Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 25 of 145
Found at i:8131110 original size:58 final size:57
Alignment explanation
Indices: 8130959--8131149 Score: 174
Period size: 58 Copynumber: 3.3 Consensus size: 57
8130949 CAATCGAACG
* * * * *
8130959 AATATGAAAAGAGATAGCTTCAGCTATCGAATATGAAAAGGGATAGCTTCGGCTATCA
1 AATATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATAGCTT-GACCATCA
* * * * *
8131017 ATTTTGAAAAGGGATGG-TGAT-GACCATC-AACTATGAAAAGGGAT-GGTGATGACCATCA
1 AATATGAAAAGGGATGGCT--TCGGCTATCGAA-TATGAAAAGGGATAGCT--TGACCATCA
* *
8131075 AATATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATAGCTTTAACCATCG
1 AATATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATAGC-TTGACCATCA
*
8131133 ATTATGAAAAGGGATGG
1 AATATGAAAAGGGATGG
8131150 TGACGATCAT
Statistics
Matches: 105, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
57 6 0.06
58 92 0.88
59 6 0.06
60 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (57 bp):
AATATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATAGCTTGACCATCA
Found at i:8131112 original size:87 final size:86
Alignment explanation
Indices: 8130988--8131220 Score: 252
Period size: 87 Copynumber: 2.7 Consensus size: 86
8130978 TCAGCTATCG
* * *
8130988 AATATGAAAAGGGATAGCTTCGGCTATC-AATTTTGAAAAGGGATGGTGATGACCATCAACTATG
1 AATATGAAAAGGGATGGCTTCGGCTATCGAA-TATGAAAAGGGATGGT-ATAACCATCAACTATG
*
8131052 AAAAGGGATGGTGATGACCATCA
64 AAAAGGGATGGTGACGACCATCA
* * * *
8131075 AATATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATAGCTTTAACCATCGATTATGA
1 AATATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGAT-GGTATAACCATCAACTATGA
*
8131140 AAAGGGATGGTGACGATCATCA
65 AAAGGGATGGTGACGACCATCA
** * * * * * * *
8131162 TTTAATGAAAATGGATGGTTTCGACCATTGAATATGAAAAGGTATGGTTACAACCATCA
1 AAT-ATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATGG-TATAACCATCA
8131221 TTTAGCACAC
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
87 74 0.61
88 47 0.39
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (86 bp):
AATATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATGGTATAACCATCAACTATGAA
AAGGGATGGTGACGACCATCA
Found at i:8131160 original size:29 final size:29
Alignment explanation
Indices: 8131021--8131219 Score: 147
Period size: 29 Copynumber: 6.8 Consensus size: 29
8131011 CTATCAATTT
*
8131021 TGAAAAGGGATGGTGATGACCATC-AACTA
1 TGAAAAGGGATGGTGACGACCATCGAA-TA
* *
8131050 TGAAAAGGGATGGTGATGACCATCAAATA
1 TGAAAAGGGATGGTGACGACCATCGAATA
* * *
8131079 TGAAAAGGGATGGCT-TCGGCTATCGAATA
1 TGAAAAGGGATGG-TGACGACCATCGAATA
* * *
8131108 TGAAAAGGGATAGCTTTA--ACCATCGATTA
1 TGAAAAGGGAT-G-GTGACGACCATCGAATA
* *
8131137 TGAAAAGGGATGGTGACGATCATC-ATTTAA
1 TGAAAAGGGATGGTGACGACCATCGA-AT-A
* ** *
8131167 TGAAAATGGATGGTTTCGACCATTGAATA
1 TGAAAAGGGATGGTGACGACCATCGAATA
* * *
8131196 TGAAAAGGTATGGTTACAACCATC
1 TGAAAAGGGATGGTGACGACCATC
8131220 ATTTAGCACA
Statistics
Matches: 136, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.01
28 2 0.01
29 105 0.77
30 26 0.19
31 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
TGAAAAGGGATGGTGACGACCATCGAATA
Found at i:8132356 original size:15 final size:14
Alignment explanation
Indices: 8132328--8132354 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8132318 ACAGAACATT
8132328 ACTAAAAACATTTA
1 ACTAAAAACATTTA
8132342 ACTAAAAACATTT
1 ACTAAAAACATTT
8132355 TATTACAATT
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:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (14 bp):
ACTAAAAACATTTA
Found at i:8134882 original size:15 final size:17
Alignment explanation
Indices: 8134848--8134884 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
8134838 TCAAATCATA
8134848 ATAATTAACCAAATATT
1 ATAATTAACCAAATATT
*
8134865 ATAATT-ACCATA-ATT
1 ATAATTAACCAAATATT
8134880 ATAAT
1 ATAAT
8134885 AATGCTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTAACCAAATATT
Found at i:8137107 original size:21 final size:21
Alignment explanation
Indices: 8137090--8137132 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
8137080 GTGTTTCTTT
8137090 GAGGCTTGACTAGTTTTCTCC
1 GAGGCTTGACTAGTTTTCTCC
8137111 GAGGCTTGACTAGTTTTCTCC
1 GAGGCTTGACTAGTTTTCTCC
8137132 G
1 G
8137133 CTCCTCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (21 bp):
GAGGCTTGACTAGTTTTCTCC
Found at i:8140194 original size:27 final size:27
Alignment explanation
Indices: 8140153--8140245 Score: 150
Period size: 27 Copynumber: 3.4 Consensus size: 27
8140143 GCTTGGGACA
* *
8140153 TAAAATTACTAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCCCGATGGG
*
8140180 TAAAATTATTGAAATACCCCCGATGGG
1 TAAAATTACTGAAATACCCCCGATGGG
8140207 TAAAATTACTGAAATACCCCCGATGGG
1 TAAAATTACTGAAATACCCCCGATGGG
8140234 TAAAATTGACTG
1 TAAAATT-ACTG
8140246 TTATGGCCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 57 0.93
28 4 0.07
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCCCGATGGG
Found at i:8144905 original size:16 final size:17
Alignment explanation
Indices: 8144881--8144913 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8144871 TAGCAAAAGT
*
8144881 TTAATAATGGAAAAGAA
1 TTAATAATGAAAAAGAA
8144898 TTAA-AATGAAAAAGAA
1 TTAATAATGAAAAAGAA
8144914 CTGTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
TTAATAATGAAAAAGAA
Found at i:8169743 original size:23 final size:23
Alignment explanation
Indices: 8169710--8169800 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
8169700 GGACTCACCA
* *
8169710 CAGCTCGTATGAGCTTACCGTTT
1 CAGCTCTTATGAGCTTACCATTT
*
8169733 CAGCTCTTATGAGCTTACTATTT
1 CAGCTCTTATGAGCTTACCATTT
*
8169756 CAGCTC-TACGGAGCTTACCA-TT
1 CAGCTCTTA-TGAGCTTACCATTT
* *
8169778 CAACTC-GATAGAGCTTACCATTT
1 CAGCTCTTAT-GAGCTTACCATTT
8169801 ATCGGCTCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
22 20 0.35
23 37 0.65
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (23 bp):
CAGCTCTTATGAGCTTACCATTT
Found at i:8170859 original size:13 final size:13
Alignment explanation
Indices: 8170841--8170865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8170831 ACATGTTTGG
8170841 ATATGAAATTGAT
1 ATATGAAATTGAT
8170854 ATATGAAATTGA
1 ATATGAAATTGA
8170866 CATTGAATTT
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:8181012 original size:29 final size:29
Alignment explanation
Indices: 8180961--8181039 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
8180951 CCAGCAGAAG
8180961 CCATCCCTTTTCA-TAGTTCGATGGTCGTCA
1 CCATCCCTTTTCATTA-TT-GATGGTCGTCA
* *
8180991 CCATCCTTTTTCATTATTGATGGTTGTCA
1 CCATCCCTTTTCATTATTGATGGTCGTCA
*
8181020 CCATCCCTTTTCATAATTGA
1 CCATCCCTTTTCATTATTGA
8181040 AAGCTGAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 28 0.64
30 14 0.32
31 2 0.05
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.42
Consensus pattern (29 bp):
CCATCCCTTTTCATTATTGATGGTCGTCA
Found at i:8181054 original size:29 final size:29
Alignment explanation
Indices: 8181022--8181091 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
8181012 GGTTGTCACC
* *
8181022 ATCCCTTTTCATAATT-GAAAGCTGAAGTT
1 ATCCCTTTTCAT-ATTAGAAAGCCGAAGCT
* * *
8181051 ATCCTTTTTCGTATTAGATAGCCGAAGCT
1 ATCCCTTTTCATATTAGAAAGCCGAAGCT
8181080 ATCCCTTTTCAT
1 ATCCCTTTTCAT
8181092 TCGTCGATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATATTAGAAAGCCGAAGCT
Found at i:8185689 original size:25 final size:24
Alignment explanation
Indices: 8185651--8185702 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
8185641 AAGTTCAAGC
8185651 GAGCCATATCAGGAAGCTCACAAA
1 GAGCCATATCAGGAAGCTCACAAA
* * *
8185675 GAGCCTATATTAGGACGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCACAAA
8185700 GAG
1 GAG
8185703 TTGCGGTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCACAAA
Found at i:8191689 original size:30 final size:30
Alignment explanation
Indices: 8191655--8191757 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
8191645 AGCTGAAGCT
8191655 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** * *
8191685 ATCCCTTTTCATTGTTCGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * *
8191715 ATCCCTTTTCATAATTTGATAGTCG-AAGCA
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
8191745 ATCCCTTTTCATA
1 ATCCCTTTTCATA
8191758 TATGGATAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 1 0.02
30 60 0.98
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:8191693 original size:60 final size:60
Alignment explanation
Indices: 8191626--8191787 Score: 170
Period size: 60 Copynumber: 2.7 Consensus size: 60
8191616 ATTAAAATTG
* * * * *
8191626 TCCCTTTTCATAGTTTGACAGCTGAAGCTATCCCTTTTCATAATTTGATGGTCGTCA-CCA
1 TCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATTTGATAGTCG-AAGCAA
* * * *
8191686 TCCCTTTTCATTGTTCGATGGTCAT-CA-CCATCCCTTTTCATAATTTGATAGTCGAAGCAA
1 TCCCTTTTCATAGTTCGATAG-C-TGAAGCTATCCCTTTTCATAATTTGATAGTCGAAGCAA
*
8191746 TCCCTTTTCATA-TATGGATAGCTGAAGCTATCCCTTTTCATA
1 TCCCTTTTCATAGT-TCGATAGCTGAAGCTATCCCTTTTCATA
8191788 GCCGAAGCCA
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
58 1 0.01
59 4 0.05
60 74 0.90
61 2 0.02
62 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (60 bp):
TCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATTTGATAGTCGAAGCAA
Found at i:8191766 original size:30 final size:30
Alignment explanation
Indices: 8191715--8191787 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 30
8191705 GGTCATCACC
*
8191715 ATCCCTTTTCATAATTTGATAG-TCGAAGCA
1 ATCCCTTTTCATAATTGGATAGCT-GAAGCA
*
8191745 ATCCCTTTTCAT-ATATGGATAGCTGAAGCT
1 ATCCCTTTTCATAAT-TGGATAGCTGAAGCA
8191775 ATCCCTTTTCATA
1 ATCCCTTTTCATA
8191788 GCCGAAGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 2 0.05
30 35 0.92
31 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTGGATAGCTGAAGCA
Found at i:8191794 original size:22 final size:22
Alignment explanation
Indices: 8191763--8191808 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
8191753 TCATATATGG
* *
8191763 ATAGCTGAAGCTATCCCTTTTC
1 ATAGCCGAAGCCATCCCTTTTC
8191785 ATAGCCGAAGCCATCCCTTTTC
1 ATAGCCGAAGCCATCCCTTTTC
8191807 AT
1 AT
8191809 TGGTGATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (22 bp):
ATAGCCGAAGCCATCCCTTTTC
Found at i:8191858 original size:29 final size:28
Alignment explanation
Indices: 8191826--8191895 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
8191816 GGTCGTCACC
*
8191826 ATCCATTTTCATAATCGATAGCTGAAGCT
1 ATCC-TTTTCATAATCGATAGCCGAAGCT
* *
8191855 ATCCTTTTCCATATTCGATAGCCGAAGTT
1 ATCCTTTT-CATAATCGATAGCCGAAGCT
8191884 ATCCCTTTTCAT
1 AT-CCTTTTCAT
8191896 TTGTTGATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.11
29 26 0.72
30 6 0.17
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (28 bp):
ATCCTTTTCATAATCGATAGCCGAAGCT
Found at i:8196605 original size:66 final size:66
Alignment explanation
Indices: 8196483--8196606 Score: 158
Period size: 66 Copynumber: 1.9 Consensus size: 66
8196473 TTTTTGCATT
* * * * * *
8196483 AATGTCGATGCATGAGTTAATTTTAGATTGTATCTAGAATTGTCGCCACACTTGACAGTTGGCCG
1 AATGTCGATGCATGAGTTAATTTCAGATTGCATCCAGAATTATCACCACACCTGACAGTTGGCCG
8196548 C
66 C
* * * *
8196549 AATGTCGCTGCATGAGTTAATTTCAGATTGCGTCCAGAATTATCATCGCACCTGACAG
1 AATGTCGATGCATGAGTTAATTTCAGATTGCATCCAGAATTATCACCACACCTGACAG
8196607 CCATCTGGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 48 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (66 bp):
AATGTCGATGCATGAGTTAATTTCAGATTGCATCCAGAATTATCACCACACCTGACAGTTGGCCG
C
Found at i:8201097 original size:28 final size:28
Alignment explanation
Indices: 8201061--8201124 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
8201051 CAGTAATAGT
* * *
8201061 ACAGTGTGGGCCTTAGCCCGATACAGTA
1 ACAGTGTGGACCTTAGCCCAATACAATA
8201089 ACAGTGTGGACCTTAGCCCAATACAATA
1 ACAGTGTGGACCTTAGCCCAATACAATA
8201117 ACAGTGTG
1 ACAGTGTG
8201125 ATAATACAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGACCTTAGCCCAATACAATA
Found at i:8201248 original size:26 final size:26
Alignment explanation
Indices: 8201219--8201273 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
8201209 AACACACCAA
8201219 TATCACAGCAAAGCTGCCAGTAAAAG
1 TATCACAGCAAAGCTGCCAGTAAAAG
* *
8201245 TATCACAGCGAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAAAAG
8201271 TAT
1 TAT
8201274 ATGTGGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAAAAG
Found at i:8201511 original size:27 final size:27
Alignment explanation
Indices: 8201461--8201723 Score: 241
Period size: 27 Copynumber: 9.7 Consensus size: 27
8201451 GGGTATAACA
* *
8201461 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTTTAGGGGTATTTCG
* *
8201488 ATCATTTTACCCTTTAGGGTTATTTTG
1 ATCATTTTACCCTTTAGGGGTATTTCG
* * *
8201515 GTCATTTTACCCATT-GGGGTTATTT-T
1 ATCATTTTACCCTTTAGGGG-TATTTCG
* **
8201541 AGCCATTTTACCCTTTAAAGGTATTTC-
1 A-TCATTTTACCCTTTAGGGGTATTTCG
* **
8201568 AGTTATTTTACCCTTCGGGGGTATTTCG
1 A-TCATTTTACCCTTTAGGGGTATTTCG
8201596 ATCATTTTACCCTTT-GAGGGTATTTCG
1 ATCATTTTACCCTTTAG-GGGTATTTCG
* *
8201623 GTCATTTTACCC-TTCGAGGGTATTTC-
1 ATCATTTTACCCTTTAG-GGGTATTTCG
* *
8201649 AGTCATTTTACCCTTTGGGGGTATTTTG
1 A-TCATTTTACCCTTTAGGGGTATTTCG
* *
8201677 TTCATTTTACCCTTTGGGGGTATTTCG
1 ATCATTTTACCCTTTAGGGGTATTTCG
* *
8201704 GTCATTTTACCTTTTAGGGG
1 ATCATTTTACCCTTTAGGGG
8201724 CAAGTTGGGC
Statistics
Matches: 196, Mismatches: 30, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.03
27 184 0.94
28 6 0.03
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (27 bp):
ATCATTTTACCCTTTAGGGGTATTTCG
Found at i:8201521 original size:54 final size:52
Alignment explanation
Indices: 8201462--8201722 Score: 292
Period size: 54 Copynumber: 4.8 Consensus size: 52
8201452 GGTATAACAA
*
8201462 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTTTAGGGTTATTTTGG
1 TCATTTTACCCT-TGGGGGTATTTCGATCATTTTACCCTTTAGGG-TATTTCGG
* * * * *
8201516 TCATTTTACCCATTGGGGTTATTT-TAGCCATTTTACCCTTTAAAGGTATTTCAG
1 TCATTTTACCC-TTGGGGGTATTTCGA-TCATTTTACCCTTT-AGGGTATTTCGG
*
8201570 TTATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTT-GGGGGTATTTCGATCATTTTACCCTTT-AGGGTATTTCGG
* * * *
8201624 TCATTTTACCCTTCGAGGGTATTTC-AGTCATTTTACCCTTTGGGGGTATTTTGT
1 TCATTTTACCCTT-GGGGGTATTTCGA-TCATTTTACCCTTT-AGGGTATTTCGG
* *
8201678 TCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTTTAGGG
1 TCATTTTACCC-TTGGGGGTATTTCGATCATTTTACCCTTTAGGG
8201723 GCAAGTTGGG
Statistics
Matches: 177, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
53 7 0.04
54 163 0.92
55 7 0.04
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (52 bp):
TCATTTTACCCTTGGGGGTATTTCGATCATTTTACCCTTTAGGGTATTTCGG
Found at i:8201554 original size:81 final size:79
Alignment explanation
Indices: 8201463--8201714 Score: 290
Period size: 81 Copynumber: 3.1 Consensus size: 79
8201453 GTATAACAAT
* * * *
8201463 CATTTTACCCTATGGGGGTATTTC-GATCATTTTACCCTTTAGGGTTATTTTGGTCATTTTACCC
1 CATTTTACCCT-TGAGGGTATTTCAG-TCATTTTACCCTTTGGGGGTATTTTGATCATTTTACCC
* *
8201527 ATTGGGGTTATTTTAGC
64 TTTGGGG-TATTTCAGC
* * * * *
8201544 CATTTTACCCTTTAAAGGTATTTCAGTTATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCT
1 CATTTTACCC-TTGAGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTTGATCATTTTACCCT
* *
8201609 TTGAGGGTATTTCGGT
65 TTG-GGGTATTTCAGC
*
8201625 CATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTTGTTCATTTTACCCT
1 CATTTTACCCTT-GAGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTTGATCATTTTACCCT
* *
8201690 TTGGGGGTATTTCGGT
65 TT-GGGGTATTTCAGC
8201706 CATTTTACC
1 CATTTTACC
8201715 TTTTAGGGGC
Statistics
Matches: 147, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
80 2 0.01
81 139 0.95
82 6 0.04
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (79 bp):
CATTTTACCCTTGAGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTTGATCATTTTACCCTT
TGGGGTATTTCAGC
Found at i:8206166 original size:55 final size:56
Alignment explanation
Indices: 8206090--8206201 Score: 208
Period size: 55 Copynumber: 2.0 Consensus size: 56
8206080 CCAAAAAAAT
8206090 TATGCCATCTATTCTTCTCCCTCTCCTCTTGCCGAAATTCTCTGAGTTTTTCCATC
1 TATGCCATCTATTCTTCTCCCTCTCCTCTTGCCGAAATTCTCTGAGTTTTTCCATC
*
8206146 TATGCCTTCT-TTCTTCTCCCTCTCCTCTTGCCGAAATTCTCTGAGTTTTTCCATC
1 TATGCCATCTATTCTTCTCCCTCTCCTCTTGCCGAAATTCTCTGAGTTTTTCCATC
8206201 T
1 T
8206202 TTTTCTTCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 46 0.84
56 9 0.16
ACGTcount: A:0.12, C:0.34, G:0.09, T:0.45
Consensus pattern (56 bp):
TATGCCATCTATTCTTCTCCCTCTCCTCTTGCCGAAATTCTCTGAGTTTTTCCATC
Found at i:8210874 original size:29 final size:29
Alignment explanation
Indices: 8210832--8210930 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
8210822 CATTGACGGG
* ** *
8210832 TGAAATGGGATAGCTTTGGCTATCAACTA
1 TGAAAAGGGATAGCTTCAGCTATCAATTA
*
8210861 TGAAAAAGGATAGCTTCAGCTATCAATTA
1 TGAAAAGGGATAGCTTCAGCTATCAATTA
* *
8210890 TGAATAGGGATGGCTTCAGCTATCAAATTA
1 TGAAAAGGGATAGCTTCAGCTATC-AATTA
8210920 TGAAAAGGGAT
1 TGAAAAGGGAT
8210931 GGTGACAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 45 0.75
30 15 0.25
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (29 bp):
TGAAAAGGGATAGCTTCAGCTATCAATTA
Found at i:8210945 original size:30 final size:30
Alignment explanation
Indices: 8210911--8210985 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
8210901 GGCTTCAGCT
8210911 ATCAAATTATGAAAAGGGATGGTGACAAAA
1 ATCAAATTATGAAAAGGGATGGTGACAAAA
** * **
8210941 ATCAAACAATGAAAAGGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTGACAAAA
8210971 ATCAAATTATGAAAA
1 ATCAAATTATGAAAA
8210986 TGAATAGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTGACAAAA
Found at i:8211033 original size:30 final size:30
Alignment explanation
Indices: 8210966--8211047 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
8210956 GGGATGGTGA
* * * * *
8210966 CGACCATCAAATTATGAAAATGAATAGCTT
1 CGACTATCGAATTATGAAAAGGAATACCCT
*
8210996 CGACTATCGAATTATGAAAAGGGATACCCT
1 CGACTATCGAATTATGAAAAGGAATACCCT
* * *
8211026 CGGCTATCGAATAAAGAAAAGG
1 CGACTATCGAATTATGAAAAGG
8211048 CATGTGTCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (30 bp):
CGACTATCGAATTATGAAAAGGAATACCCT
Found at i:8220423 original size:17 final size:17
Alignment explanation
Indices: 8220386--8220423 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8220376 ATTTAGCCAT
*
8220386 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
8220403 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
8220420 TTTT
1 TTTT
8220424 TGCATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:8223300 original size:30 final size:30
Alignment explanation
Indices: 8223266--8223329 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
8223256 TTTTTTACCT
8223266 ACACGACATGGAATCACAGGCATGTGGAAC
1 ACACGACATGGAATCACAGGCATGTGGAAC
* * * * *
8223296 ACACGGCCTGGACTCACGGGCGTGTGGAAC
1 ACACGACATGGAATCACAGGCATGTGGAAC
8223326 ACAC
1 ACAC
8223330 AGCCTGGACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.30, T:0.12
Consensus pattern (30 bp):
ACACGACATGGAATCACAGGCATGTGGAAC
Found at i:8223335 original size:30 final size:30
Alignment explanation
Indices: 8223274--8223338 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
8223264 CTACACGACA
* *
8223274 TGGAATCACAGGCATGTGGAACACACGGCC
1 TGGACTCACAGGCATGTGGAACACACAGCC
* *
8223304 TGGACTCACGGGCGTGTGGAACACACAGCC
1 TGGACTCACAGGCATGTGGAACACACAGCC
8223334 TGGAC
1 TGGAC
8223339 GTATGAGCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.14
Consensus pattern (30 bp):
TGGACTCACAGGCATGTGGAACACACAGCC
Found at i:8223779 original size:20 final size:21
Alignment explanation
Indices: 8223740--8223779 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8223730 TATTTATTTA
* *
8223740 TTATTATTTGTTATATTTAAT
1 TTATTATTTCTTATACTTAAT
8223761 TTATTA-TTCTTATACTTAA
1 TTATTATTTCTTATACTTAA
8223780 ATTTGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATTATTTCTTATACTTAAT
Found at i:8223782 original size:21 final size:21
Alignment explanation
Indices: 8223740--8223783 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8223730 TATTTATTTA
* *
8223740 TTATTATTTGTTATATTTAAT
1 TTATTATTTCTTATATTAAAT
8223761 TTATTA-TTCTTATACTTAAAT
1 TTATTATTTCTTATA-TTAAAT
8223782 TT
1 TT
8223784 GAAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTATTTCTTATATTAAAT
Found at i:8223842 original size:27 final size:26
Alignment explanation
Indices: 8223788--8223845 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
8223778 AAATTTGAAA
* *
8223788 ATTA-TTTTATTTTTTTGCTATTTCT
1 ATTATTTTTATTTTTTTACTATATCT
8223813 ATTATTTTTAGTTTTTTTACTACTAT-T
1 ATTATTTTTA-TTTTTTTACTA-TATCT
8223840 ATTATT
1 ATTATT
8223846 ACAATTACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
26 5 0.18
27 17 0.61
28 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (26 bp):
ATTATTTTTATTTTTTTACTATATCT
Found at i:8225261 original size:10 final size:10
Alignment explanation
Indices: 8225248--8225282 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
8225238 CAAAAAATAT
8225248 AAAAAATTGA
1 AAAAAATTGA
8225258 AAAAAATT-A
1 AAAAAATTGA
*
8225267 AAAAATTTGA
1 AAAAAATTGA
8225277 AAAAAA
1 AAAAAA
8225283 ATATAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (10 bp):
AAAAAATTGA
Found at i:8225263 original size:19 final size:21
Alignment explanation
Indices: 8225239--8225293 Score: 80
Period size: 19 Copynumber: 2.7 Consensus size: 21
8225229 CTTATTGTTC
8225239 AAAAAATATAAAAAA-TTG-A
1 AAAAAATATAAAAAATTTGAA
8225258 AAAAAAT-TAAAAAATTTGAA
1 AAAAAATATAAAAAATTTGAA
8225278 AAAAAATATAATAAAA
1 AAAAAATATAA-AAAA
8225294 ATATATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 8 0.25
21 3 0.09
22 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAAATATAAAAAATTTGAA
Found at i:8226157 original size:30 final size:30
Alignment explanation
Indices: 8226121--8226177 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
8226111 CTGGGCATTT
*
8226121 CCACACGGGCTAGACACACGCTCATGTAAG
1 CCACACGGGCTAGACACACGCCCATGTAAG
* *
8226151 CCACACGGGCTGGCCACACGCCCATGT
1 CCACACGGGCTAGACACACGCCCATGT
8226178 GCCAGCCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.39, G:0.25, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGACACACGCCCATGTAAG
Found at i:8231178 original size:29 final size:29
Alignment explanation
Indices: 8231136--8231198 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
8231126 CGGGTCAAAT
8231136 GGGATAGCTTCGGCTATCAACTACGAAAA
1 GGGATAGCTTCGGCTATCAACTACGAAAA
* * *
8231165 GGGATAGCTTCGGCTATCGATTATGAAAA
1 GGGATAGCTTCGGCTATCAACTACGAAAA
8231194 GGGAT
1 GGGAT
8231199 GGTGACAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
GGGATAGCTTCGGCTATCAACTACGAAAA
Found at i:8231216 original size:29 final size:29
Alignment explanation
Indices: 8231184--8231379 Score: 155
Period size: 29 Copynumber: 6.7 Consensus size: 29
8231174 TCGGCTATCG
8231184 ATTATGAAAAGGGATGGTGACAACCATCA
1 ATTATGAAAAGGGATGGTGACAACCATCA
* *
8231213 ATTATGGAAAGGGATGGTGA-AGACCATTGA
1 ATTATGAAAAGGGATGGTGACA-ACCA-TCA
* *
8231243 ACTATGAAAAGGAATGGTGA-AGACCATCA
1 ATTATGAAAAGGGATGGTGACA-ACCATCA
* *** * *
8231272 ATTATGGAAAGGGATGGTGGTGACAATTGA
1 ATTATGAAAAGGGATGGTGACAACCA-TCA
* * ** * * *
8231302 ACTATGAAAATGGATAACT-TCAGCTATCAA
1 ATTATGAAAAGGGAT-GGTGACAACCATC-A
8231332 ATTATGAAAAGGGATGGTGACAACCATCA
1 ATTATGAAAAGGGATGGTGACAACCATCA
*
8231361 ATTATGGAAAGGGATGGTG
1 ATTATGAAAAGGGATGGTG
8231380 GTGACAATTG
Statistics
Matches: 128, Mismatches: 32, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
28 1 0.01
29 65 0.51
30 61 0.48
31 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.23
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACAACCATCA
Found at i:8231260 original size:30 final size:29
Alignment explanation
Indices: 8231186--8231465 Score: 145
Period size: 30 Copynumber: 9.4 Consensus size: 29
8231176 GGCTATCGAT
*
8231186 TATGAAAAGGGATGGTGACA-ACCATCAAT
1 TATGAAAAGGGATGGTGA-AGACCATCAAC
* *
8231215 TATGGAAAGGGATGGTGAAGACCATTGAAC
1 TATGAAAAGGGATGGTGAAGACCA-TCAAC
* *
8231245 TATGAAAAGGAATGGTGAAGACCATCAAT
1 TATGAAAAGGGATGGTGAAGACCATCAAC
* ** * *
8231274 TATGGAAAGGGATGGTGGTGACAATTGAAC
1 TATGAAAAGGGATGGTGAAGACCA-TCAAC
* ** ** * *
8231304 TATGAAAATGGATAACTTCAG-CTATCAAAT
1 TATGAAAAGGGAT-GGTGAAGACCATC-AAC
*
8231334 TATGAAAAGGGATGGTGACA-ACCATCAAT
1 TATGAAAAGGGATGGTGA-AGACCATCAAC
* ** * *
8231363 TATGGAAAGGGATGGTGGTGACAATTGAAC
1 TATGAAAAGGGATGGTGAAGACCA-TCAAC
* ** ** * *
8231393 TATGAAAATGGATAACTTCAG-CTATCAAAT
1 TATGAAAAGGGAT-GGTGAAGACCATC-AAC
*
8231423 TATGAAAAGGGATGGTGACGACCATCAAAC
1 TATGAAAAGGGATGGTGAAGACCATC-AAC
* *
8231453 AATGAAAATGGAT
1 TATGAAAAGGGAT
8231466 ACCTTCGGCT
Statistics
Matches: 183, Mismatches: 56, Indels: 23
0.70 0.21 0.09
Matches are distributed among these distances:
28 1 0.01
29 70 0.38
30 108 0.59
31 4 0.02
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGAAGACCATCAAC
Found at i:8231260 original size:59 final size:59
Alignment explanation
Indices: 8231186--8231311 Score: 200
Period size: 59 Copynumber: 2.1 Consensus size: 59
8231176 GGCTATCGAT
* *
8231186 TATGAAAAGGGATGGTGACA-ACCATCAATTATGGAAAGGGATGGTGAAGACCATTGAAC
1 TATGAAAAGGAATGGTGA-AGACCATCAATTATGGAAAGGGATGGTGAAGACAATTGAAC
**
8231245 TATGAAAAGGAATGGTGAAGACCATCAATTATGGAAAGGGATGGTGGTGACAATTGAAC
1 TATGAAAAGGAATGGTGAAGACCATCAATTATGGAAAGGGATGGTGAAGACAATTGAAC
8231304 TATGAAAA
1 TATGAAAA
8231312 TGGATAACTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 1 0.02
59 61 0.98
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (59 bp):
TATGAAAAGGAATGGTGAAGACCATCAATTATGGAAAGGGATGGTGAAGACAATTGAAC
Found at i:8231331 original size:59 final size:59
Alignment explanation
Indices: 8231206--8231351 Score: 170
Period size: 59 Copynumber: 2.5 Consensus size: 59
8231196 GATGGTGACA
* **
8231206 ACCATCAATTATGGAAAGGGATGGTGAAGACCATTGAACTATGAAAAGGAATGGTGAAG
1 ACCATCAATTATGGAAAGGGATGGTGAAGACAATTGAACTATGAAAAGGAATACTGAAG
** **
8231265 ACCATCAATTATGGAAAGGGATGGTGGTGACAATTGAACTATGAAAATGG-ATAACTTCAG
1 ACCATCAATTATGGAAAGGGATGGTGAAGACAATTGAACTATGAAAA-GGAAT-ACTGAAG
* *
8231325 -CTATCAAATTATGAAAAGGGATGGTGA
1 ACCATC-AATTATGGAAAGGGATGGTGA
8231352 CAACCATCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 50 0.68
60 24 0.32
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (59 bp):
ACCATCAATTATGGAAAGGGATGGTGAAGACAATTGAACTATGAAAAGGAATACTGAAG
Found at i:8231358 original size:89 final size:89
Alignment explanation
Indices: 8231245--8231450 Score: 378
Period size: 89 Copynumber: 2.3 Consensus size: 89
8231235 ACCATTGAAC
*
8231245 TATGAAAAGGAATGGTGA-AGACCATCAATTATGGAAAGGGATGGTGGTGACAATTGAACTATGA
1 TATGAAAAGGGATGGTGACA-ACCATCAATTATGGAAAGGGATGGTGGTGACAATTGAACTATGA
8231309 AAATGGATAACTTCAGCTATCAAAT
65 AAATGGATAACTTCAGCTATCAAAT
8231334 TATGAAAAGGGATGGTGACAACCATCAATTATGGAAAGGGATGGTGGTGACAATTGAACTATGAA
1 TATGAAAAGGGATGGTGACAACCATCAATTATGGAAAGGGATGGTGGTGACAATTGAACTATGAA
8231399 AATGGATAACTTCAGCTATCAAAT
66 AATGGATAACTTCAGCTATCAAAT
*
8231423 TATGAAAAGGGATGGTGACGACCATCAA
1 TATGAAAAGGGATGGTGACAACCATCAA
8231451 ACAATGAAAA
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
89 113 0.99
90 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (89 bp):
TATGAAAAGGGATGGTGACAACCATCAATTATGGAAAGGGATGGTGGTGACAATTGAACTATGAA
AATGGATAACTTCAGCTATCAAAT
Found at i:8231433 original size:60 final size:60
Alignment explanation
Indices: 8231360--8231495 Score: 182
Period size: 60 Copynumber: 2.3 Consensus size: 60
8231350 GACAACCATC
* ** ** * *
8231360 AATTATGGAAAGGGATGGTGGTGACAATTGAACTATGAAAATGGATAACTTCAGCTATCA
1 AATTATGAAAAGGGATGGTGACGACAATCAAACAATGAAAATGGATAACTTCAGCTAACA
* * *
8231420 AATTATGAAAAGGGATGGTGACGACCATCAAACAATGAAAATGGATACCTTCGGCTAACA
1 AATTATGAAAAGGGATGGTGACGACAATCAAACAATGAAAATGGATAACTTCAGCTAACA
8231480 AATTATGAAAAGGGAT
1 AATTATGAAAAGGGAT
8231496 AGCCTCGGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (60 bp):
AATTATGAAAAGGGATGGTGACGACAATCAAACAATGAAAATGGATAACTTCAGCTAACA
Found at i:8235667 original size:106 final size:106
Alignment explanation
Indices: 8235482--8235707 Score: 452
Period size: 106 Copynumber: 2.1 Consensus size: 106
8235472 ATTATTTAGT
8235482 TTAACATGTTTTCTTTGAGTTTCATGCTTTTTACATCAACTATAAAGTTCTAATTCCTATCTGCT
1 TTAACATGTTTTCTTTGAGTTTCATGCTTTTTACATCAACTATAAAGTTCTAATTCCTATCTGCT
8235547 GGGATAATTATATTAAGTTAATGAGATTTATTTAATTCATG
66 GGGATAATTATATTAAGTTAATGAGATTTATTTAATTCATG
8235588 TTAACATGTTTTCTTTGAGTTTCATGCTTTTTACATCAACTATAAAGTTCTAATTCCTATCTGCT
1 TTAACATGTTTTCTTTGAGTTTCATGCTTTTTACATCAACTATAAAGTTCTAATTCCTATCTGCT
8235653 GGGATAATTATATTAAGTTAATGAGATTTATTTAATTCATG
66 GGGATAATTATATTAAGTTAATGAGATTTATTTAATTCATG
8235694 TTAACATGTTTTCT
1 TTAACATGTTTTCT
8235708 GCCTCAGTCA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 120 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (106 bp):
TTAACATGTTTTCTTTGAGTTTCATGCTTTTTACATCAACTATAAAGTTCTAATTCCTATCTGCT
GGGATAATTATATTAAGTTAATGAGATTTATTTAATTCATG
Found at i:8241178 original size:17 final size:17
Alignment explanation
Indices: 8241156--8241188 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8241146 ATTTTTTTTA
8241156 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
8241173 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
8241189 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:8241959 original size:36 final size:36
Alignment explanation
Indices: 8241911--8242032 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 36
8241901 TAAGAATAAC
8241911 AATAAAACAATTATTCATATTCATGATCACAACATA
1 AATAAAACAATTATTCATATTCATGATCACAACATA
* * * *
8241947 AATAAGAA-AATTAATTTAAGTCATTTTAATTAGACCAAGAACA-A
1 AATAA-AACAATT-A--T---TCATATTCA-T-GATC-ACAACATA
8241991 CAATAAAACAATTATTCATATTCATGATCACAACATA
1 -AATAAAACAATTATTCATATTCATGATCACAACATA
8242028 AATAA
1 AATAA
8242033 GAAAAATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 26
0.66 0.08 0.26
Matches are distributed among these distances:
36 19 0.29
37 7 0.11
38 1 0.02
39 8 0.12
42 8 0.12
43 1 0.02
44 7 0.11
45 14 0.22
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (36 bp):
AATAAAACAATTATTCATATTCATGATCACAACATA
Found at i:8242009 original size:81 final size:81
Alignment explanation
Indices: 8241874--8242037 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
8241864 ATCTAACCCG
* *
8241874 AATTAATTTAAGTCATTTTAATTAGACTAAGAATAACAATAAAACAATTATTCATATTCATGATC
1 AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
8241939 ACAACATAAATAAGAA
66 ACAACATAAATAAGAA
8241955 AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
1 AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
8242020 ACAACATAAATAAGAA
66 ACAACATAAATAAGAA
8242036 AA
1 AA
8242038 ATAAAGAGAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (81 bp):
AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
ACAACATAAATAAGAA
Found at i:8252266 original size:36 final size:36
Alignment explanation
Indices: 8252218--8252339 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 36
8252208 TAAGAATAAC
8252218 AATAAAACAATTATTCATATTCATGATCACAACATA
1 AATAAAACAATTATTCATATTCATGATCACAACATA
* * * *
8252254 AATAAGAA-AATTAATTTAAGTCATTTTAATTAGACCAAGAACA-A
1 AATAA-AACAATT-A--T---TCATATTCA-T-GATC-ACAACATA
8252298 CAATAAAACAATTATTCATATTCATGATCACAACATA
1 -AATAAAACAATTATTCATATTCATGATCACAACATA
8252335 AATAA
1 AATAA
8252340 GAAAAATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 26
0.66 0.08 0.26
Matches are distributed among these distances:
36 19 0.29
37 7 0.11
38 1 0.02
39 8 0.12
42 8 0.12
43 1 0.02
44 7 0.11
45 14 0.22
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (36 bp):
AATAAAACAATTATTCATATTCATGATCACAACATA
Found at i:8252316 original size:81 final size:81
Alignment explanation
Indices: 8252181--8252344 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
8252171 ATCTAACCCG
* *
8252181 AATTAATTTAAGTCATTTTAATTAGACTAAGAATAACAATAAAACAATTATTCATATTCATGATC
1 AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
8252246 ACAACATAAATAAGAA
66 ACAACATAAATAAGAA
8252262 AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
1 AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
8252327 ACAACATAAATAAGAA
66 ACAACATAAATAAGAA
8252343 AA
1 AA
8252345 ATAAAGAGAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (81 bp):
AATTAATTTAAGTCATTTTAATTAGACCAAGAACAACAATAAAACAATTATTCATATTCATGATC
ACAACATAAATAAGAA
Found at i:8255747 original size:36 final size:36
Alignment explanation
Indices: 8255695--8255767 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
8255685 GATATAGTCA
*
8255695 AAAGATAAATGTATTTTGGTAGGTGAGTATGTTCAT
1 AAAGATAAATGGATTTTGGTAGGTGAGTATGTTCAT
8255731 AAAGATAAATGGATTTTGGTAGGTGAGTATGTTCAT
1 AAAGATAAATGGATTTTGGTAGGTGAGTATGTTCAT
8255767 A
1 A
8255768 TGTTAGCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (36 bp):
AAAGATAAATGGATTTTGGTAGGTGAGTATGTTCAT
Found at i:8258630 original size:27 final size:27
Alignment explanation
Indices: 8258523--8258623 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
8258513 GGCTGTGAAG
8258523 TTATCGAAATACCCTCGAAGGGTAAAA
1 TTATCGAAATACCCTCGAAGGGTAAAA
* *
8258550 TTATCGAAATACCCTCAAAGGCTAAAA
1 TTATCGAAATACCCTCGAAGGGTAAAA
** * *
8258577 TTATTAAAATACCCTTGAATGGTAAAA
1 TTATCGAAATACCCTCGAAGGGTAAAA
* *
8258604 TTACCGAAATACCCCCGAAG
1 TTATCGAAATACCCTCGAAG
8258624 AGGAAAACAA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (27 bp):
TTATCGAAATACCCTCGAAGGGTAAAA
Found at i:8258642 original size:54 final size:53
Alignment explanation
Indices: 8258529--8258671 Score: 130
Period size: 54 Copynumber: 2.7 Consensus size: 53
8258519 GAAGTTATCG
* * ** *
8258529 AAATACCCTCGAAGGGTAAAATTATCGAAATACCCTCAAAGGCTAAAATTATTA
1 AAATACCCTCGAAGGGTAAAATTACCGAAATACCCCCAAAGGC-AAAACAACTA
* *
8258583 AAATACCCTTGAATGGTAAAATTACCGAAATACCCCCGAAGAGG-AAAACAACTA
1 AAATACCCTCGAAGGGTAAAATTACCGAAATACCCCC-AA-AGGCAAAACAACTA
* * *
8258637 TAATACCC-CTATAGGGTAAAATGACC-ATAATACCC
1 AAATACCCTCGA-AGGGTAAAATTACCGA-AATACCC
8258672 TTGTAGGGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
53 2 0.03
54 66 0.90
55 2 0.03
56 3 0.04
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.21
Consensus pattern (53 bp):
AAATACCCTCGAAGGGTAAAATTACCGAAATACCCCCAAAGGCAAAACAACTA
Found at i:8258657 original size:27 final size:27
Alignment explanation
Indices: 8258637--8259138 Score: 596
Period size: 27 Copynumber: 18.7 Consensus size: 27
8258627 AAAACAACTA
* *
8258637 TAATACCCCTATAGGGTAAAATGACCA
1 TAATACCCCTGTAGGGTAAAATGACCG
* * *
8258664 TAATACCCTTGTAGGGTAAAACGATCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* * * *
8258691 TCATAACCTTGTAGGGTACAATGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
*
8258718 TAATACCCTTGTAGGGTAAAATGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* * *
8258745 TAATACCCTTGTAGGGTAAAATAACCA
1 TAATACCCCTGTAGGGTAAAATGACCG
* **
8258772 TAATACCCTTGTAGGGTAAAATGATTG
1 TAATACCCCTGTAGGGTAAAATGACCG
8258799 TAATACCCCTGTAGGGTAAAATGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* *
8258826 TAATACCCCTGTAAGGTAAAATAACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* *
8258853 TAATACCCCTGTAAGGTAAAACGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* * *
8258880 TAATACCCCTGGT-GGGTAAAACGATCA
1 TAATACCCCT-GTAGGGTAAAATGACCG
* *
8258907 TAATACCCCTTTAGGGTAAAACGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* * * * *
8258934 TAGTACCCCTGTAGTGTATAATAATCG
1 TAATACCCCTGTAGGGTAAAATGACCG
8258961 TAATA-CCCTGTA-GGTAAAATGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* * * *
8258986 TCATAGCCCAGTAGGGTAAAATGACCA
1 TAATACCCCTGTAGGGTAAAATGACCG
* *
8259013 TAATACCCTTGTAGGGTAAAACGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* * *
8259040 AAATACCCTTGTAGGGTAAAACGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
8259067 TAATACCCCTGTAGGGTAAAATGACCG
1 TAATACCCCTGTAGGGTAAAATGACCG
* *
8259094 TAATACCTCTGTAGGGTAAAATGACCT
1 TAATACCCCTGTAGGGTAAAATGACCG
*
8259121 TAATACCCCTGTAAGGTA
1 TAATACCCCTGTAGGGTA
8259139 TACACGACAT
Statistics
Matches: 410, Mismatches: 61, Indels: 8
0.86 0.13 0.02
Matches are distributed among these distances:
25 13 0.03
26 14 0.03
27 381 0.93
28 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
TAATACCCCTGTAGGGTAAAATGACCG
Found at i:8259222 original size:27 final size:27
Alignment explanation
Indices: 8259191--8259256 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
8259181 AGTACTGTAG
*
8259191 TGGTGGCTTTGCCACA-ATCACTGTTAC
1 TGGTGGCTTTGCCACATAT-ACTATTAC
*
8259218 TGGTGGCTTGGCCACATATACTATTAC
1 TGGTGGCTTTGCCACATATACTATTAC
**
8259245 TGGCAGCTTTGC
1 TGGTGGCTTTGC
8259257 TGCGATACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
TGGTGGCTTTGCCACATATACTATTAC
Found at i:8259273 original size:26 final size:26
Alignment explanation
Indices: 8259235--8259288 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
8259225 TTGGCCACAT
8259235 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
8259261 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
8259287 AT
1 AT
8259289 CTGCGATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:8259335 original size:32 final size:32
Alignment explanation
Indices: 8259298--8259512 Score: 177
Period size: 32 Copynumber: 6.7 Consensus size: 32
8259288 TCTGCGATGC
8259298 TACTGATGGCTTTGTGCCAATCATAGT-ACCAT
1 TACTGATGGCTTTGTGCCAATCATA-TCACCAT
* * * *
8259330 TACTGATGGCTTTGTGCTAATTATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATCACCAT
** * * *
8259362 TA-TAGATGGCTGCGTACTAATCATTTCACCAT
1 TACT-GATGGCTTTGTGCCAATCATATCACCAT
* * ***
8259394 TACTGATGG-TTGTGTGTCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCAATCATATCACCAT
* * * *
8259426 TACTGATGGCTTTGTACCGATCATGTTACCAT
1 TACTGATGGCTTTGTGCCAATCATATCACCAT
* *
8259458 TACTGATGGCTGTGTGCCGATCATATCACTCA-
1 TACTGATGGCTTTGTGCCAATCATATCAC-CAT
*
8259490 CACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCAATCA
8259513 CATTACTATA
Statistics
Matches: 143, Mismatches: 34, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
31 3 0.02
32 135 0.94
33 5 0.03
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATCACCAT
Found at i:8259549 original size:22 final size:22
Alignment explanation
Indices: 8259524--8259588 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
8259514 ATTACTATAC
8259524 TTAT-GTCTTGTAGCCATTCTGT
1 TTATAGTCTT-TAGCCATTCTGT
* *
8259546 TTATAG-CTTATAGCTATCCTGT
1 TTATAGTCTT-TAGCCATTCTGT
*
8259568 TTATGGATC-TTAGCCATTCTG
1 TTATAG-TCTTTAGCCATTCTG
8259589 ACTATTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 31 0.91
23 2 0.06
24 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (22 bp):
TTATAGTCTTTAGCCATTCTGT
Found at i:8262132 original size:29 final size:29
Alignment explanation
Indices: 8262096--8262160 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
8262086 AAATAAGTTT
**
8262096 AAAA-AAACAATAAAAAT-AACTAAAAATA
1 AAAATAAAC-ATAAAAATAAAAGAAAAATA
* *
8262124 ACAATAAACATAAACATAAAAGAAAAATA
1 AAAATAAACATAAAAATAAAAGAAAAATA
8262153 AAAATAAA
1 AAAATAAA
8262161 ACAAACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.14
Consensus pattern (29 bp):
AAAATAAACATAAAAATAAAAGAAAAATA
Found at i:8262150 original size:6 final size:6
Alignment explanation
Indices: 8262095--8262161 Score: 52
Period size: 6 Copynumber: 11.8 Consensus size: 6
8262085 GAAATAAGTT
* * * * *
8262095 TAAAAA -AACAA TAAAAA T--AAC TAAAAA TAACAA TAAACA TAAACA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
8262140 T-AAAA GAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAA
8262162 CAAACAAAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
4 3 0.06
5 7 0.15
6 37 0.79
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:8263555 original size:3 final size:3
Alignment explanation
Indices: 8263542--8263602 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
8263532 CAATAGGACG
* * *
8263542 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT GAT GAT AAT AAT AGAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
8263587 AAC AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AA
8263603 ACTCATAGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.88
4 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:8263657 original size:13 final size:14
Alignment explanation
Indices: 8263628--8263659 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8263618 CAAACTAGGG
8263628 AATAA-GAATGAAT
1 AATAATGAATGAAT
8263641 AATAATGAATGAA-
1 AATAATGAATGAAT
8263654 AATAAT
1 AATAAT
8263660 CAAATACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (14 bp):
AATAATGAATGAAT
Found at i:8263775 original size:16 final size:16
Alignment explanation
Indices: 8263756--8263793 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8263746 GAATAAAAAG
8263756 AATAATAGAAA-AAATA
1 AATAA-AGAAATAAATA
*
8263772 AATAAAGAAATAAATG
1 AATAAAGAAATAAATA
8263788 AATAAA
1 AATAAA
8263794 AATATGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (16 bp):
AATAAAGAAATAAATA
Found at i:8264651 original size:20 final size:20
Alignment explanation
Indices: 8264626--8264689 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
8264616 TAAATGATTC
8264626 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * * *
8264646 CAGGGGCACAT-ATGTGCAAT
1 CAGGGGTAC-TGAAGTACAAA
8264666 CAGGGGTAC-GAAAGTACAAA
1 CAGGGGTACTG-AAGTACAAA
8264686 CAGG
1 CAGG
8264690 AGCAAATATG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.31, T:0.14
Consensus pattern (20 bp):
CAGGGGTACTGAAGTACAAA
Found at i:8264670 original size:40 final size:40
Alignment explanation
Indices: 8264626--8264745 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
8264616 TAAATGATTC
8264626 CAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCAAT
1 CAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCAAT
* *
8264666 CAGGGGTAC-GAAAGTACAAACAGGAGCAAATATGTGCAAT
1 CAGGGGTACTG-AAGTACAAACAGGGGCACATATGTGCAAT
* * *
8264706 CAGGGGTGCTGAAGTACAAACAGCGACACATATGTGCAAT
1 CAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCAAT
8264746 TATACAAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.97
41 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (40 bp):
CAGGGGTACTGAAGTACAAACAGGGGCACATATGTGCAAT
Found at i:8275507 original size:27 final size:27
Alignment explanation
Indices: 8275473--8275684 Score: 216
Period size: 27 Copynumber: 7.9 Consensus size: 27
8275463 GTTATGATCG
8275473 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCA
* *
8275500 AAAAACCCCCATAGGGTAAAATGA-TA
1 AAATACCCCCATAGGGTAAAATGACCA
* **
8275526 GAAATGCCCCCATAGGGTAAAATGACTG
1 -AAATACCCCCATAGGGTAAAATGACCA
* *
8275554 AAATACCCCTATAGGGTAGAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCA
* *
8275581 AAATACCCCCGTA--GAAAGAATGACCA
1 AAATACCCCCATAGGGTAA-AATGACCA
* * * *
8275607 AAATACCCCCATAGCGTAAAATAATCG
1 AAATACCCCCATAGGGTAAAATGACCA
** ** *
8275634 AAATA-CCCCATAGAATAGTATGACCG
1 AAATACCCCCATAGGGTAAAATGACCA
8275660 AAATACCCCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
8275685 TGTGATACCC
Statistics
Matches: 150, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.01
26 41 0.27
27 103 0.69
28 4 0.03
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.17
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCA
Found at i:8275638 original size:53 final size:53
Alignment explanation
Indices: 8275466--8275683 Score: 226
Period size: 53 Copynumber: 4.1 Consensus size: 53
8275456 TTACACTGTT
* *
8275466 ATGATCGAAATACCCCCATAGGGTAAAATGACCAAAAAACCCCCATAGGGTAAA
1 ATGATCGAAATACCCCCATA-GGAAAAATGACCAAAATACCCCCATAGGGTAAA
* * * ** * *
8275520 ATGATAGAAATGCCCCCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAGA
1 ATGATCGAAATACCCCCATA-GGAAAAATGACCAAAATACCCCCATAGGGTAAA
* * * *
8275574 ATGACCAAAATACCCCCGTA-GAAAGAATGACCAAAATACCCCCATAGCGTAAA
1 ATGATCGAAATACCCCCATAGGAAA-AATGACCAAAATACCCCCATAGGGTAAA
* * *
8275627 ATAATCGAAATA-CCCCATA-GAATAGTATGACCGAAATACCCCCATAGGGTAAA
1 ATGATCGAAATACCCCCATAGGAA-A-AATGACCAAAATACCCCCATAGGGTAAA
8275680 ATGA
1 ATGA
8275684 CTGTGATACC
Statistics
Matches: 136, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
52 12 0.09
53 62 0.46
54 62 0.46
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (53 bp):
ATGATCGAAATACCCCCATAGGAAAAATGACCAAAATACCCCCATAGGGTAAA
Found at i:8280224 original size:12 final size:12
Alignment explanation
Indices: 8280190--8280232 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
8280180 ACTAAAAACA
8280190 AAAATGAAAAT-
1 AAAATGAAAATG
8280201 AAAGAT-AAAATG
1 AAA-ATGAAAATG
8280213 AAAATGAAAATG
1 AAAATGAAAATG
8280225 AAAA-GAAA
1 AAAATGAAA
8280233 TAAACTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:8280232 original size:17 final size:18
Alignment explanation
Indices: 8280190--8280236 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
8280180 ACTAAAAACA
8280190 AAAATGAAAATAAAGAT-
1 AAAATGAAAATAAAGATG
8280207 AAAATGAAAATGAAA-ATG
1 AAAATGAAAAT-AAAGATG
8280225 AAAA-G-AAATAAA
1 AAAATGAAAATAAA
8280237 CTCAATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.11
16 4 0.14
17 14 0.50
18 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (18 bp):
AAAATGAAAATAAAGATG
Found at i:8280418 original size:11 final size:11
Alignment explanation
Indices: 8280402--8280436 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8280392 AAATCAGTAA
8280402 AATAAATAAAT
1 AATAAATAAAT
8280413 AATAAATAAAT
1 AATAAATAAAT
8280424 AA-AAATGAAAT
1 AATAAAT-AAAT
8280435 AA
1 AA
8280437 AATAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:8280437 original size:11 final size:10
Alignment explanation
Indices: 8280405--8280447 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
8280395 TCAGTAAAAT
8280405 AAATAAATAA
1 AAATAAATAA
8280415 TAAATAAATAA
1 -AAATAAATAA
8280426 AAATGAAAT-A
1 AAAT-AAATAA
8280436 AAATAAAATAA
1 AAAT-AAATAA
8280447 A
1 A
8280448 GAAAAGGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 13 0.45
11 16 0.55
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (10 bp):
AAATAAATAA
Found at i:8280438 original size:10 final size:9
Alignment explanation
Indices: 8280399--8280447 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
8280389 AACAAATCAG
8280399 TAAAATAAA
1 TAAAATAAA
8280408 T-AAAT-AA
1 TAAAATAAA
8280415 T-AAATAAA
1 TAAAATAAA
8280423 TAAAAATGAAA
1 T-AAAAT-AAA
8280434 TAAAATAAAA
1 TAAAAT-AAA
8280444 TAAA
1 TAAA
8280448 GAAAAGGGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
7 7 0.20
8 7 0.20
9 1 0.03
10 16 0.46
11 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:8280444 original size:15 final size:15
Alignment explanation
Indices: 8280401--8280443 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
8280391 CAAATCAGTA
8280401 AAATAAATAAATAAT-
1 AAATAAATAAA-AATG
8280416 AAATAAATAAAAATG
1 AAATAAATAAAAATG
8280431 AAATAAAATAAAA
1 AAAT-AAATAAAA
8280444 TAAAGAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.12
15 15 0.58
16 8 0.31
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAAATG
Found at i:8289630 original size:41 final size:41
Alignment explanation
Indices: 8289573--8289653 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
8289563 TGAATAGGCG
8289573 CAATCCCCATTGGACACATTTATTCCCACCAGCTTTATATA
1 CAATCCCCATTGGACACATTTATTCCCACCAGCTTTATATA
*
8289614 CAATCCCTATTGGACACATTTATTCCCACCAGCTTTATAT
1 CAATCCCCATTGGACACATTTATTCCCACCAGCTTTATAT
8289654 CTCTTCACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.33
Consensus pattern (41 bp):
CAATCCCCATTGGACACATTTATTCCCACCAGCTTTATATA
Found at i:8290327 original size:36 final size:36
Alignment explanation
Indices: 8290280--8290352 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
8290270 ATATCACAGA
8290280 CGAAAAAAGGGACCTGTTGGTGAAGGATTTATGTGT
1 CGAAAAAAGGGACCTGTTGGTGAAGGATTTATGTGT
8290316 CGAAAAAAGGGACCTGTTGGTGAAGGATTTATGTGT
1 CGAAAAAAGGGACCTGTTGGTGAAGGATTTATGTGT
8290352 C
1 C
8290353 AAAGGAGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (36 bp):
CGAAAAAAGGGACCTGTTGGTGAAGGATTTATGTGT
Found at i:8296905 original size:15 final size:17
Alignment explanation
Indices: 8296869--8296909 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
8296859 GTCTCACAAC
*
8296869 CTATAGTTTTCATAATT
1 CTATAGTTTTCATAACT
8296886 CTATAGTTTT-A-AACT
1 CTATAGTTTTCATAACT
8296901 CTATAGTTT
1 CTATAGTTT
8296910 CACATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
16 1 0.04
17 10 0.43
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (17 bp):
CTATAGTTTTCATAACT
Found at i:8312176 original size:13 final size:13
Alignment explanation
Indices: 8312158--8312216 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
8312148 CGAAAGAAAT
8312158 TTTTATTTTTTAA
1 TTTTATTTTTTAA
8312171 TTTTA--TTTTAA
1 TTTTATTTTTTAA
8312182 TTTT-TTATTTTAAA
1 TTTTATT-TTTT-AA
*
8312196 TTTTAATTTTTTTA
1 TTTT-ATTTTTTAA
8312210 -TTTATTT
1 TTTTATTT
8312217 ATGCTTAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
11 10 0.26
12 4 0.10
13 12 0.31
14 7 0.18
15 4 0.10
16 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:8312213 original size:25 final size:23
Alignment explanation
Indices: 8312157--8312216 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
8312147 CCGAAAGAAA
8312157 TTTTTA-TT-TTTTAATTTTATT
1 TTTTTATTTATTTTAATTTTATT
8312178 TTAATTT-TTTATTTTAAATTTTAATT
1 TT--TTTATTTATTTT-AATTTT-ATT
8312204 TTTTTATTTATTT
1 TTTTTATTTATTT
8312217 ATGCTTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 2 0.06
23 5 0.16
24 7 0.22
25 13 0.41
26 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTATTTATTTTAATTTTATT
Found at i:8314695 original size:58 final size:57
Alignment explanation
Indices: 8314602--8314760 Score: 185
Period size: 58 Copynumber: 2.8 Consensus size: 57
8314592 AACCTCAGAT
* * * * *
8314602 AATGAAAAGGGATAGTTTTGCCTATCGATTATGAAAAGGGATGGTGACGA-CCATCGA
1 AATGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAAGGGATAGTGAC-ATCCATCGA
* * ** *
8314659 ATATGAAAAAGGATAGCTTTGGCTATCAAATGTGAAAAGGGATAGTTTCATCTATCGA
1 A-ATGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAAGGGATAGTGACATCCATCGA
* *
8314717 AATGAAAAGGGATAACTTTGGCTATCGAATGTGGAAAGGGATAG
1 AATGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAAGGGATAG
8314761 CTTCGGCTAT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
57 41 0.48
58 45 0.52
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.26
Consensus pattern (57 bp):
AATGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAAGGGATAGTGACATCCATCGA
Found at i:8314741 original size:57 final size:57
Alignment explanation
Indices: 8314654--8314787 Score: 169
Period size: 57 Copynumber: 2.3 Consensus size: 57
8314644 GGTGACGACC
* * * *
8314654 ATCGAATATGAAAAAGGATAGCTTTGGCTATCAAATGTGAAAAGGGATAGTTTCATCT
1 ATCGAA-ATGAAAAGGGATAACTTTGGCTATCAAATGTGAAAAGGGATAGCTTCAGCT
* * *
8314712 ATCGAAATGAAAAGGGATAACTTTGGCTATCGAATGTGGAAAGGGATAGCTTCGGCT
1 ATCGAAATGAAAAGGGATAACTTTGGCTATCAAATGTGAAAAGGGATAGCTTCAGCT
* *
8314769 ATTGATTATGAAAAGGGAT
1 ATCGA-AATGAAAAGGGAT
8314788 GGTAACGACC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
57 48 0.73
58 18 0.27
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.28
Consensus pattern (57 bp):
ATCGAAATGAAAAGGGATAACTTTGGCTATCAAATGTGAAAAGGGATAGCTTCAGCT
Found at i:8314783 original size:29 final size:29
Alignment explanation
Indices: 8314603--8314787 Score: 158
Period size: 29 Copynumber: 6.4 Consensus size: 29
8314593 ACCTCAGATA
* * * *
8314603 ATGAAAAGGGATAGTTTTGCCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
8314632 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
* * *
8314661 ATGAAAAAGGATAGCTTTGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * **
8314690 GTGAAAAGGGATAGTTTCATCTATCGAA-
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
8314718 ATGAAAAGGGATAACTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
8314747 GTGGAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
8314776 ATGAAAAGGGAT
1 ATGAAAAGGGAT
8314788 GGTAACGACC
Statistics
Matches: 119, Mismatches: 34, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
28 24 0.20
29 93 0.78
30 2 0.02
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:8314804 original size:29 final size:29
Alignment explanation
Indices: 8314772--8314860 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
8314762 TTCGGCTATT
* *
8314772 GATTATGAAAAGGGATGGTAACGACCATC
1 GATTATGAAAAAGGATGGTTACGACCATC
*
8314801 GATTAATGAAAAAGGATGGTTTCGACCATC
1 GATT-ATGAAAAAGGATGGTTACGACCATC
* * * *
8314831 GAATATAAAAAAGGACGGTTACAACCATC
1 GATTATGAAAAAGGATGGTTACGACCATC
8314860 G
1 G
8314861 TTTAACACAC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 26 0.51
30 25 0.49
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (29 bp):
GATTATGAAAAAGGATGGTTACGACCATC
Found at i:8318606 original size:2 final size:2
Alignment explanation
Indices: 8318599--8318629 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8318589 TGTGTATTTA
8318599 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8318630 AATCTCTATT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8320591 original size:20 final size:20
Alignment explanation
Indices: 8320563--8320631 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
8320553 ATGCAAACTA
* *
8320563 AAATAAGCTTAAGATGAGCT
1 AAATGAGCTAAAGATGAGCT
*
8320583 AAATGAGCTAAAAATGAGCT
1 AAATGAGCTAAAGATGAGCT
*** *
8320603 CGTTGAGCTAAAGTTGAGCT
1 AAATGAGCTAAAGATGAGCT
*
8320623 GAATGAGCT
1 AAATGAGCT
8320632 TGAAGTAGAG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (20 bp):
AAATGAGCTAAAGATGAGCT
Found at i:8327289 original size:20 final size:20
Alignment explanation
Indices: 8327261--8327300 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8327251 ATGCAAACTA
* *
8327261 AAATAAGCTTAAGATGAGCT
1 AAATAAGCTAAAAATGAGCT
*
8327281 AAATGAGCTAAAAATGAGCT
1 AAATAAGCTAAAAATGAGCT
8327301 CGTTGAGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (20 bp):
AAATAAGCTAAAAATGAGCT
Found at i:8328264 original size:50 final size:51
Alignment explanation
Indices: 8328191--8328381 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 51
8328181 TTGGGTAAAG
*
8328191 AGGTCCCATCTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG-
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGA
* *
8328241 AGGTCCCATGTAAGACCAAGTCTGGGACATGGTGTTGGCACCGAGATGAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGA
* * * * * *
8328292 AGTTCCC-CGTAAGACCATGTATGGGACATGGCATGGGCACCGATATGAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGA
** *
8328342 ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
8328382 TGCTATTATC
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
50 88 0.72
51 34 0.28
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (51 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGA
Found at i:8335812 original size:50 final size:50
Alignment explanation
Indices: 8335722--8336064 Score: 497
Period size: 50 Copynumber: 6.8 Consensus size: 50
8335712 ATTTGGGTAA
* * ** *
8335722 AGAGGTCCCAAGTAAGACCATGTCCGGGACATTACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
8335772 AGAGGTCCCATGTAAGACCATGTTTGGAACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
8335822 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
8335872 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
8335922 AGAGGTCACATGTAAGACCATGTCTAGGACATGACATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
8335972 AGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
8336022 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
8336065 TGTTATTATC
Statistics
Matches: 261, Mismatches: 31, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
50 228 0.87
51 33 0.13
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:8339674 original size:32 final size:31
Alignment explanation
Indices: 8339616--8339682 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
8339606 ACTCAATTCT
* * *
8339616 AATTTTAATTTATTTAATTTATTAATAGTATAA
1 AATTTTAATTAATCTAATTTAATAATAG-A-AA
8339649 AATTTTAATTAATCT-ATTTAATAATAGAAA
1 AATTTTAATTAATCTAATTTAATAATAGAAA
8339679 AATT
1 AATT
8339683 AATTTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 1 0.03
32 11 0.35
33 13 0.42
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (31 bp):
AATTTTAATTAATCTAATTTAATAATAGAAA
Found at i:8339679 original size:29 final size:28
Alignment explanation
Indices: 8339624--8339679 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
8339614 CTAATTTTAA
* * * *
8339624 TTTATTTAATTTATTAATAGTATAAAAT
1 TTTAATTAATCTATTAATAATAGAAAAT
8339652 TTTAATTAATCTATTTAATAATAGAAAA
1 TTTAATTAATCTA-TTAATAATAGAAAA
8339680 ATTAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTAATTAATCTATTAATAATAGAAAAT
Found at i:8339689 original size:29 final size:28
Alignment explanation
Indices: 8339622--8339689 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
8339612 TTCTAATTTT
* * * *
8339622 AATTTATTTAATTTATTAATAGTATAAA
1 AATTAATTTAATCTATTAATAATAGAAA
*
8339650 ATTTTAA-TTAATCTATTTAATAATAGAAA
1 A-ATTAATTTAATCTA-TTAATAATAGAAA
8339679 AATTAATTTAA
1 AATTAATTTAA
8339690 ATAGATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (28 bp):
AATTAATTTAATCTATTAATAATAGAAA
Found at i:8340885 original size:30 final size:30
Alignment explanation
Indices: 8340820--8340901 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
8340810 TTTCAAAAAG
* * *
8340820 AATA-TAATAATAAATTAAAT-TTTATATT
1 AATATTAATATTAAATAAAATAATTATATT
8340848 AATATTAATATTAAATAGAAATAATTATATT
1 AATATTAATATTAAATA-AAATAATTATATT
8340879 -ATATTAATATTAAATAAAATAAT
1 AATATTAATATTAAATAAAATAAT
8340902 AAAAAAACTC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 4 0.08
29 17 0.35
30 20 0.42
31 7 0.15
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
AATATTAATATTAAATAAAATAATTATATT
Found at i:8355474 original size:41 final size:40
Alignment explanation
Indices: 8355406--8355531 Score: 135
Period size: 41 Copynumber: 3.1 Consensus size: 40
8355396 ACAAAAATGC
*
8355406 ATTCAGGGGTACCAGAGTACAAGCAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCA-AGTACAAACAGGGGCACGTATGTGCA
* * *
8355447 ATTCAGGGGTACCGAAGTATAAACAGGGGCATGTATGTTCA
1 ATTCAGGGGTACC-AAGTACAAACAGGGGCACGTATGTGCA
* * ** * *
8355488 ATTCAAGGATATTAAAGTACAAACAGGAGCACATATGTGCA
1 ATTCAGGGGTA-CCAAGTACAAACAGGGGCACGTATGTGCA
8355529 ATT
1 ATT
8355532 TAGGAATAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 69 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (40 bp):
ATTCAGGGGTACCAAGTACAAACAGGGGCACGTATGTGCA
Found at i:8367825 original size:42 final size:40
Alignment explanation
Indices: 8367778--8367872 Score: 95
Period size: 40 Copynumber: 2.3 Consensus size: 40
8367768 TATGTAATTA
*
8367778 ATATAAATTATTTGTAAAATCAAT-AATATAATAATATATAAC
1 ATATAAATTATTT-TAAAA--AATAAATATAATAATAAATAAC
* *
8367820 ATATAACA-TATTTTAAAAATTAAATATAATAATAAATAAG
1 ATATAA-ATTATTTTAAAAAATAAATATAATAATAAATAAC
* *
8367860 ATTTAAATAATTT
1 ATATAAATTATTT
8367873 AATATAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
39 3 0.07
40 25 0.56
41 5 0.11
42 11 0.24
43 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (40 bp):
ATATAAATTATTTTAAAAAATAAATATAATAATAAATAAC
Found at i:8367912 original size:32 final size:33
Alignment explanation
Indices: 8367831--8367926 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 33
8367821 TATAACATAT
* * * *
8367831 TTTAAA-AATTAAATATAATAATAAAT--AAGA
1 TTTAAATAATTTAATATAATGATACATGAAATA
*
8367861 TTTAAATAATTTAATATAATGATGCATGAAATA
1 TTTAAATAATTTAATATAATGATACATGAAATA
* *
8367894 TTTAAGTAA-TTAATATAATGATATATGAAATA
1 TTTAAATAATTTAATATAATGATACATGAAATA
8367926 T
1 T
8367927 AAATCAATCC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.11
31 16 0.29
32 22 0.40
33 11 0.20
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (33 bp):
TTTAAATAATTTAATATAATGATACATGAAATA
Found at i:8368314 original size:3 final size:3
Alignment explanation
Indices: 8368308--8368350 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
8368298 TCTAAAAAAT
8368308 AGA AGA A-A ATGA AGA AGA AGA AGA AGA AGA AGA A-A AGA TAGA A
1 AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA A
8368351 TCACTGTCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 27 0.75
4 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:8381565 original size:24 final size:22
Alignment explanation
Indices: 8381538--8381584 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
8381528 ATTGTTCATA
*
8381538 TTAAACTGTTTGATATTATCTATT
1 TTAAACTGTTTCATA-TAT-TATT
*
8381562 TTAAATTGTTTCATATATTATT
1 TTAAACTGTTTCATATATTATT
8381584 T
1 T
8381585 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 3 0.14
24 13 0.62
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTAAACTGTTTCATATATTATT
Found at i:8381587 original size:26 final size:26
Alignment explanation
Indices: 8381550--8381643 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 26
8381540 AAACTGTTTG
*
8381550 ATATTATCTATTTTAAATTGTTTCAT
1 ATATTATTTATTTTAAATTGTTTCAT
*
8381576 ATATTATTTATTTTTAATTGCTTTC--
1 ATATTATTTATTTTAAATTG-TTTCAT
* * *
8381601 -TATTATTTTATCTTAAACTGTTTTATGT
1 ATATTA-TTTATTTTAAATTGTTTCA--T
*
8381629 ATATTATTTTTTTTA
1 ATATTATTTATTTTA
8381644 GATTTTTACG
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
24 8 0.15
25 11 0.21
26 18 0.34
27 4 0.08
28 7 0.13
29 5 0.09
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (26 bp):
ATATTATTTATTTTAAATTGTTTCAT
Found at i:8382825 original size:6 final size:6
Alignment explanation
Indices: 8382814--8382843 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8382804 AATTCGATTG
8382814 ATATGA ATATGA ATATGA ATATGA ATATGA
1 ATATGA ATATGA ATATGA ATATGA ATATGA
8382844 GTTTGAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
ATATGA
Found at i:8391726 original size:15 final size:13
Alignment explanation
Indices: 8391689--8391730 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
8391679 ATATTCATTA
8391689 TTAAATAAA-ATTT
1 TTAAA-AAATATTT
8391702 TTAAAAAATATTT
1 TTAAAAAATATTT
8391715 TTACATAAAATATTT
1 TTA-A-AAAATATTT
8391730 T
1 T
8391731 CTTCCACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.12
13 12 0.46
14 1 0.04
15 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAAAATATTT
Found at i:8391782 original size:25 final size:25
Alignment explanation
Indices: 8391753--8391803 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8391743 TCGTAAGTGT
8391753 AAGAAAATATAGTTTATTTAAAGTA
1 AAGAAAATATAGTTTATTTAAAGTA
8391778 AAGAAAATATAGTTTATTTAAAGTA
1 AAGAAAATATAGTTTATTTAAAGTA
8391803 A
1 A
8391804 TCTATATTTA
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:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (25 bp):
AAGAAAATATAGTTTATTTAAAGTA
Found at i:8400648 original size:255 final size:254
Alignment explanation
Indices: 8400250--8400708 Score: 758
Period size: 255 Copynumber: 1.8 Consensus size: 254
8400240 TCATCTATTT
*
8400250 TTTTTCTTTTTTTTACTTTCCCCAAAATCCCTCCACACTCTTGTCGTTTTTCTCTTCATTTCTGC
1 TTTTTCTTTTTTTTACTTTCCCCAAAATCCCTCCACACTCTTGTCGTTTTTCTCTTCATTGCTGC
* * * * *
8400315 CGAATTTTTGCTCTCTTTATCCCTTCATCTTCTTGATTTTTCTTTTCCGAGTCTGCCTCGTGTCG
66 CGAATTTCTGCTCTCTTTATCCCTTCATCTTCTTGATTTTTCTTTCCCCACTCCGCCTCGTGTCG
* * * * *
8400380 CTCCACGTTTGTCTGCGATCGTTCGGTAAGTTTTAGATAAGTGATTTGTCTTCATTTGTTAACTT
131 CTCCACGTTTGTCTACAATCGTTCAGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAACTT
8400445 TCTTCTGAAATAAGGAATTGGGGTAGTTATCAAATATTCTGTTCATATTTGTTTTTTTC
196 TCTTCTGAAATAAGGAATTGGGGTAGTTATCAAATATTCTGTTCATATTTGTTTTTTTC
*
8400504 TTTTTCTTTTTTTTTACTTTCCCCAAAATCCCTCCACCCTCTTGTCGTTTTTCTCTTCATTGCTG
1 TTTTTC-TTTTTTTTACTTTCCCCAAAATCCCTCCACACTCTTGTCGTTTTTCTCTTCATTGCTG
*
8400569 CCGAATTTCTGCTCTCTTTCA-CCCTTTATCTTCTTGATTTTTCTTTCCCCACTCCGCCTCGTGT
65 CCGAATTTCTGCTCTCTTT-ATCCCTTCATCTTCTTGATTTTTCTTTCCCCACTCCGCCTCGTGT
* *
8400633 CGTTCCATGTTTGTCTACAATCGTTCAGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAAC
129 CGCTCCACGTTTGTCTACAATCGTTCAGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAAC
8400698 TTTCTTCTGAA
194 TTTCTTCTGAA
8400709 GTGTTTTGTT
Statistics
Matches: 188, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
254 6 0.03
255 181 0.96
256 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (254 bp):
TTTTTCTTTTTTTTACTTTCCCCAAAATCCCTCCACACTCTTGTCGTTTTTCTCTTCATTGCTGC
CGAATTTCTGCTCTCTTTATCCCTTCATCTTCTTGATTTTTCTTTCCCCACTCCGCCTCGTGTCG
CTCCACGTTTGTCTACAATCGTTCAGTAAGTTTTAGATAAGTGATTTGTCTCCATATGTTAACTT
TCTTCTGAAATAAGGAATTGGGGTAGTTATCAAATATTCTGTTCATATTTGTTTTTTTC
Found at i:8401660 original size:18 final size:19
Alignment explanation
Indices: 8401639--8401679 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
8401629 AGGGCAATTT
8401639 GGGCCAAGTGGG-CCACAC
1 GGGCCAAGTGGGTCCACAC
**
8401657 GGG-CGTGTGGGTCCACAC
1 GGGCCAAGTGGGTCCACAC
8401675 GGGCC
1 GGGCC
8401680 GACCACATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 6 0.32
18 12 0.63
19 1 0.05
ACGTcount: A:0.15, C:0.32, G:0.44, T:0.10
Consensus pattern (19 bp):
GGGCCAAGTGGGTCCACAC
Found at i:8406753 original size:40 final size:40
Alignment explanation
Indices: 8406709--8406850 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
8406699 AAAAAAAGCA
* *
8406709 TTAGCGGCGTTTTTGAAAAAGCGACGCTAATGTCTAGTCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTCTGGTCT
*
8406749 TTAGCGGCATTTTTG-AAAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG-TCTGGTCT
* *
8406789 TTAGTGGCGTTTTCGAAAAAGCGCCGCTAATG-CTCGGTGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTCT-GGT-CT
*
8406830 TTGGCGGCGTTTTTGAAAAAG
1 TTAGCGGCGTTTTTGAAAAAG
8406851 GTCGCAAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
39 17 0.19
40 36 0.40
41 36 0.40
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (40 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTCTGGTCT
Found at i:8406817 original size:41 final size:41
Alignment explanation
Indices: 8406709--8406850 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
8406699 AAAAAAAGCA
* *
8406709 TTAGCGGCGTTTTTGAAAAAGCGACGCTAATG-TCTAGTCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
*
8406749 TTAGCGGCATTTTTG-AAAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
* *
8406789 TTAGTGGCGTTTTCGAAAAAGCGCCGCTAATGCTC-GGTGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT-CT
*
8406830 TTGGCGGCGTTTTTGAAAAAG
1 TTAGCGGCGTTTTTGAAAAAG
8406851 GTCGCAAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
39 15 0.17
40 36 0.40
41 39 0.43
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:8407245 original size:22 final size:22
Alignment explanation
Indices: 8407220--8407267 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
8407210 TAGGGATTTT
*
8407220 GGTTTAAGGGTTGTGATTTAGG
1 GGTTTAAGGGTTGTAATTTAGG
8407242 GGTTTAAGGGTTGTAATTTAGG
1 GGTTTAAGGGTTGTAATTTAGG
8407264 GGTT
1 GGTT
8407268 AGGGGTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (22 bp):
GGTTTAAGGGTTGTAATTTAGG
Found at i:8407504 original size:27 final size:28
Alignment explanation
Indices: 8407462--8407522 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
8407452 TTTAATTGGT
8407462 TTAGGGATTCGAGTT-AGAGTTTAAG-GG
1 TTAGGGATTCGAGTTAAG-GTTTAAGAGG
* * *
8407489 TTAGGGATTTGGGTTAAGGTTTAAGAGT
1 TTAGGGATTCGAGTTAAGGTTTAAGAGG
8407517 TTAGGG
1 TTAGGG
8407523 GTTTAAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.36
Consensus pattern (28 bp):
TTAGGGATTCGAGTTAAGGTTTAAGAGG
Found at i:8407528 original size:43 final size:43
Alignment explanation
Indices: 8407480--8407594 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
8407470 TCGAGTTAGA
* *
8407480 GTTTAAGGGTTAGGGATTT-GGGTTAAGGTTTAAGAGTTTAGGG
1 GTTTAAGGGTTAGGGATTTAGGGTTAAGGGTT-AGACTTTAGGG
* * *
8407523 GTTTAAGGGTT-GGGATTTAAGGTTTAGGGGTTAGACTTTATGG
1 GTTTAAGGGTTAGGGATTT-AGGGTTAAGGGTTAGACTTTAGGG
* * *
8407566 G-TTAAGAGTTAGGGATTTAAGGTTTAGGG
1 GTTTAAGGGTTAGGGATTTAGGGTTAAGGG
8407595 ATTCAGAGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 22 0.37
43 28 0.47
44 9 0.15
ACGTcount: A:0.23, C:0.01, G:0.38, T:0.37
Consensus pattern (43 bp):
GTTTAAGGGTTAGGGATTTAGGGTTAAGGGTTAGACTTTAGGG
Found at i:8407543 original size:14 final size:15
Alignment explanation
Indices: 8407481--8407597 Score: 70
Period size: 15 Copynumber: 8.1 Consensus size: 15
8407471 CGAGTTAGAG
8407481 TTTAAGGGTTAGGGA
1 TTTAAGGGTTAGGGA
*
8407496 TTT--GGGTTAAGG-
1 TTTAAGGGTTAGGGA
* *
8407508 TTTAAGAGTTTAGGGG
1 TTTAAG-GGTTAGGGA
8407524 TTTAAGGGTT-GGGA
1 TTTAAGGGTTAGGGA
*
8407538 TTTAAGGTTTAGGG-
1 TTTAAGGGTTAGGGA
* **
8407552 GTT-AGACTTTATGGG-
1 TTTAAG-GGTTA-GGGA
*
8407567 -TTAAGAGTTAGGGA
1 TTTAAGGGTTAGGGA
*
8407581 TTTAAGGTTTAGGGA
1 TTTAAGGGTTAGGGA
8407596 TT
1 TT
8407598 CAGAGGTCGG
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
12 3 0.04
13 13 0.16
14 24 0.30
15 34 0.43
16 6 0.08
ACGTcount: A:0.24, C:0.01, G:0.37, T:0.38
Consensus pattern (15 bp):
TTTAAGGGTTAGGGA
Found at i:8407548 original size:21 final size:21
Alignment explanation
Indices: 8407522--8407591 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
8407512 AGAGTTTAGG
8407522 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTGGGATTTAA
* * *
8407543 GGTTTAGGGGTT-AGACTTTAT
1 GGTTTAAGGGTTGGGA-TTTAA
* *
8407564 GGGTTAAGAGTTAGGGATTTAA
1 GGTTTAAGGGTT-GGGATTTAA
8407586 GGTTTA
1 GGTTTA
8407592 GGGATTCAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
20 2 0.05
21 24 0.65
22 9 0.24
23 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.36, T:0.39
Consensus pattern (21 bp):
GGTTTAAGGGTTGGGATTTAA
Found at i:8407922 original size:23 final size:24
Alignment explanation
Indices: 8407896--8408026 Score: 151
Period size: 23 Copynumber: 5.3 Consensus size: 24
8407886 TAACTATTAA
8407896 TTTAAATAGAATTAATAAATA-AG
1 TTTAAATAGAATTAATAAATATAG
* *
8407919 TTTAAATAAAATATATTTAAATATTAG
1 TTTAAATAGAAT-TA-ATAAATA-TAG
8407946 TTTAAATAGAATTAATAAATA-AG
1 TTTAAATAGAATTAATAAATATAG
* *
8407969 TTTAAATAAAATATATTTAAATATTAG
1 TTTAAATAGAAT-TA-ATAAATA-TAG
8407996 TTTAAATAGAATTAATAAATATA-
1 TTTAAATAGAATTAATAAATATAG
8408019 TTTAAATA
1 TTTAAATA
8408027 TTAGTTTAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
23 32 0.35
24 6 0.07
25 24 0.26
26 4 0.04
27 26 0.28
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (24 bp):
TTTAAATAGAATTAATAAATATAG
Found at i:8407936 original size:50 final size:50
Alignment explanation
Indices: 8407879--8408026 Score: 262
Period size: 50 Copynumber: 3.0 Consensus size: 50
8407869 AAACCATTTG
* *
8407879 ATATATTTAACTATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
8407929 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
8407979 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATATA-TTTAAATA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATA-AGTTTAAATA
8408027 TTAGTTTAAA
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 94 0.99
51 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (50 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:8407959 original size:15 final size:14
Alignment explanation
Indices: 8407909--8408009 Score: 53
Period size: 15 Copynumber: 7.6 Consensus size: 14
8407899 AAATAGAATT
*
8407909 AATAAATAAGTTTA
1 AATAAATTAGTTTA
8407923 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
8407938 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
8407950 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
8407959 AATAAATAAGTTTA
1 AATAAATTAGTTTA
8407973 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
8407988 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
8408000 AATAGAATTA
1 AATA-AATTA
8408010 ATAAATATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 31
0.67 0.03 0.30
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
11 5 0.07
12 19 0.28
13 2 0.03
14 7 0.10
15 26 0.38
16 2 0.03
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (14 bp):
AATAAATTAGTTTA
Found at i:8408001 original size:12 final size:11
Alignment explanation
Indices: 8407977--8408038 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
8407967 AGTTTAAATA
8407977 AAATATA-TTT
1 AAATATAGTTT
8407987 AAATATTAGTTT
1 AAATA-TAGTTT
* *
8407999 AAATAGAATTAAT
1 AAATATAGTT--T
8408012 AAATATA-TTT
1 AAATATAGTTT
8408022 AAATATTAGTTT
1 AAATA-TAGTTT
8408034 AAATA
1 AAATA
8408039 AAATAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 11 0.26
11 7 0.16
12 18 0.42
13 7 0.16
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (11 bp):
AAATATAGTTT
Found at i:8409596 original size:27 final size:28
Alignment explanation
Indices: 8409554--8409614 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
8409544 TTTAATTGGT
8409554 TTAGGGATTCGAGTT-AGAGTTTAAG-GG
1 TTAGGGATTCGAGTTAAG-GTTTAAGAGG
* * *
8409581 TTAGGGATTTGGGTTAAGGTTTAAGAGT
1 TTAGGGATTCGAGTTAAGGTTTAAGAGG
8409609 TTAGGG
1 TTAGGG
8409615 GTTTAAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.36
Consensus pattern (28 bp):
TTAGGGATTCGAGTTAAGGTTTAAGAGG
Found at i:8409620 original size:43 final size:43
Alignment explanation
Indices: 8409572--8409686 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
8409562 TCGAGTTAGA
* *
8409572 GTTTAAGGGTTAGGGATTT-GGGTTAAGGTTTAAGAGTTTAGGG
1 GTTTAAGGGTTAGGGATTTAGGGTTAAGGGTT-AGACTTTAGGG
* * *
8409615 GTTTAAGGGTT-GGGATTTAAGGTTTAGGGGTTAGACTTTATGG
1 GTTTAAGGGTTAGGGATTT-AGGGTTAAGGGTTAGACTTTAGGG
* * *
8409658 G-TTAAGAGTTAGGGATTTAAGGTTTAGGG
1 GTTTAAGGGTTAGGGATTTAGGGTTAAGGG
8409687 ATTCAGAGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 22 0.37
43 28 0.47
44 9 0.15
ACGTcount: A:0.23, C:0.01, G:0.38, T:0.37
Consensus pattern (43 bp):
GTTTAAGGGTTAGGGATTTAGGGTTAAGGGTTAGACTTTAGGG
Found at i:8409635 original size:14 final size:15
Alignment explanation
Indices: 8409573--8409689 Score: 70
Period size: 15 Copynumber: 8.1 Consensus size: 15
8409563 CGAGTTAGAG
8409573 TTTAAGGGTTAGGGA
1 TTTAAGGGTTAGGGA
*
8409588 TTT--GGGTTAAGG-
1 TTTAAGGGTTAGGGA
* *
8409600 TTTAAGAGTTTAGGGG
1 TTTAAG-GGTTAGGGA
8409616 TTTAAGGGTT-GGGA
1 TTTAAGGGTTAGGGA
*
8409630 TTTAAGGTTTAGGG-
1 TTTAAGGGTTAGGGA
* **
8409644 GTT-AGACTTTATGGG-
1 TTTAAG-GGTTA-GGGA
*
8409659 -TTAAGAGTTAGGGA
1 TTTAAGGGTTAGGGA
*
8409673 TTTAAGGTTTAGGGA
1 TTTAAGGGTTAGGGA
8409688 TT
1 TT
8409690 CAGAGGTCGG
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
12 3 0.04
13 13 0.16
14 24 0.30
15 34 0.43
16 6 0.08
ACGTcount: A:0.24, C:0.01, G:0.37, T:0.38
Consensus pattern (15 bp):
TTTAAGGGTTAGGGA
Found at i:8409640 original size:21 final size:21
Alignment explanation
Indices: 8409614--8409683 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
8409604 AGAGTTTAGG
8409614 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTGGGATTTAA
* * *
8409635 GGTTTAGGGGTT-AGACTTTAT
1 GGTTTAAGGGTTGGGA-TTTAA
* *
8409656 GGGTTAAGAGTTAGGGATTTAA
1 GGTTTAAGGGTT-GGGATTTAA
8409678 GGTTTA
1 GGTTTA
8409684 GGGATTCAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
20 2 0.05
21 24 0.65
22 9 0.24
23 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.36, T:0.39
Consensus pattern (21 bp):
GGTTTAAGGGTTGGGATTTAA
Found at i:8410048 original size:35 final size:35
Alignment explanation
Indices: 8410009--8410076 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
8409999 TTAATAAATA
* *
8410009 AGTTTAAATAAAATATATTTAA-ATATTTAAATATT
1 AGTTTAAATAAAAT-TAATAAATATATTTAAATATT
*
8410044 AGTTTAAATAGAATTAATAAATATATTTAAATA
1 AGTTTAAATAAAATTAATAAATATATTTAAATA
8410077 AAATGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (35 bp):
AGTTTAAATAAAATTAATAAATATATTTAAATATT
Found at i:8410534 original size:244 final size:248
Alignment explanation
Indices: 8410088--8410548 Score: 709
Period size: 244 Copynumber: 1.9 Consensus size: 248
8410078 AATGATTTTT
* *
8410088 GTTCAAAATGAAATGATTTTTTCTAGCGTTTTTATGAAAAACGCCGCAAAAGGCAAGCAATAGCG
1 GTTCAAAATGAAATGATTTTTTCTAGCGTTTATATGAAAAACGCCACAAAAGGCAAGCAATAGCG
* *
8410153 GAATTTTTACAGAAAACGCCGCAAAAACCATTAAATTTAACTTTAAAAATTGGCGCCATTTTACC
66 GAATTTTAACAGAAAACGCCGCAAAAA-CATTAAATTTAACTTTAAAAATTGGAGCCATTTTACC
* *
8410218 CCAAAATTTCCCCCCTGAAATCCCTAATTTCCCATGGCCGACAATATTTTCTCAGTTGCCACTCT
130 CCAAAATTTCCCCACTAAAATCCCTAATTTCCCATGGCCGACAATATTTTCTCAGTTGCCACTCT
8410283 CCAACAAACACTCTGCACTCCCATGGCTGATGAGACCCCAAAGGCCACTCCACA
195 CCAACAAACACTCTGCACTCCCATGGCTGATGAGACCCCAAAGGCCACTCCACA
*
8410337 GTTCAAAATGAAATGATTTTTTGC-GGCGTTTATATGAAAAACGCCACAAAAGGCAAGCAATAGC
1 GTTCAAAATGAAATGATTTTTT-CTAGCGTTTATATGAAAAACGCCACAAAAGGCAAGCAATAGC
** *
8410401 GGCGTTTTAACAGAAAACGCCGC-AAAA-A-T-CATTTAACTTTGAAAAA-TGGAGCCATTTTAC
65 GGAATTTTAACAGAAAACGCCGCAAAAACATTAAATTTAACTTT-AAAAATTGGAGCCATTTTAC
* * *
8410461 CCCAAATTTTCCCCACTAAAATCCCTAATTTCCCATGGCCGACAATATTTTCTTAGTTGTCACTC
129 CCCAAAATTTCCCCACTAAAATCCCTAATTTCCCATGGCCGACAATATTTTCTCAGTTGCCACTC
* * *
8410526 TTCAACAAATACTCTGCTCTCCC
194 TCCAACAAACACTCTGCACTCCC
8410549 TTTCTCCTAT
Statistics
Matches: 194, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
244 103 0.53
245 6 0.03
246 1 0.01
248 4 0.02
249 79 0.41
250 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (248 bp):
GTTCAAAATGAAATGATTTTTTCTAGCGTTTATATGAAAAACGCCACAAAAGGCAAGCAATAGCG
GAATTTTAACAGAAAACGCCGCAAAAACATTAAATTTAACTTTAAAAATTGGAGCCATTTTACCC
CAAAATTTCCCCACTAAAATCCCTAATTTCCCATGGCCGACAATATTTTCTCAGTTGCCACTCTC
CAACAAACACTCTGCACTCCCATGGCTGATGAGACCCCAAAGGCCACTCCACA
Found at i:8414626 original size:43 final size:43
Alignment explanation
Indices: 8414579--8414788 Score: 307
Period size: 43 Copynumber: 4.9 Consensus size: 43
8414569 ATGTTTGTAA
* * ** * *
8414579 TAAAAGTGCCACTAAAGGTCATGATTTTTAGTGGCGTTTGTGG
1 TAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGG
** *
8414622 TAAAAGCGCCGCT-AAGGTCATGATTTTTAGCGGCGTTTGT-G
1 TAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGG
8414663 TGAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGG
1 T-AAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGG
8414707 TAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGG
1 TAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGG
*
8414750 TAAAAGCGCCGCTAAAGACCATGATCTTTAGCGACGTTT
1 TAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTT
8414789 TTTCACATAA
Statistics
Matches: 157, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
41 2 0.01
42 38 0.24
43 115 0.73
44 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAAAGCGCCGCTAAAGACCATGATCTTTAGCGGCGTTTGTGG
Done.