Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 9 of 18
Found at i:1014607 original size:129 final size:130
Alignment explanation
Indices: 1014283--1014580 Score: 361
Period size: 130 Copynumber: 2.3 Consensus size: 130
1014273 TTGACCTGGT
* * * * ** * *
1014283 GACTTCTTCACCCTTAAGTTTACCTGTCGGCTTTGACCCTAAAAACGTCATCCCCCTTAAGTTTG
1 GACTTCTTCGCCCTTAAGTCTGCCTGTCAGCTTTGACCCGGAAAACTTCATCCCCCTTAAGTCTG
* * * *
1014348 CCTGTCAGCTTTGACCTTGGAGACTTCTTCCCCCCTTAGGTCTGCTGATCAGCTTTGACCCTAGA
66 CTTGTCAGCTTTGACCTTAGAGACTTCTTCCCCCCTTAAGTCTGCTGATCAGCTTTAACCCTAGA
* * *
1014413 GACTTCTTCGTCCTTAAGTCTGCCTGTCAGCTTTTACCCTGAAAACTTCATCCCCCTTAAGTCTG
1 GACTTCTTCGCCCTTAAGTCTGCCTGTCAGCTTTGACCCGGAAAACTTCATCCCCCTTAAGTCTG
* *
1014478 CTTGTCGGCTTTGACCTTAGAGACTT-TTTCCCCCTTAAGTCTGCCTG-TC-GACTTTAACCCTA
66 CTTGTCAGCTTTGACCTTAGAGACTTCTTCCCCCCTTAAGTCTG-CTGATCAG-CTTTAACCCTA
1014540 GA
129 GA
* * *
1014542 GACTTCATTC-CCCTTAGGTCTGCTTGTTAGCTTTGACCC
1 GACTTC-TTCGCCCTTAAGTCTGCCTGTCAGCTTTGACCC
1014581 AGGTGATTTT
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
128 1 0.01
129 59 0.41
130 85 0.59
ACGTcount: A:0.17, C:0.31, G:0.16, T:0.35
Consensus pattern (130 bp):
GACTTCTTCGCCCTTAAGTCTGCCTGTCAGCTTTGACCCGGAAAACTTCATCCCCCTTAAGTCTG
CTTGTCAGCTTTGACCTTAGAGACTTCTTCCCCCCTTAAGTCTGCTGATCAGCTTTAACCCTAGA
Found at i:1014657 original size:42 final size:42
Alignment explanation
Indices: 1014605--1014709 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
1014595 GCCCTTTGTC
* * *
1014605 TGCCCATCGGCTTAGACCCGAGAGACCTCTCCGTCTTTTATT
1 TGCCCGTCGGCTTAGACCCGAGAGACCTCACCATCTTTTATT
* * * * * *
1014647 TGCCCGTCGGCTGAGACTCTAGAGACTTCACTATCTTTTCTT
1 TGCCCGTCGGCTTAGACCCGAGAGACCTCACCATCTTTTATT
* *
1014689 TACCCGTTGGCTTAGACCCGA
1 TGCCCGTCGGCTTAGACCCGA
1014710 AAAACTTCTC
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.31
Consensus pattern (42 bp):
TGCCCGTCGGCTTAGACCCGAGAGACCTCACCATCTTTTATT
Found at i:1015033 original size:86 final size:85
Alignment explanation
Indices: 1014810--1015580 Score: 381
Period size: 86 Copynumber: 9.0 Consensus size: 85
1014800 GCATCATCTA
* * * * * * * *
1014810 AAGTCTACCTATCGACTTTGACCTTGGAGAC-TTCTTTCCCCTTAAGTCTGCTTGTTGGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTAGGAGACTTTCTTT-CCCTTTAGTCTGCCTATCGGCTTTGA
* *
1014874 CCCTGGTGACTTCTTCCCCCCTT
65 CCCTAGAGACTTCTT--CCCCTT
* * ** * * * * ** * ** *
1014897 AAGTTTGCCTATTAGTTTTGACCCT-GTAAACTTCCTAACCCTTAAGTCTGCCTATCAACTTTAA
1 AAGTCTGCCTGTCGGCTTTGA-CCTAGGAGACTTTCTTTCCCTTTAGTCTGCCTATCGGCTTTGA
1014961 CCCTAGAGACTTCGTTCCCCTT
65 CCCTAGAGACTTC-TTCCCCTT
* ** * * *
1014983 AAGTCTGCCTGTCGGCTTTGACCTAGGAGACTTTCTTTTCCTTTTTTCTGCTTGTCGGCTTAGAC
1 AAGTCTGCCTGTCGGCTTTGACCTAGGAGACTTTCTTTCCCTTTAGTCTGCCTATCGGCTTTGAC
* * **
1015048 TCGAGAGACTTC-TCTATCTT
66 CCTAGAGACTTCTTC-CCCTT
** ** * * * * ** * * **
1015068 TTGTCTGCCCATCAGCTTAGACCTAGGAGACTTCTCTAT--ATTTTTTCAGCCCATCAACTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTAGGAGACTT-TCTTTCCCTTTAGTCTGCCTATCGGCTTTGA
*
1015131 -CCTAGGAGACTTCTTTGCCCTT
65 CCCTA-GAGACTTC-TTCCCCTT
* * * * ** * * * * **
1015153 -CGTCTACCCGTCGTCTTAAACCTGGGAGAC-TGC-ATCATCTCAAGTCTGCCTATCGGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTAGGAGACTTTCTTTC-CCTTTAGTCTGCCTATCGGCTTTGA
*
1015215 -CCTGGAGACTTCTTTCGCCCTT
65 CCCTAGAGACTTC-TTC-CCCTT
* * **
1015237 AAGTCTGCCTGTCGGCTTTGACCCTA-GA-AATTTC-GTCCCTCTTAAGTCTGCCTATTAGCTTT
1 AAGTCTGCCTGTCGGCTTTGA-CCTAGGAGACTTTCTTTCCCT-TT-AGTCTGCCTATCGGCTTT
* *
1015299 GACCTTGGAGACTTCTTCCCCCCTT
63 GACCCTAGAGACTTCTT--CCCCTT
* * * * * *
1015324 AAGTCTACCTATCAGCTTTGACCCTA-GAGAC-TTCTTCGCCCTTCAGTCTGCCTATCGGCTTTT
1 AAGTCTGCCTGTCGGCTTTGA-CCTAGGAGACTTTCTT-TCCCTTTAGTCTGCCTATCGGCTTTG
* *
1015387 ACCCTAAAAACTTCATTCCCCTT
64 ACCCTAGAGACTTC-TTCCCCTT
* * * * * *
1015410 AAGTCTGCCTGTCGGCTTTGACCTTA-AAGACTTT-TTACCCCTTAAGTATGCCTGTCGACTTTG
1 AAGTCTGCCTGTCGGCTTTGACC-TAGGAGACTTTCTT-TCCCTTTAGTCTGCCTATCGGCTTTG
*
1015473 ACCCTAGAGACTTCCTCACCCTT
64 ACCCTAGAGACTTCTTC-CCCTT
* * * * * *
1015496 AAGTCTGCCTATCGACTTTGACCTTGGAG-TTTTCTTTGCCCTTAAGTCTGCCTCTCGGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTAGGAGACTTTCTTT-CCCTTTAGTCTGCCTATCGGCTTTGA
* *
1015560 CCATGGAGACTTCTTCCCCTT
65 CCCTAGAGACTTCTTCCCCTT
1015581 TATGTTTGCT
Statistics
Matches: 515, Mismatches: 138, Indels: 64
0.72 0.19 0.09
Matches are distributed among these distances:
81 2 0.00
82 1 0.00
83 14 0.03
84 75 0.15
85 69 0.13
86 215 0.42
87 122 0.24
88 13 0.03
89 4 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (85 bp):
AAGTCTGCCTGTCGGCTTTGACCTAGGAGACTTTCTTTCCCTTTAGTCTGCCTATCGGCTTTGAC
CCTAGAGACTTCTTCCCCTT
Found at i:1015086 original size:42 final size:42
Alignment explanation
Indices: 1015040--1015144 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
1015030 CTGCTTGTCG
* *
1015040 GCTTAGACTCGA-GAGACTTCTCTATCTTTTGTCTGCCCATCA
1 GCTTAGAC-CGAGGAGACTTCTCTATATTTTGTCAGCCCATCA
* *
1015082 GCTTAGACCTAGGAGACTTCTCTATATTTTTTCAGCCCATCA
1 GCTTAGACCGAGGAGACTTCTCTATATTTTGTCAGCCCATCA
* * *
1015124 ACTTTGACCTAGGAGACTTCT
1 GCTTAGACCGAGGAGACTTCT
1015145 TTGCCCTTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (42 bp):
GCTTAGACCGAGGAGACTTCTCTATATTTTGTCAGCCCATCA
Found at i:1015425 original size:384 final size:384
Alignment explanation
Indices: 1014713--1015427 Score: 908
Period size: 384 Copynumber: 1.9 Consensus size: 384
1014703 GACCCGAAAA
* * * * *
1014713 ACTTCTCTATCTTTTGTCTACCTATCAACTTTGACTTGGGAGACTTTATTGCCTTTCGTCTACCC
1 ACTTCTCTATATTTTGTCTACCCATCAACTTTGACCTAGGAGACTTTATTGCCCTTCGTCTACCC
*
1014778 ATCTGCTTAAACTCGGAAGGCTGCATCATCTAAAGTCTACCTATCGACTTTGACCTTGGAGACTT
66 ATCTGCTTAAACTCGGAAGACTGCATCATCTAAAGTCTACCTATCGACTTTGACCTTGGAGACTT
* * * ** * *
1014843 CTTTCCCCTTAAGTCTGCTTGTTGGCTTTGACCCTGGTGACTTCTTCCCCCCTTAAGTTTGCCTA
131 CTTTCCCCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTCGTCCCCCCTTAAGTCTGCCTA
* * *
1014908 TTAGTTTTGACCCTGTAAACTTCCTAACCCTTAAGTCTGCCTATCAACTTTAACCCTAGAGACTT
196 TTAGCTTTGACCCTGGAAACTTCCTAACCCTTAAGTCTACCTATCAACTTTAACCCTAGAGACTT
* * * ** *** *
1014973 CGTTCCCCTTAAGTCTGCCTGTCGGCTTTGACCTAGGAGACTTTCTTTTCCTTTTTTCTGCTTGT
261 CGTTCCCCTTAAGTCTGCCTATCGGCTTTGACCTAGAAAACTTTCTTCCCCTTAAGTCTGCCTGT
1015038 CGGCTTAGACTCGAGAGACTTCTCTATCTTTTGTCTGCCCATCAGCTTAGACCTAGGAG
326 CGGCTTAGACTCGAGAGACTTCTCTATCTTTTGTCTGCCCATCAGCTTAGACCTAGGAG
*
1015097 ACTTCTCTATATTTTTTC-AGCCCATCAACTTTGACCTAGGAGACTTCT-TTGCCCTTCGTCTAC
1 ACTTCTCTATATTTTGTCTA-CCCATCAACTTTGACCTAGGAGACTT-TATTGCCCTTCGTCTAC
* * * * *
1015160 CCGTC-GTCTTAAAC-CTGGGAGACTGCATCATCTCAAGTCTGCCTATCGGCTTTGACC-TGGAG
64 CCATCTG-CTTAAACTC-GGAAGACTGCATCATCTAAAGTCTACCTATCGACTTTGACCTTGGAG
* *
1015222 ACTTCTTTCGCCCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAAATTTCGT-CCCTCTTAAGTCT
127 ACTTCTTTC-CCCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTCGTCCCCCCTTAAGTCT
* * * ** * *
1015286 GCCTATTAGCTTTGACCTTGGAGACTTCTTCCCCCCTTAAGTCTACCTATCAGCTTTGACCCTAG
191 GCCTATTAGCTTTGACCCTGGAAACTTCCT-AACCCTTAAGTCTACCTATCAACTTTAACCCTAG
* *
1015351 AGACTTC-TTCGCCCTTCAGTCTGCCTATCGGCTTTTACCCTA-AAAAC-TTCATTCCCCTTAAG
255 AGACTTCGTTC-CCCTTAAGTCTGCCTATCGGCTTTGA-CCTAGAAAACTTTC-TTCCCCTTAAG
1015413 TCTGCCTGTCGGCTT
317 TCTGCCTGTCGGCTT
1015428 TGACCTTAAA
Statistics
Matches: 280, Mismatches: 42, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
383 59 0.21
384 216 0.77
385 5 0.02
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (384 bp):
ACTTCTCTATATTTTGTCTACCCATCAACTTTGACCTAGGAGACTTTATTGCCCTTCGTCTACCC
ATCTGCTTAAACTCGGAAGACTGCATCATCTAAAGTCTACCTATCGACTTTGACCTTGGAGACTT
CTTTCCCCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAAACTTCGTCCCCCCTTAAGTCTGCCTA
TTAGCTTTGACCCTGGAAACTTCCTAACCCTTAAGTCTACCTATCAACTTTAACCCTAGAGACTT
CGTTCCCCTTAAGTCTGCCTATCGGCTTTGACCTAGAAAACTTTCTTCCCCTTAAGTCTGCCTGT
CGGCTTAGACTCGAGAGACTTCTCTATCTTTTGTCTGCCCATCAGCTTAGACCTAGGAG
Found at i:1015624 original size:86 final size:84
Alignment explanation
Indices: 1015194--1015628 Score: 364
Period size: 86 Copynumber: 5.0 Consensus size: 84
1015184 GCATCATCTC
* *
1015194 AAGTCTGCCTATCGGCTTTGA-CCTGGAGACTTCTTTCGCCCTTAAGTCTGCCTGTCGGCTTTGA
1 AAGTCTGCCTATCGGCTTTGACCCTGGAGACTTC-TTC-CCCTTAAGTCTGCCTATCGACTTTGA
1015258 CCCTAGAA-A-TTTCG-TCCCTCTT
64 -CCTA-AAGACTTT-GTTCCC-CTT
** * *
1015280 AAGTCTGCCTATTAGCTTTGACCTTGGAGACTTCTTCCCCCCTTAAGTCTACCTATC-AGCTTTG
1 AAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCTT--CCCCTTAAGTCTGCCTATCGA-CTTTG
* *
1015344 ACCCTAGAGAC-TTCTTCGCCCTT
63 A-CCTAAAGACTTTGTTC-CCCTT
* * ** * * *
1015367 CAGTCTGCCTATCGGCTTTTACCCTAAAAACTTCATTCCCCTTAAGTCTGCCTGTCGGCTTTGAC
1 AAGTCTGCCTATCGGCTTTGACCCTGGAGACTTC-TTCCCCTTAAGTCTGCCTATCGACTTTGAC
1015432 CTTAAAGACTTT-TTACCCCTT
65 C-TAAAGACTTTGTT-CCCCTT
* * * * *
1015453 AAGTATGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCCTATCGACTTTGAC
1 AAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTATCGACTTTGAC
** * * *
1015518 CT-TGGAGTTTTCTTTGCCCTT
65 CTAAAGA-CTTT-GTTCCCCTT
* * * * * *
1015539 AAGTCTGCCTCTCGGCTTTGACCATGGAGACTTCTTCCCCTTTATGTTTGCTTATTGACTTTGAC
1 AAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCTTCCCC-TTAAGTCTGCCTATCGACTTTGAC
1015604 TCTAAAGACTTTGTTCCCCTT
65 -CTAAAGACTTTGTTCCCCTT
1015625 AAGT
1 AAGT
1015629 TTCCGTGTCG
Statistics
Matches: 280, Mismatches: 49, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
84 2 0.01
85 11 0.04
86 178 0.64
87 82 0.29
88 7 0.03
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (84 bp):
AAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCTTCCCCTTAAGTCTGCCTATCGACTTTGACC
TAAAGACTTTGTTCCCCTT
Found at i:1015940 original size:43 final size:43
Alignment explanation
Indices: 1015893--1016225 Score: 249
Period size: 43 Copynumber: 7.7 Consensus size: 43
1015883 TCTCTGTTGA
*
1015893 CTTTGACCTTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGG
1 CTTTGACCCTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGG
* * * * *
1015936 CTTTGACCCT-GAAGACTTCCTTC-CTCTTAAGTCTGCTTGTCGA
1 CTTTGACCCTAG-AGACTT-TTTCGCCCTTAAGTCTGCCTATCGG
* * * ** * *
1015979 CTTTAACCATGGAGACTTTCCCCCCCCCTTTAAGTCTGCCTATCGA
1 CTTTGACCCTAGAGACTTT--TTCGCCC-TTAAGTCTGCCTATCGG
* * * * * *
1016025 CTTTGACCCTAGAGACTTTCTCTCACTTAAATCTACTTATCGG
1 CTTTGACCCTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGG
* * * * * *
1016068 CTTTGACCATAGAGACTTCTTCGCCTTTAAGTTTGCCTGTCGA
1 CTTTGACCCTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGG
* * * * * *
1016111 CTTTAACCCTAGAGACTTCTTCCCCCTTAAGTCTACTTGTCGG
1 CTTTGACCCTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGG
* * * *
1016154 CTTTGACCCTGGAGACTTCGTTC-CTCTTTAGTCTGCCTATCGG
1 CTTTGACCCTAGAGACTT-TTTCGCCCTTAAGTCTGCCTATCGG
* *
1016197 CTTTGACCCAAGAGACTTTCTTTGCCCTT
1 CTTTGACCCTAGAGACTTT-TTCGCCCTT
1016226 TGTCTACCCG
Statistics
Matches: 223, Mismatches: 57, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.00
43 173 0.78
44 16 0.07
45 2 0.01
46 31 0.14
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (43 bp):
CTTTGACCCTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGG
Found at i:1016054 original size:132 final size:129
Alignment explanation
Indices: 1015891--1016214 Score: 343
Period size: 132 Copynumber: 2.5 Consensus size: 129
1015881 TCTCTCTGTT
* * * *
1015891 GACTTTGACCTTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGGCTTTGACCCT-GAAGACTTC
1 GACTTTGACCCTAGAGACTTTCTCTCACTTAAGTCTGCCTATCGGCTTTGACCCTAG-AGACTT-
* * *
1015955 CTT--CCTCTTAAGTCTGCTTGTCGACTTTAACCATGGAGACTTTCCCCCCCCCTTTAAGTCTGC
64 CTTCGCCT-TTAAGTCTGCCTGTCGACTTTAACCATAGAGAC-TT-CCCCCCCC-TTAAGTCTAC
1016018 CTATC
125 CTATC
* * * *
1016023 GACTTTGACCCTAGAGACTTTCTCTCACTTAAATCTACTTATCGGCTTTGACCATAGAGACTTCT
1 GACTTTGACCCTAGAGACTTTCTCTCACTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCT
* * ** * *
1016088 TCGCCTTTAAGTTTGCCTGTCGACTTTAACCCTAGAGACTTCTTCCCCCTTAAGTCTACTTGTC
66 TCGCCTTTAAGTCTGCCTGTCGACTTTAACCATAGAGACTTCCCCCCCCTTAAGTCTACCTATC
* * * * *
1016152 GGCTTTGACCCTGGAGAC-TTCGT-TCCTCTTTAGTCTGCCTATCGGCTTTGACCCAAGAGACTT
1 GACTTTGACCCTAGAGACTTTC-TCT-CACTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTT
1016215 TCTTTGCCCT
Statistics
Matches: 161, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
128 4 0.02
129 60 0.37
130 6 0.04
131 5 0.03
132 82 0.51
133 4 0.02
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (129 bp):
GACTTTGACCCTAGAGACTTTCTCTCACTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCT
TCGCCTTTAAGTCTGCCTGTCGACTTTAACCATAGAGACTTCCCCCCCCTTAAGTCTACCTATC
Found at i:1016123 original size:86 final size:86
Alignment explanation
Indices: 1015893--1016217 Score: 327
Period size: 86 Copynumber: 3.7 Consensus size: 86
1015883 TCTCTGTTGA
* * * * *
1015893 CTTTGACCTTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGGCTTTGACCCT-GAAGACTTCCT
1 CTTTGACCATAGAGACTTCTTCGCCTTTAAGTCTGCCTATCGACTTTGACCCTAG-AGACTTTCT
* * *
1015957 -TCCTCTTAAGTCTGCTTGTCGA
65 CT-CACTTAAGTCTACTTGTCGG
* * ** *
1015979 CTTTAACCATGGAGACTTTCCCCCCCCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTTT
1 CTTTGACCATAGAGAC-TT--CTTCGCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTTT
* *
1016044 CTCTCACTTAAATCTACTTATCGG
63 CTCTCACTTAAGTCTACTTGTCGG
* * *
1016068 CTTTGACCATAGAGACTTCTTCGCCTTTAAGTTTGCCTGTCGACTTTAACCCTAGAGAC-TTCTT
1 CTTTGACCATAGAGACTTCTTCGCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTC-T
* *
1016132 CCCCCTTAAGTCTACTTGTCGG
65 CTCACTTAAGTCTACTTGTCGG
* * * *
1016154 CTTTGACCCTGGAGACTTCGTTC-CTCTTT-AGTCTGCCTATCGGCTTTGACCCAAGAGACTTTC
1 CTTTGACCATAGAGACTTC-TTCGC-CTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTC
1016217 T
64 T
1016218 TTGCCCTTTG
Statistics
Matches: 196, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
85 3 0.02
86 111 0.57
87 12 0.06
88 2 0.01
89 66 0.34
90 2 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (86 bp):
CTTTGACCATAGAGACTTCTTCGCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTTTCTC
TCACTTAAGTCTACTTGTCGG
Found at i:1016211 original size:129 final size:128
Alignment explanation
Indices: 1014810--1016214 Score: 500
Period size: 129 Copynumber: 10.9 Consensus size: 128
1014800 GCATCATCTA
* * * * * * *
1014810 AAGTCTACCTATCGACTTTGACCTTGGAGACTTCTTTCCCCTTAAGTCTGCTTGTTGGCTTTGAC
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGCCTGTCGGCTTTGAC
* * * * * ** * * * *
1014875 CCTGGTGACTTCTTCCCCCCTTAAGTTTGCCTATTAGTTTTGACCC-TGTAAACTTCCTAACCC-
66 CCTAGAGACTTCTT-TCCTCTTAAGTCTGCCTATCGGCTTTGACCCAAG-AGACTT-CT-TCCCT
1014938 TT
127 TT
* * *
1014940 AAGTCTGCCTATCAACTTTAACCCTAGAGACTTCGTT-CCCCTTAAGTCTGCCTGTCGGCTTTGA
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTC-TTCCCCCTTAAGTCTGCCTGTCGGCTTTGA
** * * * * * **
1015004 -CCTAGGAGACTTTCTTTTCCT-TT-TTTCTGCTTGTCGGCTTAGACTCGAGAGACTTCTCTATC
65 CCCTA-GAGAC-TTC-TTTCCTCTTAAGTCTGCCTATCGGCTTTGACCCAAGAGACTTCT-TCCC
1015066 TTT
126 TTT
* ** * **** *** * ** **
1015069 -TGTCTGCCCATC-AGCTTAGA-CCTAGGAGACTTC-TCTATATTTTTTCAGCCCATCAACTTTG
1 AAGTCTGCCTGTCGA-CTTTGACCCTA-GAGACTTCTTCCCCCTTAAGTCTGCCTGTCGGCTTTG
* * ** * ** *** * * *
1015130 A-CCTAGGAGACTTCTTTGCC-CTT-CGTCTACCCGTCGTCTTAAACCTGGGAGACTGCAT-CAT
64 ACCCTA-GAGACTTCTTT-CCTCTTAAGTCTGCCTATCGGCTTTGACCCAAGAGACTTCTTCCCT
*
1015191 CTC
127 -TT
* * * *
1015194 AAGTCTGCCTATCGGCTTTGA-CCTGGAGACTTCTTTCGCCCTTAAGTCTGCCTGTCGGCTTTGA
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTC-TTCCCCCTTAAGTCTGCCTGTCGGCTTTGA
* * * * ** *** *
1015258 CCCTAGAAATTTCGTCCCTCTTAAGTCTGCCTATTAGCTTTGACCTTGGAGACTTCTTCCCCCCT
65 CCCTAGAGACTTCTTTCCTCTTAAGTCTGCCTATCGGCTTTGACCCAAGAGACTTCTT--CCCTT
1015323 T
128 T
* * * * * *
1015324 AAGTCTACCTATC-AGCTTTGACCCTAGAGACTTCTTCGCCCTTCAGTCTGCCTATCGGCTTTTA
1 AAGTCTGCCTGTCGA-CTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGCCTGTCGGCTTTGA
* * * * * * * *
1015388 CCCTAAAAACTTCATTCCCCTTAAGTCTGCCTGTCGGCTTTGACCTTAA-AGACTTTTTACCCCT
65 CCCTAGAGACTTCTTTCCTCTTAAGTCTGCCTATCGGCTTTGACC-CAAGAGACTTCTT-CCCTT
1015452 T
128 T
* * * * *
1015453 AAGTATGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCCTATCGACTTTGAC
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGCCTGTCGGCTTTGAC
* * ** * *
1015518 CTTGGAGTTTTCTTTGCC-CTTAAGTCTGCCTCTCGGCTTTGA-CCATGGAGACTTCTTCCCCTT
66 CCTAGAGACTTCTTT-CCTCTTAAGTCTGCCTATCGGCTTTGACCCA-AGAGACTTCTT-CCCTT
1015581 T
128 T
* * * * * * * * * *
1015582 ATGTTTGCTTATTGACTTTGACTCTAAAGACTT-TGTTCCCCTTAAGT-TTCCGTGTCGGCTTAG
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCT-TCCCCCTTAAGTCTGCC-TGTCGGCTTTG
* * * * * * * **
1015645 A-CCTAGGAGACTTTCTTTACCT-TT-TGTTTTCCCATCGGCTTAGACCCAAAAGACCTCTTTAT
64 ACCCTA-GAGAC-TTCTTT-CCTCTTAAGTCTGCCTATCGGCTTTGACCCAAGAGACTTC-TTCC
*
1015707 TTTT
125 CTTT
* * * * * *** ** * *
1015711 TA-TCTGCC-GTCGACTTGGACTCGATAGACTTCTT-TATCTTTTGTCTGCCCGTTCGGCTTTCA
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGCCTG-TCGGCTTTGA
* * ** *** * * *
1015773 -CCTAAGAAACTTCTCTAT-CT-TTTA-TCTGCCCGTCAATTTTGACCCAGGATACTCCTTTGCC
65 CCCT-AGAGACTTCT-T-TCCTCTTAAGTCTGCCTATCGGCTTTGACCCAAGAGACTTC-TT-CC
1015834 CTTT
125 CTTT
* * * * * ** ** * * *
1015838 --GTTTACCCGTTGGCTTAAACCC-AGGAGA-TTGCTT-CATCTCAAGTCT-CTCTGTTGACTTT
1 AAGTCTGCCTGTCGACTTTGACCCTA-GAGACTT-CTTCCCCCTTAAGTCTGC-CTGTCGGCTTT
* * *
1015897 GACCTTAGAGACTT-TTTCGCCCTTAAGTCTGCCTATCGGCTTTGACCC-TGAAGACTTCCTT-C
63 GACCCTAGAGACTTCTTTC-CTCTTAAGTCTGCCTATCGGCTTTGACCCAAG-AGACTT-CTTCC
1015959 CTCTT
125 CT-TT
* * * * ** * *
1015964 AAGTCTGCTTGTCGACTTTAACCATGGAGACTTTCCCCCCCCCTTTAAGTCTGCCTATCGACTTT
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGAC-TT-CTTCCCCC-TTAAGTCTGCCTGTCGGCTTT
* * * * *
1016029 GACCCTAGAGACTT-TCTCTCACTTAAATCTACTTATCGGCTTTGA-CCATAGAGACTTCTTCGC
63 GACCCTAGAGACTTCTTTC-CTCTTAAGTCTGCCTATCGGCTTTGACCCA-AGAGACTTCTTC-C
1016092 CTTT
125 CTTT
* * * *
1016096 AAGTTTGCCTGTCGACTTTAACCCTAGAGACTTCTTCCCCCTTAAGTCTACTTGTCGGCTTTGAC
1 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGCCTGTCGGCTTTGAC
* * *
1016161 CCTGGAGACTTCGTTCCTCTTTAGTCTGCCTATCGGCTTTGACCCAAGAGACTT
66 CCTAGAGACTTCTTTCCTCTTAAGTCTGCCTATCGGCTTTGACCCAAGAGACTT
1016215 TCTTTGCCCT
Statistics
Matches: 934, Mismatches: 270, Indels: 143
0.69 0.20 0.11
Matches are distributed among these distances:
123 1 0.00
124 2 0.00
125 18 0.02
126 114 0.12
127 148 0.16
128 84 0.09
129 258 0.28
130 184 0.20
131 29 0.03
132 91 0.10
133 5 0.01
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (128 bp):
AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGCCTGTCGGCTTTGAC
CCTAGAGACTTCTTTCCTCTTAAGTCTGCCTATCGGCTTTGACCCAAGAGACTTCTTCCCTTT
Found at i:1016232 original size:86 final size:84
Alignment explanation
Indices: 1015205--1016225 Score: 326
Period size: 86 Copynumber: 11.9 Consensus size: 84
1015195 AGTCTGCCTA
* * * * *
1015205 TCGGCTTTGACC-TGGAGACTTCTTTCGCCCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAAATT
1 TCGGCTTTGACCATGGAGACTTC-TTC-CCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACT
* * * * *
1015269 TCGTCCCTCTTAAGTCTGCCTA
64 TCTTTCC-CTTAAGTCTACTTG
** * * *
1015291 TTAGCTTTGACCTTGGAGACTTCTTCCCCCCTTAAGTCTACCTATC-AGCTTTGACCCTAGAGAC
1 TCGGCTTTGACCATGGAGACTTCTT--CCCTTTAAGTCTGCCTATCGA-CTTTGACCCTAGAGAC
* * * * *
1015355 TTCTTCGCCCTTCAGTCTGCCTA
63 TTCTT-TCCCTTAAGTCTACTTG
* * ** * * * * * *
1015378 TCGGCTTTTACCCTAAAAACTTCATTCCCCTTAAGTCTGCCTGTCGGCTTTGACCTTAAAGACTT
1 TCGGCTTTGACCATGGAGACTTC-TTCCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTT
* * *
1015443 -TTTACCCCTTAAGTATGCCTG
65 CTTT--CCCTTAAGTCTACTTG
* * * * * * * **
1015464 TCGACTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTGCCTATCGACTTTGACCTTGGAGTTTT
1 TCGGCTTTGACCATGGAGACTTCTTC-CCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTT
* * *
1015529 CTTTGCCCTTAAGTCTGCCTC
65 CTTT-CCCTTAAGTCTACTTG
* * * * * *
1015550 TCGGCTTTGACCATGGAGACTTCTTCCCCTTTATGTTTGCTTATTGACTTTGACTCTAAAGACTT
1 TCGGCTTTGACCATGGAGACTTCTT-CCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTT
* * *
1015615 -TGTTCCCCTTAAGTTTCCGTG
65 CT-TT-CCCTTAAGTCTACTTG
* * * * * * * * * *
1015636 TCGGCTTAGACC-TAGGAGACTTTCTTTACCTTT-TGTTTTCCCATCGGCTTAGACCCAAAAGAC
1 TCGGCTTTGACCAT-GGAGAC-TTC-TTCCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGAC
* *** * * *
1015699 CTCTTTATTTTTTA-TCTGC-CG
63 TTCTTT-CCCTTAAGTCTACTTG
* * ** * * *
1015720 TCGACTTGGACTCGAT--AGACTTCTTTATCTTT-TGTCTGCCCGT-TCGGCTTTCA-CCTAAGA
1 TCGGCTTTGAC-C-ATGGAGACTTC-TTCCCTTTAAGTCTG-CC-TATCGACTTTGACCCT-AGA
* * * * **
1015780 AACTTCTCTAT-CTTTTA-TCTGCCCG
60 GACTTCT-T-TCCCTTAAGTCTACTTG
*** * * * * ** * * **
1015805 TCAATTTTGACCCA-GGATACTCCTTTGCCCTTT--GTTTACCCGTTGGCTTAAACCC-AGGAGA
1 TCGGCTTTGA-CCATGGAGACTTC-TT-CCCTTTAAGTCTGCCTATCGACTTTGACCCTA-GAGA
* *
1015866 -TTGC-TTCATCTCAAGTCT-CTCTG
62 CTT-CTTTC-CCTTAAGTCTACT-TG
* * * * * * *
1015889 TTGACTTTGACCTTAGAGACTTTTTCGCCCTTAAGTCTGCCTATCGGCTTTGACCCT-GAAGACT
1 TCGGCTTTGACCATGGAGACTTCTTC-CCTTTAAGTCTGCCTATCGACTTTGACCCTAG-AGACT
* *
1015953 TCCTTCCTCTTAAGTCTGCTTG
64 TCTTTCC-CTTAAGTCTACTTG
* * **
1015975 TCGACTTTAACCATGGAGACTTTCCCCCCCCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGA
1 TCGGCTTTGACCATGGAGAC-TT---CTTCCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGA
* * * *
1016040 CTTTCTCTCACTTAAATCTACTTA
62 C-TTCTTTCCCTTAAGTCTACTTG
* * * *
1016064 TCGGCTTTGACCATAGAGACTTCTTCGCCTTTAAGTTTGCCTGTCGACTTTAACCCTAGAGACTT
1 TCGGCTTTGACCATGGAGACTTCTTC-CCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTT
*
1016129 CTTCCCCCTTAAGTCTACTTG
65 CTT-TCCCTTAAGTCTACTTG
* * *
1016150 TCGGCTTTGACCCTGGAGACTTCGTTCCTCTTT-AGTCTGCCTATCGGCTTTGACCCAAGAGACT
1 TCGGCTTTGACCATGGAGACTTC-TTCC-CTTTAAGTCTGCCTATCGACTTTGACCCTAGAGAC-
1016214 TTCTTTGCCCTT
63 TTCTTT-CCCTT
1016226 TGTCTACCCG
Statistics
Matches: 709, Mismatches: 166, Indels: 119
0.71 0.17 0.12
Matches are distributed among these distances:
81 1 0.00
82 2 0.00
83 31 0.04
84 72 0.10
85 59 0.08
86 360 0.51
87 108 0.15
88 9 0.01
89 60 0.08
90 7 0.01
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (84 bp):
TCGGCTTTGACCATGGAGACTTCTTCCCTTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTTC
TTTCCCTTAAGTCTACTTG
Found at i:1016273 original size:42 final size:42
Alignment explanation
Indices: 1016224--1016310 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
1016214 TTCTTTGCCC
* *
1016224 TTTGTCTACCCGTCAGCTTAGACGCAAGAGACCTCTCTATCT
1 TTTGTCTACCCATCAACTTAGACGCAAGAGACCTCTCTATCT
* * * *
1016266 TTTGTCTACCCATCAACTTGGACTCGAGAGACTTCTCTATCT
1 TTTGTCTACCCATCAACTTAGACGCAAGAGACCTCTCTATCT
1016308 TTT
1 TTT
1016311 TCTTTGTCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.36
Consensus pattern (42 bp):
TTTGTCTACCCATCAACTTAGACGCAAGAGACCTCTCTATCT
Found at i:1019737 original size:21 final size:21
Alignment explanation
Indices: 1019713--1019754 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1019703 ATCATAGCCA
1019713 TTTCTTCATC-TCAGTCATCTT
1 TTTCTTCATCATCA-TCATCTT
*
1019734 TTTCTTTATCATCATCATCTT
1 TTTCTTCATCATCATCATCTT
1019755 CATCATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.17, C:0.26, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTCTTCATCATCATCATCTT
Found at i:1024741 original size:97 final size:96
Alignment explanation
Indices: 1024621--1024867 Score: 257
Period size: 97 Copynumber: 2.5 Consensus size: 96
1024611 AGAGTGGGGC
* * * * * *
1024621 TAGAGTAT-CCCTCTGGAGGAATGGCGTTGGAATGCCCCCGATGACGATAATTTAGGCAAAAATA
1 TAGAGTATCCCCT-TAGAAGAATGG-GTTGGAATACCCCCAATGACGACAATTTAAGCAAAAATA
*
1024685 AGATTTAAATCTTGAA-AAGTTTGAAAAC-AGGGT
64 AGATTTAAATCTT-AACAAGTTTAAAAACGA-GGT
* * * * *
1024718 TAGAGTATCCCCTTAGAAGAATGGGATTGGAGTATCCCTAATTATGACAATTTAAGCAAAAATAA
1 TAGAGTATCCCCTTAGAAGAATGGG-TTGGAATACCCCCAATGACGACAATTTAAGCAAAAATAA
1024783 GATTTAAATCTTAACAAGTTTAAAAACGAGGT
65 GATTTAAATCTTAACAAGTTTAAAAACGAGGT
* * * * * *
1024815 TGGAGTATCCCTTTAGAAGAATAGGGTTGGAGTAACCCTAATGATGACAATTT
1 TAGAGTATCCCCTTAGAAGAAT-GGGTTGGAATACCCCCAATGACGACAATTT
1024868 TGATAATTTT
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
96 3 0.02
97 118 0.91
98 8 0.06
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (96 bp):
TAGAGTATCCCCTTAGAAGAATGGGTTGGAATACCCCCAATGACGACAATTTAAGCAAAAATAAG
ATTTAAATCTTAACAAGTTTAAAAACGAGGT
Found at i:1027195 original size:51 final size:51
Alignment explanation
Indices: 1027112--1027250 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 51
1027102 AATTGCCTGC
* * *
1027112 ATGTATTGATACATTGAAGAATGTATCAATACATTT-GGTCAAAAA-CTCAGA
1 ATGTA-TGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCT-AGA
* *
1027163 ATGTATCGATGCAATGAATAATGTATCGATACATTTAGGTCAAAAACCTAGA
1 ATGTAT-GATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCTAGA
*
1027215 ATGTAATGATACAATAAAAAATGTATCGATACATTT
1 ATGT-ATGATACAATGAAAAATGTATCGATACATTT
1027251 TCTTTCTAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
50 1 0.01
51 30 0.39
52 42 0.55
53 4 0.05
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (51 bp):
ATGTATGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCTAGA
Found at i:1028041 original size:30 final size:31
Alignment explanation
Indices: 1027970--1028063 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 31
1027960 TATGAGCTTT
* *
1027970 AAAAGGT--GCCACTAACTCATGGTCTTT-A
1 AAAAGGTACGCCACTAACTTATGGGCTTTGA
*
1027998 AAAAGGTATGCCACTAACTTATGGGCTTTGA
1 AAAAGGTACGCCACTAACTTATGGGCTTTGA
* * *
1028029 AAGAGG-ACGCCACTGACTTCTGGGCTTTGA
1 AAAAGGTACGCCACTAACTTATGGGCTTTGA
*
1028059 GAAAG
1 AAAAG
1028064 TGTCACTAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 7 0.13
30 42 0.76
31 6 0.11
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (31 bp):
AAAAGGTACGCCACTAACTTATGGGCTTTGA
Found at i:1028102 original size:15 final size:15
Alignment explanation
Indices: 1028082--1028111 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1028072 ACTTATAAAC
1028082 TTTAAAAAGGTGCCA
1 TTTAAAAAGGTGCCA
1028097 TTTAAAAAGGTGCCA
1 TTTAAAAAGGTGCCA
1028112 CTAACTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
TTTAAAAAGGTGCCA
Found at i:1028153 original size:71 final size:71
Alignment explanation
Indices: 1028037--1028200 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
1028027 GAAAGAGGAC
* *
1028037 GCCACTGACTTCTGGGCTTTGAGAAAGTGTCACTAACTTATAAACTTTAAAAAGGTGCCATTTAA
1 GCCACTAACTTGTGGGCTTTGAGAAAGTGTCACTAACTTATAAACTTTAAAAAGGTGCCATTTAA
1028102 AAAGGT
66 AAAGGT
1028108 GCCACTAACTTGTGGGCTTTGAGAAAGTGTCACTAACTTATAAACTTTAAAAAGGTGCCATTTAA
1 GCCACTAACTTGTGGGCTTTGAGAAAGTGTCACTAACTTATAAACTTTAAAAAGGTGCCATTTAA
1028173 AAAGGT
66 AAAGGT
1028179 GCCACTAACTTGTGGGCTTTGA
1 GCCACTAACTTGTGGGCTTTGA
1028201 AAGGGGATGT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (71 bp):
GCCACTAACTTGTGGGCTTTGAGAAAGTGTCACTAACTTATAAACTTTAAAAAGGTGCCATTTAA
AAAGGT
Found at i:1028173 original size:15 final size:15
Alignment explanation
Indices: 1028153--1028182 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1028143 ACTTATAAAC
1028153 TTTAAAAAGGTGCCA
1 TTTAAAAAGGTGCCA
1028168 TTTAAAAAGGTGCCA
1 TTTAAAAAGGTGCCA
1028183 CTAACTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
TTTAAAAAGGTGCCA
Found at i:1028220 original size:30 final size:30
Alignment explanation
Indices: 1028186--1028629 Score: 362
Period size: 30 Copynumber: 14.8 Consensus size: 30
1028176 GGTGCCACTA
* *
1028186 ACTTGTGGGCTTTGAAAGGGGATGTCATTG
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
*
1028216 ACTTGTGGGCTTTG-AAAGAGAATGCCATTG
1 ACTTGTGGGCTTTGAAAAG-GGATGCCATTG
* * *
1028246 ACTTGTGGACTTTGAAAGGGGATGCCATCG
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
* * *
1028276 ACTTGTAGGCTTTGAAAGGGGATGCCATCG
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
* * *
1028306 ACTTGTAGGCTTTGAAAGGGGATGCCATCG
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
* *
1028336 ACTTGTAGGCTTTGAAAAGGGATGCCATCG
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
*
1028366 ACTTGTGAGCTTT-AAGAA--GATGCCATTG
1 ACTTGTGGGCTTTGAA-AAGGGATGCCATTG
* * * *
1028394 ACTTGTGGGCTTTTAAAAAAGGATGCCACTA
1 ACTTGTGGGC-TTTGAAAAGGGATGCCATTG
* * * * ** *
1028425 ACTTATGGGCATTGAAAAAGAATATCACTG
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
* * *
1028455 ACTTATGGGCTTTGAAAAAGGG-TGCCACTA
1 ACTTGTGGGCTTTG-AAAAGGGATGCCATTG
* * * * * *
1028485 ACTTGTTGGTTTTGAAAGGGGTTGTCATCG
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
* * *
1028515 ACTTGTGTGGGCATTG-AAAGGGTTGCCACTG
1 AC-T-TGTGGGCTTTGAAAAGGGATGCCATTG
* * ** *
1028546 ACTTGTAGACTTTGAAAAATGATGTCACTT-
1 ACTTGTGGGCTTTGAAAAGGGATGCCA-TTG
* * *
1028576 ACTTGTGGGCTTTGAAAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAAGGGATGCCATTG
1028606 ACTTGTGGGCTTTGAAAAGGGATG
1 ACTTGTGGGCTTTGAAAAGGGATG
1028630 AGACGTGTCC
Statistics
Matches: 342, Mismatches: 58, Indels: 28
0.80 0.14 0.07
Matches are distributed among these distances:
28 18 0.05
29 25 0.07
30 251 0.73
31 40 0.12
32 8 0.02
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (30 bp):
ACTTGTGGGCTTTGAAAAGGGATGCCATTG
Found at i:1029873 original size:32 final size:30
Alignment explanation
Indices: 1029831--1029912 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 30
1029821 AGACCCATTT
* *
1029831 TTTTTGTTTTTGTTTTTGATTGATTTTGAC
1 TTTTTGTTTTTTTTTTTGATTGATTTTAAC
*
1029861 ATTTTTGTTTTTTATTTTTTTATTGATTTTAAC
1 -TTTTTG-TTTTT-TTTTTTGATTGATTTTAAC
1029894 TTTTTGGTATTTTTTTTTT
1 TTTTT-GT-TTTTTTTTTT
1029913 ATATATAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 6 0.14
32 17 0.39
33 21 0.48
ACGTcount: A:0.12, C:0.02, G:0.11, T:0.74
Consensus pattern (30 bp):
TTTTTGTTTTTTTTTTTGATTGATTTTAAC
Found at i:1039057 original size:26 final size:26
Alignment explanation
Indices: 1039028--1039079 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1039018 AAAATGAACA
1039028 TAATTAAATAATAACCGAAACTGACG
1 TAATTAAATAATAACCGAAACTGACG
1039054 TAATTAAATAATAACCGAAACTGACG
1 TAATTAAATAATAACCGAAACTGACG
1039080 AAACCAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (26 bp):
TAATTAAATAATAACCGAAACTGACG
Found at i:1040198 original size:97 final size:97
Alignment explanation
Indices: 1040065--1040309 Score: 312
Period size: 97 Copynumber: 2.5 Consensus size: 97
1040055 AGCGGGGCTA
* * *** * * *
1040065 GAGTATCCCTTCGAAGGAATAGGGTTTAAGTGTCCCCGATGATGATAATTTAGGTAAAAATAAGA
1 GAGTATCCCCTCGAAAGAATAGGGTAGGAGTATCCCCGATGATGACAATTTAGGCAAAAATAAGA
1040130 TTTAAATCGTGACAAGTTTAAAAACGGGGTTG
66 TTTAAATCGTGACAAGTTTAAAAACGGGGTTG
* *
1040162 GAGTATCCCCTCGAAAGAAT-GGGATAGGAGTCTCCCCAATGATGACAATTTAGGCAAAAATAAG
1 GAGTATCCCCTCGAAAGAATAGGG-TAGGAGTATCCCCGATGATGACAATTTAGGCAAAAATAAG
* *
1040226 ATTTAAATCTTGACAAGTTTAAAAATGGGGTTG
65 ATTTAAATCGTGACAAGTTTAAAAACGGGGTTG
* * * * **
1040259 GAGTATTCCTTCGGAAGAATAGGGTTGGAGTATCCATGATGATGACAATTT
1 GAGTATCCCCTCGAAAGAATAGGGTAGGAGTATCCCCGATGATGACAATTT
1040310 TGATAATTTT
Statistics
Matches: 127, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
96 3 0.02
97 121 0.95
98 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (97 bp):
GAGTATCCCCTCGAAAGAATAGGGTAGGAGTATCCCCGATGATGACAATTTAGGCAAAAATAAGA
TTTAAATCGTGACAAGTTTAAAAACGGGGTTG
Found at i:1042700 original size:52 final size:52
Alignment explanation
Indices: 1042592--1042725 Score: 146
Period size: 52 Copynumber: 2.6 Consensus size: 52
1042582 CTGCATGCAT
* * * * * *
1042592 CGATACATTGAAGAATGTATCGATACATTTGGGTCAAAACCCTAGAATGTAG
1 CGATACAATGAAAAATGTATCGATACATTTAGGCCAAAACCCTAGAAAGTAA
* * *
1042644 CGATACAATGAATAATATATCAATACATTTAGGCCAAATACCC-A-AACAGTAA
1 CGATACAATGAAAAATGTATCGATACATTTAGGCCAAA-ACCCTAGAA-AGTAA
*
1042696 CGATACAATGAAAAATGTATTGATACATTT
1 CGATACAATGAAAAATGTATCGATACATTT
1042726 TCTTTCTAGA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
51 2 0.03
52 62 0.91
53 4 0.06
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (52 bp):
CGATACAATGAAAAATGTATCGATACATTTAGGCCAAAACCCTAGAAAGTAA
Found at i:1043131 original size:10 final size:11
Alignment explanation
Indices: 1043116--1043159 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
1043106 CTTGATGTTT
1043116 TCTTTTTT-TC
1 TCTTTTTTCTC
*
1043126 TCTTTTTTCTT
1 TCTTTTTTCTC
*
1043137 TTTTTTTTCTC
1 TCTTTTTTCTC
1043148 TCTTTTTT-TC
1 TCTTTTTTCTC
1043158 TC
1 TC
1043160 ACTTGCCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 12 0.41
11 17 0.59
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:1043133 original size:9 final size:8
Alignment explanation
Indices: 1043113--1043158 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
1043103 TGCCTTGATG
1043113 TTTTCTTT
1 TTTTCTTT
1043121 TTTTCTCTT
1 TTTTCT-TT
1043130 TTTTCTTT
1 TTTTCTTT
1043138 TTTT-TTT
1 TTTTCTTT
* *
1043145 CTCTCTTT
1 TTTTCTTT
1043153 TTTTCT
1 TTTTCT
1043159 CACTTGCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 5 0.16
8 19 0.59
9 8 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1043133 original size:12 final size:12
Alignment explanation
Indices: 1043118--1043159 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1043108 TGATGTTTTC
1043118 TTTTTT-TCTC-
1 TTTTTTCTCTCT
*
1043128 TTTTTTCT-TTT
1 TTTTTTCTCTCT
1043139 TTTTTTCTCTCT
1 TTTTTTCTCTCT
1043151 TTTTTTCTC
1 TTTTTTCTC
1043160 ACTTGCCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.26
11 9 0.33
12 11 0.41
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:1043143 original size:22 final size:22
Alignment explanation
Indices: 1043113--1043155 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1043103 TGCCTTGATG
*
1043113 TTTTCTTTTTTTCTCTTTTTTC
1 TTTTCTTTTTCTCTCTTTTTTC
*
1043135 TTTTTTTTTTCTCTCTTTTTT
1 TTTTCTTTTTCTCTCTTTTTT
1043156 TCTCACTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTCTTTTTCTCTCTTTTTTC
Found at i:1047407 original size:9 final size:9
Alignment explanation
Indices: 1047393--1047435 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
1047383 AATCTAGGTA
1047393 TTTTTTCTT
1 TTTTTTCTT
1047402 TTTTTTCGTT
1 TTTTTTC-TT
*
1047412 TTTTCTCTT
1 TTTTTTCTT
1047421 TTTTTCTCTCT
1 TTTTT-TCT-T
1047432 TTTT
1 TTTT
1047436 CCTTAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 13 0.45
10 11 0.38
11 5 0.17
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:1047415 original size:17 final size:18
Alignment explanation
Indices: 1047393--1047426 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1047383 AATCTAGGTA
1047393 TTTTTTCT-TTTTTTTCG
1 TTTTTTCTCTTTTTTTCG
1047410 TTTTTTCTCTTTTTTTC
1 TTTTTTCTCTTTTTTTC
1047427 TCTCTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTTCTCTTTTTTTCG
Found at i:1047426 original size:10 final size:10
Alignment explanation
Indices: 1047393--1047436 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
1047383 AATCTAGGTA
1047393 TTTTT-TCTT
1 TTTTTCTCTT
*
1047402 TTTTT-TCGT
1 TTTTTCTCTT
1047411 TTTTTCTCTT
1 TTTTTCTCTT
*
1047421 TTTTTCTCTC
1 TTTTTCTCTT
1047431 TTTTTC
1 TTTTTC
1047437 CTTAAGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
9 13 0.42
10 18 0.58
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:1052894 original size:20 final size:20
Alignment explanation
Indices: 1052869--1052945 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1052859 GTAAAAAGAC
*
1052869 AGAATGTATCGATACAATGA
1 AGAATGTATCGATACATTGA
* *
1052889 AGAATGTATCAATACATTCA
1 AGAATGTATCGATACATTGA
*
1052909 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1052929 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1052946 CAGGGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1057130 original size:42 final size:42
Alignment explanation
Indices: 1057083--1057164 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
1057073 GAAGAAAATG
1057083 TCCCGAAATATGAAAATTTGCCTGCATGTATCGATACATTAT
1 TCCCGAAATATGAAAATTTGCCTGCATGTATCGATACATTAT
1057125 TCCCGAAATATGAAAATTTGCCTGCATGTATCGATACATT
1 TCCCGAAATATGAAAATTTGCCTGCATGTATCGATACATT
1057165 GAATAATGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (42 bp):
TCCCGAAATATGAAAATTTGCCTGCATGTATCGATACATTAT
Found at i:1057175 original size:20 final size:20
Alignment explanation
Indices: 1057150--1057247 Score: 94
Period size: 20 Copynumber: 4.8 Consensus size: 20
1057140 ATTTGCCTGC
1057150 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
1057170 ATGTATCGATACATCTGGGTAA-A
1 ATGTATCGATACAT-T--G-AATA
* * *
1057193 AT-TTTCAGAT-TATCGATATA
1 ATGTATC-GATACATTGA-ATA
1057213 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
1057233 ATGTATCGATACATT
1 ATGTATCGATACATT
1057248 TCCTTGGCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 38 0.60
21 8 0.13
22 5 0.08
23 7 0.11
24 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:1057384 original size:49 final size:49
Alignment explanation
Indices: 1057312--1057422 Score: 204
Period size: 49 Copynumber: 2.3 Consensus size: 49
1057302 CATTTACTAT
*
1057312 TTGTATCGATACAAATTGTTGAAATTCAAAATGTTTGCCCGTTGGGACC
1 TTGTATCGATACAAATTGTTGAAATTCAAAATGTTTGACCGTTGGGACC
*
1057361 TTGTATCGATACAAATTGTTGAAATTCAAAATGTTTGACTGTTGGGACC
1 TTGTATCGATACAAATTGTTGAAATTCAAAATGTTTGACCGTTGGGACC
1057410 TTGTATCGATACA
1 TTGTATCGATACA
1057423 TTCTAGAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (49 bp):
TTGTATCGATACAAATTGTTGAAATTCAAAATGTTTGACCGTTGGGACC
Found at i:1058760 original size:16 final size:16
Alignment explanation
Indices: 1058739--1058770 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1058729 AATGAATTAG
1058739 CATTAGAATTTAATAC
1 CATTAGAATTTAATAC
1058755 CATTAGAATTTAATAC
1 CATTAGAATTTAATAC
1058771 TATGAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
CATTAGAATTTAATAC
Found at i:1065046 original size:15 final size:16
Alignment explanation
Indices: 1065007--1065041 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1064997 TTGAGCTAAC
1065007 AAAAGGTAATATGATA
1 AAAAGGTAATATGATA
1065023 AAAAGGTAATATGATA
1 AAAAGGTAATATGATA
1065039 AAA
1 AAA
1065042 TGTAAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (16 bp):
AAAAGGTAATATGATA
Found at i:1066177 original size:22 final size:21
Alignment explanation
Indices: 1066151--1066230 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 21
1066141 GTTAAAAATA
1066151 TAAAAAATTAAAATTATACTTT
1 TAAAAAATTAAAATTATA-TTT
* *
1066173 CAAAAAATTAATATCTA-ATTTT
1 TAAAAAATTAAAAT-TATA-TTT
*
1066195 TATCAAAATTAAAAATTAT-TTT
1 TA-AAAAATT-AAAATTATATTT
1066217 TAAAAAATTAAAAT
1 TAAAAAATTAAAAT
1066231 ATTGAACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 5 0.11
21 6 0.13
22 22 0.47
23 10 0.21
24 4 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAATTAAAATTATATTT
Found at i:1066476 original size:21 final size:19
Alignment explanation
Indices: 1066440--1066491 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1066430 TAGTAAATTA
1066440 TTTTAATCTTTTAAACATATT
1 TTTTAAT-TTTTAAAC-TATT
1066461 TTTTAATTTTTAAAACTATT
1 TTTTAATTTTT-AAACTATT
**
1066481 TACTAATTTTT
1 TTTTAATTTTT
1066492 TCTTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAATTTTTAAACTATT
Found at i:1067099 original size:13 final size:14
Alignment explanation
Indices: 1067083--1067111 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1067073 AAAAAAGAAA
1067083 AAAAATAT-TTTTT
1 AAAAATATATTTTT
1067096 AAAAATATATTTTT
1 AAAAATATATTTTT
1067110 AA
1 AA
1067112 TAACACATGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAAATATATTTTT
Found at i:1069976 original size:6 final size:6
Alignment explanation
Indices: 1069960--1069993 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1069950 TACGTTTAAA
1069960 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1069994 AATTATTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:1070124 original size:15 final size:16
Alignment explanation
Indices: 1070092--1070163 Score: 57
Period size: 15 Copynumber: 4.8 Consensus size: 16
1070082 ATCAATTTAG
1070092 ATTTAAATTATTTAAA
1 ATTTAAATTATTTAAA
1070108 ATTTAAA-T-TTTATAA
1 ATTTAAATTATTTA-AA
* * *
1070123 ATTT-AGTTA--TGAC
1 ATTTAAATTATTTAAA
1070136 ATTTAAATTATTT-AA
1 ATTTAAATTATTTAAA
*
1070151 ATTTAAAGTATTT
1 ATTTAAATTATTT
1070164 TAAAGTTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
13 5 0.11
14 10 0.23
15 21 0.48
16 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (16 bp):
ATTTAAATTATTTAAA
Found at i:1071233 original size:18 final size:18
Alignment explanation
Indices: 1071210--1071244 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1071200 GAATAGATTA
1071210 ATTTATAATTTTATTTTG
1 ATTTATAATTTTATTTTG
1071228 ATTTATAATTTTATTTT
1 ATTTATAATTTTATTTT
1071245 TATAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTATAATTTTATTTTG
Found at i:1076550 original size:4 final size:4
Alignment explanation
Indices: 1076541--1076574 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
1076531 CTTAATGCAA
1076541 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1076575 GGGTTTGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1077463 original size:52 final size:52
Alignment explanation
Indices: 1077402--1077510 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
1077392 ACCAGTTTCA
1077402 ATTGAGAATAAAAAGCAATTAAATATTTAAAAAGGCATTGAAACTGGTAAAT
1 ATTGAGAATAAAAAGCAATTAAATATTTAAAAAGGCATTGAAACTGGTAAAT
* * * * *
1077454 ATTGAGAATAAAAAGTAATTAGATGTTTGAGAAGGCATTGAAACTGGTAAAT
1 ATTGAGAATAAAAAGCAATTAAATATTTAAAAAGGCATTGAAACTGGTAAAT
1077506 ATTGA
1 ATTGA
1077511 ATGCGAAGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.28
Consensus pattern (52 bp):
ATTGAGAATAAAAAGCAATTAAATATTTAAAAAGGCATTGAAACTGGTAAAT
Found at i:1077547 original size:50 final size:51
Alignment explanation
Indices: 1077406--1077558 Score: 152
Period size: 50 Copynumber: 3.0 Consensus size: 51
1077396 GTTTCAATTG
* * *
1077406 AGAATAAAAAGCAATTA-AA-TATTTAAAAAGGCATTGAAACTGGTAAATATT
1 AGAATAAAAAGCAATTAGAAGT-TTGAGAAA-GAATTGAAACTGGTAAATATT
* * * *
1077457 GAGAATAAAAAGTAATTAGATGTTTGAGAAGGCATTGAAACTGGTAAATATT
1 -AGAATAAAAAGCAATTAGAAGTTTGAGAAAGAATTGAAACTGGTAAATATT
***
1077509 -GAATGCGAAGCAATTAGAAGTTT-AGGAAAGAATTGAAACTGGTAAATATT
1 AGAATAAAAAGCAATTAGAAGTTTGA-GAAAGAATTGAAACTGGTAAATATT
1077559 TAATATTTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 41 0.48
52 37 0.43
53 6 0.07
54 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (51 bp):
AGAATAAAAAGCAATTAGAAGTTTGAGAAAGAATTGAAACTGGTAAATATT
Found at i:1078626 original size:40 final size:40
Alignment explanation
Indices: 1078581--1078656 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
1078571 TAAAATGCCT
1078581 AAAAAA-ATTCACATTTTACCAAAATAAAATCCAAAAGTTC
1 AAAAAACATT-ACATTTTACCAAAATAAAATCCAAAAGTTC
* * * *
1078621 AAAAAACCTTTCATTTTACTAAAATAAAGTCCAAAA
1 AAAAAACATTACATTTTACCAAAATAAAATCCAAAA
1078657 ACCCAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (40 bp):
AAAAAACATTACATTTTACCAAAATAAAATCCAAAAGTTC
Found at i:1083607 original size:49 final size:49
Alignment explanation
Indices: 1083550--1083721 Score: 292
Period size: 49 Copynumber: 3.5 Consensus size: 49
1083540 CCAATGTACA
* *
1083550 ATTCAAGGCTAGCGACATTGGGCTAAGGGAAAAGTGGACCGATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
*
1083599 ATTCAAGGCCAGCGACATTGGGCTAA-GGAAAAGTGGACCAATATGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
* *
1083647 ATTCAAGGCCAACGGCATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
1083696 ATTCAAGGCCAGCGACATTGGGCTAA
1 ATTCAAGGCCAGCGACATTGGGCTAA
1083722 TAAAGGTGCC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 44 0.39
49 70 0.61
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (49 bp):
ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
Found at i:1083648 original size:48 final size:49
Alignment explanation
Indices: 1083550--1083751 Score: 288
Period size: 49 Copynumber: 4.2 Consensus size: 49
1083540 CCAATGTACA
* * *
1083550 ATTCAAGGCTAGCGACATTGGGCTAAGGGAAAAGTGGACCGATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
1083599 ATTCAAGGCCAGCGACATTGGGCTAA-GGAAAAGTGGACCAATATGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
* * *
1083647 ATTCAAGGCCAACGGCATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
* *
1083696 ATTCAAGGCCAGCGACATTGGGCTAA--TAAAGGT-G-CCAATATGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
*
1083741 ATTCAATGCCA
1 ATTCAAGGCCA
1083752 ACGATGTCAG
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
45 20 0.14
46 1 0.01
47 5 0.04
48 44 0.31
49 70 0.50
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (49 bp):
ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATATGCTG
Found at i:1083673 original size:97 final size:94
Alignment explanation
Indices: 1083550--1083755 Score: 322
Period size: 97 Copynumber: 2.2 Consensus size: 94
1083540 CCAATGTACA
* * *
1083550 ATTCAAGGCTAGCGACATTGGGCTAAGGGAAAAGTGGACCGATGTGCTGATTCAAGGCCAGCGAC
1 ATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTGATTCAAGGCCAGCGAC
1083615 ATTGGGCTAAGGAAAAGTGGACCAATATGCTG
66 ATTGGGCTAA-GAAAAGT-G-CCAATATGCTG
*
1083647 ATTCAAGGCCAACGGCATTGGGCTAAGGGAAAAGTGGACCAATGTGCTGATTCAAGGCCAGCGAC
1 ATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTGATTCAAGGCCAGCGAC
* *
1083712 ATTGGGCTAATAAAGGTGCCAATATGCTG
66 ATTGGGCTAAGAAAAGTGCCAATATGCTG
*
1083741 ATTCAATGCCAACGA
1 ATTCAAGGCCAACGA
1083756 TGTCAGACAG
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
94 24 0.24
95 1 0.01
96 5 0.05
97 71 0.70
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.20
Consensus pattern (94 bp):
ATTCAAGGCCAACGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTGATTCAAGGCCAGCGAC
ATTGGGCTAAGAAAAGTGCCAATATGCTG
Found at i:1083847 original size:28 final size:28
Alignment explanation
Indices: 1083786--1084896 Score: 1051
Period size: 28 Copynumber: 37.9 Consensus size: 28
1083776 AAAAGGGTTA
* * *
1083786 CCACTGACTTGCGTGAGCTTTTAAAGGGTG
1 CCACTGACTT--GTGGGCTTTGAAAGGATG
* *
1083816 CCACTGACTTGTAGGTTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
1083844 CCACTGACTTATAGGCTTTGAAAAGAATG
1 CCACTGACTTGTGGGCTTTG-AAAGGATG
*
1083873 CCACTGACTTGTGGGCTTTGAAAAGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
1083901 CCACTGACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
1083929 CCACTGACTTGTGGGCTTCGAAAAGAGTTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GATG
* *
1083959 CCA-TCGACTCGTAGGCTTTGAAAGGATG
1 CCACT-GACTTGTGGGCTTTGAAAGGATG
*
1083987 CCACTGACTTGTGGGCTTTGAAAAGAGTTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GATG
** * *
1084017 CCACCAACTCGTGTGGACTTTGAAAAGAGTG
1 CCACTGACT--TGTGGGCTTTGAAAGGA-TG
*
1084048 CCACTGACTTGTGGGCTTTGAAAATG-TG
1 CCACTGACTTGTGGGCTTTG-AAAGGATG
*
1084076 CCACTGACTTGTGGGCTTTGAGAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
1084104 CTACTGACTTATGGGCTTTGAAAATAGTTG
1 CCACTGACTTGTGGGCTTTG-AAA-GGATG
* *
1084134 CCACCGACTCGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
1084162 CCACTGACTTGTGGGCTTTGAAAAGAGTTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GATG
*
1084192 CCACTGACTCGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
1084220 CCACTGACTTGTGGGCTTTGAAATGGGTTG
1 CCACTGACTTGTGGGCTTTGAAA--GGATG
*
1084250 CCACTGACTTGTGTGGGCTTTGAAATGGGTTG
1 CCACTGAC-T-TGTGGGCTTTGAAA--GGATG
** * *
1084282 CCACCAACTTGTGTGGGCTTTAAAATGATG
1 CCACTGAC-T-TGTGGGCTTTGAAAGGATG
**
1084312 CCACTGACTTGTGGGCTTTGAAATAATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
1084340 CCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
1084368 CCACTCACTTGTGGGCTTTGAAAGAATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
1084396 CCACTGACTTGTGGACTTTGAAAAGAGTTA
1 CCACTGACTTGTGGGCTTTG-AAAG-GATG
*
1084426 CCACTGACTCGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
1084454 CCACTGACTTGTGGGCTTTGAAAAGAGTTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GATG
*
1084484 CCACTGACTCGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
1084512 CCACTAACTTGTGGGCTTTAAAATGGGTTG
1 CCACTGACTTGTGGGCTTTGAAA--GGATG
* *
1084542 CCA-TCGACTTGTGTGGGCTTTGAAATGGGTTA
1 CCACT-GAC-T-TGTGGGCTTTGAAA--GGATG
** *
1084574 CCACCAACTTGTGTGGGCTTTGAAATGGGTTG
1 CCACTGAC-T-TGTGGGCTTTGAAA--GGATG
* * * *
1084606 CCA-TCAACTTGTGTGGGCTTTCAAATAAGTTG
1 CCACT-GAC-T-TGTGGGCTTT-GAA-AGGATG
* *
1084638 CCACCGACTTGTATGGGCTTTGAAATGGGTTG
1 CCACTGACTTG--TGGGCTTTGAAA--GGATG
** *
1084670 CCACCAACTTGTGTGGGCTTTCAAAGGAGTTG
1 CCACTGAC-T-TGTGGGCTTTGAAAGGA--TG
*
1084702 CCACCGACTTGTGTGGGCTTTGAAAGGATG
1 CCACTGAC-T-TGTGGGCTTTGAAAGGATG
* *
1084732 CCACTGACTTGTGGACTTTGAAATGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
1084760 CCACTGACTTGTGGACTTTGAAATGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
1084788 CCACTGACTTGTGGGCTTTGAAAAGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
1084816 CCACTGACTTGTGGGCTTTAAAATGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
1084844 CCACTGACTTGTGGGCTTTAAAATGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
1084872 CCACTGACTTGTGGGCTTTAAAAGG
1 CCACTGACTTGTGGGCTTTGAAAGG
1084897 GTGCTGCCAC
Statistics
Matches: 930, Mismatches: 109, Indels: 86
0.83 0.10 0.08
Matches are distributed among these distances:
27 3 0.00
28 468 0.50
29 81 0.09
30 169 0.18
31 17 0.02
32 186 0.20
33 3 0.00
34 3 0.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAGGATG
Found at i:1083989 original size:58 final size:58
Alignment explanation
Indices: 1083772--1084895 Score: 1160
Period size: 58 Copynumber: 19.2 Consensus size: 58
1083762 ACAGTAGTGA
* * * * * * *
1083772 TTTGAAAAGGGTTACCACTGACTTGCGTGAGCTTTTAAAGGGTGCCACTGACTTGTAGGT
1 TTTGAAAAGAGTTGCCACTGACTT--GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * *
1083832 TTTG-AAAG-GATGCCACTGACTTATAGGCTTTGAAAAGAATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGC
1083889 TTTGAAAAGA--TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
1083945 TTCGAAAAGAGTTGCCA-TCGACTCGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACT-GACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
** * *
1084003 TTTGAAAAGAGTTGCCACCAACTCGTGTGGACTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACT--TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC
* * * *
1084064 TTTGAAAA-TG-TGCCACTGACTTGTGGGCTTTGAGAGGATGCTACTGACTTATGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * *
1084120 TTTGAAAATAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
*
1084178 TTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * **
1084236 TTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGC
**
1084300 TTT-AAAATGA--TGCCACTGACTTGTGGGCTTTGAAATAATGCCACTGACTTGTGGGC
1 TTTGAAAA-GAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * *
1084356 TTTG-AAAG-GGTGCCACTCACTTGTGGGCTTTGAAAGAATGCCACTGACTTGTGGAC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
1084412 TTTGAAAAGAGTTACCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
1084470 TTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * **
1084528 TTT-AAAATGGGTTGCCA-TCGACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTGTGGG
1 TTTGAAAA-GAGTTGCCACT-GAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGG
1084591 C
58 C
* * * * * * *
1084592 TTTGAAATGGGTTGCCA-TCAACTTGTGTGGGCTTTCAAATAAGTTGCCACCGACTTGTATGGGC
1 TTTGAAAAGAGTTGCCACT-GAC-T-TGTGGGCTTT-GAA-AGGATGCCACTGACTTG--TGGGC
* * ** * *
1084656 TTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAAGGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACTGAC-T-TGTGGGCTTTGAAAGGA--TGCCACTGAC-T-TGTGGGC
* * * *
1084720 TTTG-AAAG-GATGCCACTGACTTGTGGACTTTGAAATGATGCCACTGACTTGTGGAC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
1084776 TTTGAAATGA--TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* *
1084832 TTT-AAAATGA--TGCCACTGACTTGTGGGCTTTAAAATGATGCCACTGACTTGTGGGC
1 TTTGAAAA-GAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1084888 TTT-AAAAG
1 TTTGAAAAG
1084896 GGTGCTGCCA
Statistics
Matches: 925, Mismatches: 94, Indels: 95
0.83 0.08 0.09
Matches are distributed among these distances:
55 5 0.01
56 231 0.25
57 74 0.08
58 323 0.35
59 15 0.02
60 72 0.08
61 28 0.03
62 43 0.05
63 11 0.01
64 114 0.12
65 6 0.01
66 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (58 bp):
TTTGAAAAGAGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
Found at i:1084404 original size:292 final size:289
Alignment explanation
Indices: 1083814--1084868 Score: 1226
Period size: 292 Copynumber: 3.6 Consensus size: 289
1083804 TTTTAAAGGG
* * * * ** * *
1083814 TGCCACTGACTTGTAGGTTTTG-AAAGGATGCCACTGACTTATAGGCTTTGAAAAGAATGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAAGTTGCCACTGACTCGTGGGCTTTG-AAAGGATGCCACT
*
1083878 GACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
65 GACTTGTGGGCTTTGAAAAGATGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
* * * * * **
1083943 GCTTCGAAAA-GAGTTGCCATCGACTCGTAGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGC
130 GCTT-TAAAATGGGTTGCCATCGACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGC
* *
1084003 TTTGAAAA-GAGTTGCCACCAACTCGTGTGGACTTTGAAA-AGAGTGCCACTGACTTGTGGGCTT
194 TTT-AAAATGA--TGCCACTAACT-GTGTGGGCTTTGAAATA-AGTGCCACTGACTTGTGGGCTT
** * * *
1084066 TGAAAATGTGCCACTGACTTGTGGGCTTTGAGAGGA
254 TGAAAGGGTGCCACTCACTTGTGGGCTTTGAAAGAA
* * *
1084102 TGCTACTGACTTATGGGCTTTGAAAATAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAA-AGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACT
1084167 GACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGT
65 GACTTGTGGGCTTTGAAAAGA--TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGT
*
1084232 GGGCTTTGAAATGGGTTGCCA-CTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGT
128 GGGCTTTAAAATGGGTTGCCATC-GAC-T-TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGT
*
1084296 GGGCTTTAAAATGATGCCACTGACT-TGTGGGCTTTGAAATAA-TGCCACTGACTTGTGGGCTTT
190 GGGCTTTAAAATGATGCCACTAACTGTGTGGGCTTTGAAATAAGTGCCACTGACTTGTGGGCTTT
1084359 GAAAGGGTGCCACTCACTTGTGGGCTTTGAAAGAA
255 GAAAGGGTGCCACTCACTTGTGGGCTTTGAAAGAA
* *
1084394 TGCCACTGACTTGTGGACTTTGAAAAGAGTTACCACTGACTCGTGGGCTTTGAAAGGATGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAA-AGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACT
*
1084459 GACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGT
65 GACTTGTGGGCTTTGAAAAGA--TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGT
*
1084524 GGGCTTTAAAATGGGTTGCCATCGACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTGTG
128 GGGCTTTAAAATGGGTTGCCATCGAC-T-TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTG
* * * *
1084589 GGCTTTGAAATGGGTTGCCA-TCAACTTGTGTGGGCTTTCAAATAAGTTGCCACCGACTTGTATG
191 GGCTTTAAAAT--GATGCCACT-AAC-TGTGTGGGCTTTGAAATAAG-TGCCACTGACTTG--TG
* *
1084653 GGCTTTGAAATGGGTTGCCAC-CAACTTGTGTGGGCTTTCAAAGGAGT
249 GGCTTTGAAA-GGG-TGCCACTC-AC-T-TGTGGGCTTTGAAA-GA-A
* * * * * *
1084700 TGCCACCGACTTGTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGACTTTGAAATGATGCCAC
1 TGCCACTGAC-T-TGTGGGCTTTGAAAAAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCAC
* * * *
1084764 TGACTTGTGGACTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTG
64 TGACTTGTGGGCTTTGAAAAGATGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTG
* *
1084829 GGCTTTAAAAT--GATGCCA-CTGACTTGTGGGCTTTAAAATG
129 GGCTTTAAAATGGGTTGCCATC-GACTTGTGGGCTTTGAAATG
1084869 ATGCCACTGA
Statistics
Matches: 674, Mismatches: 59, Indels: 56
0.85 0.07 0.07
Matches are distributed among these distances:
288 18 0.03
289 36 0.05
290 23 0.03
291 58 0.09
292 246 0.36
293 28 0.04
294 9 0.01
295 20 0.03
296 21 0.03
297 12 0.02
298 12 0.02
300 27 0.04
301 6 0.01
302 17 0.03
303 1 0.00
304 64 0.09
305 2 0.00
306 60 0.09
307 4 0.01
308 10 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (289 bp):
TGCCACTGACTTGTGGGCTTTGAAAAAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTG
ACTTGTGGGCTTTGAAAAGATGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGG
CTTTAAAATGGGTTGCCATCGACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTT
TAAAATGATGCCACTAACTGTGTGGGCTTTGAAATAAGTGCCACTGACTTGTGGGCTTTGAAAGG
GTGCCACTCACTTGTGGGCTTTGAAAGAA
Found at i:1084638 original size:96 final size:94
Alignment explanation
Indices: 1084494--1084722 Score: 311
Period size: 96 Copynumber: 2.4 Consensus size: 94
1084484 CCACTGACTC
* ** * *
1084494 GTGGGCTTTGAAA-GGATGCCACTAAC-T-TGTGGGCTTTAAAATGGGTTGCCATCGACTTGTGT
1 GTGGGCTTTGAAAGGGTTGCCAC-AACTTGTGTGGGCTTTAAAATAAGTTGCCACCGACTTGTAT
1084556 GGGCTTTGAAATGGGTTACCACCAACTTGT
65 GGGCTTTGAAATGGGTTACCACCAACTTGT
*
1084586 GTGGGCTTTGAAATGGGTTGCCATCAACTTGTGTGGGCTTTCAAATAAGTTGCCACCGACTTGTA
1 GTGGGCTTTGAAA-GGGTTGCCA-CAACTTGTGTGGGCTTTAAAATAAGTTGCCACCGACTTGTA
*
1084651 TGGGCTTTGAAATGGGTTGCCACCAACTTGT
64 TGGGCTTTGAAATGGGTTACCACCAACTTGT
* *
1084682 GTGGGCTTTCAAAGGAGTTGCCACCGACTTGTGTGGGCTTT
1 GTGGGCTTTGAAAGG-GTTGCCA-CAACTTGTGTGGGCTTT
1084723 GAAAGGATGC
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
92 13 0.11
94 10 0.08
95 4 0.03
96 94 0.78
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (94 bp):
GTGGGCTTTGAAAGGGTTGCCACAACTTGTGTGGGCTTTAAAATAAGTTGCCACCGACTTGTATG
GGCTTTGAAATGGGTTACCACCAACTTGT
Found at i:1084987 original size:28 final size:28
Alignment explanation
Indices: 1084713--1085065 Score: 282
Period size: 28 Copynumber: 12.6 Consensus size: 28
1084703 CACCGACTTG
* * * * *
1084713 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* * * *
1084741 TGTGGACTTTGAAATGATGCCACTGACT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* * * *
1084769 TGTGGACTTTGAAATGATGCCACTGACT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* * * *
1084797 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* * * *
1084825 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* * * *
1084853 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* * * *
1084881 TGTGGGCTTTAAAAGGGTGCTGCCACAGAGT
1 TGTGGACTTTAAAA---AGATGCCACGGAGT
* * * *
1084912 TATAGA-GTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* * *
1084939 TGTGGAC-TTAAAAGGAGGCCACGAAGT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
1084966 TGTGGACTTTAAAAATG-TGCCACGGAGT
1 TGTGGACTTTAAAAA-GATGCCACGGAGT
*
1084994 TGTGGACTTTAAAAAGATGCCACGAAGT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
* *
1085022 TGTGGAC-TTAAAAGGATACCACGGAGT
1 TGTGGACTTTAAAAAGATGCCACGGAGT
*
1085049 TGTGGACTTTGAAAAGA
1 TGTGGACTTTAAAAAGA
1085066 AATGTCACTG
Statistics
Matches: 288, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
27 65 0.23
28 202 0.70
29 1 0.00
30 6 0.02
31 14 0.05
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
TGTGGACTTTAAAAAGATGCCACGGAGT
Found at i:1084990 original size:55 final size:54
Alignment explanation
Indices: 1084919--1085057 Score: 208
Period size: 55 Copynumber: 2.5 Consensus size: 54
1084909 AGTTATAGAG
*
1084919 TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAGGCCACGAAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGAGGCCACGAAGTTGTGGAC
* *
1084973 TTTAAAAATG-TGCCACGGAGTTGTGGACTTTAAAAAGATGCCACGAAGTTGTGGAC
1 -TT-AAAAGGATGCCACGGAGTTGTGGAC-TTAAAAAGAGGCCACGAAGTTGTGGAC
*
1085029 TTAAAAGGATACCACGGAGTTGTGGACTT
1 TTAAAAGGATGCCACGGAGTTGTGGACTT
1085058 TGAAAAGAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
54 7 0.09
55 39 0.51
56 30 0.39
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.24
Consensus pattern (54 bp):
TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGAGGCCACGAAGTTGTGGAC
Found at i:1090224 original size:13 final size:13
Alignment explanation
Indices: 1090206--1090231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1090196 AAATTCCCAG
1090206 ATGTATCGATACA
1 ATGTATCGATACA
1090219 ATGTATCGATACA
1 ATGTATCGATACA
1090232 TTATTCAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1090307 original size:19 final size:19
Alignment explanation
Indices: 1090283--1090431 Score: 82
Period size: 14 Copynumber: 8.7 Consensus size: 19
1090273 AGCGATACAT
1090283 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
*
1090302 TG--T--AT-CAATACAT-
1 TGTATCGATACAATACTTA
*
1090315 TGTATCGATACAACACTTA
1 TGTATCGATACAATACTTA
*
1090334 TG--T--AT-CAATACAT-
1 TGTATCGATACAATACTTA
*
1090347 TGTATCGATACAACACTTA
1 TGTATCGATACAATACTTA
*
1090366 TG--T--AT-CAATACAT-
1 TGTATCGATACAATACTTA
*
1090379 TGTATCGATACAACACTTA
1 TGTATCGATACAATACTTA
* *
1090398 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-ATACT-TA
1090419 TGTATCGATACAA
1 TGTATCGATACAA
1090432 ATTGTTGAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 39
0.64 0.10 0.26
Matches are distributed among these distances:
13 6 0.06
14 19 0.20
15 9 0.09
17 9 0.09
18 18 0.19
19 18 0.19
20 3 0.03
21 13 0.14
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAATACTTA
Found at i:1090318 original size:32 final size:32
Alignment explanation
Indices: 1090277--1090411 Score: 252
Period size: 32 Copynumber: 4.2 Consensus size: 32
1090267 CTTTGTAGCG
*
1090277 ATACATTGTATCGATACAATACTTATGTATCA
1 ATACATTGTATCGATACAACACTTATGTATCA
1090309 ATACATTGTATCGATACAACACTTATGTATCA
1 ATACATTGTATCGATACAACACTTATGTATCA
1090341 ATACATTGTATCGATACAACACTTATGTATCA
1 ATACATTGTATCGATACAACACTTATGTATCA
*
1090373 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCA
1090405 ATACATT
1 ATACATT
1090412 TACTGTTTGT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 101 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCA
Found at i:1097063 original size:20 final size:20
Alignment explanation
Indices: 1097038--1097162 Score: 81
Period size: 20 Copynumber: 5.7 Consensus size: 20
1097028 TTTTAACTAG
1097038 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1097058 ATGTATCGATACATCTGGGTAAAAAA
1 ATGTATCGATACAT-T--G---AAAA
* *
1097084 ACAGAATATATCGATACACT-AAAGA
1 A-TG--T--ATCGATACATTGAAA-A
* * *
1097109 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
1097129 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
1097149 ATGTATCGATACAT
1 ATGTATCGATACAT
1097163 CTAGGTACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 26
0.69 0.08 0.22
Matches are distributed among these distances:
20 54 0.66
21 3 0.04
22 1 0.01
23 1 0.01
24 4 0.05
25 2 0.02
26 5 0.06
27 1 0.01
29 1 0.01
30 1 0.01
31 9 0.11
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1097490 original size:97 final size:96
Alignment explanation
Indices: 1097351--1097555 Score: 243
Period size: 97 Copynumber: 2.1 Consensus size: 96
1097341 TGTCTAAAAA
* * * *
1097351 TATCCCCGACAATGATAATTTAGACAAAATAAGATTTAAATTTCAACGAGTTTAAAAACGGGGTT
1 TATCCCCGATAATGATAATTTAGACAAAATAAGATTTAAATTTCAACAAATTTAAAAACAGGGTT
*
1097416 GGAGTATCCCCTCGGAAGAAT-GGAGTTGGAG
66 GAAGTATCCCCTCGGAAGAATGGGA-TTGGAG
* * ** * **
1097447 TGTCCCCGATGATGATAATTTA-ACCGAAAATAAGATTTAAATTTTGATAAATTTAAAAGTAGGG
1 TATCCCCGATAATGATAATTTAGA-C-AAAATAAGATTTAAATTTCAACAAATTTAAAAACAGGG
* *
1097511 TTGAAGTATCCCCTCGGAGGAATGGGATTGGTG
64 TTGAAGTATCCCCTCGGAAGAATGGGATTGGAG
1097544 TATCCCCGATAA
1 TATCCCCGATAA
1097556 ACAAATTGAA
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
95 1 0.01
96 20 0.22
97 66 0.73
98 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (96 bp):
TATCCCCGATAATGATAATTTAGACAAAATAAGATTTAAATTTCAACAAATTTAAAAACAGGGTT
GAAGTATCCCCTCGGAAGAATGGGATTGGAG
Found at i:1099223 original size:8 final size:8
Alignment explanation
Indices: 1099188--1099252 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
1099178 GGCCATTTCA
1099188 TTTTTATT
1 TTTTTATT
1099196 TTTTTGGA-T
1 TTTTT--ATT
* *
1099205 ATTTAATT
1 TTTTTATT
1099213 TTTTTATT
1 TTTTTATT
1099221 TTTTTATTAT
1 TTTTTA-T-T
1099231 TTATTTGATT
1 TT-TTT-ATT
1099241 TTTTTATT
1 TTTTTATT
1099249 TTTT
1 TTTT
1099253 CCGTTTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
7 1 0.02
8 25 0.54
9 8 0.17
10 7 0.15
11 4 0.09
12 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (8 bp):
TTTTTATT
Found at i:1099231 original size:24 final size:25
Alignment explanation
Indices: 1099188--1099252 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 25
1099178 GGCCATTTCA
1099188 TTTTTATTTTTTTGGATATTTA-ATT
1 TTTTTATTTTTTT-GATATTTATATT
1099213 TTTTTATTTTTTT-ATTATTTATTTGATT
1 TTTTTATTTTTTTGA-TATTTA--T-ATT
1099241 TTTTTATTTTTT
1 TTTTTATTTTTT
1099253 CCGTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
23 1 0.03
24 6 0.17
25 13 0.37
28 15 0.43
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (25 bp):
TTTTTATTTTTTTGATATTTATATT
Found at i:1099260 original size:27 final size:28
Alignment explanation
Indices: 1099204--1099262 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1099194 TTTTTTTGGA
* *
1099204 TATTTAATTTTTTTATTTTTTTATTATT
1 TATTTAATTTTTTTATTTTTTCAGTATT
* *
1099232 TATTTGATTTTTTTATTTTTTCCGT-TT
1 TATTTAATTTTTTTATTTTTTCAGTATT
1099259 TATT
1 TATT
1099263 ATTATTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (28 bp):
TATTTAATTTTTTTATTTTTTCAGTATT
Found at i:1099976 original size:61 final size:61
Alignment explanation
Indices: 1099896--1100020 Score: 207
Period size: 61 Copynumber: 2.0 Consensus size: 61
1099886 AAAGATGATG
* *
1099896 AAGATGAGAAGAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 AAGATGAGAAGAGTAATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
*
1099957 AAGATGAGAAG-GATAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGATGAGAAGAG-TAATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1100018 AAG
1 AAG
1100021 GTACCAATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 1 0.02
61 59 0.98
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (61 bp):
AAGATGAGAAGAGTAATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:1100034 original size:43 final size:43
Alignment explanation
Indices: 1099973--1100526 Score: 273
Period size: 43 Copynumber: 11.7 Consensus size: 43
1099963 AGAAGGATAA
* *
1099973 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1100016 TAAAGGTACCAATGTGCTGATTCAAGGCTAGCGACATTAGACTT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T
* * * *
1100060 AAAGATGACAAAGGTGCCAATATGCCGATTCAAGGCCAGCGATATTGGGCT
1 -----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* **
1100111 TAAAGGTGCGAAGAATGTCAATGTGCTGATTCACGGCCAGCGACATTAAACT
1 TAAAGGTGC---------CAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1100163 TGAAGATGAAAAGAATGCTAATGTGCTAATTCAAGGCCAGCGACATTGGGGATGT
1 T-AA-A-G----G--TGCCAATGTGCTGATTCAAGGCCAGCGACATT--GGA-CT
* * * * * *
1100218 TAAAGATGCCAATATGCTGACTCATGGCCAGCGATA-TCGAGCT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA-CT
*
1100261 TAAAGATGAATGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACT
1 T-AA-A-G---GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1100310 TAAAGATGGAAATGCCAATGTGCTAATTCAAAGCTAGCGACATTGGACT
1 T-AA-A-GG---TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * *
1100359 TAAAGGTGCCGATGTGTTGATTCAAGGCTAGCGACATTGGACTT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T
* * * * * *
1100403 AAAGATGACAAAGGTACCAATATACTGATTCAAAGTCAGCGATATTGGACT
1 -----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * * * *
1100454 TAAAAGTGCCAATGTGCTAATTTATGGCCAGCGACATTGGGCT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
*
1100497 TAAAAGTGCCAATGTGCTGATTCAAGGCCA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCA
1100527 ATGAATTGGA
Statistics
Matches: 389, Mismatches: 73, Indels: 98
0.69 0.13 0.17
Matches are distributed among these distances:
43 139 0.36
44 4 0.01
45 2 0.01
46 30 0.08
47 1 0.00
48 2 0.01
49 71 0.18
50 3 0.01
51 2 0.01
52 121 0.31
53 3 0.01
54 4 0.01
55 3 0.01
59 1 0.00
61 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
Found at i:1100095 original size:52 final size:50
Alignment explanation
Indices: 1100017--1100526 Score: 313
Period size: 52 Copynumber: 10.6 Consensus size: 50
1100007 TATTGGACTT
* * *
1100017 AAAGGTACCAATGTGCTGATTCAAGGCTAGCGACATTAGACTTAAAGATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * *
1100067 ACAAAGGTGCCAATATGCCGATTCAAGGCCAGCGATATTGGGCTTAAAGGTG
1 --AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * ** *
1100119 CGAAGAATGTCAATGTGCTGATTCACGGCCAGCGACATTAAACTTGAAGATG
1 -AAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * ** * *
1100171 AAAAGAATGCTAATGTGCTAATTCAAGGCCAGCGACATTGG---GGATG-TT
1 -AAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * * *
1100219 AAAGATGCCAATATGCTGACTCATGGCCAGCGATA-TCGAGCTTAAAGATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATG
* *
1100269 -AATGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G
* * *
1100319 AAA--TGCCAATGTGCTAATTCAAAGCTAGCGACATTGGAC-T-----T-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
1100360 AAAGGTGCCGATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * * *
1100410 ACAAAGGTACCAATATACTGATTCAAAGTCAGCGATATTGGACTT----A--
1 --AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * *
1100456 AAA-GTGCCAATGTGCTAATTTATGGCCAGCGACATTGGGCTT----A--
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1100499 AAA-GTGCCAATGTGCTGATTCAAGGCCA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCA
1100527 ATGAATTGGA
Statistics
Matches: 358, Mismatches: 80, Indels: 49
0.74 0.16 0.10
Matches are distributed among these distances:
41 3 0.01
43 88 0.25
44 4 0.01
45 2 0.01
46 25 0.07
47 4 0.01
48 3 0.01
49 74 0.21
50 5 0.01
51 6 0.02
52 144 0.40
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (50 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
Found at i:1100285 original size:49 final size:49
Alignment explanation
Indices: 1100223--1100363 Score: 133
Period size: 49 Copynumber: 2.9 Consensus size: 49
1100213 GATGTTAAAG
* * * *
1100223 ATGCCAATATGCTGACTCATGGCCAGCGATATC-GAGCTTAAAGAT-GAA
1 ATGCCAATGTGCTGACTCAAGGCCAACGACATCGGA-CTTAAAGATGGAA
* * *
1100271 TGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGGAA
1 -ATGCCAATGTGCTGACTCAAGGCCAACGACATCGGACTTAAAGATGGAA
* * * * * *
1100321 ATGCCAATGTGCTAATTCAAAGCTAGCGACATTGGACTTAAAG
1 ATGCCAATGTGCTGACTCAAGGCCAACGACATCGGACTTAAAG
1100364 GTGCCGATGT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 73 0.94
50 5 0.06
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (49 bp):
ATGCCAATGTGCTGACTCAAGGCCAACGACATCGGACTTAAAGATGGAA
Found at i:1100380 original size:92 final size:94
Alignment explanation
Indices: 1100272--1100500 Score: 284
Period size: 95 Copynumber: 2.4 Consensus size: 94
1100262 AAAGATGAAT
* * * * *
1100272 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG-GAAA-TGCCAATGTGCTA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGTACCAATATACTA
*
1100335 ATTCAAAG-CTAGCGACATTGGACTTAAAG
66 ATTCAAAGTC-AGCGACATTGGACTTAAAA
* * *
1100364 GTGCCGATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGTACCAATATACT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA-GTACCAATATACT
* *
1100429 GATTCAAAGTCAGCGATATTGGACTTAAAA
65 AATTCAAAGTCAGCGACATTGGACTTAAAA
* * * *
1100459 GTGCCAATGTGCTAATTTATGGCCAGCGACATTGGGCTTAAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
1100501 AGTGCCAATG
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 42 0.37
93 3 0.03
95 69 0.60
96 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (94 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGTACCAATATACTA
ATTCAAAGTCAGCGACATTGGACTTAAAA
Found at i:1100602 original size:32 final size:32
Alignment explanation
Indices: 1100549--1100742 Score: 207
Period size: 32 Copynumber: 6.0 Consensus size: 32
1100539 TAGAAGGAGA
* * *
1100549 TGCCACCAACTTGTGTAGGCTTTTGAAATGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAAAAGGT
*
1100581 TGCCACCAGCTTGAGTGGGC-TTT-AAGAAGGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAA-AA-GGT
**
1100613 TGCCACCAGCTTGTGTGGGC-TTTGAAGGGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAAAAGGT
* * *
1100644 TGTCATC-GAATTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAG-CTTGTGTGGGCTTTTGAA-AAGGT
* *
1100677 TGCCACCAGCTTGTATGGGCTTTAGAAAAGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAAAAGGT
*
1100709 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAA-AAGGT
1100742 T
1 T
1100743 TCTCCACTAG
Statistics
Matches: 134, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
30 3 0.02
31 22 0.16
32 77 0.57
33 31 0.23
34 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (32 bp):
TGCCACCAGCTTGTGTGGGCTTTTGAAAAGGT
Found at i:1100710 original size:96 final size:96
Alignment explanation
Indices: 1100559--1100736 Score: 272
Period size: 96 Copynumber: 1.9 Consensus size: 96
1100549 TGCCACCAAC
* * *
1100559 TTGTGTAGGCTTTTGAAATGGTTGCCACCAGCTTGAGTGGGCTTTAAGAAGGGTTGCCACCAGCT
1 TTGTGTAGGCTTTTGAAAAGGTTGCCACCAGCTTGAGTGGGCTTTAAGAAAGGTTGCCACCAACT
1100624 TGTGTGGGC-TTTGAAGGGGTTGTCATCGAA
66 TGTGTGGGCTTTTGAAGGGGTTGTCATCGAA
*
1100654 TTGTGTGGGCTTTTGAAGAAGGTTGCCACCAGCTTGTA-TGGGCTTT-AGAAAAGGTTGCCACCA
1 TTGTGTAGGCTTTTGAA-AAGGTTGCCACCAGCTTG-AGTGGGCTTTAAG-AAAGGTTGCCACCA
1100717 ACTTGTGTGGGCTTTTGAAG
63 ACTTGTGTGGGCTTTTGAAG
1100737 AAGGTTTCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
95 18 0.24
96 49 0.65
97 8 0.11
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.32
Consensus pattern (96 bp):
TTGTGTAGGCTTTTGAAAAGGTTGCCACCAGCTTGAGTGGGCTTTAAGAAAGGTTGCCACCAACT
TGTGTGGGCTTTTGAAGGGGTTGTCATCGAA
Found at i:1101170 original size:33 final size:33
Alignment explanation
Indices: 1100872--1102150 Score: 583
Period size: 33 Copynumber: 38.8 Consensus size: 33
1100862 GTTTTAGAAG
*
1100872 AAGGTGCCACG-GAGTTGTGGCCTTAAAA-G--
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* *
1100901 --GGTACCACGA-AGTTATGGACTTAAAAGGAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
** * * *
1100931 AAGACGCCACG-GAGCTGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGAGAGTTGTGGAC-TT-AAAAGGAA
**
1100965 AAGGTGCCAC-AGAGTTGTGGACTTTGAAGGAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* ** *
1100997 AAGATGCCAC-AGAGTTGT-GAGCTTTGAAGAAAA
1 AAGGTGCCACGAGAGTTGTGGA-CTTAAAAG-GAA
*
1101030 AATGGTGCCACG-G-GTTGTGGACTTAAAAAGAA
1 AA-GGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * * **
1101062 CAAGATGCCACG-GAGTTATGGACCTCGAAGGAA
1 -AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * * * ** *
1101095 AAGATACCACGA-AATTGTGGGCTTTGAAGAAAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAG-GAA
1101128 AATGGTGCCACGAG-GTTGTGGACTTAAAAGGAA
1 AA-GGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * *
1101161 CAAGATGCCACG-GAGTTATGGACCTT-GAAGGAA
1 -AAGGTGCCACGAGAGTTGTGGA-CTTAAAAGGAA
** *
1101194 AATATGCCACG-GAGTTGTAGG-CTTTGAAAAGAAA
1 AAGGTGCCACGAGAGTTGT-GGAC-TT-AAAAGGAA
*
1101228 AAGGTGCCACGAGGTTGTGTTGTGGACTTAAAAGGAA
1 AAGGTGCCACGA----GAGTTGTGGACTTAAAAGGAA
* **
1101265 CAAGGTGCCACG-GAGTTATGGACTTTGAAGGAA
1 -AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
** * * *
1101298 AATATGCCAC-AGATTTGTGGGTCTTGAAAAGAAA
1 AAGGTGCCACGAGAGTTGT-GGACTT-AAAAGGAA
** *
1101332 AATATGCCACG-GAATTGTGGACTT-AAA-G--
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* *
1101360 --GGTGCTACG-GAGCTGTGGACTTAAAAGGAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * * *
1101390 AAGATACCAC-AGA-TTGTGGCCTTTAAAAAGAAA
1 AAGGTGCCACGAGAGTTGTGGAC-TT-AAAAGGAA
*
1101423 AATGTGCCACG-GAGTTGTGGACTTAAAAGGAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
**
1101455 CAAGGTGCCAC-AGAGTTGTGGACTTTGAAGGAA
1 -AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * * * **
1101488 ATGGATGCCAC-TGAGTTATGGGCTTTGAAGAGAA
1 AAGG-TGCCACGAGAGTTGTGGACTTAAAAG-GAA
*
1101522 AGAGGTGCCAC-AGGGTTGTGGACTTAAAAGGAA
1 A-AGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* *
1101555 TAAGGTGCCACG-GAGTTATGAACCTT-AAAGGAA
1 -AAGGTGCCACGAGAGTTGTGGA-CTTAAAAGGAA
* * *
1101588 AAGATGCCAC-AGAGTTGTGGGCTTTGAAAA-AAA
1 AAGGTGCCACGAGAGTTGTGGAC-TT-AAAAGGAA
* * *
1101621 AAAGTGCCACAGGGTTGTGTTGTGGACTTAAAAGGAA
1 AAGGTGCCAC---G-AGAGTTGTGGACTTAAAAGGAA
* *
1101658 CAAGGTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAA
1 -AAGGTGCCAC---G-AGAGTTGTGGACTTAAAAGGAA
* **
1101696 CAAGGTGCCACG-GAGTTATGGACTTTGAAGGAA
1 -AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* ** * * *
1101729 AAGAATAACA-TAGAGTTGTGGGTCTTGAAAAGAAA
1 AAG-GTGCCACGAGAGTTGT-GGACTT-AAAAGGAA
1101764 AAGGTGCCACGA-AGTTGTGGACTTAAAA-G--
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * *
1101793 --GGTGCCA-TAGAGTTGTAGACTTAAAAAGAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * *
1101823 AAGATACCAC-AGAGTTGTAGG-CTTTAAAAAGAAA
1 AAGGTGCCACGAGAGTTGT-GGAC-TT-AAAAGGAA
*
1101857 AAGGTGCCAC-AGAGTTGTGGACTTAAAAGGATC
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGA-A
* **
1101890 AAGGTGCCAC-AGATTTGTGGACTTTGAAGGAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * * * *
1101922 ATGGATGCCAC-TGAGTTGTGGGCTTTGAAGAGAAA
1 AAGG-TGCCACGAGAGTTGTGGAC-TT-AAAAGGAA
* *
1101957 AAGGTACC-CGA-AGTTATGGACTTAAAAGGAA
1 AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * *
1101988 CAAGGTGCCACG-GAGTTATGGACCTT-GAAGAAA
1 -AAGGTGCCACGAGAGTTGTGGA-CTTAAAAGGAA
* * * *
1102021 AAGATGCCAAGA-AGTTGTGGGCTTTAAAAAGAAA
1 AAGGTGCCACGAGAGTTGTGGAC-TT-AAAAGGAA
* * *
1102055 AAGGTGCCACGGGGTTGTGTTGTGGACTTGAAAGGAA
1 AAGGTGCCAC---G-AGAGTTGTGGACTTAAAAGGAA
**
1102092 CAAGGTGCCACGA-AGTTGTGGACTTTGAAGGAA
1 -AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
* * *
1102125 ATGGATGCCAC-TGAGTCGTGGACTTA
1 AAGG-TGCCACGAGAGTTGTGGACTTA
1102151 GAAAAAGGAT
Statistics
Matches: 956, Mismatches: 188, Indels: 208
0.71 0.14 0.15
Matches are distributed among these distances:
26 18 0.02
27 47 0.05
28 3 0.00
31 20 0.02
32 205 0.21
33 334 0.35
34 190 0.20
35 20 0.02
36 4 0.00
37 18 0.02
38 82 0.09
39 15 0.02
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (33 bp):
AAGGTGCCACGAGAGTTGTGGACTTAAAAGGAA
Found at i:1101183 original size:99 final size:98
Alignment explanation
Indices: 1100936--1101670 Score: 687
Period size: 99 Copynumber: 7.4 Consensus size: 98
1100926 AGGAAAAGAC
* * * * *
1100936 GCCACGGAGCTGTGGGCTTTGAAAA-GAAAAAGGTGCCACAGAGTTGTGGACTTTGAAGGAAAAG
1 GCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAAAAG
*
1101000 ATGCCACAGAGTTGTGAGCTTTGAAGAAAAAATGGT
64 ATGCCACA-AGTTGTGGGCTTTGAAGAAAAAATGGT
* * * *
1101036 GCCACGG-GTTGTGGACTTAAAAAGAACAAGATGCCACGGAGTTATGGACCTCGAAGGAAAAGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAAAAGAT
* *
1101100 ACCACGAAATTGTGGGCTTTGAAGAAAAAATGGT
66 GCCAC-AAGTTGTGGGCTTTGAAGAAAAAATGGT
* * *
1101134 GCCAC-GAGGTTGTGGACTTAAAAGGAACAAGATGCCACGGAGTTATGGACCTTGAAGGAAAATA
1 GCCACGGA-GTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAAAAGA
* * *
1101198 TGCCACGGAGTTGTAGGCTTTGAA-AAGAAAAAGGT
65 TGCCAC-AAGTTGTGGGCTTTGAAGAA-AAAATGGT
*
1101233 GCCACGAGGTTGTGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAA
1 GCCAC---G--GAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAA
* * * *
1101298 AATATGCCACAGATTTGTGGG-TCTTGAAAAGAAAAAT-AT
61 AAGATGCCACA-AGTTGTGGGCT-TTGAAGA-AAAAATGGT
* * * * **
1101337 GCCACGGAATTGTGGACTT-AAA-G-----GGTGCTACGGAGCTGTGGACTTAAAAGGAAAAGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAAAAGAT
* * * *
1101395 ACCAC-AGATTGTGGCCTTTAAAAAGAAAAAT-GT
66 GCCACAAG-TTGTGGGCTTTGAAGA-AAAAATGGT
* * *
1101428 GCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTGAAGGAAATGGA
1 GCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAAA-AGA
* * *
1101493 TGCCACTGAGTTATGGGCTTTGAAGAGAAAGA-GGT
65 TGCCAC-AAGTTGTGGGCTTTGAAGA-AAAAATGGT
* * * *
1101528 GCCACAGG-GTTGTGGACTTAAAAGGAATAAGGTGCCACGGAGTTATGAACCTTAAAGGAAAAGA
1 GCCAC-GGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAAAAGA
**
1101592 TGCCACAGAGTTGTGGGCTTTGAA-AAAAAAAAGT
65 TGCCACA-AGTTGTGGGCTTTGAAGAAAAAATGGT
*
1101626 GCCACAGGGTTGTGTTGTGGACTTAAAAGGAACAAGGTGCCACGG
1 GCCAC---G--GAGTTGTGGACTTAAAAGGAACAAGGTGCCACGG
1101671 GGTTGTGTTG
Statistics
Matches: 533, Mismatches: 66, Indels: 69
0.80 0.10 0.10
Matches are distributed among these distances:
90 1 0.00
91 38 0.07
92 37 0.07
93 1 0.00
97 10 0.02
98 110 0.21
99 134 0.25
100 79 0.15
101 5 0.01
102 1 0.00
103 32 0.06
104 78 0.15
105 6 0.01
106 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.21
Consensus pattern (98 bp):
GCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTGAAGGAAAAGAT
GCCACAAGTTGTGGGCTTTGAAGAAAAAATGGT
Found at i:1101445 original size:91 final size:92
Alignment explanation
Indices: 1101268--1101449 Score: 242
Period size: 91 Copynumber: 2.0 Consensus size: 92
1101258 AAAGGAACAA
* ** * * * *
1101268 GGTGCCACGGAGTTATGGACTTTGAAGGAAAATATGCCACAGATTTGTGGGTCTTGAAAAGAAAA
1 GGTGCCACGGAGCTATGGACTTAAAAGGAAAAGATACCACAGATTTGTGGCTCTTAAAAAGAAAA
1101333 ATATGCCACGGAATTGTGGACTTAAAG
66 ATATGCCACGGAATTGTGGACTTAAAG
* *
1101360 GGTGCTACGGAGCTGTGGACTTAAAAGGAAAAGATACCACAGA-TTGTGGC-CTTTAAAAAGAAA
1 GGTGCCACGGAGCTATGGACTTAAAAGGAAAAGATACCACAGATTTGTGGCTC-TTAAAAAGAAA
* *
1101423 AATGTGCCACGGAGTTGTGGACTTAAA
65 AATATGCCACGGAATTGTGGACTTAAA
1101450 AGGAACAAGG
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
90 1 0.01
91 41 0.53
92 36 0.46
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (92 bp):
GGTGCCACGGAGCTATGGACTTAAAAGGAAAAGATACCACAGATTTGTGGCTCTTAAAAAGAAAA
ATATGCCACGGAATTGTGGACTTAAAG
Found at i:1101707 original size:38 final size:38
Alignment explanation
Indices: 1101624--1101708 Score: 161
Period size: 38 Copynumber: 2.2 Consensus size: 38
1101614 AAAAAAAAAA
*
1101624 GTGCCACAGGGTTGTGTTGTGGACTTAAAAGGAACAAG
1 GTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAACAAG
1101662 GTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAACAAG
1 GTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAACAAG
1101700 GTGCCACGG
1 GTGCCACGG
1101709 AGTTATGGAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.22
Consensus pattern (38 bp):
GTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAACAAG
Found at i:1101799 original size:27 final size:27
Alignment explanation
Indices: 1101761--1101820 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
1101751 TCTTGAAAAG
*
1101761 AAAAAGGTGCCACGA-AGTTGTGGACTT
1 AAAAAGGTGCCA-GAGAGTTGTAGACTT
* *
1101788 AAAAGGGTGCCATAGAGTTGTAGACTT
1 AAAAAGGTGCCAGAGAGTTGTAGACTT
1101815 AAAAAG
1 AAAAAG
1101821 AAAAGATACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (27 bp):
AAAAAGGTGCCAGAGAGTTGTAGACTT
Found at i:1101918 original size:434 final size:431
Alignment explanation
Indices: 1101220--1102111 Score: 1375
Period size: 434 Copynumber: 2.1 Consensus size: 431
1101210 GTAGGCTTTG
*
1101220 AAAA-GAAAAAGGTGCCACGAGGTTGTGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTAT
1 AAAAGGAACAAGGTGCCACGAGGTTGTGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTAT
* ** * *
1101284 GGACTTTGAAGGAAAATATGCCACAGATTTGTGGGTCTTGAAAAGAAAAATATGCCACGGAATTG
66 GGACTTTGAAGGAAAAAATAACACAGAGTTGTGGGTCTTGAAAAGAAAAAGATGCCACGGAATTG
* * * *
1101349 TGGACTTAAAGGGTGCTACGGAGCTGTGGACTTAAAAGGAAAAGATACCACAGATTGTGGCCTTT
131 TGGACTTAAAGGGTGCCACAGAGCTGTAGACTTAAAAAGAAAAGATACCACAGATTGTGGCCTTT
* *
1101414 AAAAAGAAAAATGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACT
196 AAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACT
* * * *
1101479 TTGAAGGAAATGGATGCCACTGAGTTATGGGCTTTGAAGAGAAAGAGGTGCCAC-AGGGTTGTGG
261 TTGAAGGAAATGGATGCCACTGAGTTATGGGCTTTGAAGAGAAAAAGGTACC-CGA-AGTTATGG
* *
1101543 ACTTAAAAGGAATAAGGTGCCACGGAGTTATGAACCTTAAAGGAAAAGATGCCACAG-AGTTGTG
324 ACTTAAAAGGAACAAGGTGCCACGGAGTTATGAACCTTAAAGAAAAAGATGCCA-AGAAGTTGTG
1101607 GGCTTTGAAAAA-AAAAA-GTGCCACAGGGTTGTGTTGTGGACTT
388 GGCTTT-AAAAAGAAAAAGGTGCCACAGGGTTGTGTTGTGGACTT
*
1101650 AAAAGGAACAAGGTGCCACGGGGTTGTGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTAT
1 AAAAGGAACAAGGTGCCACGAGGTTGTGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTAT
* *
1101715 GGACTTTGAAGGAAAAGAATAACATAGAGTTGTGGGTCTTGAAAAGAAAAAGGTGCCAC-GAAGT
66 GGACTTTGAAGGAAAA-AATAACACAGAGTTGTGGGTCTTGAAAAGAAAAAGATGCCACGGAA-T
* *
1101779 TGTGGACTTAAAAGGGTGCCATAGAGTTGTAGACTTAAAAAGAAAAGATACCACAGAGTTGTAGG
129 TGTGGACTT-AAAGGGTGCCACAGAGCTGTAGACTTAAAAAGAAAAGATACCACAGA-TTGT-GG
* *
1101844 -CTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGATCAAGGTGCCACAGATTTGT
191 CCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGT
*
1101908 GGACTTTGAAGGAAATGGATGCCACTGAGTTGTGGGCTTTGAAGAGAAAAAGGTACCCGAAGTTA
256 GGACTTTGAAGGAAATGGATGCCACTGAGTTATGGGCTTTGAAGAGAAAAAGGTACCCGAAGTTA
* *
1101973 TGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACCTTGAAGAAAAAGATGCCAAGAAGTTG
321 TGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGAACCTTAAAGAAAAAGATGCCAAGAAGTTG
*
1102038 TGGGCTTTAAAAAGAAAAAGGTGCCACGGGGTTGTGTTGTGGACTT
386 TGGGCTTTAAAAAGAAAAAGGTGCCACAGGGTTGTGTTGTGGACTT
* *
1102084 GAAAGGAACAAGGTGCCACGAAGTTGTG
1 AAAAGGAACAAGGTGCCACGAGGTTGTG
1102112 GACTTTGAAG
Statistics
Matches: 420, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
430 4 0.01
431 77 0.18
432 52 0.12
433 116 0.28
434 169 0.40
435 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (431 bp):
AAAAGGAACAAGGTGCCACGAGGTTGTGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTAT
GGACTTTGAAGGAAAAAATAACACAGAGTTGTGGGTCTTGAAAAGAAAAAGATGCCACGGAATTG
TGGACTTAAAGGGTGCCACAGAGCTGTAGACTTAAAAAGAAAAGATACCACAGATTGTGGCCTTT
AAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACT
TTGAAGGAAATGGATGCCACTGAGTTATGGGCTTTGAAGAGAAAAAGGTACCCGAAGTTATGGAC
TTAAAAGGAACAAGGTGCCACGGAGTTATGAACCTTAAAGAAAAAGATGCCAAGAAGTTGTGGGC
TTTAAAAAGAAAAAGGTGCCACAGGGTTGTGTTGTGGACTT
Found at i:1102161 original size:30 final size:30
Alignment explanation
Indices: 1102093--1102331 Score: 153
Period size: 30 Copynumber: 7.7 Consensus size: 30
1102083 TGAAAGGAAC
* *
1102093 AAGG-TGCCAC-GAAGTTGTGGACTTTGAAGGA
1 AAGGATGCCACTG-AGTCGTGGACTTAGAA--A
1102124 AATGGATGCCACTGAGTCGTGGACTTAGAAA
1 AA-GGATGCCACTGAGTCGTGGACTTAGAAA
* *
1102155 AAGGATGCCACTAAGTAGTGGACTTTTACGAAA
1 AAGGATGCCACTGAGTCGTGGAC--TTA-GAAA
* * *
1102188 AAGAACGCCACTGAGTCGTGGAATTAGAAA
1 AAGGATGCCACTGAGTCGTGGACTTAGAAA
* *
1102218 AAGAATGCCACTGAGTCGTAGACTTTGGAGAAA
1 AAGGATGCCACTGAGTCGTGGAC-TT--AGAAA
** * * *
1102251 AAATATTCCATTGAGTTGTGGACTTAGAAA
1 AAGGATGCCACTGAGTCGTGGACTTAGAAA
** * * *
1102281 AATAATGCCATTGAGTAGTAGACTTTTAG-AA
1 AAGGATGCCACTGAGTCGTGGAC--TTAGAAA
* *
1102312 AAGG-TGTCACAGAGTCGTGG
1 AAGGATGCCACTGAGTCGTGG
1102332 CCTTTTGGAA
Statistics
Matches: 167, Mismatches: 30, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
30 77 0.46
31 14 0.08
32 11 0.07
33 64 0.38
34 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (30 bp):
AAGGATGCCACTGAGTCGTGGACTTAGAAA
Found at i:1102198 original size:33 final size:31
Alignment explanation
Indices: 1102129--1102313 Score: 171
Period size: 30 Copynumber: 5.9 Consensus size: 31
1102119 AAGGAAATGG
*
1102129 ATGCCACTGAGTCGTGGAC-TTAGAAAAAGG
1 ATGCCACTGAGTCGTGGACTTTAGAAAAAGA
* *
1102159 ATGCCACTAAGTAGTGGACTTTTACGAAAAAGA
1 ATGCCACTGAGTCGTGGAC-TTTA-GAAAAAGA
* *
1102192 ACGCCACTGAGTCGTGGA-ATTAGAAAAAGA
1 ATGCCACTGAGTCGTGGACTTTAGAAAAAGA
*
1102222 ATGCCACTGAGTCGTAGACTTTGGAGAAAAA-A
1 ATGCCACTGAGTCGTGGACTTT--AGAAAAAGA
* * * *
1102254 TATTCCATTGAGTTGTGGAC-TTAGAAAAATA
1 -ATGCCACTGAGTCGTGGACTTTAGAAAAAGA
* * *
1102285 ATGCCATTGAGTAGTAGACTTTTAGAAAA
1 ATGCCACTGAGTCGTGGAC-TTTAGAAAA
1102314 GGTGTCACAG
Statistics
Matches: 128, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
30 64 0.50
31 6 0.05
32 14 0.11
33 44 0.34
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTAGAAAAAGA
Found at i:1102199 original size:63 final size:62
Alignment explanation
Indices: 1102131--1102313 Score: 224
Period size: 63 Copynumber: 2.9 Consensus size: 62
1102121 GGAAATGGAT
* * *
1102131 GCCACTGAGTCGTGGACTTAGAAAAAGGATGCCACTAAGTAGTGGACTTTTACGAAAAAGA-AC
1 GCCACTGAGTCGTGGACTTAGAAAAAGAATGCCACTGAGTAGTAGACTTTTA-GAAAAA-ATAC
* * * *
1102194 GCCACTGAGTCGTGGAATTAGAAAAAGAATGCCACTGAGTCGTAGACTTTGGAGAAAAAATAT
1 GCCACTGAGTCGTGGACTTAGAAAAAGAATGCCACTGAGTAGTAGACTTT-TAGAAAAAATAC
* * * * *
1102257 TCCATTGAGTTGTGGACTTAGAAAAATAATGCCATTGAGTAGTAGACTTTTAGAAAA
1 GCCACTGAGTCGTGGACTTAGAAAAAGAATGCCACTGAGTAGTAGACTTTTAGAAAA
1102314 GGTGTCACAG
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
62 7 0.07
63 95 0.92
64 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (62 bp):
GCCACTGAGTCGTGGACTTAGAAAAAGAATGCCACTGAGTAGTAGACTTTTAGAAAAAATAC
Found at i:1105897 original size:13 final size:13
Alignment explanation
Indices: 1105879--1105903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1105869 CAAAGATCCG
1105879 TGTATCGATACAA
1 TGTATCGATACAA
1105892 TGTATCGATACA
1 TGTATCGATACA
1105904 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1105986 original size:13 final size:13
Alignment explanation
Indices: 1105968--1105992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1105958 CAAAAAAATA
1105968 TGTATCGATACAT
1 TGTATCGATACAT
1105981 TGTATCGATACA
1 TGTATCGATACA
1105993 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1105988 original size:33 final size:33
Alignment explanation
Indices: 1105946--1106012 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1105936 AGTAGCTTAA
1105946 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1105979 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1106012 A
1 A
1106013 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1111999 original size:57 final size:57
Alignment explanation
Indices: 1111910--1112025 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
1111900 AGGAATGGGG
* * * *
1111910 TTGGAGTATCCCCGACAATGATAATTTGGACAAAATAAGACTTGAATTTCGATGAGT
1 TTGGAATATCACCGACAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGT
*
1111967 TTGGAATATCACCGACAATGATAATTTAGACAAAATAAGATTTAAATTTCGATGAGT
1 TTGGAATATCACCGACAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGT
1112024 TT
1 TT
1112026 AAAAACGGGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (57 bp):
TTGGAATATCACCGACAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGT
Found at i:1113814 original size:23 final size:23
Alignment explanation
Indices: 1113783--1113846 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
1113773 TGATGTCCAT
*
1113783 TTTATTTTTATTTTTTTTGGATA
1 TTTAATTTTATTTTTTTTGGATA
** *
1113806 TTTAATTTT-TTTATTTTTTTATT
1 TTTAATTTTATTT-TTTTTGGATA
* *
1113829 TTTTATTTGATTTTTTTT
1 TTTAATTTTATTTTTTTT
1113847 TTCGTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.09
23 27 0.82
24 3 0.09
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTAATTTTATTTTTTTTGGATA
Found at i:1113835 original size:28 final size:27
Alignment explanation
Indices: 1113804--1113871 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
1113794 TTTTTTTGGA
*
1113804 TATTTAATTTTTTTATTT-TTTTATTTTT
1 TATTTAATTTTTTT-TTTCTTTTA-TTAT
*
1113832 TATTTGATTTTTTTTTTCGTTTTATTAT
1 TATTTAATTTTTTTTTTC-TTTTATTAT
*
1113860 TATTTAAATTTT
1 TATTTAATTTTT
1113872 ATATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 3 0.09
28 26 0.76
29 5 0.15
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.76
Consensus pattern (27 bp):
TATTTAATTTTTTTTTTCTTTTATTAT
Found at i:1113842 original size:17 final size:17
Alignment explanation
Indices: 1113788--1113848 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 17
1113778 TCCATTTTAT
*
1113788 TTTTATTTTTT-TTGGA
1 TTTTATTTTTTATTTGA
1113804 TATTTAATTTTTTTATTT--
1 T-TTT-A-TTTTTTATTTGA
1113822 TTTTATTTTTTATTTGA
1 TTTTATTTTTTATTTGA
1113839 TTTT-TTTTTT
1 TTTTATTTTTT
1113849 CGTTTTATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
15 10 0.26
16 8 0.21
17 10 0.26
18 2 0.05
19 6 0.16
20 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTATTTTTTATTTGA
Found at i:1116891 original size:2 final size:2
Alignment explanation
Indices: 1116884--1116924 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1116874 GCTCCTTTCT
*
1116884 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1116925 TAATTTCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:1117728 original size:22 final size:22
Alignment explanation
Indices: 1117703--1117791 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 22
1117693 TATGTTGTTT
*
1117703 TATATATATACATATACATATA
1 TATATATATACATATATATATA
* *
1117725 TATATGTATACATATATGTATA
1 TATATATATACATATATATATA
*
1117747 TATATGTATACATATATATATA
1 TATATATATACATATATATATA
* * **
1117769 CATATATGTGTATATATATATA
1 TATATATATACATATATATATA
1117791 T
1 T
1117792 GTAAAGATGG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (22 bp):
TATATATATACATATATATATA
Found at i:1117782 original size:16 final size:16
Alignment explanation
Indices: 1117704--1117794 Score: 83
Period size: 16 Copynumber: 5.6 Consensus size: 16
1117694 ATGTTGTTTT
* *
1117704 ATATATATACATATAC
1 ATATATGTATATATAC
* *
1117720 ATATATATATGTATAC
1 ATATATGTATATATAC
*
1117736 ATATATGTATATATATGT
1 ATATATGTATATATA--C
* *
1117754 ATACATATATATATAC
1 ATATATGTATATATAC
* *
1117770 ATATATGTGTATATAT
1 ATATATGTATATATAC
1117786 ATATATGTA
1 ATATATGTA
1117795 AAGATGGATC
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
16 47 0.78
18 13 0.22
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (16 bp):
ATATATGTATATATAC
Found at i:1117788 original size:6 final size:6
Alignment explanation
Indices: 1117703--1117791 Score: 88
Period size: 6 Copynumber: 14.8 Consensus size: 6
1117693 TATGTTGTTT
* * * * *
1117703 TATATA TATACA TATACA TATATA TATGTA TACATA TATGTA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * *
1117751 TGTATA CATATA TATATA CATATA TGTGTA TATATA TATAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATAT
1117792 GTAAAGATGG
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:1123169 original size:15 final size:16
Alignment explanation
Indices: 1123151--1123193 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
1123141 TTTAATATTT
1123151 ATTTATTAAAAAA-TA
1 ATTTATTAAAAAATTA
1123166 ATTTGATTAATAAAAATTA
1 ATTT-ATT-A-AAAAATTA
1123185 ATTTATTAA
1 ATTTATTAA
1123194 TTAATGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 2 0.08
18 8 0.33
19 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTTATTAAAAAATTA
Found at i:1123180 original size:18 final size:18
Alignment explanation
Indices: 1123147--1123194 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
1123137 TTTTTTTAAT
* *
1123147 ATTTATTTATTAAAAAATA
1 ATTTA-TTAATAAAAATTA
1123166 ATTTGATTAATAAAAATTA
1 ATTT-ATTAATAAAAATTA
1123185 ATTTATTAAT
1 ATTTATTAAT
1123195 TAATGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 6 0.23
19 19 0.73
20 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTTATTAATAAAAATTA
Found at i:1123818 original size:48 final size:47
Alignment explanation
Indices: 1123732--1123860 Score: 119
Period size: 48 Copynumber: 2.9 Consensus size: 47
1123722 AATTATTATA
* * *
1123732 TATTTTAAATTATTT-ATA-TAATTAATATTTAAATATTAAATACTCT
1 TATTTT-AAGTATTTAATATTAATTAATATTTAAACATTAAATACTAT
* * *
1123778 TATTTTAAGTATTTAATATTAATATAATATTTTAGCATTAAATATTAT
1 TATTTTAAGTATTTAATATTAAT-TAATATTTAAACATTAAATACTAT
* *
1123826 TA-TTAAAGTA-TTAATATT--TTAATA-TTAAAAATTAA
1 TATTTTAAGTATTTAATATTAATTAATATTTAAACATTAA
1123861 TAGTTTAATG
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 8 0.11
43 5 0.07
44 1 0.01
45 7 0.10
46 17 0.24
47 11 0.16
48 21 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (47 bp):
TATTTTAAGTATTTAATATTAATTAATATTTAAACATTAAATACTAT
Found at i:1123859 original size:21 final size:22
Alignment explanation
Indices: 1123826--1123869 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1123816 TAAATATTAT
* *
1123826 TATTAAAGTATTAATATTTTAA
1 TATTAAAGAATTAATAGTTTAA
1123848 TATTAAA-AATTAATAGTTTAA
1 TATTAAAGAATTAATAGTTTAA
1123869 T
1 T
1123870 GATAAATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TATTAAAGAATTAATAGTTTAA
Found at i:1123975 original size:41 final size:42
Alignment explanation
Indices: 1123930--1124012 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 42
1123920 AAATTATAAA
* *
1123930 ATAATAAATAAATTGATATAAATA-ATATTTTAAGTATTTAT
1 ATAATAAATAAATTAATATAAATATATACTTTAAGTATTTAT
* ***
1123971 ATAATTAATGTTTTAATATAAATATTATACTTTAAGTATTTA
1 ATAATAAATAAATTAATATAAATA-TATACTTTAAGTATTTA
1124013 AAATTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 19 0.56
43 15 0.44
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (42 bp):
ATAATAAATAAATTAATATAAATATATACTTTAAGTATTTAT
Found at i:1124012 original size:27 final size:26
Alignment explanation
Indices: 1123982--1124042 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
1123972 TAATTAATGT
*
1123982 TTTAATATAAATATTATACTTTAAGTA
1 TTTAATATAAATATAATA-TTTAAGTA
* * *
1124009 TTTAAAATTAATATAATATTTTAGTA
1 TTTAATATAAATATAATATTTAAGTA
*
1124035 TTAAATAT
1 TTTAATAT
1124043 TATGATAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (26 bp):
TTTAATATAAATATAATATTTAAGTA
Found at i:1124044 original size:26 final size:28
Alignment explanation
Indices: 1123985--1124044 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
1123975 TTAATGTTTT
* *
1123985 AATATAAATATTATACTTTAAGTATTTA
1 AATATTAATATAATACTTTAAGTATTTA
*
1124013 AA-ATTAATATAATA-TTTTAGTA-TTA
1 AATATTAATATAATACTTTAAGTATTTA
1124038 AATATTA
1 AATATTA
1124045 TGATAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.18
26 11 0.39
27 10 0.36
28 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (28 bp):
AATATTAATATAATACTTTAAGTATTTA
Found at i:1128962 original size:16 final size:16
Alignment explanation
Indices: 1128943--1129006 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
1128933 GAAATAAATC
1128943 TAAATTAAAAAATATT
1 TAAATTAAAAAATATT
1128959 TAAATTTAAAATAA-ATT
1 TAAA-TTAAAA-AATATT
*
1128976 TAAATT-TAAAATAATT
1 TAAATTAAAAAAT-ATT
*
1128992 CAAATTAAAAAATAT
1 TAAATTAAAAAATAT
1129007 AAGATGATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.05
15 2 0.05
16 16 0.40
17 18 0.45
18 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTAAAAAATATT
Found at i:1128969 original size:17 final size:15
Alignment explanation
Indices: 1128924--1129003 Score: 70
Period size: 16 Copynumber: 5.0 Consensus size: 15
1128914 GCTCGAAATT
* *
1128924 ATTTAAATCGAAATAA
1 ATTTAAAT-TAAAAAA
*
1128940 ATCTAAATTAAAAAA
1 ATTTAAATTAAAAAA
1128955 TATTTAAATTTAAAATAA
1 -ATTTAAA-TTAAAA-AA
*
1128973 ATTTAAATTTAAAATA
1 ATTTAAA-TTAAAAAA
*
1128989 ATTCAAATTAAAAAA
1 ATTTAAATTAAAAAA
1129004 TATAAGATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
15 12 0.22
16 20 0.37
17 20 0.37
18 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (15 bp):
ATTTAAATTAAAAAA
Found at i:1128997 original size:33 final size:33
Alignment explanation
Indices: 1128934--1129002 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1128924 ATTTAAATCG
* *
1128934 AAATAAATCTAAATTAAAAAATATTTAAATTTA
1 AAATAAATCTAAATTAAAAAATATTCAAATTAA
* *
1128967 AAATAAATTTAAATT-TAAAATAATTCAAATTAA
1 AAATAAATCTAAATTAAAAAAT-ATTCAAATTAA
1129000 AAA
1 AAA
1129003 ATATAAGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (33 bp):
AAATAAATCTAAATTAAAAAATATTCAAATTAA
Found at i:1130512 original size:14 final size:15
Alignment explanation
Indices: 1130484--1130513 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1130474 CTATAAAATT
1130484 AAATTTAAGTAAAAA
1 AAATTTAAGTAAAAA
1130499 AAATTTAA-TAAAAA
1 AAATTTAAGTAAAAA
1130513 A
1 A
1130514 TTGAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAATTTAAGTAAAAA
Found at i:1135700 original size:16 final size:16
Alignment explanation
Indices: 1135681--1135731 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
1135671 TATATAAAAC
1135681 CAAATAAATAAATAAA
1 CAAATAAATAAATAAA
1135697 CAAA-ATAATAAATAAGA
1 CAAATA-AATAAATAA-A
*
1135714 AAATTATAAATAAATAAA
1 CAA--ATAAATAAATAAA
1135732 ATCGATAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 1 0.03
16 13 0.45
17 3 0.10
18 1 0.03
19 10 0.34
20 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (16 bp):
CAAATAAATAAATAAA
Found at i:1135722 original size:15 final size:15
Alignment explanation
Indices: 1135682--1135726 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1135672 ATATAAAACC
1135682 AAATAAATAAATAAACA
1 AAAT-AATAAAT-AACA
*
1135699 AAATAATAAATAAGA
1 AAATAATAAATAACA
*
1135714 AAATTATAAATAA
1 AAATAATAAATAA
1135727 ATAAAATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 15 0.58
16 7 0.27
17 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AAATAATAAATAACA
Found at i:1139703 original size:20 final size:19
Alignment explanation
Indices: 1139663--1139705 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1139653 CGCAAACATG
*
1139663 ATTTTTTTCCAAAAATCAT
1 ATTTTTTTCAAAAAATCAT
1139682 ATTTTCTTTCAAAACAAT-AT
1 ATTTT-TTTCAAAA-AATCAT
1139702 ATTT
1 ATTT
1139706 ATACATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 13 0.62
21 3 0.14
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTTTTCAAAAAATCAT
Found at i:1140094 original size:21 final size:21
Alignment explanation
Indices: 1140069--1140124 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1140059 TTTTTGTCGA
1140069 GATGTATCGATACATGCCTTT
1 GATGTATCGATACATGCCTTT
1140090 GATGTATCGATACATGCCTTT
1 GATGTATCGATACATGCCTTT
1140111 GATGTATCGATACA
1 GATGTATCGATACA
1140125 AGGTCTTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (21 bp):
GATGTATCGATACATGCCTTT
Found at i:1140185 original size:21 final size:20
Alignment explanation
Indices: 1140161--1140213 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
1140151 TTCTACAATT
1140161 TGTATCAATACAAATAGTAAA
1 TGTATCAATACAAA-AGTAAA
** * *
1140182 TGTATTGATACATAAGTGAA
1 TGTATCAATACAAAAGTAAA
*
1140202 TATATCAATACA
1 TGTATCAATACA
1140214 TGTCTAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.32
Consensus pattern (20 bp):
TGTATCAATACAAAAGTAAA
Found at i:1140282 original size:20 final size:20
Alignment explanation
Indices: 1140254--1140291 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1140244 TGTATACTGC
1140254 TAAGGAAATGTATCGATATA
1 TAAGGAAATGTATCGATATA
*
1140274 TAAGTAAATGTATCGATA
1 TAAGGAAATGTATCGATA
1140292 CATGCTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (20 bp):
TAAGGAAATGTATCGATATA
Found at i:1142883 original size:50 final size:51
Alignment explanation
Indices: 1142809--1142904 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 51
1142799 CTAACCCCAT
*
1142809 TTTTATTTCCAAAAATATTAAAATTTTTAT-TGTGGAGATACTCCAACCCGC
1 TTTTATTTCCAAAAATATTAAAATTTTCATCT-TGGAGATACTCCAACCCGC
*
1142860 TTTTATTTCC-AAAATATTAAAATTTTCATCTTGGGGATACTCCAA
1 TTTTATTTCCAAAAATATTAAAATTTTCATCTTGGAGATACTCCAA
1142905 TCTTGTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
50 31 0.74
51 11 0.26
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (51 bp):
TTTTATTTCCAAAAATATTAAAATTTTCATCTTGGAGATACTCCAACCCGC
Found at i:1142953 original size:79 final size:78
Alignment explanation
Indices: 1142845--1143019 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 78
1142835 TTATTGTGGA
* * * * **
1142845 GATACTCCAA-CCCGCTTTTATTTCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAATCTT
1 GATACTCCAACCCCGTTTTTATTTCAAAAATATTAAAATTTTCATCTTGGGGATACTCAAACCCC
*
1142909 GTTATTTTTGAGAG
66 GTTATTTTCGAG-G
* * *
1142923 GATACTCCAACCCCGTTTTTATTTTAAAAATATTACATTTTTCATCTTGGGGATACTCAAACCCC
1 GATACTCCAACCCCGTTTTTATTTCAAAAATATTAAAATTTTCATCTTGGGGATACTCAAACCCC
1142988 GTTATTTTCGAGG
66 GTTATTTTCGAGG
1143001 GAATACTCCAACCCCGTTT
1 G-ATACTCCAACCCCGTTT
1143020 CTCTTCGAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 12 0.14
79 73 0.86
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (78 bp):
GATACTCCAACCCCGTTTTTATTTCAAAAATATTAAAATTTTCATCTTGGGGATACTCAAACCCC
GTTATTTTCGAGG
Found at i:1144647 original size:13 final size:13
Alignment explanation
Indices: 1144629--1144654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1144619 TACACCAAGT
1144629 ATGTATCGATACA
1 ATGTATCGATACA
1144642 ATGTATCGATACA
1 ATGTATCGATACA
1144655 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1144652 original size:32 final size:33
Alignment explanation
Indices: 1144611--1144674 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1144601 TAGCCAAACT
* **
1144611 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1144643 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1144675 TTGACTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1146909 original size:21 final size:21
Alignment explanation
Indices: 1146876--1146925 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1146866 TTGCAAGTTG
*
1146876 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1146898 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1146919 AAATAAA
1 AAATAAA
1146926 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1148743 original size:15 final size:15
Alignment explanation
Indices: 1148723--1148753 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1148713 TAAAAATGTC
*
1148723 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1148738 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1148753 C
1 C
1148754 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1150846 original size:13 final size:13
Alignment explanation
Indices: 1150828--1150865 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1150818 CATTTTTCTT
1150828 TGTATCGATACAA
1 TGTATCGATACAA
*
1150841 TGTATCGATACAC
1 TGTATCGATACAA
1150854 TGTATCGATACA
1 TGTATCGATACA
1150866 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1155070 original size:33 final size:33
Alignment explanation
Indices: 1155033--1155099 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1155023 TTCAACGATT
1155033 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1155066 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1155099 T
1 T
1155100 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1155071 original size:13 final size:13
Alignment explanation
Indices: 1155053--1155077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1155043 CATAAAATGT
1155053 TGTATCGATACAA
1 TGTATCGATACAA
1155066 TGTATCGATACA
1 TGTATCGATACA
1155078 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1155158 original size:13 final size:13
Alignment explanation
Indices: 1155140--1155164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1155130 ATTACTCAAA
1155140 TGTATCGATACAT
1 TGTATCGATACAT
1155153 TGTATCGATACA
1 TGTATCGATACA
1155165 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1155214 original size:51 final size:49
Alignment explanation
Indices: 1155153--1155296 Score: 180
Period size: 52 Copynumber: 2.8 Consensus size: 49
1155143 ATCGATACAT
* *
1155153 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAATTTGTCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAATTTGCCCAGA
* *
1155204 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGC-AATTTGCCCAGA
*
1155256 TGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
1155297 CTTTTCATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.02
51 34 0.42
52 45 0.56
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (49 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAATTTGCCCAGA
Found at i:1155266 original size:52 final size:52
Alignment explanation
Indices: 1155173--1155296 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1155163 CACTGATCTT
* *
1155173 TGTATCGATACATGCAGGC-AATTTGTCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1155224 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1155276 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1155297 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 19 0.28
52 49 0.72
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Done.