Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 375 of 438
Found at i:117193990 original size:5 final size:5
Alignment explanation
Indices: 117193982--117194027 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
117193972 TTAATTTAAA
117193982 TAATC TAATC TAATC TAATC TAATC TAATC TAATC TAATC TAATC T
1 TAATC TAATC TAATC TAATC TAATC TAATC TAATC TAATC TAATC T
117194028 TACAATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATC
Found at i:117200337 original size:46 final size:45
Alignment explanation
Indices: 117200265--117200438 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
117200255 TGTAACCCGC
*
117200265 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATT-GCAT
* *
117200311 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTGCAT
* * * *
117200361 -C-TCA-CGAACTCGGACTCAACT-AACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCA-TTGCAT
117200403 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
117200439 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 16 0.15
46 54 0.50
47 16 0.15
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTGCAT
Found at i:117200431 original size:92 final size:93
Alignment explanation
Indices: 117200273--117200442 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
117200263 GCCCATAAGT
* * *
117200273 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
117200338 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
117200366 GAACTCGGACTCAACT-AACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
117200430 CGAGTTCGGATGC
66 CGAGTTCGGATGC
117200443 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 56 0.78
93 16 0.22
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:117206982 original size:72 final size:72
Alignment explanation
Indices: 117206798--117206999 Score: 216
Period size: 72 Copynumber: 2.8 Consensus size: 72
117206788 ATATGTAAGT
* * *** * * *
117206798 GGGTCCAGGTACTGACTTTGTGTATAAACCCGTGAGTAACTTGCTGAGCGAGCA-TATTATGTTA
1 GGGTCCAGGTACTGACTTTGTGTATAAACCCTTGAGTAGCTCAATGAGCGGGCATTA-CATGGTA
117206862 ATGCTTTG
65 ATGCTTTG
* * *
117206870 GGGTCC-GAGTACTGACTTTGTGCATAAA-CTTGTGAATAGCTCAATGAGCGGGCATTACATGGT
1 GGGTCCAG-GTACTGACTTTGTGTATAAACCCT-TGAGTAGCTCAATGAGCGGGCATTACATGGT
117206933 AATGCTTTG
64 AATGCTTTG
* *
117206942 GGGTCCAGGTGCTGACTTTGTGTACAAACCCTTGAGTAGCTCAAAT-A-CGGGCATTACA
1 GGGTCCAGGTACTGACTTTGTGTATAAACCCTTGAGTAGCTC-AATGAGCGGGCATTACA
117207000 AAATATGTGG
Statistics
Matches: 108, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
71 13 0.12
72 87 0.81
73 8 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (72 bp):
GGGTCCAGGTACTGACTTTGTGTATAAACCCTTGAGTAGCTCAATGAGCGGGCATTACATGGTAA
TGCTTTG
Found at i:117216098 original size:77 final size:77
Alignment explanation
Indices: 117215966--117216109 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 77
117215956 TATAAGATGA
* * * ** * *
117215966 TATACCGATTTTGCTTCGGACCATGCTTATTGGATGAGTTGGCTTCGGGCCATGATATTAGTACT
1 TATACCAATTTGGCTTCGGACCATGCATATCAGATGAGTTGGCTTCGGGCAATGATAATAGTACT
117216031 TCGATTGTAAGT
66 TCGATTGTAAGT
* * * *
117216043 TATACCAATTTGGCTTTGGGCCATGCATATCAGATGATTTGGCTTCGGGCAATGATAATAGTTCT
1 TATACCAATTTGGCTTCGGACCATGCATATCAGATGAGTTGGCTTCGGGCAATGATAATAGTACT
117216108 TC
66 TC
117216110 AGATAAGTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 56 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (77 bp):
TATACCAATTTGGCTTCGGACCATGCATATCAGATGAGTTGGCTTCGGGCAATGATAATAGTACT
TCGATTGTAAGT
Found at i:117225174 original size:66 final size:68
Alignment explanation
Indices: 117225098--117225284 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
117225088 TAGTACCACT
*
117225098 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
117225160 CACG
65 CACG
117225164 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
117225229 ATCACG
63 ATCACG
117225235 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
117225285 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:117225209 original size:71 final size:71
Alignment explanation
Indices: 117225121--117225284 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
117225111 CGATTTGTCT
117225121 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
117225186 CTTTCA
66 CTTTCA
117225192 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
117225257 CTTTCA
66 CTTTCA
117225263 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
117225285 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:117225322 original size:71 final size:70
Alignment explanation
Indices: 117225121--117225318 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
117225111 CGATTTGTCT
* * *
117225121 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
117225186 CTTTCA
65 CTTTCA
* * *
117225192 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
117225257 CTTTCA
65 CTTTCA
* *
117225263 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
117225319 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:117229762 original size:29 final size:29
Alignment explanation
Indices: 117229734--117229865 Score: 192
Period size: 29 Copynumber: 4.6 Consensus size: 29
117229724 CCTTCGAGCT
** * * *
117229734 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
117229763 TGCACACATAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
117229792 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
117229821 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
117229850 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
117229866 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:117229796 original size:58 final size:58
Alignment explanation
Indices: 117229705--117229865 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
117229695 AATTTAAGCC
* *** * * * * *
117229705 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
117229763 TGCACACATAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* **
117229821 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCA
117229866 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 87 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:117229796 original size:87 final size:87
Alignment explanation
Indices: 117229705--117229864 Score: 194
Period size: 87 Copynumber: 1.8 Consensus size: 87
117229695 AATTTAAGCC
* * * * * **
117229705 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACAC
1 CGCACACACAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
117229770 ATAGTGCCTTATATTTCCAGCA
66 ATAGTGCCTTATATTTCCAGCA
** * * **
117229792 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACACAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
*
117229857 TTAGTGCC
66 ATAGTGCC
117229865 AATCTCGTCA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 59 1.00
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (87 bp):
CGCACACACAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
ATAGTGCCTTATATTTCCAGCA
Found at i:117230696 original size:143 final size:141
Alignment explanation
Indices: 117230506--117230800 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
117230496 AAATTCTATA
117230506 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
117230571 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
117230636 GAAGACAACAT
131 GAAAACAACAT
117230647 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
117230712 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
117230777 AGGAAAACAACAT
129 AGGAAAACAACAT
117230790 GCATGGCCGAA
1 GCATGGCCGAA
117230801 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:117237715 original size:29 final size:29
Alignment explanation
Indices: 117237683--117237818 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
117237673 ATACCCTTCG
** * *
117237683 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
117237712 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
117237741 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
117237770 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
117237799 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
117237819 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:117237810 original size:58 final size:58
Alignment explanation
Indices: 117237658--117237817 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
117237648 AATTTAAGCC
* *** * * ** * *
117237658 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
117237716 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
117237774 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
117237818 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:117238652 original size:143 final size:141
Alignment explanation
Indices: 117238462--117238756 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
117238452 AAATTCTATA
117238462 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
117238527 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
117238592 GAAGACAACAT
131 GAAAACAACAT
117238603 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
117238668 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
117238733 AGGAAAACAACAT
129 AGGAAAACAACAT
117238746 GCATGGCCGAA
1 GCATGGCCGAA
117238757 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:117241971 original size:13 final size:13
Alignment explanation
Indices: 117241953--117241978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117241943 ATCATTTTTA
117241953 TCAAATTCTCCTT
1 TCAAATTCTCCTT
117241966 TCAAATTCTCCTT
1 TCAAATTCTCCTT
117241979 AATCCATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
TCAAATTCTCCTT
Found at i:117246062 original size:24 final size:21
Alignment explanation
Indices: 117246020--117246071 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
117246010 ATGGTAAGAA
*
117246020 AATATTATTATTATTTTAATT
1 AATATCATTATTATTTTAATT
* *
117246041 AATATCATTATTATGTT-GTT
1 AATATCATTATTATTTTAATT
*
117246061 AATATTATTAT
1 AATATCATTAT
117246072 ATTACTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
AATATCATTATTATTTTAATT
Found at i:117246075 original size:8 final size:8
Alignment explanation
Indices: 117246021--117246087 Score: 57
Period size: 8 Copynumber: 8.2 Consensus size: 8
117246011 TGGTAAGAAA
117246021 ATATTATT
1 ATATTATT
117246029 ATTATT-TT
1 A-TATTATT
*
117246037 A-ATTAAT
1 ATATTATT
117246044 ATCATTATT
1 AT-ATTATT
* *
117246053 ATGTTGTT
1 ATATTATT
117246061 AATATTATT
1 -ATATTATT
*
117246070 ATATTACT
1 ATATTATT
117246078 ATATTATT
1 ATATTATT
117246086 AT
1 AT
117246088 GTTTATATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
6 3 0.07
7 2 0.04
8 24 0.52
9 17 0.37
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (8 bp):
ATATTATT
Found at i:117249083 original size:20 final size:20
Alignment explanation
Indices: 117249035--117249083 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
117249025 AATTTTAGCT
* *
117249035 TTTATCTTCATTTATTTTTA
1 TTTATCTTTATTTATTTGTA
*
117249055 ATTATCTTTATTTATTTGTA
1 TTTATCTTTATTTATTTGTA
117249075 TTTATCTTT
1 TTTATCTTT
117249084 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATCTTTATTTATTTGTA
Found at i:117250837 original size:18 final size:19
Alignment explanation
Indices: 117250795--117250837 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
117250785 GCAGAATCCT
* *
117250795 CACAAAGTTGATTATGTTT
1 CACAAAGTTGATTATCTTC
*
117250814 CACAAATTTGATT-TCTTC
1 CACAAAGTTGATTATCTTC
117250832 CACAAA
1 CACAAA
117250838 AGTAGATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (19 bp):
CACAAAGTTGATTATCTTC
Found at i:117253102 original size:2 final size:2
Alignment explanation
Indices: 117253095--117253119 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117253085 AGAAAACCTA
117253095 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
117253120 GTATGAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117258183 original size:22 final size:22
Alignment explanation
Indices: 117258158--117258199 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
117258148 TTTATTTTGG
*
117258158 TCATCTAATTATTAACTTTTTT
1 TCATCTAATTACTAACTTTTTT
* *
117258180 TCATTTAATTGCTAACTTTT
1 TCATCTAATTACTAACTTTT
117258200 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.57
Consensus pattern (22 bp):
TCATCTAATTACTAACTTTTTT
Found at i:117258813 original size:12 final size:12
Alignment explanation
Indices: 117258796--117258821 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
117258786 AAATGGTTAA
117258796 AAATATTTTTTT
1 AAATATTTTTTT
117258808 AAATATTTTTTT
1 AAATATTTTTTT
117258820 AA
1 AA
117258822 TTTTTAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AAATATTTTTTT
Found at i:117260756 original size:16 final size:17
Alignment explanation
Indices: 117260735--117260774 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
117260725 TGGTCCTAAG
117260735 TTAAAA-AGTCAATTAC
1 TTAAAAGAGTCAATTAC
*
117260751 TTAAAATGTGTCAATTAC
1 TTAAAA-GAGTCAATTAC
117260769 TTAAAA
1 TTAAAA
117260775 TGTGTAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
18 15 0.71
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (17 bp):
TTAAAAGAGTCAATTAC
Found at i:117260765 original size:18 final size:18
Alignment explanation
Indices: 117260742--117260779 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
117260732 AAGTTAAAAA
117260742 GTCAATTACTTAAAATGT
1 GTCAATTACTTAAAATGT
117260760 GTCAATTACTTAAAATGT
1 GTCAATTACTTAAAATGT
117260778 GT
1 GT
117260780 AGTCCACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (18 bp):
GTCAATTACTTAAAATGT
Found at i:117263928 original size:2 final size:2
Alignment explanation
Indices: 117263921--117263952 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
117263911 GATGTTGATC
117263921 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117263953 GTACATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117265063 original size:12 final size:12
Alignment explanation
Indices: 117265046--117265074 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
117265036 TTAGAGTTCT
117265046 AAGTCCTACTTG
1 AAGTCCTACTTG
117265058 AAGTCCTACTTG
1 AAGTCCTACTTG
117265070 AAGTC
1 AAGTC
117265075 TAAAACGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (12 bp):
AAGTCCTACTTG
Found at i:117269003 original size:46 final size:43
Alignment explanation
Indices: 117268897--117269029 Score: 151
Period size: 46 Copynumber: 3.0 Consensus size: 43
117268887 CATTGGTTGG
*
117268897 TATGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGG---CAT
*
117268943 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT
* * *
117268986 TGA-GACGAAAGCTAGTGTAAGACATGTCTAGCACATCCATCGGC
1 T-ATGA-G--AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
117269030 CTCGGGATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
43 6 0.08
44 2 0.03
46 69 0.90
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (43 bp):
TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT
Found at i:117286588 original size:21 final size:20
Alignment explanation
Indices: 117286562--117286606 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
117286552 TCACTTCTTC
*
117286562 CACGCCCGTGTGTTATTGTA
1 CACGCCCGTGTATTATTGTA
* *
117286582 GCACGCCTGTGTATTGTTGTA
1 -CACGCCCGTGTATTATTGTA
117286603 CACG
1 CACG
117286607 GCTGAATGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (20 bp):
CACGCCCGTGTATTATTGTA
Found at i:117290485 original size:10 final size:10
Alignment explanation
Indices: 117290453--117290486 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
117290443 CGTTTTGTCC
117290453 CTTTTTGGCT
1 CTTTTTGGCT
117290463 CGTTTTTGGCT
1 C-TTTTTGGCT
*
117290474 CTTTTTGACT
1 CTTTTTGGCT
117290484 CTT
1 CTT
117290487 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:117293520 original size:49 final size:48
Alignment explanation
Indices: 117293464--117293642 Score: 143
Period size: 49 Copynumber: 3.7 Consensus size: 48
117293454 TGTTGTGCGT
* * **
117293464 TAGTGTAAGACTTGTCTGAGACATGGCATCGACAC-CGATAGATGCGAGC
1 TAGTGTAAGACCTGTCTG-GACATGGCATCGAC-CTCGATAGACGAAAGC
* * *
117293513 TAGTGTAAGACCTGTCTGGCACATGGCAT-TAGCCTCGATATACGAAAGT
1 TAGTGTAAGACCTGTCTGG-ACATGGCATCGA-CCTCGATAGACGAAAGC
* **
117293562 TAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTAAT-GTAC--AAGC
1 TAGTGTAAGACCTGTCT-GGACATGGCATCGACCTCGATAG-ACGAAAGC
* *
117293609 CAGTGTAAGACCATGTCTAGGACATGGCGTCGAC
1 TAGTGTAAGACC-TGTCT-GGACATGGCATCGAC
117293643 ATCTTATCCC
Statistics
Matches: 107, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
47 14 0.13
48 22 0.21
49 68 0.64
50 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCTGTCTGGACATGGCATCGACCTCGATAGACGAAAGC
Found at i:117295235 original size:28 final size:28
Alignment explanation
Indices: 117295203--117295259 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
117295193 TGTAATATAG
117295203 TAAAACAAAGTAGCTAATGTTATATTTA
1 TAAAACAAAGTAGCTAATGTTATATTTA
117295231 TAAAACAAAGTAGCTAATGTTATATTTA
1 TAAAACAAAGTAGCTAATGTTATATTTA
117295259 T
1 T
117295260 GTATTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (28 bp):
TAAAACAAAGTAGCTAATGTTATATTTA
Found at i:117296883 original size:16 final size:16
Alignment explanation
Indices: 117296858--117296891 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
117296848 ATGAATATAT
* *
117296858 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
117296874 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
117296890 AT
1 AT
117296892 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:117300286 original size:44 final size:45
Alignment explanation
Indices: 117300223--117300346 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 45
117300213 CATGACTTAG
*
117300223 GATTTCGATTTATGTGTGCGAGTAAGACC-ATCGCATCGATATGT
1 GATTTCGATATATGTGTGCGAGTAAGACCTATCGCATCGATATGT
*
117300267 GATTTCGATATATGTGTGCGAGTAAGACCCTGTTAAATGGCATCGATATGT
1 GATTTCGATATATGTGTGCGAGTAAGA-CC---T--ATCGCATCGATATGT
*
117300318 GATTTCGATATATGTGTGCAAGTAAGACC
1 GATTTCGATATATGTGTGCGAGTAAGACC
117300347 CTGTCAGGGA
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 26 0.37
45 2 0.03
50 2 0.03
51 40 0.57
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (45 bp):
GATTTCGATATATGTGTGCGAGTAAGACCTATCGCATCGATATGT
Found at i:117310827 original size:55 final size:55
Alignment explanation
Indices: 117310758--117310894 Score: 213
Period size: 55 Copynumber: 2.5 Consensus size: 55
117310748 TGTGTGCGAG
*
117310758 TAAGACCATCGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
1 TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
117310813 TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
1 TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
* * *
117310868 CAGGGA-CAGTGGCATCAATATGTGATT
1 TA-AGACCA-TGGCATCGATATGTGATT
117310895 ACATGTAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
55 57 0.75
56 19 0.25
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (55 bp):
TAAGACCATGGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCCTGT
Found at i:117312661 original size:2 final size:2
Alignment explanation
Indices: 117312654--117312681 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
117312644 AATTGAGTGA
117312654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117312682 TAGTGTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117327830 original size:17 final size:17
Alignment explanation
Indices: 117327778--117327836 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
117327768 TAAATCATTT
* *
117327778 ATTATTAAATATTAATAT
1 ATTATT-AATATTAAAAA
**
117327796 ATTATTTAA-ATTTTAAA
1 ATTA-TTAATATTAAAAA
117327813 ATTATTAATATTAAAAA
1 ATTATTAATATTAAAAA
117327830 ATTATTA
1 ATTATTA
117327837 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.12
17 21 0.64
18 6 0.18
19 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATTAATATTAAAAA
Found at i:117327847 original size:17 final size:18
Alignment explanation
Indices: 117327809--117327849 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
117327799 ATTTAAATTT
*
117327809 TAAAATTATTAATATTAA
1 TAAAATTATTAATATAAA
*
117327827 -AAAATTATTATTA-AAA
1 TAAAATTATTAATATAAA
117327843 TAAAATT
1 TAAAATT
117327850 GAAACATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATTATTAATATAAA
Found at i:117329792 original size:29 final size:32
Alignment explanation
Indices: 117329725--117329795 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 32
117329715 AAGATATAAA
*
117329725 CTAATAAAATTATAAAATTATATTTTTATCATC
1 CTAA-AAAATTATAAAATTATATTTTAATCATC
* *
117329758 AT-AAAAATTAT-AATTTA-ATTTTAATC-TC
1 CTAAAAAATTATAAAATTATATTTTAATCATC
117329786 CTAAAAAATT
1 CTAAAAAATT
117329796 CTTCTAGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 3 0.09
29 15 0.45
30 5 0.15
31 8 0.24
32 1 0.03
33 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (32 bp):
CTAAAAAATTATAAAATTATATTTTAATCATC
Found at i:117330705 original size:2 final size:2
Alignment explanation
Indices: 117330693--117330728 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
117330683 GAAATATTTG
* *
117330693 AT AT CT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117330729 TAAATAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117330710 original size:12 final size:12
Alignment explanation
Indices: 117330693--117330728 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
117330683 GAAATATTTG
117330693 ATATCTATATAT
1 ATATCTATATAT
117330705 ATATCTATATAT
1 ATATCTATATAT
*
117330717 ATATATATATAT
1 ATATCTATATAT
117330729 TAAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATCTATATAT
Found at i:117330896 original size:2 final size:2
Alignment explanation
Indices: 117330889--117330928 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
117330879 CTCATATCTA
117330889 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117330929 CTACAGTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:117331466 original size:16 final size:15
Alignment explanation
Indices: 117331432--117331473 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
117331422 GAGCATACTT
*
117331432 TTTATACAACTTTTC
1 TTTATATAACTTTTC
*
117331447 TTTATATAATCTTTTG
1 TTTATATAA-CTTTTC
117331463 TTTA-ATAACTT
1 TTTATATAACTT
117331474 AATTTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 12 0.50
16 9 0.38
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTATATAACTTTTC
Found at i:117332577 original size:30 final size:30
Alignment explanation
Indices: 117332541--117332598 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
117332531 ACATTGAGAG
117332541 TTAATTTTAAAAGAAGAAAAGATGAAATGA
1 TTAATTTTAAAAGAAGAAAAGATGAAATGA
*
117332571 TTAATTTTAAAAGGAGAAAAGATGAAAT
1 TTAATTTTAAAAGAAGAAAAGATGAAAT
117332599 ATATTGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (30 bp):
TTAATTTTAAAAGAAGAAAAGATGAAATGA
Found at i:117333605 original size:40 final size:40
Alignment explanation
Indices: 117333557--117333641 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
117333547 ATAGGTAGAA
*
117333557 CAAAGCAGAATAATACTGAATGGAACAGACCAGTACAGAG
1 CAAAGCAGAATAATACTGAATGGAACAGAACAGTACAGAG
* *
117333597 CAAAGCAGAATAATACTTAATGGAACAGAACAGTACGGAG
1 CAAAGCAGAATAATACTGAATGGAACAGAACAGTACAGAG
117333637 CAAAG
1 CAAAG
117333642 TAGGATAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.13
Consensus pattern (40 bp):
CAAAGCAGAATAATACTGAATGGAACAGAACAGTACAGAG
Found at i:117339198 original size:19 final size:19
Alignment explanation
Indices: 117339174--117339247 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
117339164 AATTCTAGAA
*
117339174 TTATAAAAAACATAAAATT
1 TTATAAAAATCATAAAATT
*
117339193 TTATAAAAATTATTAGAAATT
1 TTATAAAAATCA-TA-AAATT
*
117339214 AATTA-AAAAATCATAAAACT
1 --TTATAAAAATCATAAAATT
117339234 TTATAAAAAT-ATAA
1 TTATAAAAATCATAA
117339248 TTTTGTTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 7 0.15
19 16 0.35
20 6 0.13
21 7 0.15
22 7 0.15
23 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
TTATAAAAATCATAAAATT
Found at i:117339386 original size:16 final size:16
Alignment explanation
Indices: 117339365--117339397 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
117339355 ACTTATTATA
117339365 CCTATAAATAGAGACT
1 CCTATAAATAGAGACT
117339381 CCTATAAATAGAGACT
1 CCTATAAATAGAGACT
117339397 C
1 C
117339398 TGATGAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.24
Consensus pattern (16 bp):
CCTATAAATAGAGACT
Found at i:117340914 original size:16 final size:17
Alignment explanation
Indices: 117340893--117340932 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
117340883 ATATATATTA
117340893 TATATTATTAATT-GAT
1 TATATTATTAATTAGAT
*
117340909 TATATTA-TAATTATAT
1 TATATTATTAATTAGAT
117340925 TATATTAT
1 TATATTAT
117340933 GAAACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATATTATTAATTAGAT
Found at i:117341030 original size:11 final size:11
Alignment explanation
Indices: 117340999--117341042 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
117340989 TATATTCTTA
117340999 TAATTATAATT
1 TAATTATAATT
117341010 TAAATATATAATT
1 T-AAT-TATAATT
*
117341023 TACTTATAATT
1 TAATTATAATT
*
117341034 TAAGTATAA
1 TAATTATAA
117341043 AGATATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
TAATTATAATT
Found at i:117341213 original size:33 final size:30
Alignment explanation
Indices: 117341163--117341223 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
117341153 TATAATTGTA
*
117341163 ATATTTTTATTTAATTATTTAAGTAAATAG
1 ATATTTTTATTTAATTATTAAAGTAAATAG
*
117341193 ATATTTATTATTTATAATTATTAAATTAAAT
1 ATATTT-TTA-TT-TAATTATTAAAGTAAAT
117341224 TAAAGACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 3 0.12
32 2 0.08
33 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (30 bp):
ATATTTTTATTTAATTATTAAAGTAAATAG
Found at i:117341578 original size:13 final size:14
Alignment explanation
Indices: 117341552--117341580 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
117341542 CGGAAGTGGG
117341552 AAAGAAAGAATAAA
1 AAAGAAAGAATAAA
117341566 AAAGAAA-AATAAA
1 AAAGAAAGAATAAA
117341579 AA
1 AA
117341581 TAAAAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAGAAAGAATAAA
Found at i:117341955 original size:24 final size:22
Alignment explanation
Indices: 117341913--117341956 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
117341903 TTTGGTTGAA
*
117341913 AATTGAGTAGAAACAAAGTATG
1 AATTGAGTAGAAAAAAAGTATG
117341935 AATTGAGATAGAAAAATAAGTA
1 AATTGAG-TAGAAAAA-AAGTA
117341957 AATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (22 bp):
AATTGAGTAGAAAAAAAGTATG
Found at i:117341960 original size:22 final size:20
Alignment explanation
Indices: 117341912--117341960 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
117341902 GTTTGGTTGA
*
117341912 AAATTGAGTAGAAACAAAGT
1 AAATTGAGTAGAAAAAAAGT
117341932 ATGAATTGAGATAGAAAAATAAGT
1 A--AATTGAG-TAGAAAAA-AAGT
117341956 AAATT
1 AAATT
117341961 TAATTAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 11 0.46
23 7 0.29
24 5 0.21
ACGTcount: A:0.55, C:0.02, G:0.18, T:0.24
Consensus pattern (20 bp):
AAATTGAGTAGAAAAAAAGT
Found at i:117346443 original size:39 final size:38
Alignment explanation
Indices: 117346324--117346450 Score: 107
Period size: 39 Copynumber: 3.2 Consensus size: 38
117346314 CTTTTCTTAT
* * * *
117346324 TAAATTTTATGGTTTTTAATTCATTTCTAACAATTCTTA
1 TAAATTTTATGATTTTTAATT-ATTTTTAATAATTATTA
* **
117346363 TATAATTTCCA--ATTTTTAA-TGGTTTTAATAAATTTATTTA
1 TA-AATTT-TATGATTTTTAATTATTTTTAAT-AA-TTA-TTA
117346403 TAAATTTTATGATTTTTAATTAATTTTTAATAATTATTA
1 TAAATTTTATGATTTTTAATT-ATTTTTAATAATTATTA
117346442 TAAATTTTA
1 TAAATTTTA
117346451 ATTATTTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
37 5 0.07
38 4 0.06
39 28 0.41
40 21 0.30
41 4 0.06
42 7 0.10
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (38 bp):
TAAATTTTATGATTTTTAATTATTTTTAATAATTATTA
Found at i:117346447 original size:20 final size:20
Alignment explanation
Indices: 117346385--117346449 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
117346375 TTTTTAATGG
117346385 TTTTAATAAATTTATTTATAAA-
1 TTTTAAT-AA-TTA-TTATAAAT
* * *
117346407 TTTT-ATGATTTTTAATTAAT
1 TTTTAATAATTATT-ATAAAT
117346427 TTTTAATAATTATTATAAAT
1 TTTTAATAATTATTATAAAT
117346447 TTT
1 TTT
117346450 AATTATTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.06
19 6 0.18
20 13 0.38
21 9 0.26
22 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAATAATTATTATAAAT
Found at i:117346451 original size:19 final size:19
Alignment explanation
Indices: 117346385--117346452 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
117346375 TTTTTAATGG
117346385 TTTTAATAAATTTATTTATAAA
1 TTTTAAT-AA-TTA-TTATAAA
* * *
117346407 TTTT-ATGATTTTTAATTAAT
1 TTTTAATAATTATT-A-TAAA
117346427 TTTTAATAATTATTATAAA
1 TTTTAATAATTATTATAAA
117346446 TTTTAAT
1 TTTTAAT
117346453 TATTTTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.05
19 13 0.35
20 9 0.24
21 9 0.24
22 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
TTTTAATAATTATTATAAA
Found at i:117346454 original size:16 final size:17
Alignment explanation
Indices: 117346433--117346466 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
117346423 TAATTTTTAA
117346433 TAATTATTATAAA-TTT
1 TAATTATTATAAACTTT
*
117346449 TAATTATTTTAAACTTT
1 TAATTATTATAAACTTT
117346466 T
1 T
117346467 TTACACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTATTATAAACTTT
Found at i:117347090 original size:60 final size:60
Alignment explanation
Indices: 117347026--117347152 Score: 245
Period size: 60 Copynumber: 2.1 Consensus size: 60
117347016 CCTAATCATA
117347026 CATAGTACGAGGAGTAGGAGATGCAAGAGGCTGCTGATTATTTTGATTATCATCCATCTT
1 CATAGTACGAGGAGTAGGAGATGCAAGAGGCTGCTGATTATTTTGATTATCATCCATCTT
*
117347086 CATAGTACGAGGAGTAGGAGGTGCAAGAGGCTGCTGATTATTTTGATTATCATCCATCTT
1 CATAGTACGAGGAGTAGGAGATGCAAGAGGCTGCTGATTATTTTGATTATCATCCATCTT
117347146 CATAGTA
1 CATAGTA
117347153 ATATCTTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (60 bp):
CATAGTACGAGGAGTAGGAGATGCAAGAGGCTGCTGATTATTTTGATTATCATCCATCTT
Found at i:117350684 original size:26 final size:26
Alignment explanation
Indices: 117350599--117350731 Score: 218
Period size: 25 Copynumber: 5.2 Consensus size: 26
117350589 CATGAAATTC
*
117350599 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGGAACATTTACCTAACCTA
* *
117350624 TTATCATGAAACATTTACCT-ACCCA
1 TTATCATGGAACATTTACCTAACCTA
117350649 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
117350675 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
117350701 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
117350726 TTATCA
1 TTATCA
117350732 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 3 0.03
25 64 0.62
26 37 0.36
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:117350712 original size:51 final size:50
Alignment explanation
Indices: 117350599--117350731 Score: 214
Period size: 51 Copynumber: 2.6 Consensus size: 50
117350589 CATGAAATTC
117350599 TTATCATGAAACATTTACCTAACC-ATTATCATGAAACATTTACCTACCCA
1 TTATCATG-AACATTTACCTAACCTATTATCATGAAACATTTACCTACCCA
* *
117350649 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTATTATCATGAAACATTTACCT-ACCCA
117350701 TTATCATGAACATTTACCTAACCTATTATCA
1 TTATCATGAACATTTACCTAACCTATTATCA
117350732 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
50 22 0.28
51 45 0.58
52 11 0.14
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (50 bp):
TTATCATGAACATTTACCTAACCTATTATCATGAAACATTTACCTACCCA
Found at i:117356394 original size:26 final size:26
Alignment explanation
Indices: 117356356--117356465 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
117356346 CATGAAATTC
* *
117356356 TTATCATGAAACATTTACCTATCCCA
1 TTATCATGAAACATTTACCTAACCTA
*
117356382 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
117356408 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
117356434 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
117356460 TTATCA
1 TTATCA
117356466 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:117358346 original size:9 final size:9
Alignment explanation
Indices: 117358332--117358368 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
117358322 TATAGTTTAA
117358332 TATTCGAAT
1 TATTCGAAT
117358341 TATTCGAAT
1 TATTCGAAT
*
117358350 TATTCGAGT
1 TATTCGAAT
117358359 TATTCGAAT
1 TATTCGAAT
117358368 T
1 T
117358369 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:117368577 original size:17 final size:17
Alignment explanation
Indices: 117368555--117368587 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117368545 CACACTACAC
*
117368555 CATACGGCCATGTCTTG
1 CATACGACCATGTCTTG
117368572 CATACGACCATGTCTT
1 CATACGACCATGTCTT
117368588 CGTCGAACAC
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:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (17 bp):
CATACGACCATGTCTTG
Found at i:117370058 original size:15 final size:15
Alignment explanation
Indices: 117370038--117370069 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
117370028 AAGTCAGCTC
117370038 AAGCCTATTGGGCCT
1 AAGCCTATTGGGCCT
117370053 AAGCCTATTGGGCCT
1 AAGCCTATTGGGCCT
117370068 AA
1 AA
117370070 ACCCATTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (15 bp):
AAGCCTATTGGGCCT
Found at i:117372038 original size:26 final size:26
Alignment explanation
Indices: 117372002--117372109 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
117371992 TGAAATTCCC
* *
117372002 ATCATGGAACATTTACCTAAACTATT
1 ATCATGGAACATTTACCTAACCCATT
117372028 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
117372054 ATCATGAAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
117372080 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
117372106 ATCA
1 ATCA
117372110 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:117380806 original size:24 final size:24
Alignment explanation
Indices: 117380712--117380809 Score: 74
Period size: 24 Copynumber: 4.0 Consensus size: 24
117380702 AGTTACGCGT
*
117380712 TAAGCTCGCATGAGCTTTCTGATT-
1 TAAGCTCACATGAGCTTTCTG-TTA
** *
117380736 TAAGCTCTTATGAGCTTTTTGTTA
1 TAAGCTCACATGAGCTTTCTGTTA
* * * *
117380760 TTAAGCCCGA-ATAATCTTCCTGTTA
1 -TAAGCTC-ACATGAGCTTTCTGTTA
*
117380785 CAAGCTCACATGAGCTTTCTGTTA
1 TAAGCTCACATGAGCTTTCTGTTA
117380809 T
1 T
117380810 TTGGTTTGGA
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
23 3 0.05
24 35 0.64
25 17 0.31
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (24 bp):
TAAGCTCACATGAGCTTTCTGTTA
Found at i:117382838 original size:46 final size:44
Alignment explanation
Indices: 117382779--117382893 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
117382769 ACAGGACAGA
* *
117382779 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
117382825 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
117382869 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
117382894 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:117382874 original size:44 final size:45
Alignment explanation
Indices: 117382779--117382912 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
117382769 ACAGGACAGA
* *
117382779 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
117382825 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
117382869 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
117382913 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:117385158 original size:25 final size:25
Alignment explanation
Indices: 117385124--117385174 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
117385114 TTGAATATGG
117385124 ACACCCGTTTGTCGAGATACATTCT
1 ACACCCGTTTGTCGAGATACATTCT
117385149 ACACCCGTTTGTCGAGATACATTCT
1 ACACCCGTTTGTCGAGATACATTCT
117385174 A
1 A
117385175 GAATTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (25 bp):
ACACCCGTTTGTCGAGATACATTCT
Found at i:117385550 original size:11 final size:10
Alignment explanation
Indices: 117385520--117385584 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
117385510 AATAAATTAT
*
117385520 TTTTTTATAA
1 TTTTTAATAA
*
117385530 ATTTT-ATAA
1 TTTTTAATAA
117385539 TTTTTAATTAA
1 TTTTTAA-TAA
117385550 TTTTTAATAA
1 TTTTTAATAA
*
117385560 TTATT-ATAGA
1 TTTTTAATA-A
*
117385570 -TTTTAATTA
1 TTTTTAATAA
117385579 TTTTTA
1 TTTTTA
117385585 TTTTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 15 0.33
10 20 0.44
11 10 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:117385585 original size:19 final size:18
Alignment explanation
Indices: 117385521--117385585 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
117385511 ATAAATTATT
117385521 TTTTTATAAATTTT-ATAA
1 TTTTTAT-AATTTTAATAA
117385539 TTTTTAATTAATTTTTAATAA
1 TTTTT-A-TAA-TTTTAATAA
* *
117385560 TTATTATAGATTTTAATTA
1 TTTTTATA-ATTTTAATAA
117385579 TTTTTAT
1 TTTTTAT
117385586 TTTTTTGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 5 0.13
19 19 0.49
20 7 0.18
21 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTATAATTTTAATAA
Found at i:117386653 original size:21 final size:21
Alignment explanation
Indices: 117386627--117386671 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
117386617 GATAATTTTC
117386627 AAAA-TTTCAAAATATTTATAA
1 AAAATTTTCAAAAT-TTTATAA
117386648 AAAATTTTCAAAATTTTATAA
1 AAAATTTTCAAAATTTTATAA
117386669 AAA
1 AAA
117386672 TTATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTTTCAAAATTTTATAA
Found at i:117386654 original size:30 final size:30
Alignment explanation
Indices: 117386604--117386680 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
117386594 TTTTAAATTA
* *
117386604 ATAAAAATAATAAGATAATTTTCAAAATTTC
1 ATAAAAATTATAA-AAAATTTTCAAAATTTC
* *
117386635 A-AAATATTTATAAAAAATTTTCAAAATTTT
1 ATAAA-AATTATAAAAAATTTTCAAAATTTC
117386665 ATAAAAATTATAAAAA
1 ATAAAAATTATAAAAA
117386681 TATCAAAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (30 bp):
ATAAAAATTATAAAAAATTTTCAAAATTTC
Found at i:117386675 original size:9 final size:9
Alignment explanation
Indices: 117386663--117386744 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 9
117386653 TTTCAAAATT
117386663 TTATAAAAA
1 TTATAAAAA
117386672 TTATAAAAA
1 TTATAAAAA
117386681 -TATCAAAAA
1 TTAT-AAAAA
*
117386690 CTA-AAAAGCA
1 TTATAAAA--A
117386700 TTATACAAAA
1 TTATA-AAAA
* *
117386710 TTCTGAAAA
1 TTATAAAAA
117386719 TTATATAAAA
1 TTATA-AAAA
* *
117386729 ATGTAAAAA
1 TTATAAAAA
117386738 TTA-AAAA
1 TTATAAAA
117386745 TTAAAAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
8 11 0.19
9 26 0.46
10 16 0.28
11 1 0.02
12 3 0.05
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (9 bp):
TTATAAAAA
Found at i:117386704 original size:58 final size:55
Alignment explanation
Indices: 117386642--117386751 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 55
117386632 TTCAAAATAT
* *
117386642 TTATAAAAAATTTTCAAAATTTTATAAAAATTATAAAAATATCAAAAACTAAAAAGCA
1 TTATAAAAAATTCTCAAAATTATATAAAAA-TATAAAAAT-T-AAAAACTAAAAAGCA
* * * *
117386700 TTATACAAAATTCTGAAAATTATATAAAAATGTAAAAATTAAAAATTAAAAA
1 TTATAAAAAATTCTCAAAATTATATAAAAATATAAAAATTAAAAACTAAAAA
117386752 TTAAAATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 11 0.24
56 1 0.02
57 8 0.17
58 26 0.57
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (55 bp):
TTATAAAAAATTCTCAAAATTATATAAAAATATAAAAATTAAAAACTAAAAAGCA
Found at i:117386758 original size:6 final size:7
Alignment explanation
Indices: 117386724--117386757 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
117386714 GAAAATTATA
117386724 TAAAAAT
1 TAAAAAT
117386731 GTAAAAAT
1 -TAAAAAT
117386739 TAAAAAT
1 TAAAAAT
117386746 TAAAAAT
1 TAAAAAT
117386753 TAAAA
1 TAAAA
117386758 TATATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:117398385 original size:30 final size:30
Alignment explanation
Indices: 117398351--117398415 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
117398341 ATTCTTTCAT
*
117398351 TTGTATATTGTATATTGTTGGCATTCATGC
1 TTGTATATTGTATATTGATGGCATTCATGC
117398381 TTGTATATTGTATATTGATGGCATTCATGC
1 TTGTATATTGTATATTGATGGCATTCATGC
117398411 -TGTAT
1 TTGTAT
117398416 TCTTTCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (30 bp):
TTGTATATTGTATATTGATGGCATTCATGC
Found at i:117399754 original size:26 final size:26
Alignment explanation
Indices: 117399725--117399786 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
117399715 AACTAATAAT
*
117399725 AAAAACTAATTTTAAATTAAGCTTTA
1 AAAAACTAATTTTAAATTAAGCATTA
117399751 AAAAACTAATTTTAAATTAAGCATTA
1 AAAAACTAATTTTAAATTAAGCATTA
**
117399777 TTAAACTAAT
1 AAAAACTAAT
117399787 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (26 bp):
AAAAACTAATTTTAAATTAAGCATTA
Found at i:117406273 original size:28 final size:28
Alignment explanation
Indices: 117406237--117406293 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
117406227 CATACATAAA
117406237 TCCACTGATATCTTGAAATATTTGAATC
1 TCCACTGATATCTTGAAATATTTGAATC
117406265 TCCACTGATATCTTGAAATATTTGAATC
1 TCCACTGATATCTTGAAATATTTGAATC
117406293 T
1 T
117406294 TGTGATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (28 bp):
TCCACTGATATCTTGAAATATTTGAATC
Found at i:117408002 original size:27 final size:29
Alignment explanation
Indices: 117407954--117408010 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
117407944 ACATCTATTA
* *
117407954 ACCAAAATTAATAATTACAATATT-TTTT
1 ACCAAAATTAAAAACTACAATATTATTTT
*
117407982 ACCAAATTTAAAAACTA-AATATTATTTT
1 ACCAAAATTAAAAACTACAATATTATTTT
117408010 A
1 A
117408011 TCCTAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (29 bp):
ACCAAAATTAAAAACTACAATATTATTTT
Found at i:117410937 original size:17 final size:19
Alignment explanation
Indices: 117410895--117410938 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
117410885 ACGAAATTTT
*
117410895 AATTAGTATTATAAGATAA
1 AATTATTATTATAAGATAA
*
117410914 AATTATTATTATTAGA-AA
1 AATTATTATTATAAGATAA
117410932 AA-TATTA
1 AATTATTA
117410939 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
AATTATTATTATAAGATAA
Found at i:117415806 original size:35 final size:35
Alignment explanation
Indices: 117415745--117415902 Score: 201
Period size: 35 Copynumber: 4.5 Consensus size: 35
117415735 TCTGTTTTGT
*
117415745 TGTGTTTTGGATGGA-TAGCTCTTATGAGCATTGG
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
117415779 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
* ** *
117415814 TGTGTTCCAAATTGATTAGCTCTTATGAGCATTGG
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
* ** **
117415849 TGTGTTCCAAATGGATTAGCTCTTATGAGCATCTAA
1 TGTGTTTCGGATGGATTAGCTCTTATGAGCAT-TGG
*
117415885 TGTGTTTCGGTTGGATTA
1 TGTGTTTCGGATGGATTA
117415903 TCGATGTACT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
34 14 0.13
35 81 0.74
36 15 0.14
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (35 bp):
TGTGTTTCGGATGGATTAGCTCTTATGAGCATTGG
Found at i:117418773 original size:40 final size:40
Alignment explanation
Indices: 117418714--117418921 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
117418704 CAATTGAATG
* * * *
117418714 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
117418754 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
117418794 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
117418834 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
117418874 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
117418914 ATATCCGG
1 ATATCCGG
117418922 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:117418852 original size:80 final size:80
Alignment explanation
Indices: 117418715--117418921 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
117418705 AATTGAATGA
* * ** * * *
117418715 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
117418780 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
117418793 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
117418858 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
117418875 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
117418922 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:117424874 original size:40 final size:40
Alignment explanation
Indices: 117424829--117424957 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
117424819 CGGAATACAA
117424829 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
117424869 CCGGATAGAACGACTCGCACGAATGCCTT-GGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
117424908 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
117424948 CCGGATATAA
1 CCGGATATAA
117424958 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.03
39 32 0.42
40 42 0.55
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:117437210 original size:40 final size:39
Alignment explanation
Indices: 117437042--117437212 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
117437032 AGAAATTGAA
* *
117437042 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
117437082 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
117437122 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
117437162 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
117437202 TGATATCCGGG
1 TGATATCCGGG
117437213 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:117441550 original size:44 final size:45
Alignment explanation
Indices: 117441452--117441567 Score: 168
Period size: 45 Copynumber: 2.6 Consensus size: 45
117441442 TATCGTACGG
* * *
117441452 TACTATTCGGGCCTTTGAG-CTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
117441496 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
117441541 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGC
117441568 GAAATGCTGG
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
43 17 0.25
44 23 0.34
45 26 0.39
46 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:117446428 original size:15 final size:15
Alignment explanation
Indices: 117446408--117446444 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
117446398 AAAATTTTTA
117446408 ATTATTATGGAATTT
1 ATTATTATGGAATTT
*
117446423 ATTATTATGTAATTT
1 ATTATTATGGAATTT
117446438 ATT-TTAT
1 ATTATTAT
117446445 TTTTGTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (15 bp):
ATTATTATGGAATTT
Found at i:117450190 original size:43 final size:42
Alignment explanation
Indices: 117450130--117450238 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
117450120 AATGCAAACG
* *
117450130 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCC-ACTG
1 TCCCAGACAG-GGTCTTACACGTAATCAAATA-CGATGCCGA-TA
* *
117450173 TCCCAGATAGGGTCTTACACGAAATCAAATACGATGCCGATA
1 TCCCAGACAGGGTCTTACACGTAATCAAATACGATGCCGATA
*
117450215 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACAGGGTCTTACACGTAA
117450239 ATCTCAAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 29 0.51
43 27 0.47
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACACGTAATCAAATACGATGCCGATA
Found at i:117450241 original size:43 final size:44
Alignment explanation
Indices: 117450130--117450241 Score: 142
Period size: 43 Copynumber: 2.6 Consensus size: 44
117450120 AATGCAAACG
* * *
117450130 TCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTA
* *
117450173 TCCCAGATAGGGTCTTACACG-AAATCAAATA-CGATGCCGA-TA
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCC-ACTA
117450215 TCCCAGACATGGTCTTACACGTAAATC
1 TCCCAGACATGGTCTTACACGTAAATC
117450242 TCAAATCGGT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTA
Found at i:117457768 original size:42 final size:40
Alignment explanation
Indices: 117457676--117457832 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 40
117457666 CAATGCCAAC
* ** *
117457676 GTCCCAGACGTGGTCTTACGTGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATC-AA-ATCGATGCCA-T
* *
117457719 GTCCCAGACAAGGTCTTATACGAAATCAAATGCGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAAT-CGATGCC-AT
*
117457761 GTCCCAGACATGGTCTTACACTTAAATCTCAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTACAC-GAAA--TCAAATCGATGCC-AT
*
117457805 GTCCCAGACGTGGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
117457833 CATATCAGAA
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 5 0.05
42 29 0.30
43 28 0.29
44 29 0.30
45 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATCGATGCCAT
Found at i:117457851 original size:44 final size:42
Alignment explanation
Indices: 117457676--117457838 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
117457666 CAATGCCAAC
* ** * *
117457676 GTCCCAGACGTGGTCTTACGTGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCA-T
* *
117457719 GTCCCAGACAAGGTCTTATACGAAATCA-A-ATGCGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCACATAT-CGATGCC-AT
* * *
117457761 GTCCCAGACATGGTCTTACACTTAAATCTCAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTACAC-GAAATCACATATCGATGCC-AT
*
117457805 GTCCCAGACGTGGTCTTACACGAAATCACATATC
1 GTCCCAGACATGGTCTTACACGAAATCACATATC
117457839 AGAATCCTAT
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 28 0.28
43 38 0.38
44 30 0.30
45 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAT
Found at i:117463862 original size:20 final size:21
Alignment explanation
Indices: 117463829--117463868 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
117463819 TGACCATTAA
**
117463829 ATAAATAATTTTAA-ATGGTT
1 ATAAATAAGGTTAATATGGTT
117463849 ATAAATAAGGTTAATATGGT
1 ATAAATAAGGTTAATATGGT
117463869 AAATAGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (21 bp):
ATAAATAAGGTTAATATGGTT
Found at i:117464836 original size:44 final size:43
Alignment explanation
Indices: 117464761--117464891 Score: 142
Period size: 42 Copynumber: 3.0 Consensus size: 43
117464751 TCGATGTGTG
* *
117464761 ATTTCGTGTAAGACCACGTCTGGAACGTTGACATC-AATTTGAT
1 ATTTCGTGTAAGACCATGTCTGG-ACATTGACATCGAATTTGAT
*
117464804 ATTTACGTGTAAGACCATGTCTAGGACATTGACATCGTATTT-A-
1 ATTT-CGTGTAAGACCATGTCT-GGACATTGACATCGAATTTGAT
* * *
117464847 ATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGAT
1 ATTTCGTGTAAGACCATGTCT-GGACATTGACATCGA-ATTTGAT
117464892 TACATGTAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 28 0.38
43 12 0.16
44 28 0.38
45 6 0.08
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (43 bp):
ATTTCGTGTAAGACCATGTCTGGACATTGACATCGAATTTGAT
Found at i:117464902 original size:43 final size:42
Alignment explanation
Indices: 117464806--117464905 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
117464796 AATTTGATAT
*
117464806 TTACGTGTAAGACCATGTCTAGGACATTGACATCGTATTTAA
1 TTACGTGTAAGACCATGTCTAGGACAGTGACATCGTATTTAA
* * * * *
117464848 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGACATCG-TATTTAA
*
117464891 TTACATGTAAGACCA
1 TTACGTGTAAGACCA
117464906 CATTTGGGAC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTAGGACAGTGACATCGTATTTAA
Found at i:117482580 original size:20 final size:20
Alignment explanation
Indices: 117482507--117482578 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
117482497 CGGGTAAGGA
117482507 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
117482527 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
*
117482547 ACACGGAG-GTGTGCCAATGC
1 ACACGG-GCGTGTCCCAATGC
117482567 ACACGGGCGTGT
1 ACACGGGCGTGT
117482579 GCATCGCCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAATGC
Found at i:117483084 original size:7 final size:7
Alignment explanation
Indices: 117483072--117483106 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
117483062 TGTTATTGCC
117483072 TTTTTGT
1 TTTTTGT
117483079 TTTTTGT
1 TTTTTGT
*
117483086 TTTTTTT
1 TTTTTGT
117483093 TTTTTGT
1 TTTTTGT
*
117483100 GTTTTGT
1 TTTTTGT
117483107 AATAGGATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
TTTTTGT
Found at i:117483091 original size:16 final size:16
Alignment explanation
Indices: 117483072--117483104 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
117483062 TGTTATTGCC
*
117483072 TTTTTGTTTTT-TGTT
1 TTTTTTTTTTTGTGTT
117483087 TTTTTTTTTTTGTGTT
1 TTTTTTTTTTTGTGTT
117483103 TT
1 TT
117483105 GTAATAGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTTTGTGTT
Found at i:117483828 original size:21 final size:22
Alignment explanation
Indices: 117483794--117483841 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
117483784 TGTGACCCCT
* *
117483794 GTTTAGTAGAAAAATTTTCAAA
1 GTTTTGTAGAAAAATTTTAAAA
117483816 GTTTTGTA-AAAAATTTTAAAA
1 GTTTTGTAGAAAAATTTTAAAA
*
117483837 TTTTT
1 GTTTT
117483842 TATTTAGTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (22 bp):
GTTTTGTAGAAAAATTTTAAAA
Found at i:117485032 original size:29 final size:31
Alignment explanation
Indices: 117485006--117485064 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
117484996 TTCAAGTATA
117485006 ACATTAAACATTTT-T-AAAGTATAAGTACT
1 ACATTAAACATTTTATGAAAGTATAAGTACT
** *
117485035 ACATTGGATATTTTATGAAAGTATAAGTAC
1 ACATTAAACATTTTATGAAAGTATAAGTAC
117485065 CAAATAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 1 0.04
31 13 0.52
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (31 bp):
ACATTAAACATTTTATGAAAGTATAAGTACT
Found at i:117485198 original size:90 final size:90
Alignment explanation
Indices: 117484978--117485199 Score: 232
Period size: 90 Copynumber: 2.5 Consensus size: 90
117484968 TGTTCTAGAT
* * * * * *
117484978 TAATACA-AAGATTGATAGTTCAAGTATAACATTAAACATTTTTAAAGTATAAGTACTACATTGG
1 TAATACACAA-ATGGATAGTTCAAATACAACATTAAATA-TTTCAAAGTATAAGTACTACATTAG
* *
117485042 ATATTTTATGAAAGTATAAGTACCAAA
64 ACATTTTATGAAAGTACAAGTACCAAA
** * ** * *
117485069 TAATACACAAATTAATAGTTCAAATACTACATTGGATATTTCAAAGTATAGGT-GTCACATTAGA
1 TAATACACAAATGGATAGTTCAAATACAACATTAAATATTTCAAAGTATAAGTACT-ACATTAGA
* *
117485133 CATTTTATGAAAGTACAATTATCAAA
65 CATTTTATGAAAGTACAAGTACCAAA
* *
117485159 TAATATACAAATGGATAGTTCAAATACAATATTAAATATTT
1 TAATACACAAATGGATAGTTCAAATACAACATTAAATATTT
117485200 TATGAAAGTA
Statistics
Matches: 107, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
89 1 0.01
90 76 0.71
91 28 0.26
92 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (90 bp):
TAATACACAAATGGATAGTTCAAATACAACATTAAATATTTCAAAGTATAAGTACTACATTAGAC
ATTTTATGAAAGTACAAGTACCAAA
Found at i:117511389 original size:125 final size:125
Alignment explanation
Indices: 117511167--117511417 Score: 502
Period size: 125 Copynumber: 2.0 Consensus size: 125
117511157 TAGGGTTTCT
117511167 GATATTTTCTGTTGTGGGGACTTTTTTGGGTCATTTCGGGTTTAGACCATTTGTAAACCGGGCTA
1 GATATTTTCTGTTGTGGGGACTTTTTTGGGTCATTTCGGGTTTAGACCATTTGTAAACCGGGCTA
117511232 GATGTTTTGGACTTGGTATTTTATTTCTGTTTCGGGCTATGTTTTGTTATTGGACTTTGG
66 GATGTTTTGGACTTGGTATTTTATTTCTGTTTCGGGCTATGTTTTGTTATTGGACTTTGG
117511292 GATATTTTCTGTTGTGGGGACTTTTTTGGGTCATTTCGGGTTTAGACCATTTGTAAACCGGGCTA
1 GATATTTTCTGTTGTGGGGACTTTTTTGGGTCATTTCGGGTTTAGACCATTTGTAAACCGGGCTA
117511357 GATGTTTTGGACTTGGTATTTTATTTCTGTTTCGGGCTATGTTTTGTTATTGGACTTTGG
66 GATGTTTTGGACTTGGTATTTTATTTCTGTTTCGGGCTATGTTTTGTTATTGGACTTTGG
117511417 G
1 G
117511418 TTAATGTTTT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.14, C:0.11, G:0.27, T:0.47
Consensus pattern (125 bp):
GATATTTTCTGTTGTGGGGACTTTTTTGGGTCATTTCGGGTTTAGACCATTTGTAAACCGGGCTA
GATGTTTTGGACTTGGTATTTTATTTCTGTTTCGGGCTATGTTTTGTTATTGGACTTTGG
Found at i:117517241 original size:21 final size:21
Alignment explanation
Indices: 117517217--117517263 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
117517207 GTCACATGTT
117517217 CGTGTGG-CCAAAGGACATGCC
1 CGTGTGGTCC-AAGGACATGCC
* *
117517238 CGTGTGGTCCCATGACATGCC
1 CGTGTGGTCCAAGGACATGCC
117517259 CGTGT
1 CGTGT
117517264 TTTAGGCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.21
Consensus pattern (21 bp):
CGTGTGGTCCAAGGACATGCC
Found at i:117519547 original size:12 final size:12
Alignment explanation
Indices: 117519530--117519554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117519520 AATAACACCC
117519530 TAAAAATATTTA
1 TAAAAATATTTA
117519542 TAAAAATATTTA
1 TAAAAATATTTA
117519554 T
1 T
117519555 GACTCGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTTA
Found at i:117520139 original size:34 final size:34
Alignment explanation
Indices: 117520091--117520164 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
117520081 TAACAAACTT
* *
117520091 TAACAAACTCAGCTTCCTACTCCTACTAATAAGC
1 TAACAAACTCAGCTTCCTACTACTACTAACAAGC
* * *
117520125 TAACAAACTTAGCTTCTTTCTACTACTAACAAGC
1 TAACAAACTCAGCTTCCTACTACTACTAACAAGC
117520159 TAACAA
1 TAACAA
117520165 TCTCCCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.28
Consensus pattern (34 bp):
TAACAAACTCAGCTTCCTACTACTACTAACAAGC
Found at i:117522391 original size:76 final size:76
Alignment explanation
Indices: 117522297--117522444 Score: 215
Period size: 76 Copynumber: 1.9 Consensus size: 76
117522287 TCTATTCCTA
*
117522297 AGTGTGCCCTCAAGATATAATTCATTTTGGACTGTATAATAAACTCCTCAATTTCATTATGACCA
1 AGTGTGCCCTCAAAATATAATTCATTTTGGACTGTATAATAAACTCCTCAATTTCATTATGACCA
117522362 ATCACTTCTTG
66 ATCACTTCTTG
* * * * * ** *
117522373 AGTGTGTCGTCAAAATATAATTCTTTTTGGAGTGTGTAATAAACTTTTCAATTTCATTATGGCCA
1 AGTGTGCCCTCAAAATATAATTCATTTTGGACTGTATAATAAACTCCTCAATTTCATTATGACCA
117522438 ATCACTT
66 ATCACTT
117522445 AACTAAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (76 bp):
AGTGTGCCCTCAAAATATAATTCATTTTGGACTGTATAATAAACTCCTCAATTTCATTATGACCA
ATCACTTCTTG
Found at i:117522704 original size:36 final size:36
Alignment explanation
Indices: 117522664--117522737 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
117522654 TAGAAGAAAG
117522664 TAAATTAAGCTTAATTTATCATTAAATGTTATAATA
1 TAAATTAAGCTTAATTTATCATTAAATGTTATAATA
117522700 TAAATTAAGCTTAATTTATCATTAAATGTTATAATA
1 TAAATTAAGCTTAATTTATCATTAAATGTTATAATA
117522736 TA
1 TA
117522738 CATATTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (36 bp):
TAAATTAAGCTTAATTTATCATTAAATGTTATAATA
Found at i:117525371 original size:3 final size:3
Alignment explanation
Indices: 117525365--117525466 Score: 186
Period size: 3 Copynumber: 34.0 Consensus size: 3
117525355 TAATATGACG
117525365 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
**
117525413 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACC ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
117525461 ATA ATA
1 ATA ATA
117525467 GGAACAATAT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:117527401 original size:96 final size:94
Alignment explanation
Indices: 117527214--117527481 Score: 269
Period size: 96 Copynumber: 2.9 Consensus size: 94
117527204 AGCTTCAATA
* * * * *
117527214 TGCTCCACTACAACTTCAGGAAGATAAGGTT-TG----GAGCTTTAATCTGCTCTATTGTAACTT
1 TGCTCCACTACAACTTCAGGGAGATAAGGTTCTGACTTGAGCTTCAATCTACTCCACTGTAACTT
* * *
117527274 TAGAGAGATAAGATTTGCTATATTCAGTC
66 TAGGGAGATAAGATTCGCTACATTCAGTC
*
117527303 TGCTCCACTACAACTTCAGGGAGATAAGGTTCGTGACTTGCAGCTTCAATCTACTCCACTGCAAC
1 TGCTCCACTACAACTTCAGGGAGATAAGGTTC-TGACTTG-AGCTTCAATCTACTCCACTGTAAC
* *
117527368 TTCAGGGAGATGAA-ATTCGCTACCTTCAGTC
64 TTTAGGGAGAT-AAGATTCGCTACATTCAGTC
*** * * * **
117527399 TGCTTTGCTGCAACTTCAGGGAGATAAGACTACCAACTTGTAGCTTCAATCTACTCCACTGTAAC
1 TGCTCCACTACAACTTCAGGGAGATAAG-GTTCTGACTTG-AGCTTCAATCTACTCCACTGTAAC
*
117527464 TTTAGGAAGATAAGATTC
64 TTTAGGGAGATAAGATTC
117527482 ACTATAATTT
Statistics
Matches: 146, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
89 30 0.21
91 2 0.01
95 3 0.02
96 107 0.73
97 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (94 bp):
TGCTCCACTACAACTTCAGGGAGATAAGGTTCTGACTTGAGCTTCAATCTACTCCACTGTAACTT
TAGGGAGATAAGATTCGCTACATTCAGTC
Found at i:117527511 original size:54 final size:54
Alignment explanation
Indices: 117527436--117527540 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
117527426 GACTACCAAC
* * * *
117527436 TTGTAGCTTCAATCTACTCCACTGTAACTTTA-GGAAGATAAGATTCACTATAAT
1 TTGTAGCTTCAATATACTCCACTGCAACGTCAGGGAA-ATAAGATTCACTATAAT
* * *
117527490 TTGTAGCTTTAATATATTCCACTGCAACGTCAGGGAAATAAGATTCGCTAT
1 TTGTAGCTTCAATATACTCCACTGCAACGTCAGGGAAATAAGATTCACTAT
117527541 CTTCGATCTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 39 0.91
55 4 0.09
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (54 bp):
TTGTAGCTTCAATATACTCCACTGCAACGTCAGGGAAATAAGATTCACTATAAT
Found at i:117527725 original size:44 final size:44
Alignment explanation
Indices: 117527646--117527749 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
117527636 CTCCACTGTG
*
117527646 ACTTTAG-GAAGATAAGGCTTATAACTTCAACCTGCTCTACTGCA
1 ACTTTAGAG-AGATAAGGCTTATAACTTCAACCTGCTCTACTACA
** * * *
117527690 ACTTTAGAGAGATAAGGCTTATAGTTTTAATCTGCTCTATTACA
1 ACTTTAGAGAGATAAGGCTTATAACTTCAACCTGCTCTACTACA
*
117527734 ACTTCAGAGAGATAAG
1 ACTTTAGAGAGATAAG
117527750 ATCTGTGGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 51 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (44 bp):
ACTTTAGAGAGATAAGGCTTATAACTTCAACCTGCTCTACTACA
Found at i:117531660 original size:28 final size:28
Alignment explanation
Indices: 117531620--117531689 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
117531610 ATAGTAAGTC
*
117531620 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
117531648 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
117531676 CGCACACTTAGTGC
1 CGCACACTTAGTGC
117531690 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:117543473 original size:28 final size:28
Alignment explanation
Indices: 117543433--117543502 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
117543423 ATAGTAAGTC
*
117543433 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
117543461 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
117543489 CGCACACTTAGTGC
1 CGCACACTTAGTGC
117543503 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:117556604 original size:52 final size:53
Alignment explanation
Indices: 117556526--117556680 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 53
117556516 GACGGAAAAG
* *
117556526 ATGTGA-TACATGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTACC
1 ATGTGATTACGTGATCCCGTATAAGACCATAGCCGGGCTATGGCATCGGTACC
* ** ***
117556578 ATGTGATT-CGT-ATCCCCGTATAAGACCATAGCTGGGCTATGGCATCAATGTG
1 ATGTGATTACGTGAT-CCCGTATAAGACCATAGCCGGGCTATGGCATCGGTACC
* * * *
117556630 ATGTGATTATGTGATTCCGTATAAGACCATATCCGGGATATGGCATCGGTA
1 ATGTGATTACGTGATCCCGTATAAGACCATAGCCGGGCTATGGCATCGGTA
117556681 TGATATGTGG
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
51 2 0.02
52 47 0.57
53 32 0.39
54 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (53 bp):
ATGTGATTACGTGATCCCGTATAAGACCATAGCCGGGCTATGGCATCGGTACC
Found at i:117556937 original size:2 final size:2
Alignment explanation
Indices: 117556930--117556960 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
117556920 ATAGTTTAAC
117556930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117556961 ATTGTGTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117558061 original size:3 final size:3
Alignment explanation
Indices: 117558055--117558124 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
117558045 TAATATGACG
117558055 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
117558103 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
117558125 GAAATATATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:117564656 original size:13 final size:13
Alignment explanation
Indices: 117564638--117564662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117564628 TATACTATTA
117564638 TTACTTACATCTC
1 TTACTTACATCTC
117564651 TTACTTACATCT
1 TTACTTACATCT
117564663 ATCATCTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (13 bp):
TTACTTACATCTC
Found at i:117567555 original size:13 final size:13
Alignment explanation
Indices: 117567537--117567563 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117567527 ATGTGGTAAT
117567537 ATTTTTTTTTTTA
1 ATTTTTTTTTTTA
117567550 ATTTTTTTTTTTA
1 ATTTTTTTTTTTA
117567563 A
1 A
117567564 AATCTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
ATTTTTTTTTTTA
Found at i:117567556 original size:15 final size:15
Alignment explanation
Indices: 117567533--117567561 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
117567523 AATCATGTGG
117567533 TAATATTTTTTTTTT
1 TAATATTTTTTTTTT
117567548 TAAT-TTTTTTTTTT
1 TAATATTTTTTTTTT
117567562 AAAATCTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TAATATTTTTTTTTT
Found at i:117572229 original size:125 final size:127
Alignment explanation
Indices: 117572059--117572369 Score: 376
Period size: 125 Copynumber: 2.4 Consensus size: 127
117572049 GCCAAACGAT
* * * * ** * *
117572059 AAATCGAAACCTAGCACGATTGGGCACGATTTATCGATTTTCCAAATACAGAATATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCATT
* ** **
117572124 TTAATTTAAGAAAACATAGATGAAATTTCAAAAGGATATTATGTACTTTT-G-T-CGAATGAA
66 TTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTACATA-TTTTAGTTACGAAAAAA
* * *
117572184 AAATCGAAACCCAGCACGATTGGGCACGATCTCTAAAACTCCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCATT
* * * * *
117572249 TTAATTTAAGAAAACGTGGACGAAATTTCACAAGGGTATTCCATATTTTAGTTTAACGAAAAAA
66 TTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTACATATTTTAG-TT-ACGAAAAAA
*
117572313 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATT
117572370 TCCTTATGTT
Statistics
Matches: 157, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
124 4 0.03
125 92 0.59
127 1 0.01
129 60 0.38
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCATT
TTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTACATATTTTAGTTACGAAAAAA
Done.