAACA-A
* * * *
66897874 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTTTATAGCGG
1 -ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG-A-A-CAT-GATTTGGCATCTCTATAGCCG
* * **
66897939 CAGAGAACAGATCGAAGATAACGG
61 CGGAGAGCAGATCGAAGATAACAA
*
66897963 ATTTGGCATCTCTGTA
1 ATTTGGCGTCTCTGTA
66897979 TTAGACGGAT
Statistics
Matches: 1199, Mismatches: 55, Indels: 66
0.91 0.04 0.05
Matches are distributed among these distances:
77 25 0.02
80 1 0.00
81 38 0.03
82 6 0.01
83 6 0.01
84 858 0.72
85 7 0.01
86 4 0.00
87 3 0.00
88 175 0.15
90 72 0.06
91 1 0.00
92 1 0.00
93 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (84 bp):
ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAACATGATTTGGCATCTCTATAGCCGCGGAG
AGCAGATCGAAGATAACAA
Found at i:66898294 original size:9 final size:8
Alignment explanation
Indices: 66898270--66898314 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
66898260 AATACAACCC
66898270 AAAAT-AA
1 AAAATAAA
66898277 AAAATAAA
1 AAAATAAA
66898285 AAAATAAA
1 AAAATAAA
66898293 AAAATGAAGA
1 AAAAT-AA-A
*
66898303 AAAAGAAA
1 AAAATAAA
66898311 AAAA
1 AAAA
66898315 ACCTAACCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 5 0.15
8 20 0.59
9 4 0.12
10 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:66899521 original size:19 final size:19
Alignment explanation
Indices: 66899497--66899535 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
66899487 TGAGATTGCC
*
66899497 AACCTATTTGCTTGAAATT
1 AACCTATTTGCCTGAAATT
66899516 AACCTATTTGCCTGAAATT
1 AACCTATTTGCCTGAAATT
66899535 A
1 A
66899536 TTCATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (19 bp):
AACCTATTTGCCTGAAATT
Found at i:66906699 original size:4 final size:4
Alignment explanation
Indices: 66906692--66906717 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
66906682 TTTATATATA
66906692 TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
66906718 ATGGTTTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:66909626 original size:6 final size:6
Alignment explanation
Indices: 66909615--66909660 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
66909605 GGGCTTCACT
66909615 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC -CATTCC TCTT
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TC-TTCC TCTT
66909661 GTTCTTCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 1 0.03
6 36 0.95
7 1 0.03
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCC
Found at i:66912656 original size:2 final size:2
Alignment explanation
Indices: 66912649--66912690 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
66912639 AGTAAACAGC
66912649 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
66912691 ATGAGTGTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:66914036 original size:30 final size:30
Alignment explanation
Indices: 66914002--66914063 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
66913992 CTAATTTACG
*
66914002 TCATACTGATCTATAGAGGCCTATTTTTAT
1 TCATACTAATCTATAGAGGCCTATTTTTAT
66914032 TCATACTAATCTATAGAGGCCTATTTTTAT
1 TCATACTAATCTATAGAGGCCTATTTTTAT
66914062 TC
1 TC
66914064 TGCCCAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (30 bp):
TCATACTAATCTATAGAGGCCTATTTTTAT
Found at i:66915440 original size:10 final size:10
Alignment explanation
Indices: 66915425--66915450 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
66915415 CGATCCAATT
66915425 AAAAATTTTA
1 AAAAATTTTA
66915435 AAAAATTTTA
1 AAAAATTTTA
66915445 AAAAAT
1 AAAAAT
66915451 CGGTTCAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:66916508 original size:18 final size:18
Alignment explanation
Indices: 66916485--66916528 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
66916475 CCCTGTAGAT
66916485 GGCACTGTAGAAGTCTTG
1 GGCACTGTAGAAGTCTTG
66916503 GGCACTGTAGAAGTCTTG
1 GGCACTGTAGAAGTCTTG
66916521 GGCACTGT
1 GGCACTGT
66916529 TGCGGTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.27
Consensus pattern (18 bp):
GGCACTGTAGAAGTCTTG
Found at i:66919812 original size:17 final size:18
Alignment explanation
Indices: 66919778--66919814 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
66919768 TTTACTAAAA
66919778 AATAAAATATATTAATTT
1 AATAAAATATATTAATTT
*
66919796 AATAAAA-ATATTTATTT
1 AATAAAATATATTAATTT
66919813 AA
1 AA
66919815 ATTAGTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAAAATATATTAATTT
Found at i:66923207 original size:13 final size:13
Alignment explanation
Indices: 66923189--66923217 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
66923179 GGTAGTTTGC
66923189 TTCTATCTTGATG
1 TTCTATCTTGATG
66923202 TTCTATCTTGATG
1 TTCTATCTTGATG
66923215 TTC
1 TTC
66923218 ATGAGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (13 bp):
TTCTATCTTGATG
Found at i:66925691 original size:38 final size:38
Alignment explanation
Indices: 66925577--66925818 Score: 315
Period size: 38 Copynumber: 6.3 Consensus size: 38
66925567 ATATTCGATG
*
66925577 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
66925615 TATATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
66925655 AATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
66925693 TATATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
66925733 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
66925771 TATATCCGGGATAAATCCCGCAGGAC-TAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGG-CTTCGTGCTGGTAT
*
66925809 TATATTCGGG
1 TATATCCGGG
66925819 CCTTCGTGCC
Statistics
Matches: 177, Mismatches: 22, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
38 100 0.56
39 21 0.12
40 56 0.32
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:66925707 original size:78 final size:78
Alignment explanation
Indices: 66925578--66925780 Score: 397
Period size: 78 Copynumber: 2.6 Consensus size: 78
66925568 TATTCGATGT
66925578 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAAGCT
1 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAAGCT
66925643 TCGTGCTGGTAAA
66 TCGTGCTGGTAAA
66925656 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAAGCT
1 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAAGCT
66925721 TCGTGCTGGTAAA
66 TCGTGCTGGTAAA
*
66925734 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
1 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGG
66925781 ATAAATCCCG
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 124 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (78 bp):
ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAAGCT
TCGTGCTGGTAAA
Found at i:66925786 original size:116 final size:117
Alignment explanation
Indices: 66925577--66925819 Score: 323
Period size: 116 Copynumber: 2.1 Consensus size: 117
66925567 ATATTCGATG
* * **
66925577 TATATCCGGG-TTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAAG
1 TATATCCGGGCTTAAAACCCACAAGCTTCGTGCTGGTAAAATATCCGGGCTTAAAGACCCGCAAG
* *
66925641 CTTCGTGCTGGTAAAATATCCGGGTTAAATCCCACAGG-CTTCGTGCTGGTAT
66 CTTCGTGCTGGTAAAATATCCGGGATAAATCCCACAGGAC-TAGTGCTGGTAT
* * *
66925693 TATATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGTAAAATATCCGGG-TTAAA-TCCCGCAG
1 TATATCCGGGCTTAAA-ACCCACAAGCTTCGTGCTGGTAAAATATCCGGGCTTAAAGACCCGCAA
** *
66925756 GCTTCGTGCTGGTATTATATCCGGGATAAATCCCGCAGGACTAGTGCTGGTAT
65 GCTTCGTGCTGGTAAAATATCCGGGATAAATCCCACAGGACTAGTGCTGGTAT
*
66925809 TATATTCGGGC
1 TATATCCGGGC
66925820 CTTCGTGCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
116 72 0.65
117 11 0.10
118 28 0.25
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (117 bp):
TATATCCGGGCTTAAAACCCACAAGCTTCGTGCTGGTAAAATATCCGGGCTTAAAGACCCGCAAG
CTTCGTGCTGGTAAAATATCCGGGATAAATCCCACAGGACTAGTGCTGGTAT
Found at i:66925880 original size:43 final size:43
Alignment explanation
Indices: 66925811--66925922 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
66925801 GCTGGTATTA
* *
66925811 TATTCGGGCCTTCGTGCCTAGTAGGCTTTGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
* * *
66925854 TATTCGGGCCTTCGTGCTTAACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
*
66925897 TATTCGGGCCTTTGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
66925923 ATAATGCCGG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
Found at i:66925931 original size:43 final size:43
Alignment explanation
Indices: 66925811--66925935 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 43
66925801 GCTGGTATTA
* * *
66925811 TATTCGGGCCTTCGTGCCTAGTAGGCTTTGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
66925854 TATTCGGGCCTTCGTGCTTAACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
66925897 TATTCGGGCCTTTGTGCCTAGCAGGCATAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
66925936 AATGATATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:66927595 original size:48 final size:48
Alignment explanation
Indices: 66927500--66927603 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
66927490 TGTGCTAAGC
* * **
66927500 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
**
66927548 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAACTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAACTAGT
*
66927596 ATAAGACC
1 GTAAGACC
66927604 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
Found at i:66929095 original size:13 final size:13
Alignment explanation
Indices: 66929077--66929105 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
66929067 GGTAGTTTGC
66929077 TTCTATCTTGATG
1 TTCTATCTTGATG
66929090 TTCTATCTTGATG
1 TTCTATCTTGATG
66929103 TTC
1 TTC
66929106 ATGAGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (13 bp):
TTCTATCTTGATG
Found at i:66931579 original size:38 final size:38
Alignment explanation
Indices: 66931465--66931628 Score: 193
Period size: 38 Copynumber: 4.3 Consensus size: 38
66931455 ATATTCGATG
*
66931465 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* ** * *
66931503 TATATCCGGGCTTAAAGACCCGCAGGCTTAATGTTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
66931543 AATATCCGGGTTAAATCCCGCAGGCTTCGTGGTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
66931581 TATATCCGGGATAAATCCCGTAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
66931619 TATATTCGGG
1 TATATCCGGG
66931629 GCTTCGTGCC
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 69 0.66
39 10 0.10
40 26 0.25
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:66931669 original size:43 final size:43
Alignment explanation
Indices: 66931621--66931718 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
66931611 GCTGGTATTA
* ** * *
66931621 TATTCGGGGCTTCGTGCCTAGTAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAAGCTTCGTGCCGGTGATGTG
66931664 TATTCGGGCCTTCGTGCCTAACAAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAAGCTTCGTGCCGGTGATGTG
*
66931707 TATTCAGGCCTT
1 TATTCGGGCCTT
66931719 TGTACCTAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.12, C:0.22, G:0.32, T:0.34
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAACAAGCTTCGTGCCGGTGATGTG
Found at i:66931741 original size:43 final size:43
Alignment explanation
Indices: 66931654--66931745 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
66931644 GGCTTCGTGT
* * * **
66931654 CGGTGATGTGTATTCGGGCCTTCGTGCCTAACAAGCTTCGTGC
1 CGGTGATGTGTATTCAGGCCTTCGTACCTAACAAGCGTAATGC
* * *
66931697 CGGTGATGTGTATTCAGGCCTTTGTACCTAGCAGGCGTAATGC
1 CGGTGATGTGTATTCAGGCCTTCGTACCTAACAAGCGTAATGC
66931740 CGGTGA
1 CGGTGA
66931746 AATGATATGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.29
Consensus pattern (43 bp):
CGGTGATGTGTATTCAGGCCTTCGTACCTAACAAGCGTAATGC
Found at i:66937082 original size:46 final size:46
Alignment explanation
Indices: 66937015--66937472 Score: 848
Period size: 46 Copynumber: 10.0 Consensus size: 46
66937005 TGTAACCCGC
* *
66937015 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
66937061 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
66937107 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
66937153 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
66937199 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
66937245 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
66937291 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
66937337 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
66937383 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
66937429 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGC
66937473 TGTTACCAAC
Statistics
Matches: 402, Mismatches: 6, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
44 2 0.00
45 2 0.00
46 396 0.99
48 2 0.00
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:66937097 original size:20 final size:20
Alignment explanation
Indices: 66937026--66937097 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
66937016 CATAAGTGAA
66937026 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
* * * *
66937046 CTCGGGCGTCCACATCCATAAGTGAA
1 CTCGGAC-TCAAC-T-C--AA-CGAG
66937072 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
66937092 CTCGGA
1 CTCGGA
66937098 TGCCTAGATC
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 14 0.37
21 6 0.16
22 1 0.03
23 2 0.05
24 1 0.03
25 6 0.16
26 8 0.21
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:66943958 original size:59 final size:59
Alignment explanation
Indices: 66943866--66943979 Score: 228
Period size: 59 Copynumber: 1.9 Consensus size: 59
66943856 AAAGATCCCT
66943866 AATTTAAGATACAAGGCAATTTAACACCTTTAGGTATTAAAACACAACTTTTACCCCCC
1 AATTTAAGATACAAGGCAATTTAACACCTTTAGGTATTAAAACACAACTTTTACCCCCC
66943925 AATTTAAGATACAAGGCAATTTAACACCTTTAGGTATTAAAACACAACTTTTACC
1 AATTTAAGATACAAGGCAATTTAACACCTTTAGGTATTAAAACACAACTTTTACC
66943980 TTTTACGCGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (59 bp):
AATTTAAGATACAAGGCAATTTAACACCTTTAGGTATTAAAACACAACTTTTACCCCCC
Found at i:66949446 original size:15 final size:15
Alignment explanation
Indices: 66949426--66949460 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
66949416 AATCGCCAGT
66949426 GAAGACTACACCGAA
1 GAAGACTACACCGAA
66949441 GAAGACTACACCGAA
1 GAAGACTACACCGAA
66949456 GAAGA
1 GAAGA
66949461 ATGGGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.06
Consensus pattern (15 bp):
GAAGACTACACCGAA
Found at i:66962781 original size:3 final size:3
Alignment explanation
Indices: 66962773--66962823 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
66962763 AAAAGCAAAA
* *
66962773 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66962821 AAT
1 AAT
66962824 CGCACAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66968975 original size:23 final size:23
Alignment explanation
Indices: 66968945--66968988 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
66968935 TTTTATGAAT
66968945 AATTATATTAAA-TTATTTAAATA
1 AATTATATTAAAGTT-TTTAAATA
66968968 AATTATATTAAAGTTTTTAAA
1 AATTATATTAAAGTTTTTAAA
66968989 ATATGACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTATATTAAAGTTTTTAAATA
Found at i:66972997 original size:45 final size:46
Alignment explanation
Indices: 66972907--66972998 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 46
66972897 TTTATTTGGC
*
66972907 TTTAAATAAATAAATTAAGAAGAGTCTATGTACAAAGAAGGCTTGAA
1 TTTAAATAAATAAATTAAAAAGAG-CTATGTACAAAGAAGGCTTGAA
66972954 TTTAAATAAATAAATTAAAAAGAG-TATGTACAAAGAAGGCTTGAA
1 TTTAAATAAATAAATTAAAAAGAGCTATGTACAAAGAAGGCTTGAA
66972999 AATTGGGTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 21 0.48
47 23 0.52
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (46 bp):
TTTAAATAAATAAATTAAAAAGAGCTATGTACAAAGAAGGCTTGAA
Found at i:66973603 original size:26 final size:27
Alignment explanation
Indices: 66973570--66973621 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
66973560 CCTTGAAATC
66973570 TAAAAGT-A-GGACTAAATTCTTAAAAA
1 TAAAAGTAATGGACTAAATT-TTAAAAA
66973596 TAAAAGTAAATGGACTAAATTTTAAA
1 TAAAAGT-AATGGACTAAATTTTAAA
66973622 TTTATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
28 6 0.26
29 10 0.43
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.29
Consensus pattern (27 bp):
TAAAAGTAATGGACTAAATTTTAAAAA
Found at i:66976335 original size:3 final size:3
Alignment explanation
Indices: 66976327--66976352 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66976317 TAGCTTGCTT
66976327 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
66976353 TTGTTGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:66981435 original size:185 final size:187
Alignment explanation
Indices: 66981120--66981491 Score: 534
Period size: 185 Copynumber: 2.0 Consensus size: 187
66981110 GCCTTTGACT
** * * * *
66981120 TTTAGAACTGGTAAACCTGTCTTTTATGGTCATCATCTCTTGATAGTATCAGATTTAGATTATCC
1 TTTAGAACTGGTAAACCTACCTTTTATAGTCATCATCTCATGATAATATCAGATTTAGATCATCC
* * * *
66981185 TAGCAGTGTCATTGAACACCGCAAAAATCCCTAAGCCTGTTATGCCACATTATTCATGTGCTATT
66 TACCAGTGACATTGAACACCGCAAAAATCCCTAAGCCTGTTATGCCACATTATTCACGCGCTATT
*
66981250 AGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGTCTTCGACTTTTAG
131 AGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGCCTTCGACTTTTAG
* * * *
66981307 TTTAGAACTGGTAGACCTACCTTTTATATTCATTATCTCATGATAATATCATATTTAGATCATCC
1 TTTAGAACTGGTAAACCTACCTTTTATAGTCATCATCTCATGATAATATCAGATTTAGATCATCC
* * *
66981372 TACCAGTGACATTG-A-A-CGCTAAAAATCCCTGATCTTGTTATGCCACATTATTCACGCGCTAT
66 TACCAGTGACATTGAACACCGC-AAAAATCCCTAAGCCTGTTATGCCACATTATTCACGCGCTAT
* *
66981434 TAGGTCATCCTACCAGTGTCATTGAGCACTGTAAAAGCTTTTAGCCTTTGACTTTTAG
130 TAGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGCCTTCGACTTTTAG
66981492 AAATGGTAAA
Statistics
Matches: 164, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
184 3 0.02
185 93 0.57
186 1 0.01
187 67 0.41
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (187 bp):
TTTAGAACTGGTAAACCTACCTTTTATAGTCATCATCTCATGATAATATCAGATTTAGATCATCC
TACCAGTGACATTGAACACCGCAAAAATCCCTAAGCCTGTTATGCCACATTATTCACGCGCTATT
AGGTCATCCTACCAGTGTCATTGAACACTGTAAAAGCTTTTAGCCTTCGACTTTTAG
Done.