Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 231 of 362
Found at i:78165013 original size:78 final size:78
Alignment explanation
Indices: 78164838--78165024 Score: 211
Period size: 78 Copynumber: 2.4 Consensus size: 78
78164828 CGAACTTAGG
* * * * *
78164838 GTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTACTGGAATTAT
1 GTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATAT
**
78164903 ATCGGGACTTAGG
66 ATCGGGACTTAAA
* * *
78164916 GTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATAT
1 GTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATAT
*
78164981 GTCCGGG-C-TAAA
66 AT-CGGGACTTAAA
*
78164993 GTCCCACAGGCT-TCGAGCTGGTATTATA-CCGG
1 GT-CCACAGGCTAT-GAGCTGGAATTATATCCGG
78165025 GTTTAAATTC
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
77 9 0.09
78 83 0.86
79 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (78 bp):
GTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTACTGGAAATAT
ATCGGGACTTAAA
Found at i:78172048 original size:39 final size:39
Alignment explanation
Indices: 78171994--78172156 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
78171984 ATTTGATGTG
78171994 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
78172033 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
78172072 TATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
78172111 TATCCGGACTTAAGGTCCGCAGGCTACGTCCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
78172150 TGTCCGG
1 TATCCGG
78172157 GCTAAAGTCC
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:78172183 original size:78 final size:78
Alignment explanation
Indices: 78171994--78172194 Score: 201
Period size: 78 Copynumber: 2.6 Consensus size: 78
78171984 ATTTGATGTG
* ** * * *
78171994 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTA
1 TATCCAGACTTAAAGTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
* * *
78172059 TGTGCTGGAATTA
66 CGTCCTGGAAATA
** ** *
78172072 TATCCAGACTTAGGGTCCGTAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
1 TATCCAGACTTAAAGTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
78172137 CGTCCTGGAAATA
66 CGTCCTGGAAATA
* * * *
78172150 TGTCCGGGC-TAAAGTCCCACAGGCT-TCGAGCTGGTATTATA-CCGG
1 TATCCAGACTTAAAGT-CCACAGGCTAT-GAGCTGGAATTATATCCGG
78172195 GTTTAAATTC
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
77 9 0.08
78 97 0.92
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (78 bp):
TATCCAGACTTAAAGTCCACAGGCTATGAGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTA
CGTCCTGGAAATA
Found at i:78178014 original size:17 final size:16
Alignment explanation
Indices: 78177987--78178018 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
78177977 TGACAGATCT
78177987 CCGATGAGCTTCCAAA
1 CCGATGAGCTTCCAAA
78178003 CCGATCGAGCTTCCAA
1 CCGAT-GAGCTTCCAA
78178019 TAATCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (16 bp):
CCGATGAGCTTCCAAA
Found at i:78178474 original size:17 final size:17
Alignment explanation
Indices: 78178452--78178484 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78178442 CAATCTCTTT
78178452 TTACATATAACATCATG
1 TTACATATAACATCATG
*
78178469 TTACATATAAGATCAT
1 TTACATATAACATCAT
78178485 CCATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (17 bp):
TTACATATAACATCATG
Found at i:78178919 original size:20 final size:20
Alignment explanation
Indices: 78178896--78178957 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
78178886 ACCGAAGTAT
*
78178896 AACTAGGGGCACGGAAGTGC
1 AACTAGGGGCACAGAAGTGC
* * *
78178916 AACTAGGGGTACCGAAGTAC
1 AACTAGGGGCACAGAAGTGC
* * *
78178936 AAATATGGGCACATAAGTGC
1 AACTAGGGGCACAGAAGTGC
78178956 AA
1 AA
78178958 TCAGGAGTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.15
Consensus pattern (20 bp):
AACTAGGGGCACAGAAGTGC
Found at i:78178946 original size:40 final size:40
Alignment explanation
Indices: 78178885--78179120 Score: 285
Period size: 40 Copynumber: 5.9 Consensus size: 40
78178875 GATGTAGAGT
* * * **
78178885 TACCGAAGTATAACTAGGGGCACGGAAGTGCAA-CTAGGGG
1 TACCAAAGTACAAATAGGGGCACATAAGTGCAATC-AGGGG
* * *
78178925 TACCGAAGTACAAATATGGGCACATAAGTGCAATCAGGAG
1 TACCAAAGTACAAATAGGGGCACATAAGTGCAATCAGGGG
* * * *
78178965 TGCCGAAGTACAAATAGGGACACGTAAGTGCAATCAGGGG
1 TACCAAAGTACAAATAGGGGCACATAAGTGCAATCAGGGG
* * * *
78179005 TACCAAAGTACAAAAAAGGGCACGTAAGTGCAATCAAGGG
1 TACCAAAGTACAAATAGGGGCACATAAGTGCAATCAGGGG
* *
78179045 TACCAAAGTACAAACAGGGGCACATAAGTGCAATTAGGGG
1 TACCAAAGTACAAATAGGGGCACATAAGTGCAATCAGGGG
*
78179085 TACCAAAGTACAAACAGGGGCACATAAGTGCAATCA
1 TACCAAAGTACAAATAGGGGCACATAAGTGCAATCA
78179121 TTCAATAATT
Statistics
Matches: 172, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 171 0.99
41 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (40 bp):
TACCAAAGTACAAATAGGGGCACATAAGTGCAATCAGGGG
Found at i:78179013 original size:20 final size:20
Alignment explanation
Indices: 78178990--78179120 Score: 95
Period size: 20 Copynumber: 6.5 Consensus size: 20
78178980 AGGGACACGT
*
78178990 AAGTGCAATCAGGGGTACCA
1 AAGTGCAATCAGGGGCACCA
* ** * **
78179010 AAGTACAAAAAAGGGCACGT
1 AAGTGCAATCAGGGGCACCA
* *
78179030 AAGTGCAATCAAGGGTACCA
1 AAGTGCAATCAGGGGCACCA
* *
78179050 AAGTACAAACAGGGGCA-CA
1 AAGTGCAATCAGGGGCACCA
* *
78179069 TAAGTGCAATTAGGGGTACCA
1 -AAGTGCAATCAGGGGCACCA
* *
78179090 AAGTACAAACAGGGGCA-CA
1 AAGTGCAATCAGGGGCACCA
78179109 TAAGTGCAATCA
1 -AAGTGCAATCA
78179121 TTCAATAATT
Statistics
Matches: 81, Mismatches: 27, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
19 4 0.05
20 75 0.93
21 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (20 bp):
AAGTGCAATCAGGGGCACCA
Found at i:78184151 original size:41 final size:42
Alignment explanation
Indices: 78184085--78184164 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
78184075 CTTACATGCT
* *
78184085 ATCACATATCGATGCCACTGCCCCAGACAGGGTCTTACACAA
1 ATCAAATATCGATGCCAATGCCCCAGACAGGGTCTTACACAA
* *
78184127 ATCAAATA-CGATGCCAATGTCCCAGACATGGTCTTACA
1 ATCAAATATCGATGCCAATGCCCCAGACAGGGTCTTACA
78184165 TGTAACCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 27 0.79
42 7 0.21
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (42 bp):
ATCAAATATCGATGCCAATGCCCCAGACAGGGTCTTACACAA
Found at i:78184195 original size:45 final size:44
Alignment explanation
Indices: 78184053--78184209 Score: 155
Period size: 45 Copynumber: 3.6 Consensus size: 44
78184043 ATATCATACA
* *
78184053 ATGCCAACGTCCCAAACGTGGTCTTACATGCT-ATCAC-ATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-TAATCACAATATCG
* * **
78184096 ATGCC-ACTGCCCCAGACAGGGTCTTACA-CAAATCA-AATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCACAATATCG
* * *
78184137 ATGCCAATGTCCCAGACATGGTCTTACATGTAACCACATATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACA-ATATCG
*
78184182 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
78184210 CGAGAACACA
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
41 25 0.27
42 14 0.15
43 22 0.24
44 3 0.03
45 27 0.30
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACAATATCG
Found at i:78185852 original size:24 final size:24
Alignment explanation
Indices: 78185823--78185884 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
78185813 TCAAAGAATT
** *
78185823 TGATAGTAATAGTGTGAGCTATGA
1 TGATAGTAATAGTGCAAACTATGA
78185847 TGATAGTAATAGTGCAAACTATGA
1 TGATAGTAATAGTGCAAACTATGA
*
78185871 TGATAGTGATAGTG
1 TGATAGTAATAGTG
78185885 AAATTTGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (24 bp):
TGATAGTAATAGTGCAAACTATGA
Found at i:78186796 original size:7 final size:7
Alignment explanation
Indices: 78186784--78186830 Score: 58
Period size: 7 Copynumber: 6.1 Consensus size: 7
78186774 TTTTATTATT
78186784 TTTTTTA
1 TTTTTTA
78186791 TTTTTTA
1 TTTTTTA
78186798 TTTTTTATTA
1 --TTTT-TTA
78186808 TTTTTCTA
1 TTTTT-TA
78186816 TTTTTTA
1 TTTTTTA
78186823 TTTTTTA
1 TTTTTTA
78186830 T
1 T
78186831 GAAATTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
7 18 0.50
8 11 0.31
9 4 0.11
10 3 0.08
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:78186803 original size:26 final size:25
Alignment explanation
Indices: 78186774--78186830 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
78186764 ATTATGTTCC
*
78186774 TTTTATTATTTTTTTTATTTTTTATT
1 TTTTATTA-TTTTTCTATTTTTTATT
78186800 TTTTATTATTTTTCTATTTTTTATT
1 TTTTATTATTTTTCTATTTTTTATT
78186825 TTTTAT
1 TTTTAT
78186831 GAAATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTATTATTTTTCTATTTTTTATT
Found at i:78187050 original size:55 final size:55
Alignment explanation
Indices: 78186989--78187103 Score: 212
Period size: 55 Copynumber: 2.1 Consensus size: 55
78186979 TTACTAGGAT
78186989 AGTGTTCCCGTAATAAGAAAGAATTTTAATTCTCTAAAATGTGTTTGACTAATAA
1 AGTGTTCCCGTAATAAGAAAGAATTTTAATTCTCTAAAATGTGTTTGACTAATAA
**
78187044 AGTGTTCTTGTAATAAGAAAGAATTTTAATTCTCTAAAATGTGTTTGACTAATAA
1 AGTGTTCCCGTAATAAGAAAGAATTTTAATTCTCTAAAATGTGTTTGACTAATAA
78187099 AGTGT
1 AGTGT
78187104 AATTACATTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (55 bp):
AGTGTTCCCGTAATAAGAAAGAATTTTAATTCTCTAAAATGTGTTTGACTAATAA
Found at i:78191311 original size:32 final size:33
Alignment explanation
Indices: 78191266--78191357 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 33
78191256 TGAAATTGAA
*
78191266 ATGGGCTAGGCCCAACTGATATGTG-TTCTGAT
1 ATGGGCTAGGCCCAACTGATATGTGATTCTGAG
* * *
78191298 ATGGGCTAAGCCCAACTAATAT-TGATTTTGAG
1 ATGGGCTAGGCCCAACTGATATGTGATTCTGAG
*
78191330 ATGGGCTAGGCCCAATTGATACTGTGAT
1 ATGGGCTAGGCCCAACTGATA-TGTGAT
78191358 GGGTTGAGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 2 0.04
32 43 0.86
33 1 0.02
34 4 0.08
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (33 bp):
ATGGGCTAGGCCCAACTGATATGTGATTCTGAG
Found at i:78192625 original size:47 final size:47
Alignment explanation
Indices: 78192594--78192834 Score: 419
Period size: 47 Copynumber: 5.1 Consensus size: 47
78192584 CACTTCCACG
**
78192594 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
78192641 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
78192688 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
78192735 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGATCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
78192782 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
78192829 TTCATC
1 TTCATC
78192835 TCATAGAATC
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 183 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:78196248 original size:48 final size:48
Alignment explanation
Indices: 78196164--78196301 Score: 170
Period size: 50 Copynumber: 2.9 Consensus size: 48
78196154 CACATAATAA
* * * * *
78196164 GATGCCAAGGCCA-ATCCCCGATATGGTCTTACATGGGATCACATGCC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATACC
* * * *
78196211 GATGCCAATGCCATGTCCCAGACATGGTCCTATATGGGATCTCAGATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCACATACC
78196261 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
78196302 TCATTACACA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
47 12 0.16
48 22 0.29
50 43 0.56
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATACC
Found at i:78196273 original size:50 final size:50
Alignment explanation
Indices: 78196210--78196304 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
78196200 GATCACATGC
*
78196210 CGATGCCAATGCCATGTCCCAGACATGGTCCTATATGGGATCTCAGATAT
1 CGATGCCAATGCCATGTCCCAGACATGGTCCTACATGGGATCTCAGATAT
*
78196260 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCA
1 CGATGCCAATGCCATGTCCCAGACATGGTCCTACATGGGATCTCA
78196305 TTACACACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (50 bp):
CGATGCCAATGCCATGTCCCAGACATGGTCCTACATGGGATCTCAGATAT
Found at i:78202248 original size:18 final size:20
Alignment explanation
Indices: 78202206--78202242 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78202196 ATATTTTATG
*
78202206 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
78202225 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
78202243 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:78204463 original size:46 final size:46
Alignment explanation
Indices: 78204396--78204716 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
78204386 AGTGTGCTCT
* *
78204396 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
78204442 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
78204488 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
78204534 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* *** ***
78204580 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * **
78204626 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * * * * *
78204672 GTGACATGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
78204717 TCATGTCAAA
Statistics
Matches: 253, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
46 221 0.87
47 32 0.13
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:78207428 original size:18 final size:18
Alignment explanation
Indices: 78207397--78207452 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
78207387 GTGGGAGTCA
*
78207397 ATGT-CATGTGCATGGGC
1 ATGTGCATGTACATGGGC
78207414 ATGTGCATGTACATGGGC
1 ATGTGCATGTACATGGGC
* * *
78207432 ATGGGTATGGACATGGGC
1 ATGTGCATGTACATGGGC
78207450 ATG
1 ATG
78207453 GGCCAACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 4 0.12
18 30 0.88
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.27
Consensus pattern (18 bp):
ATGTGCATGTACATGGGC
Found at i:78207435 original size:6 final size:6
Alignment explanation
Indices: 78207401--78207455 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
78207391 GAGTCAATGT
* * ** * *
78207401 CATGTG CATGGG CATGTG CATGTA CATGGG CATGGG TATGGA CATGGG
1 CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG
78207449 CATGGG C
1 CATGGG C
78207456 CAACTTATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (6 bp):
CATGGG
Found at i:78207453 original size:18 final size:18
Alignment explanation
Indices: 78207407--78207455 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
78207397 ATGTCATGTG
* *
78207407 CATGGGCATGTGCATGTA
1 CATGGGCATGGGCATGGA
*
78207425 CATGGGCATGGGTATGGA
1 CATGGGCATGGGCATGGA
78207443 CATGGGCATGGGC
1 CATGGGCATGGGC
78207456 CAACTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.22
Consensus pattern (18 bp):
CATGGGCATGGGCATGGA
Found at i:78207544 original size:11 final size:11
Alignment explanation
Indices: 78207530--78207600 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 11
78207520 ATTGTTTTGC
* *
78207530 TATTATTTTTT
1 TATTATATTAT
78207541 TATTATATTAT
1 TATTATATTAT
*
78207552 TACTATATTAT
1 TATTATATTAT
*
78207563 TATTAT-TTAAA
1 TATTATATT-AT
* *
78207574 TATTAAATAAT
1 TATTATATTAT
* *
78207585 TTTTATTTTAT
1 TATTATATTAT
78207596 TATTA
1 TATTA
78207601 ATTTTAATAT
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
10 2 0.04
11 42 0.93
12 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATATTAT
Found at i:78207578 original size:33 final size:34
Alignment explanation
Indices: 78207541--78207613 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
78207531 ATTATTTTTT
*
78207541 TATTATATTATTACTATATTATTATT-ATTTAAA
1 TATTATATAATTACTATATTATTATTAATTTAAA
* ** * *
78207574 TATTAAATAATTTTTATTTTATTATTAATTTTAA
1 TATTATATAATTACTATATTATTATTAATTTAAA
78207608 TATTAT
1 TATTAT
78207614 TTTAGAGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (34 bp):
TATTATATAATTACTATATTATTATTAATTTAAA
Found at i:78207599 original size:22 final size:23
Alignment explanation
Indices: 78207537--78207602 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
78207527 TGCTATTATT
* *
78207537 TTTTTATTATATTATTACTATATTA
1 TTTTTATTTTATTATTA--ATATAA
* * *
78207562 TTATTATTTAAATATTAA-ATAA
1 TTTTTATTTTATTATTAATATAA
78207584 TTTTTATTTTATTATTAAT
1 TTTTTATTTTATTATTAAT
78207603 TTTAATATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
22 18 0.56
23 1 0.03
25 13 0.41
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTATTTTATTATTAATATAA
Found at i:78207701 original size:60 final size:62
Alignment explanation
Indices: 78207632--78207755 Score: 162
Period size: 60 Copynumber: 2.0 Consensus size: 62
78207622 TATTTGTTTG
* * ** *
78207632 TTAAGTTATAACTATCTTAGTCTTATTTAAATAT-AA-AAGTTTTTTAATATGTTTTTAATT
1 TTAAATTATAACTATCTTAGTCTTATGTAAATATAAATAAAATTTTTAATATATTTTTAATT
* * *
78207692 TTAAATTATAACTATTTTAGTGTTATGTAAGTATAAATAAAATTTTTAATATATTTTTAATT
1 TTAAATTATAACTATCTTAGTCTTATGTAAATATAAATAAAATTTTTAATATATTTTTAATT
78207754 TT
1 TT
78207756 TTAAAAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 29 0.54
61 2 0.04
62 23 0.43
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.53
Consensus pattern (62 bp):
TTAAATTATAACTATCTTAGTCTTATGTAAATATAAATAAAATTTTTAATATATTTTTAATT
Found at i:78207753 original size:18 final size:18
Alignment explanation
Indices: 78207732--78207799 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 18
78207722 GTATAAATAA
78207732 AATTTTTAATATATTTTT
1 AATTTTTAATATATTTTT
* * *
78207750 AATTTTTTAAAAAATATTT
1 AA-TTTTTAATATATTTTT
78207769 -A-TTTTAATAT-TTTTAT
1 AATTTTTAATATATTTT-T
* *
78207785 TATATTTAATATATT
1 AATTTTTAATATATT
78207800 ATATTTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
15 3 0.08
16 8 0.21
17 1 0.03
18 11 0.29
19 15 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTAATATATTTTT
Found at i:78213046 original size:258 final size:258
Alignment explanation
Indices: 78212589--78213102 Score: 1010
Period size: 258 Copynumber: 2.0 Consensus size: 258
78212579 GAAATGCTTG
78212589 GGAGTATATAGGACATGCAGAAATGAAGCTACACAAACATTACCCTAACATCACACGTAAATCAA
1 GGAGTATATAGGACATGCAGAAATGAAGCTACACAAACATTACCCTAACATCACACGTAAATCAA
78212654 CTTAAAAGGAACATACATCATAGGAAACAATTAATCCGGCCACTTTGCATCATTGCATTAGAGAA
66 CTTAAAAGGAACATACATCATAGGAAACAATTAATCCGGCCACTTTGCATCATTGCATTAGAGAA
78212719 AAAGGAAGCACAGCATGCCATCTTTGAGCACAAGAAAGATTCAAAGAAAGGAGGGTCACTGCTAT
131 AAAGGAAGCACAGCATGCCATCTTTGAGCACAAGAAAGATTCAAAGAAAGGAGGGTCACTGCTAT
78212784 CTACGCAAAATAGGATTATACAGGCACAAATTTCCCTAGAAGACAATAATGTGTTATACACTT
196 CTACGCAAAATAGGATTATACAGGCACAAATTTCCCTAGAAGACAATAATGTGTTATACACTT
*
78212847 GGAGTATATAGGACATGCAGAAATGAAGCTACACAAACATTACCCTAACATCACTCGTAAATCAA
1 GGAGTATATAGGACATGCAGAAATGAAGCTACACAAACATTACCCTAACATCACACGTAAATCAA
*
78212912 CTTAAAAGGAACATACATCATGGGAAACAATTAATCCGGCCACTTTGCATCATTGCATTAGAGAA
66 CTTAAAAGGAACATACATCATAGGAAACAATTAATCCGGCCACTTTGCATCATTGCATTAGAGAA
78212977 AAAGGAAGCACAGCATGCCATCTTTGAGCACAAGAAAGATTCAAAGAAAGGAGGGTCACTGCTAT
131 AAAGGAAGCACAGCATGCCATCTTTGAGCACAAGAAAGATTCAAAGAAAGGAGGGTCACTGCTAT
78213042 CTACGCAAAATAGGATTATACAGGCACAAATTTCCCTAGAAGACAATAATGTGTTATACAC
196 CTACGCAAAATAGGATTATACAGGCACAAATTTCCCTAGAAGACAATAATGTGTTATACAC
78213103 GTGGTTTCAA
Statistics
Matches: 254, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
258 254 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (258 bp):
GGAGTATATAGGACATGCAGAAATGAAGCTACACAAACATTACCCTAACATCACACGTAAATCAA
CTTAAAAGGAACATACATCATAGGAAACAATTAATCCGGCCACTTTGCATCATTGCATTAGAGAA
AAAGGAAGCACAGCATGCCATCTTTGAGCACAAGAAAGATTCAAAGAAAGGAGGGTCACTGCTAT
CTACGCAAAATAGGATTATACAGGCACAAATTTCCCTAGAAGACAATAATGTGTTATACACTT
Found at i:78218813 original size:69 final size:64
Alignment explanation
Indices: 78218734--78218918 Score: 194
Period size: 65 Copynumber: 2.8 Consensus size: 64
78218724 GAAAAGGAAG
* * *
78218734 TATAAGTAATATAAAACTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATATATAGATATAA
1 TATAAATAATAT-AAATTTAAATATTTAAAAAGT-AAAGAATAATAAATAAA-ATA-A-ATAAAA
78218799 CAAA
61 CAAA
* **
78218803 TATAAATAATATTAATTTTAGGTATTTAAAAAGTGAAAGAATAATAAAT-AAATAAATAAAACAA
1 TATAAATAATA-TAAATTTAAATATTTAAAAAGT-AAAGAATAATAAATAAAATAAATAAAACAA
78218867 A
64 A
**
78218868 TATAAATAATACTAAATTTAAA-ATAAAAAATAGGTAAAGAATAATAAATAA
1 TATAAATAATA-TAAATTTAAATATTTAAAA-A-GTAAAGAATAATAAATAA
78218919 GTAAGATAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
64 6 0.06
65 42 0.42
66 4 0.04
67 3 0.03
68 2 0.02
69 41 0.41
70 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (64 bp):
TATAAATAATATAAATTTAAATATTTAAAAAGTAAAGAATAATAAATAAAATAAATAAAACAAA
Found at i:78218872 original size:15 final size:16
Alignment explanation
Indices: 78218854--78218895 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
78218844 TAATAAATAA
78218854 ATAAATAAAAC-AAAT
1 ATAAATAAAACTAAAT
*
78218869 ATAAATAATACTAAAT
1 ATAAATAAAACTAAAT
*
78218885 TTAAAATAAAA
1 AT-AAATAAAA
78218896 AATAGGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATAAAACTAAAT
Found at i:78218916 original size:32 final size:33
Alignment explanation
Indices: 78218838--78218933 Score: 92
Period size: 32 Copynumber: 2.9 Consensus size: 33
78218828 TTAAAAAGTG
78218838 AAAGAATAATAAATAAATAAATAAAACAAATAT
1 AAAGAATAATAAATAAATAAATAAAACAAATAT
* * **
78218871 AAATAATACTAAATTTA-AAAT-AAA-AAATAGGT
1 AAAGAATAATAAATAAATAAATAAAACAAATA--T
*
78218903 AAAGAATAATAAATAAGTAAGATAAAA-AAAT
1 AAAGAATAATAAATAAATAA-ATAAAACAAAT
78218934 CTATAAAGGG
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
30 5 0.10
31 3 0.06
32 17 0.35
33 15 0.31
34 2 0.04
35 7 0.14
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (33 bp):
AAAGAATAATAAATAAATAAATAAAACAAATAT
Found at i:78220316 original size:44 final size:44
Alignment explanation
Indices: 78220263--78221096 Score: 449
Period size: 44 Copynumber: 18.8 Consensus size: 44
78220253 GGTGTAGAAA
* * * *
78220263 TTGTTGCTTCGATCTACTCCACTGCAATTTCAAGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
* * *
78220307 TTGTAGCTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
* *
78220351 TTGTATCTTCAATCTACTCCACTGCAACTTT--AGGAAGATAAG-T
1 TTGTAGCTTCAATCTGCTCCACTGCAA-TTTCAAGG-AGATAAGAT
* * * * * * *
78220394 TT-TGGCTTGAATTTACTCCTCTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
** * * * ** *
78220437 TCACTATCTTCAATCTGCTCTACTGCAACTTCAAAAAGATAATAT
1 T-TGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
* * * * *
78220482 TTGTGGCTTGAATCTGCCCCTCTACAATTTCAAGGAGATAAGATT
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGA-T
* * * * *
78220527 CACTTGTAGCTTTAATTTGTTTCACTGCAACTTT-AAGGAAATAAGAT
1 ---TTGTAGCTTCAATCTGCTCCACTGCAA-TTTCAAGGAGATAAGAT
* * * * * * *
78220574 TCGCATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
* * * ** *
78220618 TTGTAACTTCAACCTACTCTGCTGCAACTTT-AGGGAGATAA-AGT
1 TTGTAGCTTCAATCTGCTCCACTGCAA-TTTCAAGGAGATAAGA-T
* * * * * *
78220662 TTATAGCTTTAATCTACTCCACTACAACTTC-AGAGAGATAAAAT
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAG-GAGATAAGAT
* * * *
78220706 TTGCTATCTTCAATCTGCTCTACTGC-ATCTTCAGGGAGATAAGAC
1 TTG-TAGCTTCAATCTGCTCCACTGCAAT-TTCAAGGAGATAAGAT
** * ** *
78220751 TTGTAATTTCAACCTGCTCCACTATAACTTC-AGAGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAG-GAGATAAGAT
* * * * * *
78220795 TTATAGCTTTAATTTGCTCTACTGCAACTTT--AGAGAGATGAGGT
1 TTGTAGCTTCAATCTGCTCCACTGCAA-TTTCAAG-GAGATAAGAT
* * *
78220839 TTGCTATCTTCAATCTGCTCCACTGCAACTTT-AGGGAGATAAGAC
1 TTG-TAGCTTCAATCTGCTCCACTGCAA-TTTCAAGGAGATAAGAT
* * * ** * *
78220884 TTGTAACTTCAACCTGCTCCACTACACCTTCAGGGAGATAAGGT
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
* * * *
78220928 TTATAGCTTTAATCTGCTCTACTACAACTTT--AGAGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAA-TTTCAAG-GAGATAAGAT
* * ** * *
78220972 TTGCTATCTTCAATCTGTTCTGCTACAACTTC-AGAGAGATAAGAT
1 TTG-TAGCTTCAATCTGCTCCACTGCAATTTCAAG-GAGATAAGAT
* * * * * *
78221017 TTGCTATCTTCAATCTACTCCACTGTATTTTCAGGGAGATAAGAC
1 TTG-TAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
** * * *
78221062 TTGTAATTTCAACCTACTCCACTGCAACTTCAAGG
1 TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGG
78221097 GTGTGGGATT
Statistics
Matches: 595, Mismatches: 163, Indels: 64
0.72 0.20 0.08
Matches are distributed among these distances:
41 2 0.00
42 26 0.04
43 20 0.03
44 334 0.56
45 176 0.30
46 3 0.01
47 1 0.00
48 30 0.05
49 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGCTCCACTGCAATTTCAAGGAGATAAGAT
Found at i:78220740 original size:133 final size:133
Alignment explanation
Indices: 78220274--78221040 Score: 704
Period size: 133 Copynumber: 5.8 Consensus size: 133
78220264 TGTTGCTTCG
* * * *
78220274 ATCTACTCCACTGCAATTTCA-AGGAGATAAGACTTG-TAGCTTCAATCTGCTCCGCTGCAACTT
1 ATCTACTCCACTGCAACTTCAGA-GAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* * * * * * * *
78220337 CAAGGAGATGAGATTTGTATCTTCAATCTACTCCACTGCAACTTTAGGAAGAT-AAGTTT-TGGC
65 CAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTACAACTTTAGGGAGATAAAGTTTATAGC
*
78220400 TTGA
130 TTTA
* * * ** *
78220404 ATTTACTCCTCTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATCTGCTCTACTGCAACTTC
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTC
*** * * ** * * * * * * * *
78220469 AAAAAGATAATATTTGTGGCTTGAATCTGCCCCTCTACAA-TTTCAAGGAGATAAGATTCACTTG
66 AGGGAGATAAGACTTGTAACTTCAACCTACTCCACTACAACTTT-AGGGAGATAA-AGT---TTA
78220533 TAGCTTTA
126 TAGCTTTA
* ** * * * * *
78220541 ATTTGTTTCACTGCAACTTTA-AGGAAATAAGATTCGC-ATCTTCAATCTGCTCCACTACAACTT
1 ATCTACTCCACTGCAACTTCAGA-GAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
** *
78220604 CAGGGAGATAAGACTTGTAACTTCAACCTACTCTGCTGCAACTTTAGGGAGATAAAGTTTATAGC
65 CAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTACAACTTTAGGGAGATAAAGTTTATAGC
78220669 TTTA
130 TTTA
* * * *
78220673 ATCTACTCCACTACAACTTCAGAGAGATAAAATTTGCTATCTTCAATCTGCTCTACTGCATCTTC
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTC
* * * * *
78220738 AGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTATAACTTCAGAGAGAT-AAGATTTATAGC
66 AGGGAGATAAGACTTGTAACTTCAACCTACTCCACTACAACTTTAGGGAGATAAAG-TTTATAGC
78220802 TTTA
130 TTTA
* * * * * * *
78220806 ATTTGCTCTACTGCAACTTTAGAGAGATGAGGTTTGCTATCTTCAATCTGCTCCACTGCAACTTT
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTC
* * * *
78220871 AGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACACCTTCAGGGAGATAAGGTTTATAGCT
66 AGGGAGATAAGACTTGTAACTTCAACCTACTCCACTACAACTTTAGGGAGATAAAGTTTATAGCT
78220936 TTA
131 TTA
* * * * * ** *
78220939 ATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGTTCTGCTACAACTTC
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTC
* * * *
78221004 AGAGAGATAAGATTTGCTATCTTCAATCTACTCCACT
66 AGGGAGATAAGACTTG-TAACTTCAACCTACTCCACT
78221041 GTATTTTCAG
Statistics
Matches: 518, Mismatches: 103, Indels: 28
0.80 0.16 0.04
Matches are distributed among these distances:
130 31 0.06
131 60 0.12
132 40 0.08
133 267 0.52
134 19 0.04
135 2 0.00
136 62 0.12
137 37 0.07
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (133 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTC
AGGGAGATAAGACTTGTAACTTCAACCTACTCCACTACAACTTTAGGGAGATAAAGTTTATAGCT
TTA
Found at i:78221090 original size:89 final size:89
Alignment explanation
Indices: 78220550--78221093 Score: 406
Period size: 89 Copynumber: 6.1 Consensus size: 89
78220540 AATTTGTTTC
* * * * *
78220550 ACTGCAACTTTA-AGGAAATAAGATTCGC-ATCTTCAATCTGCTCCACTACAACTTCAGGGAGAT
1 ACTGCAACTTCAGA-GAGATAAGATTTGCTATCTTCAATCTGCTCCACTAAAACTTCAGAGAGAT
* *
78220613 AAGACTTGTAACTTCAACCTACTCT
65 AAGACTTGTAATTTCAACCTGCTCT
* * * * * * * *
78220638 GCTGCAACTTTAGGGAGATAA-AGTTT-ATAGCTTTAATCTACTCCACTACAACTTCAGAGAGAT
1 ACTGCAACTTCAGAGAGATAAGA-TTTGCTATCTTCAATCTGCTCCACTAAAACTTCAGAGAGAT
* * *
78220701 AAAATTTGCT-ATCTTCAATCTGCTCT
65 AAGACTTG-TAAT-TTCAACCTGCTCT
* * * * *
78220727 ACTGCATCTTCAGGGAGATAAGACTTG-TAAT-TTCAACCTGCTCCACTATAACTTCAGAGAGAT
1 ACTGCAACTTCAGAGAGATAAGATTTGCT-ATCTTCAATCTGCTCCACTAAAACTTCAGAGAGAT
* * * **
78220790 AAGATTTATAGCTTT-AATTTGCTCT
65 AAGACTTGTA-ATTTCAACCTGCTCT
* * * ** * *
78220815 ACTGCAACTTTAGAGAGATGAGGTTTGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTAAAACTTCAGAGAGATA
* *
78220880 AGACTTGTAACTTCAACCTGCTCC
66 AGACTTGTAATTTCAACCTGCTCT
* * * * * * * * * *
78220904 ACTACACCTTCAGGGAGATAAGGTTT-ATAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATA
1 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTAAAACTTCAGAGAGATA
* * *
78220968 AGATTTGCT-ATCTTCAATCTGTTCT
66 AGACTTG-TAAT-TTCAACCTGCTCT
* * * ** ** *
78220993 GCTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGTATTTTCAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTAAAACTTCAGAGAGATA
* *
78221058 AGACTTGTAATTTCAACCTACTCC
66 AGACTTGTAATTTCAACCTGCTCT
78221082 ACTGCAACTTCA
1 ACTGCAACTTCA
78221094 AGGGTGTGGG
Statistics
Matches: 356, Mismatches: 83, Indels: 33
0.75 0.18 0.07
Matches are distributed among these distances:
87 1 0.00
88 131 0.37
89 186 0.52
90 38 0.11
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (89 bp):
ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTAAAACTTCAGAGAGATA
AGACTTGTAATTTCAACCTGCTCT
Found at i:78229336 original size:20 final size:18
Alignment explanation
Indices: 78229309--78229356 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
78229299 AAAAAGAGTT
78229309 AAAAGAAAGGGATGAAACAA
1 AAAAGAAAGGGA-GAAA-AA
*
78229329 AGAAGAAAGGGAGAAAAA
1 AAAAGAAAGGGAGAAAAA
78229347 AAAAGAAAGG
1 AAAAGAAAGG
78229357 AAAAACTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 4 0.15
20 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (18 bp):
AAAAGAAAGGGAGAAAAA
Found at i:78229353 original size:21 final size:20
Alignment explanation
Indices: 78229311--78229356 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
78229301 AAAGAGTTAA
*
78229311 AAGAAAGGGATGAAACAAAG
1 AAGAAAGGGATGAAAAAAAG
78229331 AAGAAAGGGA-GAAAAAAA-
1 AAGAAAGGGATGAAAAAAAG
78229349 AAGAAAGG
1 AAGAAAGG
78229357 AAAAACTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
20 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.02
Consensus pattern (20 bp):
AAGAAAGGGATGAAAAAAAG
Found at i:78231529 original size:20 final size:21
Alignment explanation
Indices: 78231506--78231549 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
78231496 AAGCACGAGT
78231506 GTGTT-TAAGGTCACACGGGC
1 GTGTTCTAAGGTCACACGGGC
**
78231526 GTGTTCTTGGGTCACACGGGC
1 GTGTTCTAAGGTCACACGGGC
78231547 GTG
1 GTG
78231550 GCAGCCCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.14, C:0.20, G:0.39, T:0.27
Consensus pattern (21 bp):
GTGTTCTAAGGTCACACGGGC
Found at i:78231712 original size:19 final size:19
Alignment explanation
Indices: 78231668--78231712 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
78231658 AAAGGGACAT
78231668 ATTGATTAAATTAATATGTG
1 ATTG-TTAAATTAATATGTG
*
78231688 -TATGTTAAATTATTATGTG
1 AT-TGTTAAATTAATATGTG
78231707 ATTGTT
1 ATTGTT
78231713 CGTATTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
ATTGTTAAATTAATATGTG
Found at i:78234377 original size:19 final size:19
Alignment explanation
Indices: 78234355--78234393 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
78234345 CAATTAGCTC
78234355 TGCTAAATTTAATTACAAA
1 TGCTAAATTTAATTACAAA
78234374 TGCTAAATTTAATTACAAA
1 TGCTAAATTTAATTACAAA
78234393 T
1 T
78234394 TACTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (19 bp):
TGCTAAATTTAATTACAAA
Found at i:78234929 original size:22 final size:22
Alignment explanation
Indices: 78234895--78234943 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
78234885 CTAAACTTTT
* *
78234895 TTTTGTTGTTGTTTTGCTACCA
1 TTTTGCTGCTGTTTTGCTACCA
*
78234917 TTTTGCTGCTGTTTTGCTGCCA
1 TTTTGCTGCTGTTTTGCTACCA
78234939 TTTTG
1 TTTTG
78234944 TTGTTATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.06, C:0.16, G:0.20, T:0.57
Consensus pattern (22 bp):
TTTTGCTGCTGTTTTGCTACCA
Found at i:78235967 original size:25 final size:25
Alignment explanation
Indices: 78235938--78236008 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
78235928 TGTATATATA
78235938 TATTAAAATATGAACATAATAATAG
1 TATTAAAATATGAACATAATAATAG
* *
78235963 TATTAAAAATATGTACCTAAT-ATAG
1 TATT-AAAATATGAACATAATAATAG
**
78235988 CGTTAAAATAT-ATACATAATA
1 TATTAAAATATGA-ACATAATA
78236009 TAATTATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 13 0.35
25 10 0.27
26 14 0.38
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (25 bp):
TATTAAAATATGAACATAATAATAG
Found at i:78236005 original size:50 final size:47
Alignment explanation
Indices: 78235935--78236126 Score: 153
Period size: 50 Copynumber: 3.9 Consensus size: 47
78235925 ATATGTATAT
*
78235935 ATATATTAAAATATGA-ACATAATAATAGTATTAAAAATATGTACCTA
1 ATATATTAAAATAT-ATACATAATAATAGTATTAAAAATATATACCTA
* *
78235982 ATATAGCGTTAAAATATATACATAAT-ATAATTATTAAAAAATATATTTACATAA
1 ATATA---TTAAAATATATACATAATAAT-AGTATT-AAAAATATA--TACCT-A
* * * *
78236036 GATAATATAAAAATATATACATGA-AATAGTATAAAAAATATATAACTA
1 -AT-ATATTAAAATATATACATAATAATAGTATTAAAAATATATACCTA
*
78236084 ATAATATTAAAAATATATACATAAT-ATA-TA-TAAAAACATATAC
1 AT-ATATT-AAAATATATACATAATAATAGTATTAAAAATATATAC
78236127 GATATATATA
Statistics
Matches: 117, Mismatches: 14, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
46 10 0.09
47 14 0.12
48 18 0.15
49 6 0.05
50 21 0.18
51 17 0.15
52 4 0.03
53 21 0.18
54 1 0.01
55 2 0.02
56 3 0.03
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (47 bp):
ATATATTAAAATATATACATAATAATAGTATTAAAAATATATACCTA
Found at i:78236018 original size:25 final size:24
Alignment explanation
Indices: 78235931--78236157 Score: 130
Period size: 24 Copynumber: 9.2 Consensus size: 24
78235921 ATACATATGT
78235931 ATATATATATTAAAATATGA-ACATA
1 ATATA-ATATTAAAATAT-ATACATA
* * *
78235956 ATAATAGTATTAAAAATATGTACCTA
1 AT-ATAATATT-AAAATATATACATA
***
78235982 ATATAGCGTTAAAATATATACATA
1 ATATAATATTAAAATATATACATA
78236006 ATATAATTATTAAAAAATATATTTACATA
1 ATATAA-TATT--AAAATATA--TACATA
* *
78236035 AGATAATATAAAAATATATACATGA
1 ATATAATATTAAAATATATACAT-A
* *
78236060 A-ATAGTA-TAAAA-A-ATATATA
1 ATATAATATTAAAATATATACATA
78236080 ACTAATAATATTAAAAATATATACATA
1 A-T-ATAATATT-AAAATATATACATA
* *
78236107 ATAT-ATATAAAAACATATACGAT-
1 ATATAATATTAAAATATATAC-ATA
*
78236130 ATATATATATT-AGATATGATA-ATA
1 ATATA-ATATTAAAATAT-ATACATA
78236154 ATAT
1 ATAT
78236158 GAAAAAAAAC
Statistics
Matches: 159, Mismatches: 22, Indels: 43
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.01
21 5 0.03
22 1 0.01
23 25 0.16
24 42 0.26
25 29 0.18
26 26 0.16
27 15 0.09
28 3 0.02
29 11 0.07
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATAATATTAAAATATATACATA
Found at i:78236021 original size:26 final size:25
Alignment explanation
Indices: 78235931--78236141 Score: 156
Period size: 23 Copynumber: 8.4 Consensus size: 25
78235921 ATACATATGT
78235931 ATATATATATT-AAAATATGA-ACATA
1 ATATA-ATATTAAAAATAT-ATACATA
* * *
78235956 ATAATAGTATTAAAAATATGTACCTA
1 AT-ATAATATTAAAAATATATACATA
***
78235982 ATATAGCGTT-AAAATATATACATA
1 ATATAATATTAAAAATATATACATA
78236006 ATATAATTATTAAAAAATATATTTACATA
1 ATATAA-TATT-AAAAATATA--TACATA
*
78236035 AGATAATA-TAAAAATATATACATGA
1 ATATAATATTAAAAATATATACAT-A
* *
78236060 A-ATAGTATAAAAAATATATA-ACT-
1 ATATAATATTAAAAATATATACA-TA
78236083 A-ATAATATTAAAAATATATACATA
1 ATATAATATTAAAAATATATACATA
*
78236107 ATAT-ATA-TAAAAACATATACGAT-
1 ATATAATATTAAAAATATATAC-ATA
78236130 ATATATATATTA
1 ATATA-ATATTA
78236142 GATATGATAA
Statistics
Matches: 152, Mismatches: 16, Indels: 35
0.75 0.08 0.17
Matches are distributed among these distances:
23 35 0.23
24 35 0.23
25 33 0.22
26 27 0.18
27 9 0.06
28 2 0.01
29 11 0.07
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATAATATTAAAAATATATACATA
Found at i:78236241 original size:3 final size:3
Alignment explanation
Indices: 78236228--78236267 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
78236218 AGTGAAAATC
*
78236228 AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
78236268 GTAGGAGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:78238397 original size:7 final size:7
Alignment explanation
Indices: 78238385--78238433 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
78238375 TTTTAATTGT
78238385 ATTTAAA
1 ATTTAAA
78238392 ATTTAAA
1 ATTTAAA
78238399 ATTTAAA
1 ATTTAAA
78238406 ATTTAAA
1 ATTTAAA
78238413 ATTT--A
1 ATTTAAA
78238418 ATTTAAA
1 ATTTAAA
*
78238425 ATTTTAA
1 ATTTAAA
78238432 AT
1 AT
78238434 ATTATCAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 5 0.13
7 34 0.87
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATTTAAA
Found at i:78248683 original size:26 final size:26
Alignment explanation
Indices: 78248654--78248707 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
78248644 ATTTAAATTT
78248654 TTTAAATTAAGTTGAATGAAATTAAA
1 TTTAAATTAAGTTGAATGAAATTAAA
* * *
78248680 TTTAATTTGAGTTGAATTAAATTAAA
1 TTTAAATTAAGTTGAATGAAATTAAA
78248706 TT
1 TT
78248708 GAGTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (26 bp):
TTTAAATTAAGTTGAATGAAATTAAA
Found at i:78248689 original size:21 final size:21
Alignment explanation
Indices: 78248655--78248707 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
78248645 TTTAAATTTT
*
78248655 TTAAA-TTAAGTTGA-ATGAAA
1 TTAAATTTAATTTGAGATG-AA
*
78248675 TTAAATTTAATTTGAGTTGAA
1 TTAAATTTAATTTGAGATGAA
*
78248696 TTAAATTAAATT
1 TTAAATTTAATT
78248708 GAGTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 21 0.75
22 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (21 bp):
TTAAATTTAATTTGAGATGAA
Found at i:78249016 original size:20 final size:20
Alignment explanation
Indices: 78248991--78249030 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
78248981 AAATATATAA
*
78248991 ATTTTGGAGTTTTAAAAAAT
1 ATTTTGAAGTTTTAAAAAAT
*
78249011 ATTTTGAATTTTTAAAAAAT
1 ATTTTGAAGTTTTAAAAAAT
78249031 CAATTTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (20 bp):
ATTTTGAAGTTTTAAAAAAT
Found at i:78250152 original size:18 final size:19
Alignment explanation
Indices: 78250117--78250157 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
78250107 ATTATTATAA
78250117 AAAATTAAATACACTA-TT
1 AAAATTAAATACACTATTT
*
78250135 AAAATTAAAATAGA-TATTT
1 AAAATT-AAATACACTATTT
78250154 AAAA
1 AAAA
78250158 ATATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATTAAATACACTATTT
Found at i:78250726 original size:5 final size:5
Alignment explanation
Indices: 78250716--78250771 Score: 105
Period size: 5 Copynumber: 11.4 Consensus size: 5
78250706 TTATGTTTTA
78250716 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
78250766 A-TAT AT
1 ATTAT AT
78250772 AAACTAAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.08
5 46 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:78251114 original size:15 final size:15
Alignment explanation
Indices: 78251094--78251150 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
78251084 CGATGAATTT
78251094 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
78251109 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
* *
78251124 ATTAAATTTATATAG
1 ATTGAATTTATATTG
78251139 ATTGAA-TTATAT
1 ATTGAATTTATAT
78251151 AATATATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 6 0.17
15 29 0.83
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:78251605 original size:21 final size:21
Alignment explanation
Indices: 78251534--78251629 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
78251524 AGGCACTTTA
78251534 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
78251557 TGTGTCATATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
78251578 AGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
78251599 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
78251620 TGTGTCGTAT
1 TGTGTCGTAT
78251630 ACTGATCAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 55 0.87
23 8 0.13
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:78251625 original size:42 final size:42
Alignment explanation
Indices: 78251521--78251629 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 42
78251511 GGCTTTATCG
78251521 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCAT
** *
78251565 ATCAGGCACCTCGA-GTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCA-CTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
* *
78251607 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
78251630 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 3 0.05
42 34 0.61
44 16 0.29
45 3 0.05
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
Found at i:78253073 original size:22 final size:21
Alignment explanation
Indices: 78253048--78253103 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
78253038 AAAAATTCAA
78253048 AAAAATATATAAAAAGTATTTT
1 AAAAAT-TATAAAAAGTATTTT
*
78253070 AAAAATTAGAAAAAGTATTTT
1 AAAAATTATAAAAAGTATTTT
*
78253091 TAAAATT-TAAAAA
1 AAAAATTATAAAAA
78253104 TAATTTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 5 0.16
21 20 0.65
22 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAAAATTATAAAAAGTATTTT
Found at i:78253428 original size:59 final size:58
Alignment explanation
Indices: 78253325--78253493 Score: 216
Period size: 59 Copynumber: 2.9 Consensus size: 58
78253315 GGACATGAAC
* ** *
78253325 ATTTGGTACATGAATTTGACATTTTTCTTAATTTGGTAATTAAAACTTTTTT-GTCTCA
1 ATTTGGTACATGAACTTGACATTTTTCTTAATTTGGTACCTAAAACTTTTTTAG-CCCA
* * *
78253383 ATTTGGTACTTGAACTTGACACTTTTTCTTAATTTTGTACCTAAAATTTTTTTAGCCCA
1 ATTTGGTACATGAACTTGACA-TTTTTCTTAATTTGGTACCTAAAACTTTTTTAGCCCA
* *
78253442 ATTTGGTACCTGAACTTGACATTTTTTCTTAATTTGGTACCT-AAGCTTTTTT
1 ATTTGGTACATGAACTTGACA-TTTTTCTTAATTTGGTACCTAAAACTTTTTT
78253494 TCTAAGTTCA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
58 27 0.28
59 69 0.71
60 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (58 bp):
ATTTGGTACATGAACTTGACATTTTTCTTAATTTGGTACCTAAAACTTTTTTAGCCCA
Found at i:78259122 original size:38 final size:37
Alignment explanation
Indices: 78259076--78259170 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 37
78259066 GCTTAAAGAC
78259076 CCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
** *
78259113 CTCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 C-CGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
* * *
78259151 CCACAGGCCTAGTGCTGGTA
1 CCGCAGGCTTCGTGCTGGTA
78259171 TTATATTCGG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
37 17 0.33
38 34 0.67
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (37 bp):
CCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
Found at i:78259167 original size:37 final size:38
Alignment explanation
Indices: 78259087--78259181 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 38
78259077 CGCAGGCTTC
** * * * *
78259087 GTGCTGGTAAAATATCCGGGTTAAATCTCGCAGGCTTC
1 GTGCTGGTATTATATCCGGGATAAATCTCACAGGCCTA
78259125 GTGCTGGTATTATATCCGGGATAAATC-CACAGGCCTA
1 GTGCTGGTATTATATCCGGGATAAATCTCACAGGCCTA
*
78259162 GTGCTGGTATTATATTCGGG
1 GTGCTGGTATTATATCCGGG
78259182 CCTTCGTGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 26 0.52
38 24 0.48
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (38 bp):
GTGCTGGTATTATATCCGGGATAAATCTCACAGGCCTA
Found at i:78259222 original size:43 final size:43
Alignment explanation
Indices: 78259174--78259328 Score: 283
Period size: 43 Copynumber: 3.6 Consensus size: 43
78259164 GCTGGTATTA
78259174 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
78259217 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGAAGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
78259260 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
78259303 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
78259329 GTAATGCTGG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.11, C:0.26, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:78265224 original size:21 final size:21
Alignment explanation
Indices: 78265169--78265224 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
78265159 TGTGGGGGTC
78265169 TACACGCCCGTGTGGAGGCCA
1 TACACGCCCGTGTGGAGGCCA
* * ** **
78265190 CACATGCCTATGTGGAGGGGA
1 TACACGCCCGTGTGGAGGCCA
78265211 TACACGCCCGTGTG
1 TACACGCCCGTGTG
78265225 AGCAGCCTGT
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.18
Consensus pattern (21 bp):
TACACGCCCGTGTGGAGGCCA
Found at i:78272106 original size:40 final size:40
Alignment explanation
Indices: 78272052--78272169 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
78272042 CGGATGTAAC
* * *
78272052 AACCAGCACAAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
78272092 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
78272132 AACCCACACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
78272170 TTTTATTTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:78275619 original size:18 final size:18
Alignment explanation
Indices: 78275596--78275638 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
78275586 TTAAAAGGAA
78275596 TTTATTATATTA-ATTAAT
1 TTTATT-TATTAGATTAAT
*
78275614 TTTATTTTTTAGATTAAT
1 TTTATTTATTAGATTAAT
78275632 TTTATTT
1 TTTATTT
78275639 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATTTATTAGATTAAT
Found at i:78283251 original size:34 final size:35
Alignment explanation
Indices: 78283200--78283279 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
78283190 CACACAAGTG
*
78283200 AAAAAT-ATATATTATATAT-AAATTTACATTTAA
1 AAAAATAATATATCATATATAAAATTTACATTTAA
78283233 AAAAATAATATATCATATATAAAATTTACATTTAA
1 AAAAATAATATATCATATATAAAATTTACATTTAA
78283268 AAATAATAATAT
1 AAA-AATAATAT
78283280 TGAAAAAAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
33 6 0.14
34 12 0.28
35 17 0.40
36 8 0.19
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (35 bp):
AAAAATAATATATCATATATAAAATTTACATTTAA
Found at i:78283285 original size:29 final size:34
Alignment explanation
Indices: 78283200--78283275 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
78283190 CACACAAGTG
* *
78283200 AAAAAT-ATATATTATATA-TAAATTTACATTTAA
1 AAAAATAATATATCATATAGAAAATTTACATTT-A
*
78283233 AAAAATAATATATCATATATAAAATTTACATTT-
1 AAAAATAATATATCATATAGAAAATTTACATTTA
78283266 AAAAATAATA
1 AAAAATAATA
78283276 ATATTGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 16 0.41
34 11 0.28
35 12 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (34 bp):
AAAAATAATATATCATATAGAAAATTTACATTTA
Found at i:78289344 original size:38 final size:38
Alignment explanation
Indices: 78289299--78289377 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
78289289 TAAAATGCGT
78289299 AAATGATGTATGTTAGGCCGCCAAGACCTACGAAAATA
1 AAATGATGTATGTTAGGCCGCCAAGACCTACGAAAATA
* *
78289337 AAATGATGTATGTTAGGCCGCTAAGACCTACGTAAATA
1 AAATGATGTATGTTAGGCCGCCAAGACCTACGAAAATA
78289375 AAA
1 AAA
78289378 CTTACTTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (38 bp):
AAATGATGTATGTTAGGCCGCCAAGACCTACGAAAATA
Found at i:78294355 original size:24 final size:24
Alignment explanation
Indices: 78294310--78294424 Score: 121
Period size: 23 Copynumber: 4.9 Consensus size: 24
78294300 AAGCTTCTTC
*
78294310 TGAGCTGATAAATAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
*
78294335 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
*
78294359 TGAGCTG--AACAGTAAGCTCTTT
1 TGAGCTGAAAACAGTAAGCTCTAT
* * * *
78294381 TGAGCTG-AATCGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTAT
*
78294404 TGAGCT-AAAACAGTAGGCTCT
1 TGAGCTGAAAACAGTAAGCTCT
78294425 TACGAGCTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
22 20 0.27
23 26 0.35
24 21 0.28
25 8 0.11
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:78294384 original size:46 final size:46
Alignment explanation
Indices: 78294323--78294425 Score: 136
Period size: 46 Copynumber: 2.2 Consensus size: 46
78294313 GCTGATAAAT
* * * *
78294323 AGTAAGCTCTATTGAGCTGAAAACGGTAAGCTCTATTGAGCT-GAAC
1 AGTAAGCTCTTTTGAGCTG-AAACGGTAAGCTCCAATGAGCTAAAAC
*
78294369 AGTAAGCTCTTTTGAGCTGAATCGGTAAGCTCCAATGAGCTAAAAC
1 AGTAAGCTCTTTTGAGCTGAAACGGTAAGCTCCAATGAGCTAAAAC
*
78294415 AGTAGGCTCTT
1 AGTAAGCTCTT
78294426 ACGAGCTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
45 19 0.38
46 31 0.62
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (46 bp):
AGTAAGCTCTTTTGAGCTGAAACGGTAAGCTCCAATGAGCTAAAAC
Found at i:78304467 original size:40 final size:40
Alignment explanation
Indices: 78304392--78304468 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
78304382 CATAAAGCTG
* ***
78304392 AAGCTACTCCAAATCGCACACTAAGTGCTTTATATAGGCA
1 AAGCTACTCCAAAACGCACACTAAGTGCAAAATATAGGCA
*
78304432 AAGCTA-TCTCAAAACGCACAGTAAGTGCAAAATATAG
1 AAGCTACTC-CAAAACGCACACTAAGTGCAAAATATAG
78304469 TCGATTTGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (40 bp):
AAGCTACTCCAAAACGCACACTAAGTGCAAAATATAGGCA
Found at i:78310442 original size:43 final size:41
Alignment explanation
Indices: 78310385--78310517 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 41
78310375 TTTACATATT
* * *
78310385 ATCACATATCGATGCCACTGTCCCAGACAGGGTCTAACACGTA
1 ATCA-ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTA
78310428 ATCAATTAACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 ATCAA-T-ACGATGCCAATGTCCCAGACATGGTCTTACACGTA
* *
78310471 ATCGCAATACAATGCCAATGTCCCAGACATGGTCTTACATGTA
1 AT--CAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
78310514 ATCA
1 ATCA
78310518 CATCTCGGTA
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 73 0.90
44 2 0.02
45 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
Found at i:78321635 original size:66 final size:67
Alignment explanation
Indices: 78321538--78321695 Score: 175
Period size: 66 Copynumber: 2.4 Consensus size: 67
78321528 CAGTTTTGAG
* * *
78321538 CACGGGCTAGACACACGGGCGTG--TGACTGGCCGTGTAAACCAAGTCAGTA-G-CCTCCCTAAT
1 CACGGCCTAGACACACGGGCGTGTCTTA-TGGCCGTGTAAA-CAAGTCAGTATGTACTCCCT-AT
78321599 TTT-C
63 TTTGC
* * * *
78321603 ACACGGCCT-GGCACACGGTCGTGTCTTATGGCCGTGTGAACAAGTCAGTATGTATTCCCTATTT
1 -CACGGCCTAGACACACGGGCGTGTCTTATGGCCGTGTAAACAAGTCAGTATGTACTCCCTATTT
78321667 TGC
65 TGC
78321670 CACGGCCTAGACACACGGGCGTGTCT
1 CACGGCCTAGACACACGGGCGTGTCT
78321696 AATGCCATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
65 22 0.29
66 32 0.42
67 23 0.30
ACGTcount: A:0.21, C:0.28, G:0.27, T:0.24
Consensus pattern (67 bp):
CACGGCCTAGACACACGGGCGTGTCTTATGGCCGTGTAAACAAGTCAGTATGTACTCCCTATTTT
GC
Found at i:78324880 original size:34 final size:34
Alignment explanation
Indices: 78324836--78324905 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
78324826 CCGGTATTAG
*
78324836 TACAATCAGAATCAGGG-AAAGAATTTGTGATCTA
1 TACAACCAGAATC-GGGTAAAGAATTTGTGATCTA
78324870 TACAACCAGAATCGGGTAAAGAATTTGTGATCTA
1 TACAACCAGAATCGGGTAAAGAATTTGTGATCTA
78324904 TA
1 TA
78324906 GTGATGCTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (34 bp):
TACAACCAGAATCGGGTAAAGAATTTGTGATCTA
Found at i:78332829 original size:31 final size:31
Alignment explanation
Indices: 78332794--78332854 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
78332784 CATAAGAGCA
78332794 AGAAACCAATAGAACTCAACAATAAGGACCC
1 AGAAACCAATAGAACTCAACAATAAGGACCC
78332825 AGAAACCAATAGAACTCAACAATAAGGACC
1 AGAAACCAATAGAACTCAACAATAAGGACC
78332855 TAAAAAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.25, G:0.13, T:0.10
Consensus pattern (31 bp):
AGAAACCAATAGAACTCAACAATAAGGACCC
Found at i:78334423 original size:15 final size:15
Alignment explanation
Indices: 78334403--78334441 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
78334393 TTACGAAAGT
78334403 ACTAAAGTA-AGAGTA
1 ACTAAAGTACAG-GTA
*
78334418 ACTAAAGTACAGTTA
1 ACTAAAGTACAGGTA
78334433 ACTAAAGTA
1 ACTAAAGTA
78334442 TAATTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (15 bp):
ACTAAAGTACAGGTA
Found at i:78339034 original size:31 final size:31
Alignment explanation
Indices: 78338996--78339055 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
78338986 CCTTTTCATA
78338996 TTTCATATTTCATAACACTGGGCCGAAGCAT
1 TTTCATATTTCATAACACTGGGCCGAAGCAT
***
78339027 TTTCATATTTCATATTTCTGGGCCGAAGC
1 TTTCATATTTCATAACACTGGGCCGAAGC
78339056 CTTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCAT
Found at i:78339317 original size:23 final size:24
Alignment explanation
Indices: 78339267--78339369 Score: 133
Period size: 23 Copynumber: 4.4 Consensus size: 24
78339257 CTGGAGGCCT
* *
78339267 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTAGGGCATA
78339292 AGCCCTTTTAATAACT-GGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
78339315 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
78339338 AGCCC-TTTAATAACT-GGGATATA
1 AGCCCTTTTAATAACTAGGG-CATA
78339361 AGCCCTTTT
1 AGCCCTTTT
78339370 TCACTTCCTC
Statistics
Matches: 73, Mismatches: 2, Indels: 7
0.89 0.02 0.09
Matches are distributed among these distances:
22 13 0.18
23 41 0.56
24 15 0.21
25 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:78339327 original size:46 final size:46
Alignment explanation
Indices: 78339274--78339368 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
78339264 CCTAGCCTCT
*
78339274 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGG-CATAAGCCC
1 TTTAATAACTAGGGCAAAAGCCC-TTTAATAACTGGGACATAAGCCC
* *
78339320 TTTAATAACTAGGGCATAAGCCCTTTAATAACTGGGATATAAGCCC
1 TTTAATAACTAGGGCAAAAGCCCTTTAATAACTGGGACATAAGCCC
78339366 TTT
1 TTT
78339369 TTCACTTCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 13 0.29
46 32 0.71
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (46 bp):
TTTAATAACTAGGGCAAAAGCCCTTTAATAACTGGGACATAAGCCC
Found at i:78339444 original size:20 final size:20
Alignment explanation
Indices: 78339419--78339465 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
78339409 TTATGATTAC
78339419 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
78339439 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78339459 GTCATGT
1 ATCATGT
78339466 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78339534 original size:25 final size:25
Alignment explanation
Indices: 78339502--78339549 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
78339492 ATACATAAAC
* *
78339502 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
78339527 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
78339550 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:78345207 original size:59 final size:58
Alignment explanation
Indices: 78345131--78345307 Score: 266
Period size: 59 Copynumber: 3.0 Consensus size: 58
78345121 ATGGGTAATA
* *
78345131 ATTCTAGACCTT-TGAATAATCCCTATAGTAACACTTATAATGCACGTTAGAGGAACCAT
1 ATTCTAGA-CTTCAGAATAATCCCTATAGTAACACTTATAATGCAGGTT-GAGGAACCAT
* *
78345190 ATTCTAGACTTCAGAATAATCCCTATAGTAATACTTATAATACAGGTTGAAGGAACCAT
1 ATTCTAGACTTCAGAATAATCCCTATAGTAACACTTATAATGCAGGTTG-AGGAACCAT
*
78345249 ATTCTAGACCTCAGAATAATCCCTATAGTAACACTTATAATGCAGGTTGGAGGAACCAT
1 ATTCTAGACTTCAGAATAATCCCTATAGTAACACTTATAATGCAGGTT-GAGGAACCAT
78345308 CCCAATTTCT
Statistics
Matches: 108, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
58 4 0.04
59 103 0.95
60 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (58 bp):
ATTCTAGACTTCAGAATAATCCCTATAGTAACACTTATAATGCAGGTTGAGGAACCAT
Found at i:78349420 original size:43 final size:43
Alignment explanation
Indices: 78349355--78349675 Score: 357
Period size: 43 Copynumber: 7.5 Consensus size: 43
78349345 TGTAAAAAAT
*
78349355 GCCGCTATAGAACAAGACCTTTAGCGGTC-CTTTTTCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGG-CGCTTTTTCCACAAAC
* ** *
78349398 GCCACTATAGAACATGACCTTTAAAGGCACTTTTTCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
*
78349441 GCCGCTATAGAACATGACCTTTAGCGGCGC-TTTGCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* * * *
78349483 GCCACTAAAGAGCATGACCTTTAGGGGCG-TTTTTCGCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTC-CACAAAC
* * * * * *
78349526 GTCGCTAAAGAGCATGACCCTTAGCGGCGGTTTTTTCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* *
78349569 GCCGCTATAGAACA-GACCTTTAGCGGCGCTTTTGCCACAAAT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* * * *
78349611 GCCACTATAGAACA-GACCTTTAGCAGCAC-TTTTCTCACAAAT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTC-CACAAAC
* *
78349653 GTCGCTAAAGAACATGACCTTTA
1 GCCGCTATAGAACATGACCTTTA
78349676 AAACAAATTT
Statistics
Matches: 238, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
41 4 0.02
42 108 0.45
43 121 0.51
44 5 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:78349505 original size:85 final size:84
Alignment explanation
Indices: 78349355--78349677 Score: 337
Period size: 85 Copynumber: 3.8 Consensus size: 84
78349345 TGTAAAAAAT
* *
78349355 GCCGCTATAGAACAAGACCTTTAGCGGTC-CTTTTTCCACAAACGCCACTATAGAACATGACCTT
1 GCCGCTATAGAACATGACCTTTAGCGG-CGC-TTTTCCACAAACGCCACTAAAGAACATGACCTT
78349419 TAAAGGCACTTTTTCCACAAAC
64 TAAAGGC-CTTTTTCCACAAAC
* *
78349441 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTGCCACAAACGCCACTAAAGAGCATGACCTTTA
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCACAAACGCCACTAAAGAACATGACCTTTA
** *
78349506 GGGGCGTTTTTCGCACAAAC
66 AAGGCCTTTTTC-CACAAAC
* * * * * * * *
78349526 GTCGCTAAAGAGCATGACCCTTAGCGGCGGTTTTTTCACAAACGCCGCTATAGAACA-GACCTTT
1 GCCGCTATAGAACATGACCTTTAGCGGC-GCTTTTCCACAAACGCCACTAAAGAACATGACCTTT
** * *
78349590 AGCGGCGCTTTTGCCACAAAT
65 AAAGGC-CTTTTTCCACAAAC
* * * * * *
78349611 GCCACTATAGAACA-GACCTTTAGCAGCACTTTTCTCACAAATGTCGCTAAAGAACATGACCTTT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTC-CACAAACGCCACTAAAGAACATGACCTTT
78349675 AAA
65 AAA
78349678 ACAAATTTAA
Statistics
Matches: 196, Mismatches: 35, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
83 4 0.02
84 35 0.18
85 103 0.53
86 54 0.28
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (84 bp):
GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCACAAACGCCACTAAAGAACATGACCTTTA
AAGGCCTTTTTCCACAAAC
Found at i:78349908 original size:12 final size:12
Alignment explanation
Indices: 78349893--78349955 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
78349883 CAAGTTATCT
*
78349893 TAAATATTAAAA
1 TAAAAATTAAAA
*
78349905 TAAAAATAAAAA
1 TAAAAATTAAAA
*
78349917 TAAAAATTTAGAA
1 TAAAAA-TTAAAA
* *
78349930 TCAAAACTAAAA
1 TAAAAATTAAAA
*
78349942 TAAATAATAAAAA
1 TAAA-AATTAAAA
78349955 T
1 T
78349956 TAGATTAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 23 0.59
13 16 0.41
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (12 bp):
TAAAAATTAAAA
Found at i:78352034 original size:29 final size:30
Alignment explanation
Indices: 78351993--78352059 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
78351983 GGCCCAAGAG
* *
78351993 TAAATACTCAAAATTTTAAGGATTAA-AGTA
1 TAAATA-TCAAAATTTGAAGGACTAATAGTA
* *
78352023 TAAATATGAAAATTTGAAGGACTAATAGTG
1 TAAATATCAAAATTTGAAGGACTAATAGTA
78352053 TAAATAT
1 TAAATAT
78352060 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.33
Consensus pattern (30 bp):
TAAATATCAAAATTTGAAGGACTAATAGTA
Found at i:78363676 original size:10 final size:10
Alignment explanation
Indices: 78363661--78363685 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
78363651 TAATCTAAAG
78363661 ATGAACAACC
1 ATGAACAACC
78363671 ATGAACAACC
1 ATGAACAACC
78363681 ATGAA
1 ATGAA
78363686 ATTATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (10 bp):
ATGAACAACC
Found at i:78364518 original size:27 final size:26
Alignment explanation
Indices: 78364479--78364530 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
78364469 TCGGGGGGAA
*
78364479 AAAAAAGTAAGGAGAAAAGGTTGGGG
1 AAAAAAGTAAGGAAAAAAGGTTGGGG
78364505 AAAAAAGTAGAGGAAAAAAGGTTGGG
1 AAAAAAGTA-AGGAAAAAAGGTTGGG
78364531 CTACAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.52, C:0.00, G:0.37, T:0.12
Consensus pattern (26 bp):
AAAAAAGTAAGGAAAAAAGGTTGGGG
Found at i:78365833 original size:21 final size:21
Alignment explanation
Indices: 78365771--78365861 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
78365761 TAAACCATAG
*
78365771 CCATAAACCGT-AATCCATAAA
1 CCATAAACCATAAATCC-TAAA
* ** *
78365792 CCTTAAAATAGTAACTCCTAAA
1 CCATAAACCA-TAAATCCTAAA
78365814 CCATAAACCATAAATCCTAAA
1 CCATAAACCATAAATCCTAAA
* *
78365835 -CACTAAACCATATACCCTAAA
1 CCA-TAAACCATAAATCCTAAA
*
78365856 CTATAA
1 CCATAA
78365862 TGATAATTAA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
20 2 0.04
21 35 0.65
22 13 0.24
23 4 0.07
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.22
Consensus pattern (21 bp):
CCATAAACCATAAATCCTAAA
Found at i:78365854 original size:14 final size:14
Alignment explanation
Indices: 78365771--78365861 Score: 62
Period size: 14 Copynumber: 6.4 Consensus size: 14
78365761 TAAACCATAG
* *
78365771 CCATAAACCGTAAT
1 CCATAAACCCTAAA
*
78365785 CCATAAACCTTAAA
1 CCATAAACCCTAAA
78365799 --ATAGTAACTCCTAAA
1 CCATA--AAC-CCTAAA
*
78365814 CCATAAACCATAAA
1 CCATAAACCCTAAA
*
78365828 TCC-TAAACACTAAA
1 -CCATAAACCCTAAA
*
78365842 CCATATACCCTAAA
1 CCATAAACCCTAAA
*
78365856 CTATAA
1 CCATAA
78365862 TGATAATTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
12 3 0.05
13 2 0.03
14 42 0.70
15 10 0.17
17 3 0.05
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.22
Consensus pattern (14 bp):
CCATAAACCCTAAA
Found at i:78366323 original size:40 final size:40
Alignment explanation
Indices: 78366279--78366382 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
78366269 TTTTGCGGCG
* * *
78366279 TTTTTCAAAAAACGCCACTAATGCTCAATCTATAGCAGCT
1 TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAACAGCA
* * *
78366319 TTTTTCAAAAAGCGCCACTAACGCTCGATCTATAACGGCA
1 TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAACAGCA
* *
78366359 ATTTTCAAAAAGCGCCGCTAATGC
1 TTTTTCAAAAAGCGCCACTAATGC
78366383 CACTAAAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCACTAATGCTCAATCTATAACAGCA
Found at i:78366505 original size:155 final size:155
Alignment explanation
Indices: 78366181--78366518 Score: 432
Period size: 155 Copynumber: 2.2 Consensus size: 155
78366171 ATAAACCGTT
* * * *
78366181 GCTAACGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCCACTATAGCTCAACATA
1 GCTAACGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATA
*
78366246 AAACAACGGCGTCTTACTGAATTTTTTGCGGCGTTTTTCAAAAAACGCCACTAATGCTCAATCTA
66 AAACAACGGAGTCTTACTGAATTTTTTGCGGCGTTTTTCAAAAAACGCCACTAATGCTCAATCTA
*
78366311 TAGCAGCTTTTTTCAAAAAGCGCCA
131 TAGCAGCGTTTTTCAAAAAGCGCCA
* *
78366336 -CTAACGCTCGATCTATAACGGCAATTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATA
1 GCTAACGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATA
** * * * * ** * **
78366400 AAATGAGGGAGT-TGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAGCGCTGCTAATTCTTGATC
66 AAACAACGGAGTCT-TACTGAA-TTTTTTGCGGCGTTTTTCAAAAAACGCCACTAATGCTCAATC
*
78366464 TATAGC-GACGTTTTTGAAAAAGCG-CA
129 TATAGCAG-CGTTTTTCAAAAAGCGCCA
*
78366490 GCTAATGCTCGATCTATAGCGGCATTTTT
1 GCTAACGCTCGATCTATAGCGGCATTTTT
78366519 TAACCAAACG
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
153 1 0.01
154 74 0.47
155 81 0.52
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (155 bp):
GCTAACGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATA
AAACAACGGAGTCTTACTGAATTTTTTGCGGCGTTTTTCAAAAAACGCCACTAATGCTCAATCTA
TAGCAGCGTTTTTCAAAAAGCGCCA
Found at i:78366518 original size:40 final size:40
Alignment explanation
Indices: 78366428--78366518 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
78366418 TAATTTTTTT
* * *
78366428 GCGGCGTTTTTCAAAAAGCGCTGCTAATTCTTGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATA
* *
78366468 GCGACGTTTTTGAAAAAGCGCAGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATA
*
78366508 GCGGCATTTTT
1 GCGGCGTTTTT
78366519 TAACCAAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATA
Found at i:78366759 original size:18 final size:18
Alignment explanation
Indices: 78366738--78366790 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
78366728 CCATTTATCA
78366738 TTTATCATT-TTTTTATTT
1 TTTAT-ATTATTTTTATTT
*
78366756 TTTATTTTATTTTTATTT
1 TTTATATTATTTTTATTT
*
78366774 TTTATTTCTATTTTTAT
1 TTTATAT-TATTTTTAT
78366791 GTTTATTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 2 0.06
18 21 0.66
19 9 0.28
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATATTATTTTTATTT
Found at i:78366763 original size:6 final size:6
Alignment explanation
Indices: 78366747--78366807 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
78366737 ATTTATCATT
* *
78366747 TTTTTA TTTTT- TATTTTA TTTTTA TTTTTTA TTTCTA TTTTTA TGTTTA
1 TTTTTA TTTTTA T-TTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA
*
78366796 TTGTTA TGTTTT
1 TTTTTA T-TTTT
78366808 TAAACTTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
5 1 0.02
6 34 0.76
7 10 0.22
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:78366795 original size:18 final size:18
Alignment explanation
Indices: 78366747--78366807 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
78366737 ATTTATCATT
*
78366747 TTTTTATTTTTTATTTTA
1 TTTTTATTGTTTATTTTA
*
78366765 TTTTTATTTTTTATTTCTA
1 TTTTTATTGTTTATTT-TA
78366784 TTTTTA-TGTTTATTGTTA
1 TTTTTATTGTTTATT-TTA
78366802 TGTTTT
1 T-TTTT
78366808 TAAACTTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
18 26 0.67
19 13 0.33
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTATTGTTTATTTTA
Found at i:78371774 original size:14 final size:14
Alignment explanation
Indices: 78371755--78371781 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78371745 CATTGGAACT
78371755 TTTATTTTATTTTA
1 TTTATTTTATTTTA
78371769 TTTATTTTATTTT
1 TTTATTTTATTTT
78371782 GTTAAATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:78375391 original size:29 final size:28
Alignment explanation
Indices: 78375331--78375608 Score: 175
Period size: 29 Copynumber: 9.6 Consensus size: 28
78375321 TGATGGTTGA
*
78375331 AACCATCCCTTTTCTTTAATCGATGGCCG
1 AACCATCCCTTTTC-ATAATCGATGGCCG
* *
78375360 AAGCCATCCCTTTTCATATTCGATAGCCG
1 AA-CCATCCCTTTTCATAATCGATGGCCG
** * * *
78375389 AAGTTATACATTTTCATACAT-GATGGTCG
1 AA-CCATCCCTTTTCATA-ATCGATGGCCG
* * * * *
78375418 TCACCCTCCCTTTTCATACTTGATGGTCG
1 -AACCATCCCTTTTCATAATCGATGGCCG
* *
78375447 TCACCATCCCTTTTCATAGTCGATGGCCG
1 -AACCATCCCTTTTCATAATCGATGGCCG
* * * *
78375476 TCACCATCCCTTTTCGTAATCGATAGCTG
1 -AACCATCCCTTTTCATAATCGATGGCCG
* *
78375505 AAGCTATCCC-TTTCATAATTCGATGGTC-
1 AA-CCATCCCTTTTCATAA-TCGATGGCCG
* * *
78375533 ATCACCATCCCTTTTCATAGTTGATGGCTG
1 A--ACCATCCCTTTTCATAATCGATGGCCG
* *
78375563 TTACCATCCCTTTTCATAATCGATAGCCG
1 -AACCATCCCTTTTCATAATCGATGGCCG
*
78375592 AAGCTATCCCTTTTCAT
1 AA-CCATCCCTTTTCAT
78375609 TGATCGGTGA
Statistics
Matches: 194, Mismatches: 43, Indels: 24
0.74 0.16 0.09
Matches are distributed among these distances:
28 11 0.06
29 161 0.83
30 22 0.11
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (28 bp):
AACCATCCCTTTTCATAATCGATGGCCG
Found at i:78375461 original size:58 final size:57
Alignment explanation
Indices: 78375399--78375586 Score: 193
Period size: 58 Copynumber: 3.2 Consensus size: 57
78375389 AAGTTATACA
* * *
78375399 TTTTCATACAT-GATGGTCGTCACCCTCCCTTTTCATACTTGATGGTCGTCACCATCCC
1 TTTTCATA-ATCGATGGTCGTCACCATCCCTTTTCATAATTGATGG-CGTAACCATCCC
* * * * * *
78375457 TTTTCATAGTCGATGGCCGTCACCATCCCTTTTCGTAATCGATAGC-TGAAGCTATCCC
1 TTTTCATAATCGATGGTCGTCACCATCCCTTTTCATAATTGATGGCGT-AA-CCATCCC
* * *
78375515 -TTTCATAATTCGATGGTCATCACCATCCCTTTTCATAGTTGATGGCTGTTACCATCCC
1 TTTTCATAA-TCGATGGTCGTCACCATCCCTTTTCATAATTGATGGC-GTAACCATCCC
78375573 TTTTCATAATCGAT
1 TTTTCATAATCGAT
78375587 AGCCGAAGCT
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
56 1 0.01
57 10 0.10
58 84 0.80
59 9 0.09
60 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (57 bp):
TTTTCATAATCGATGGTCGTCACCATCCCTTTTCATAATTGATGGCGTAACCATCCC
Found at i:78375490 original size:87 final size:87
Alignment explanation
Indices: 78375424--78375604 Score: 265
Period size: 87 Copynumber: 2.1 Consensus size: 87
78375414 GTCGTCACCC
* *
78375424 TCCCTTTTCATACTT-GATGGTCGTCACCATCCCTTTTCATAGTCGATGGCCGTCACCATCCCTT
1 TCCC-TTTCATAATTCGATGGTCATCACCATCCCTTTTCATAGTCGATGGCCGTCACCATCCCTT
* *
78375488 TTCGTAATCGATAGCTGAAGCTA
65 TTCATAATCGATAGCTGAAGCCA
* * *
78375511 TCCCTTTCATAATTCGATGGTCATCACCATCCCTTTTCATAGTTGATGGCTGTTACCATCCCTTT
1 TCCCTTTCATAATTCGATGGTCATCACCATCCCTTTTCATAGTCGATGGCCGTCACCATCCCTTT
* *
78375576 TCATAATCGATAGCCGAAGCTA
66 TCATAATCGATAGCTGAAGCCA
78375598 TCCCTTT
1 TCCCTTT
78375605 TCATTGATCG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 9 0.10
87 77 0.90
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.36
Consensus pattern (87 bp):
TCCCTTTCATAATTCGATGGTCATCACCATCCCTTTTCATAGTCGATGGCCGTCACCATCCCTTT
TCATAATCGATAGCTGAAGCCA
Found at i:78394492 original size:29 final size:28
Alignment explanation
Indices: 78394460--78394569 Score: 148
Period size: 29 Copynumber: 3.9 Consensus size: 28
78394450 TGTTATTGGA
78394460 TTTCCAGATTTTACAGTTCTGCCATTATT
1 TTTCCAGATTTTACAGTTCTGCCATTA-T
* * *
78394489 TTTCCAGATTTTATAGTTTTGCCATTGGT
1 TTTCCAGATTTTACAGTTCTGCCATT-AT
* *
78394518 TTTCCAAATTTTACAGTTCTGCCACTAT
1 TTTCCAGATTTTACAGTTCTGCCATTAT
*
78394546 TTTCTAGATTTTACAGTTCTGCCA
1 TTTCCAGATTTTACAGTTCTGCCA
78394570 CTGGTTATCT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 23 0.33
29 47 0.67
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (28 bp):
TTTCCAGATTTTACAGTTCTGCCATTAT
Found at i:78394586 original size:57 final size:57
Alignment explanation
Indices: 78394462--78394603 Score: 176
Period size: 57 Copynumber: 2.5 Consensus size: 57
78394452 TTATTGGATT
* * * * *
78394462 TCCAGATTTTACAGTTCTGCCATTATTTTTCCAGATTTTATAGTTTTGCCATTGGTTT
1 TCCAGATTTTACAGTTCTGCCACTA-TTTTCCAGATTTTACAGTTCTGCCACTGGTTA
* *
78394520 TCCAAATTTTACAGTTCTGCCACTATTTTCTAGATTTTACAGTTCTGCCACTGGTTA
1 TCCAGATTTTACAGTTCTGCCACTATTTTCCAGATTTTACAGTTCTGCCACTGGTTA
* * * *
78394577 TCTAGATTTTGCAATTTTGCCACTATT
1 TCCAGATTTTACAGTTCTGCCACTATT
78394604 CTTAAAAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
57 49 0.68
58 23 0.32
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (57 bp):
TCCAGATTTTACAGTTCTGCCACTATTTTCCAGATTTTACAGTTCTGCCACTGGTTA
Found at i:78395598 original size:37 final size:38
Alignment explanation
Indices: 78395557--78395636 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
78395547 TACACGAGAC
* *
78395557 TGTTTGTTATCA-TGT-TAAATTGATTTATATGTGAAAT
1 TGTTTGTT-TCATTGTATAAATTGATTGATAGGTGAAAT
78395594 TG-TT-TTTCATTGTACTAAATTGATTGATAGGTGAAAT
1 TGTTTGTTTCATTGTA-TAAATTGATTGATAGGTGAAAT
78395631 TGTTTG
1 TGTTTG
78395637 ATATTATCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
34 3 0.08
35 5 0.14
36 2 0.06
37 24 0.67
38 2 0.06
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.50
Consensus pattern (38 bp):
TGTTTGTTTCATTGTATAAATTGATTGATAGGTGAAAT
Found at i:78396344 original size:34 final size:34
Alignment explanation
Indices: 78396301--78396369 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
78396291 TATGGCAGAA
78396301 TAAAAAAAGAAATAGAGTACAAAAATAGGGTTCT
1 TAAAAAAAGAAATAGAGTACAAAAATAGGGTTCT
78396335 TAAAAAAAGAAATAGAGTACAAAAATAGGGTTCT
1 TAAAAAAAGAAATAGAGTACAAAAATAGGGTTCT
78396369 T
1 T
78396370 GCTAACCTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.22
Consensus pattern (34 bp):
TAAAAAAAGAAATAGAGTACAAAAATAGGGTTCT
Found at i:78398096 original size:17 final size:17
Alignment explanation
Indices: 78398074--78398138 Score: 121
Period size: 17 Copynumber: 3.8 Consensus size: 17
78398064 AATTTGGGCA
78398074 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
78398091 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
78398108 GTGTGGGCCACACAGGC
1 GTGTGGGCCACACAGGC
78398125 GTGTGGGCCTACAC
1 GTGTGGGCC-ACAC
78398139 GGGCAAGCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 43 0.91
18 4 0.09
ACGTcount: A:0.17, C:0.29, G:0.40, T:0.14
Consensus pattern (17 bp):
GTGTGGGCCACACAGGC
Found at i:78404800 original size:45 final size:44
Alignment explanation
Indices: 78404697--78404808 Score: 113
Period size: 45 Copynumber: 2.5 Consensus size: 44
78404687 AGAGCCAGTG
* *
78404697 TAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGTGCTGTG
1 TAAGACCATGTCTGGGACAT-GCATCGCTA-T-AGACGAGTGCTGTA
*
78404744 TAAGA-CATGTCTGGGACATGCATCAGCTA-AGA-GTTGTGCTAGTA
1 TAAGACCATGTCTGGGACATGCATC-GCTATAGACG-AGTGCT-GTA
*
78404788 TAAGACCATGTCTAGGACATG
1 TAAGACCATGTCTGGGACATG
78404809 GCGTCAGCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
42 1 0.02
43 8 0.14
44 7 0.12
45 19 0.33
46 17 0.30
47 5 0.09
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACATGCATCGCTATAGACGAGTGCTGTA
Found at i:78404844 original size:52 final size:49
Alignment explanation
Indices: 78404647--78404914 Score: 191
Period size: 49 Copynumber: 5.6 Consensus size: 49
78404637 TTTGTGTGCC
* * * ** *
78404647 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATAAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATGACGAGAGCT
* * ** ** *
78404693 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGA-GACGAGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATGACGAGAGCT
* * *
78404741 -GTGTAAGA-CATGTCTGGGACAT-GCATCAG-CT-AA-GA-GTTGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATGACG-AGAGCT
* * *
78404784 AGTATAAGACCATGTCTAGGACATGGCGTCAGCACGT-ATATATACGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGC-C-TCA-AT-GACGAGAGCT
* * * *
78404836 AGTGTAAGACCATGTCTTGGACATGGCATCGGCCTCAATGACGATAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATGACGAGAGCT
*
78404885 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
78404915 GGTAACTTAT
Statistics
Matches: 179, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 8 0.04
44 8 0.04
45 19 0.11
46 29 0.16
47 22 0.12
48 12 0.07
49 39 0.22
50 4 0.02
51 2 0.01
52 34 0.19
53 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAATGACGAGAGCT
Found at i:78412436 original size:44 final size:42
Alignment explanation
Indices: 78412374--78412478 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 42
78412364 TGTGATATCA
* * * * *
78412374 TGTAAGACCACATATGGGACGTTGGCATCG-ATTTGAGATTTACG
1 TGTAAGACCATATCTGGGACATCGGCATCGTATAT--GATTT-CG
*
78412418 TGTAAGACCATGTCTGGGACATCGGCATCGTATATGATTTCG
1 TGTAAGACCATATCTGGGACATCGGCATCGTATATGATTTCG
*
78412460 TGTAAGACCCTATCTGGGA
1 TGTAAGACCATATCTGGGA
78412479 TAGGATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
42 19 0.37
43 5 0.10
44 25 0.48
45 3 0.06
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATCGGCATCGTATATGATTTCG
Found at i:78413923 original size:37 final size:37
Alignment explanation
Indices: 78413864--78413967 Score: 172
Period size: 37 Copynumber: 2.8 Consensus size: 37
78413854 AGCTCAGACG
* * *
78413864 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
78413901 AAATCTCCACACGTACTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78413938 AAATCTCCACACGTAGTCATCGGGTCTTAC
1 AAATCTCCACACGTAGTCATCGGGTCTTAC
78413968 AGCTCGGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:78414351 original size:49 final size:47
Alignment explanation
Indices: 78414083--78414481 Score: 663
Period size: 47 Copynumber: 8.4 Consensus size: 47
78414073 CCCTTCGGGA
* * * * * *
78414083 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78414130 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78414177 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78414224 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78414271 CTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78414318 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78414367 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78414416 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78414463 CTTATCACATATATACACT
1 CTTATCACATATATACACT
78414482 GTCTTGGCTG
Statistics
Matches: 334, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 240 0.72
49 94 0.28
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78421179 original size:66 final size:67
Alignment explanation
Indices: 78421073--78421197 Score: 198
Period size: 66 Copynumber: 1.9 Consensus size: 67
78421063 AGAAATGAGC
* **
78421073 CAACCATATGTTTTGAAGAAGAAAAGTGGTGTTCGGCAAGAGAGAAAATGAGAGAAAAAAATGGC
1 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTCGGCAAGAGAGAAAACAAGAGAAAAAAATGGC
78421138 AG
66 AG
* *
78421140 CAACCATTTGTTTTGAAGAA-AAAAATGGTGTTTGGCAAGAGAGAAAACAAGAGAAAAA
1 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTCGGCAAGAGAGAAAACAAGAGAAAAA
78421198 TTTTGGTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 34 0.64
67 19 0.36
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.19
Consensus pattern (67 bp):
CAACCATATGTTTTGAAGAAGAAAAATGGTGTTCGGCAAGAGAGAAAACAAGAGAAAAAAATGGC
AG
Found at i:78424903 original size:24 final size:24
Alignment explanation
Indices: 78424870--78424931 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
78424860 TCAATCTGTG
*
78424870 GCAAATGATGAATTG-CTGGTAAAT
1 GCAAAAGATGAATTGACT-GTAAAT
*
78424894 GCAAAGGATGAATTGACTGTAAAT
1 GCAAAAGATGAATTGACTGTAAAT
*
78424918 ACAAAAGATGAATT
1 GCAAAAGATGAATT
78424932 TACGACAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (24 bp):
GCAAAAGATGAATTGACTGTAAAT
Found at i:78425043 original size:21 final size:21
Alignment explanation
Indices: 78425018--78425060 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
78425008 TAAGCTTCTG
*
78425018 TTAACTCATATGAGTTTTCGT
1 TTAACCCATATGAGTTTTCGT
* *
78425039 TTAACCCTTATGGGTTTTCGT
1 TTAACCCATATGAGTTTTCGT
78425060 T
1 T
78425061 CAGCTCCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (21 bp):
TTAACCCATATGAGTTTTCGT
Found at i:78425087 original size:42 final size:42
Alignment explanation
Indices: 78425041--78425122 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
78425031 GTTTTCGTTT
* *
78425041 AACCCTTATGGGTTTTCGTTCAGCTCCTATGAGCTTCTGTTC
1 AACCCTTATGGGTTTTAGTTCAGCACCTATGAGCTTCTGTTC
* * *
78425083 AACCCTTATGGGTTTTAGTTTAGCACTTATGTGCTTCTGT
1 AACCCTTATGGGTTTTAGTTCAGCACCTATGAGCTTCTGT
78425123 GTAGCCTTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.43
Consensus pattern (42 bp):
AACCCTTATGGGTTTTAGTTCAGCACCTATGAGCTTCTGTTC
Found at i:78427343 original size:27 final size:28
Alignment explanation
Indices: 78427293--78427390 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 28
78427283 ACATGACAGT
** *
78427293 AAAGAATAGCCTTTGCGG-TTAATTATG
1 AAAGAATAGCCTTTTTGGATAAATTATG
*
78427320 AAAGAATAGCATTTTTGGA-AAATTATG
1 AAAGAATAGCCTTTTTGGATAAATTATG
* * *
78427347 AAAGAATAACCTTTGT-GATGAATTATG
1 AAAGAATAGCCTTTTTGGATAAATTATG
*
78427374 AAAGGATAGCCTTTTTG
1 AAAGAATAGCCTTTTTG
78427391 TGGCGATAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.04
27 55 0.96
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (28 bp):
AAAGAATAGCCTTTTTGGATAAATTATG
Found at i:78429024 original size:30 final size:31
Alignment explanation
Indices: 78428965--78429024 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
78428955 TTACATTGTA
* *
78428965 TTGTGTTTATAATTAATTATATTATAAAAAT
1 TTGTGTTTATAATTAATTACATAATAAAAAT
* *
78428996 TTGTGTTTAT-GTTACTTACATAATAAAAA
1 TTGTGTTTATAATTAATTACATAATAAAAA
78429025 AGGAAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (31 bp):
TTGTGTTTATAATTAATTACATAATAAAAAT
Found at i:78433567 original size:27 final size:24
Alignment explanation
Indices: 78433528--78433586 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
78433518 TTATGGGATT
*
78433528 CAAACACCTCCGTCGTGGGTGATG
1 CAAACACCTCCGCCGTGGGTGATG
78433552 CAAACACCTCCGCCGTGGGTGATG
1 CAAACACCTCCGCCGTGGGTGATG
78433576 CAAACACCTCC
1 CAAACACCTCC
78433587 ACATTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.17
Consensus pattern (24 bp):
CAAACACCTCCGCCGTGGGTGATG
Found at i:78433898 original size:62 final size:59
Alignment explanation
Indices: 78433778--78433902 Score: 135
Period size: 62 Copynumber: 2.1 Consensus size: 59
78433768 ATATTTGTAC
* * ****
78433778 AAATTATTTTTATATTATTTCATTTAATAAAATAAAATTTGTTTTGAATATTTTAATAG
1 AAATTATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
* *
78433837 TAAATTGTTTTTATATT-TTGTCTTATTTAATAAAATAGAAGTTCTTTTGAATAAGGCAATAG
1 -AAATTATTTTTATATTATT-TC--ATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
78433899 AAAT
1 AAAT
78433903 AATGCAACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.04
60 17 0.31
61 4 0.07
62 31 0.57
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (59 bp):
AAATTATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
Found at i:78434663 original size:10 final size:10
Alignment explanation
Indices: 78434644--78434698 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
78434634 TATTTTAAAT
78434644 TTTATCTTTA
1 TTTATCTTTA
*
78434654 TTTATATTTA
1 TTTATCTTTA
*
78434664 GTTATCTTTA
1 TTTATCTTTA
* *
78434674 ATTATTTTTA
1 TTTATCTTTA
*
78434684 TTTATCTGTA
1 TTTATCTTTA
78434694 TTTAT
1 TTTAT
78434699 TTTTTAGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:78434699 original size:20 final size:20
Alignment explanation
Indices: 78434644--78434702 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
78434634 TATTTTAAAT
*
78434644 TTTATCTTTATTTATATTTA
1 TTTATCTTTATTTATTTTTA
* *
78434664 GTTATCTTTAATTATTTTTA
1 TTTATCTTTATTTATTTTTA
*
78434684 TTTATCTGTATTTATTTTT
1 TTTATCTTTATTTATTTTT
78434703 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTATCTTTATTTATTTTTA
Found at i:78435855 original size:9 final size:9
Alignment explanation
Indices: 78435841--78435866 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
78435831 ATTAAATAGT
78435841 TTGAGTTAA
1 TTGAGTTAA
78435850 TTGAGTTAA
1 TTGAGTTAA
78435859 TTGAGTTA
1 TTGAGTTA
78435867 TTCTGATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (9 bp):
TTGAGTTAA
Found at i:78442754 original size:39 final size:39
Alignment explanation
Indices: 78442675--78442841 Score: 255
Period size: 39 Copynumber: 4.3 Consensus size: 39
78442665 CGGGATTTTA
*
78442675 AGCCCGGATATAATACCAGCACGAA-GCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
78442713 AGCCCAGATATAACAGCAGCATGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
78442752 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
78442791 AGCCCGGATATAACACCAGCACAAACGCCTTCGGGAATT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
78442830 AGCCTGGATATA
1 AGCCCGGATATA
78442842 TATCTCACAC
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
38 21 0.18
39 96 0.82
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Done.