Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 335 of 343
Found at i:107283031 original size:100 final size:104
Alignment explanation
Indices: 107282852--107283101 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
107282842 TGATAATAAC
**
107282852 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
107282917 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
107282954 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
107283017 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
107283059 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
107283102 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:107283217 original size:13 final size:13
Alignment explanation
Indices: 107283196--107283227 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
107283186 GCTTGGATCA
*
107283196 TCATCAAATAAAT
1 TCATAAAATAAAT
107283209 TCATAAAATAAAT
1 TCATAAAATAAAT
107283222 TCATAA
1 TCATAA
107283228 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:107283473 original size:30 final size:30
Alignment explanation
Indices: 107283438--107283495 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
107283428 CCTCGACTCT
*
107283438 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
107283468 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
107283496 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:107286164 original size:11 final size:10
Alignment explanation
Indices: 107286149--107286189 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
107286139 TTCTTTATAT
107286149 ATTTTTTAAA
1 ATTTTTTAAA
107286159 A-TTTTT-AA
1 ATTTTTTAAA
107286167 ATTTTTTATAA
1 ATTTTTTA-AA
107286178 ATTTTTTTAAA
1 A-TTTTTTAAA
107286189 A
1 A
107286190 ATATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.11
9 10 0.37
10 1 0.04
11 6 0.22
12 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:107286186 original size:30 final size:30
Alignment explanation
Indices: 107286133--107286189 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
107286123 GAAAAAAAAA
* *
107286133 TTAACTTTCTTTATATATTTTTTAAAATTT
1 TTAAATTTCTTTATAAATTTTTTAAAATTT
107286163 TTAAATTT-TTTATAAATTTTTTTAAAA
1 TTAAATTTCTTTATAAA-TTTTTTAAAA
107286190 ATATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (30 bp):
TTAAATTTCTTTATAAATTTTTTAAAATTT
Found at i:107286196 original size:29 final size:28
Alignment explanation
Indices: 107286128--107286201 Score: 69
Period size: 30 Copynumber: 2.5 Consensus size: 28
107286118 TTTTAGAAAA
* *
107286128 AAAAATTAACTTTCTTTATATATTTTTT
1 AAAAATTAAATTTCTTTATAAATTTTTT
*
107286156 AAAATTTTTAAATTT-TTTATAAATTTTTTT
1 AAAA--ATTAAATTTCTTTATAAA-TTTTTT
*
107286186 AAAAATATAAAATTCT
1 AAAAAT-TAAATTTCT
107286202 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
28 5 0.14
29 13 0.36
30 18 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (28 bp):
AAAAATTAAATTTCTTTATAAATTTTTT
Found at i:107288749 original size:22 final size:23
Alignment explanation
Indices: 107288724--107288769 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
107288714 TTATGATTTT
*
107288724 TATAAAATTTTATAATTT-TATA
1 TATAAAATTTTACAATTTCTATA
* *
107288746 TATATATTTTTACAATTTCTATA
1 TATAAAATTTTACAATTTCTATA
107288769 T
1 T
107288770 TTTTTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TATAAAATTTTACAATTTCTATA
Found at i:107288839 original size:9 final size:9
Alignment explanation
Indices: 107288825--107288878 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
107288815 TTAAAGTTTA
107288825 ATAATTTTT
1 ATAATTTTT
107288834 ATAATTTTT
1 ATAATTTTT
*
107288843 ATAACTTTT
1 ATAATTTTT
*
107288852 ATTGATTTTT
1 A-TAATTTTT
*
107288862 AT-TTTTTT
1 ATAATTTTT
107288870 ATAATTTTT
1 ATAATTTTT
107288879 TTGCCACATG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
8 7 0.18
9 24 0.63
10 7 0.18
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
ATAATTTTT
Found at i:107288851 original size:18 final size:18
Alignment explanation
Indices: 107288711--107288878 Score: 74
Period size: 18 Copynumber: 8.8 Consensus size: 18
107288701 CTTATAAATT
*
107288711 TTTTTATGATTTTTATAAA
1 TTTTTATAATTTTTAT-AA
*
107288730 ATTTTATAATTTTATATATATA
1 TTTTTATAA-TTT-T-TATA-A
* * *
107288752 TTTTTACAATTTCTATAT
1 TTTTTATAATTTTTATAA
*
107288770 TTTTTTTAATTTTTAGTGAA
1 TTTTTATAATTTTTA-T-AA
*
107288790 -CTTTA-AATATTTTA-AA
1 TTTTTATAAT-TTTTATAA
* *
107288806 TATAGTTTATTAAAGTTTAATAA
1 T-T--TTTA-T-AATTTTTATAA
107288829 TTTTTATAATTTTTATAA
1 TTTTTATAATTTTTATAA
* * *
107288847 CTTTTATTGATTTTTAT-T
1 TTTTTA-TAATTTTTATAA
107288865 TTTTTATAATTTTT
1 TTTTTATAATTTTT
107288879 TTGCCACATG
Statistics
Matches: 111, Mismatches: 22, Indels: 34
0.66 0.13 0.20
Matches are distributed among these distances:
16 2 0.02
17 7 0.06
18 34 0.31
19 30 0.27
20 12 0.11
21 5 0.05
22 16 0.14
23 5 0.05
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:107289048 original size:3 final size:3
Alignment explanation
Indices: 107289040--107289068 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
107289030 TGATTGCTTT
107289040 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
107289069 TAAGTTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:107289151 original size:21 final size:20
Alignment explanation
Indices: 107289110--107289150 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
107289100 CAATATAAGT
107289110 ACCCAATTGAGTGCAAAAAA
1 ACCCAATTGAGTGCAAAAAA
107289130 ACCCAATTGAGTGCAAAAAA
1 ACCCAATTGAGTGCAAAAAA
107289150 A
1 A
107289151 AAATGCAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (20 bp):
ACCCAATTGAGTGCAAAAAA
Found at i:107300867 original size:3 final size:3
Alignment explanation
Indices: 107300859--107300890 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
107300849 TTCAGTTCAG
*
107300859 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
107300891 GTATCTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:107302168 original size:21 final size:22
Alignment explanation
Indices: 107302128--107302174 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
107302118 CTCTGCTCAA
*
107302128 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
107302149 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
107302171 ACTC
1 ACTC
107302175 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:107311328 original size:25 final size:24
Alignment explanation
Indices: 107311294--107311362 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
107311284 TACCATTTTA
107311294 TCATTAAAATATAAAAAATATTATT
1 TCATTAAAATATAAAAAATATTA-T
* *
107311319 TCATAAAAAT-TAACATAAAAATTAT
1 TCATTAAAATATAA-A-AAATATTAT
107311344 T-ATTAAAATATAAAAAATA
1 TCATTAAAATATAAAAAATA
107311363 AGGATTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.11
24 11 0.30
25 15 0.41
26 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
TCATTAAAATATAAAAAATATTAT
Found at i:107312333 original size:107 final size:108
Alignment explanation
Indices: 107312219--107312434 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
107312209 TAAACAAAAA
*
107312219 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAATTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
107312284 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
* *
107312326 ATTAGTTTAACAAAACAATGTTATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
107312391 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
107312434 A
1 A
107312435 CGTGTTTTTT
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.88
108 13 0.12
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:107315769 original size:23 final size:23
Alignment explanation
Indices: 107315726--107315770 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
107315716 TTTTCTTCGA
*
107315726 TCTTCTTTAATGGCCTCTTTATG
1 TCTTCTTTAATGGCCTATTTATG
*
107315749 TCTTCTTCTAATGG-GTATTTAT
1 TCTTCTT-TAATGGCCTATTTAT
107315771 AAACTTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (23 bp):
TCTTCTTTAATGGCCTATTTATG
Found at i:107317181 original size:317 final size:316
Alignment explanation
Indices: 107316595--107317223 Score: 1104
Period size: 317 Copynumber: 2.0 Consensus size: 316
107316585 ACTCTTATGA
*
107316595 TTGTTGCGTGTAAAAAAAAACACAAATAGCAAGAGAATATAAATTGAACTGCCTTCGCTTTTCAT
1 TTGTTGCGTGTAAAAAAAAACACAAATAGCAAGAGAATATAAATTGAACTGCCTTCCCTTTTCAT
*
107316660 CTTGAACATCAAGCCCTAGTTTCTACAACCAAAACACAAACACCTTGTCTACAATAACATATTTT
66 CTTGAACATCAAGCCCTAGTCTCTACAACCAAAACACAAACACCTTGTCTACAATAACATATTTT
107316725 CCAACAAACTACTAAGAAGTTTTAGAATTATAAAACTTGCACTTCCTTAAGTACCTTAACTATCA
131 CCAACAAACTACTAAGAAGTTTTAGAATTATAAAACTTGCACTTCCTTAAGTACCTTAACTATCA
*
107316790 TTAAAGCATCGAAAACATATTGTTCGAAGGAAGACGCTCTAAACATCCATGTCGCAAAAGAAATT
196 TTAAAGCATCGAAAACATATTGTTCGAAGGAAGACGCTCTAAACATCCACGTCGCAAAAGAAATT
107316855 AAAATAAACAAAGATGTTAGCTTTTAGTATTATACCATTTGATTTGAAATGTGTGT
261 AAAATAAACAAAGATGTTAGCTTTTAGTATTATACCATTTGATTTGAAATGTGTGT
107316911 TTGTTGCGTGTAAAAAAAAACCCACAAATAGCAAGAGAATAT-AATTGAACTGCCTTCCCTTTTC
1 TTGTTGCGTGTAAAAAAAAA--CACAAATAGCAAGAGAATATAAATTGAACTGCCTTCCCTTTTC
* *
107316975 ATCTTGAACATCAAGCCCTAGTCTCTACAACCAACACACAAACACCTTGTTTACAATAACATATT
64 ATCTTGAACATCAAGCCCTAGTCTCTACAACCAAAACACAAACACCTTGTCTACAATAACATATT
*
107317040 TTCCAACAAACTACTAAGAAGTTTTAGAATTATAAAACTTGCACTTCCTTAAGTACCTTAACTCT
129 TTCCAACAAACTACTAAGAAGTTTTAGAATTATAAAACTTGCACTTCCTTAAGTACCTTAACTAT
* * *
107317105 CATTTAAA-CATTGAAAACATATTGTTCGATA-GAAGAC-CTTCTAAACATCTACGTCGTAAAAG
194 CA-TTAAAGCATCGAAAACATATTGTTCGA-AGGAAGACGC-TCTAAACATCCACGTCGCAAAAG
107317167 AAATTAAAATAAACAAAGATGTTAGCTTTTAGTATTATACCATTTGATTTGAAATGT
256 AAATTAAAATAAACAAAGATGTTAGCTTTTAGTATTATACCATTTGATTTGAAATGT
107317224 TTAAAAATAT
Statistics
Matches: 299, Mismatches: 9, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
316 21 0.07
317 252 0.84
318 26 0.09
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (316 bp):
TTGTTGCGTGTAAAAAAAAACACAAATAGCAAGAGAATATAAATTGAACTGCCTTCCCTTTTCAT
CTTGAACATCAAGCCCTAGTCTCTACAACCAAAACACAAACACCTTGTCTACAATAACATATTTT
CCAACAAACTACTAAGAAGTTTTAGAATTATAAAACTTGCACTTCCTTAAGTACCTTAACTATCA
TTAAAGCATCGAAAACATATTGTTCGAAGGAAGACGCTCTAAACATCCACGTCGCAAAAGAAATT
AAAATAAACAAAGATGTTAGCTTTTAGTATTATACCATTTGATTTGAAATGTGTGT
Found at i:107322162 original size:19 final size:19
Alignment explanation
Indices: 107322126--107322170 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
107322116 AATGCCCAAA
*
107322126 AATCTTATGTAATAATTTT
1 AATCTTATATAATAATTTT
* *
107322145 AATCTTATATCATTATTTT
1 AATCTTATATAATAATTTT
*
107322164 AAACTTA
1 AATCTTA
107322171 ACCCCTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (19 bp):
AATCTTATATAATAATTTT
Found at i:107322446 original size:29 final size:30
Alignment explanation
Indices: 107322403--107322461 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
107322393 CCCCTACTCC
107322403 AATATTTCCCCCACTAATA-AATAAACTATT
1 AATATTTCCCCCACTAATACAA-AAACTATT
*
107322433 AATA-TTCCTCCACTAATACAAAAACTATT
1 AATATTTCCCCCACTAATACAAAAACTATT
107322462 CCTCCACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (30 bp):
AATATTTCCCCCACTAATACAAAAACTATT
Found at i:107323871 original size:31 final size:32
Alignment explanation
Indices: 107323836--107323912 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
107323826 AAAAGAATTT
**
107323836 AATAGTCCAATGACTT-AAATAAAAACTTTTG
1 AATAGTCCAATGACTTCAAATAAAAACCATTG
*
107323867 AATAGTTCC-ATGA-TTCAAATAAAGACCATTG
1 AATAG-TCCAATGACTTCAAATAAAAACCATTG
*
107323898 AATAGTTCAATGACT
1 AATAGTCCAATGACT
107323913 ATTTTGTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 4 0.11
31 30 0.79
32 4 0.11
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (32 bp):
AATAGTCCAATGACTTCAAATAAAAACCATTG
Found at i:107329808 original size:18 final size:17
Alignment explanation
Indices: 107329761--107329811 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
107329751 TATAAGAATA
107329761 TTAATTATTAATA-ATTT
1 TTAATTA-TAATATATTT
107329778 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATAT-TT
107329795 TTAATTATAATATATTT
1 TTAATTATAATATATTT
107329812 AATAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.07
15 2 0.07
16 6 0.21
17 8 0.28
18 9 0.31
19 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATTATAATATATTT
Found at i:107329814 original size:15 final size:15
Alignment explanation
Indices: 107329779--107329830 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
107329769 TAATAATTTT
*
107329779 TATTAAATTAT-ATA
1 TATTTAATTATAATA
107329793 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
107329807 TATTTAATAATAAT-
1 TATTTAATTATAATA
107329821 TATGTTAATT
1 TAT-TTAATT
107329831 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:107329929 original size:16 final size:16
Alignment explanation
Indices: 107329908--107329949 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
107329898 TTATTAAATT
*
107329908 ATATATTTTAATTATA
1 ATATATTTTAATAATA
107329924 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
107329939 AT-TATGTTTAA
1 ATATAT-TTTAA
107329950 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:107329934 original size:15 final size:15
Alignment explanation
Indices: 107329899--107329940 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
107329889 TTAAGAATTT
*
107329899 TATTAAATTAT-ATA
1 TATTTAATTATAATA
107329913 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
107329927 TATTTAATAATAAT
1 TATTTAATTATAAT
107329941 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:107330169 original size:45 final size:42
Alignment explanation
Indices: 107330075--107330184 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 42
107330065 TTTTCCATTA
107330075 TGCTATTACACCTCTATTCCAT---TTAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTAACCAAACACAAGAT
* ***
107330114 TACTATTACACCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATT-AACCAAACACAAGA-T
*
107330159 TGCTATTACACCTCTAATCCAGTACA
1 TGCTATTACACCTCTATTCCA-TACA
107330185 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 20 0.34
40 1 0.02
43 2 0.03
44 11 0.19
45 24 0.41
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (42 bp):
TGCTATTACACCTCTATTCCATACATTAACCAAACACAAGAT
Found at i:107330186 original size:16 final size:16
Alignment explanation
Indices: 107330165--107330200 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
107330155 GATTTGCTAT
*
107330165 TACACCTCTAATCCAG
1 TACACCTCTAATCCAA
107330181 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
107330197 TACA
1 TACA
107330201 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.03, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:107330505 original size:19 final size:19
Alignment explanation
Indices: 107330477--107330513 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
107330467 ATTAACTATC
*
107330477 TATTAGTTATTCATAATTT
1 TATTAATTATTCATAATTT
107330496 TATTAATTATTCATAATT
1 TATTAATTATTCATAATT
107330514 ACTATGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTAATTATTCATAATTT
Found at i:107338459 original size:18 final size:17
Alignment explanation
Indices: 107338435--107338477 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
107338425 TATTTTATGT
107338435 AAATTTTATAATATTTT-
1 AAATTTTATAA-ATTTTG
107338452 ATAATTTTATAAATTTTG
1 A-AATTTTATAAATTTTG
107338470 AAATTTTA
1 AAATTTTA
107338478 AGTCTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
AAATTTTATAAATTTTG
Found at i:107338460 original size:8 final size:9
Alignment explanation
Indices: 107338434--107338477 Score: 56
Period size: 8 Copynumber: 5.0 Consensus size: 9
107338424 TTATTTTATG
107338434 TAAATTTTA
1 TAAATTTTA
107338443 TAATATTTTA
1 TAA-ATTTTA
107338453 T-AATTTTA
1 TAAATTTTA
107338461 TAAATTTT-
1 TAAATTTTA
*
107338469 GAAATTTTA
1 TAAATTTTA
107338478 AGTCTAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 14 0.45
9 10 0.32
10 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
TAAATTTTA
Found at i:107338613 original size:18 final size:18
Alignment explanation
Indices: 107338590--107338652 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
107338580 TGATTGTTTT
107338590 ATTTTCTTTCACTCATCA
1 ATTTTCTTTCACTCATCA
* ** **
107338608 ATTTTCTCTTTCATTGTTTT
1 A-TTT-TCTTTCACTCATCA
107338628 ATTTTCTTTCACTCATCA
1 ATTTTCTTTCACTCATCA
107338646 ATTTTCT
1 ATTTTCT
107338653 CTTTCATTCT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
18 17 0.52
19 6 0.18
20 10 0.30
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTCTTTCACTCATCA
Found at i:107338619 original size:20 final size:20
Alignment explanation
Indices: 107338594--107338658 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
107338584 TGTTTTATTT
107338594 TCTTTCACTCATCAATTTTC
1 TCTTTCACTCATCAATTTTC
* ** **
107338614 TCTTTCATTGTTTTA-TTT-
1 TCTTTCACTCATCAATTTTC
107338632 TCTTTCACTCATCAATTTTC
1 TCTTTCACTCATCAATTTTC
107338652 TCTTTCA
1 TCTTTCA
107338659 TTCTTGATAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 17 0.52
ACGTcount: A:0.17, C:0.25, G:0.02, T:0.57
Consensus pattern (20 bp):
TCTTTCACTCATCAATTTTC
Found at i:107338633 original size:38 final size:38
Alignment explanation
Indices: 107338582--107338660 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
107338572 AACATCCCTG
107338582 ATTGTTTTATTTTCTTTCACTCATCAATTTTCTCTTTC
1 ATTGTTTTATTTTCTTTCACTCATCAATTTTCTCTTTC
107338620 ATTGTTTTATTTTCTTTCACTCATCAATTTTCTCTTTC
1 ATTGTTTTATTTTCTTTCACTCATCAATTTTCTCTTTC
107338658 ATT
1 ATT
107338661 CTTGATAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.16, C:0.20, G:0.03, T:0.61
Consensus pattern (38 bp):
ATTGTTTTATTTTCTTTCACTCATCAATTTTCTCTTTC
Found at i:107349932 original size:43 final size:43
Alignment explanation
Indices: 107349871--107349957 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
107349861 ACCAACCTTT
107349871 ACTTCTTAATATTCAAGTCACATTAGACTCCAATTAAATTTCA
1 ACTTCTTAATATTCAAGTCACATTAGACTCCAATTAAATTTCA
107349914 ACTTCTTAATATTCAAGTCACATTAGACTCCAATTAAATTTCA
1 ACTTCTTAATATTCAAGTCACATTAGACTCCAATTAAATTTCA
107349957 A
1 A
107349958 ATCAAGTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (43 bp):
ACTTCTTAATATTCAAGTCACATTAGACTCCAATTAAATTTCA
Found at i:107353574 original size:22 final size:22
Alignment explanation
Indices: 107353546--107353598 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
107353536 ATATCTCCAT
107353546 TTCTATTCATTCGAATTTACAA
1 TTCTATTCATTCGAATTTACAA
107353568 TTCTATTCATTCGAATTTACAA
1 TTCTATTCATTCGAATTTACAA
107353590 -TCGTATTCA
1 TTC-TATTCA
107353599 AACATGTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (22 bp):
TTCTATTCATTCGAATTTACAA
Found at i:107361857 original size:15 final size:15
Alignment explanation
Indices: 107361837--107361867 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107361827 CACAACTCGG
107361837 GATTACACCTTATGA
1 GATTACACCTTATGA
*
107361852 GATTACGCCTTATGA
1 GATTACACCTTATGA
107361867 G
1 G
107361868 TTAGATCATG
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:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (15 bp):
GATTACACCTTATGA
Found at i:107370034 original size:88 final size:88
Alignment explanation
Indices: 107369805--107370671 Score: 1270
Period size: 88 Copynumber: 9.9 Consensus size: 88
107369795 CAATGAAGTT
* * * * *
107369805 AAAGATCTTGCCTTCCTGCATTGACAGTGAAACAGGTTGAAGACATAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
107369870 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107369893 AAAG--CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107369956 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
107369979 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGATACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107370044 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107370067 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107370132 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107370155 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107370220 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107370243 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107370308 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107370331 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
107370396 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
107370419 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
107370484 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * ** *
107370506 GCAGATCTTACCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCATCCATCGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
* * *
107370569 TTG-CAGTGGAGCTAGTTAAAGA-A
65 TTGTGA-TGGAGCTGGTTGAAGACA
** * * * **
107370592 GCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
107370655 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
107370672 AAAGGTTACA
Statistics
Matches: 736, Mismatches: 37, Indels: 14
0.94 0.05 0.02
Matches are distributed among these distances:
85 8 0.01
86 181 0.25
87 36 0.05
88 511 0.69
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:107370924 original size:43 final size:43
Alignment explanation
Indices: 107370875--107371030 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
107370865 ACTGTGACTA
* *
107370875 CAGTGGAGTATATTGAAGCCGATAATTCTATCTCCCTGGTTGG
1 CAGTGGAATAGATTGAAGCCGATAATTCTATCTCCCTGGTTGG
* * * *
107370918 CAGTGGAATAGATTGAAGATCATAGATGGCAGATTCTACCTCCCTGTGACT-A
1 CAGTGGAATAGATTGAAG--C--CGAT---A-ATTCTATCTCCCTG-G-TTGG
* *
107370970 CAGT-GAAGTACATTGAAGTCGATAATTCTATCTCCCTGGTTGG
1 CAGTGGAA-TAGATTGAAGCCGATAATTCTATCTCCCTGGTTGG
107371013 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
107371031 ATTTCAGATC
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 30 0.34
44 16 0.18
45 2 0.02
47 3 0.03
48 3 0.03
50 1 0.01
51 16 0.18
52 14 0.16
53 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (43 bp):
CAGTGGAATAGATTGAAGCCGATAATTCTATCTCCCTGGTTGG
Found at i:107371016 original size:95 final size:95
Alignment explanation
Indices: 107370853--107371032 Score: 315
Period size: 95 Copynumber: 1.9 Consensus size: 95
107370843 CTAAAGCCAG
* * *
107370853 AGATTTTACCTCACTGTGACTACAGTGGAGTATATTGAAGCCGATAATTCTATCTCCCTGGTTGG
1 AGATTCTACCTCACTGTGACTACAGTGAAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGG
107370918 CAGTGGAATAGATTGAAGATCATAGATGGC
66 CAGTGGAATAGATTGAAGATCATAGATGGC
* *
107370948 AGATTCTACCTCCCTGTGACTACAGTGAAGTACATTGAAGTCGATAATTCTATCTCCCTGGTTGG
1 AGATTCTACCTCACTGTGACTACAGTGAAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGG
107371013 CAGTGGAATAGATTGAAGAT
66 CAGTGGAATAGATTGAAGAT
107371033 TTCAGATCTT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (95 bp):
AGATTCTACCTCACTGTGACTACAGTGAAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGG
CAGTGGAATAGATTGAAGATCATAGATGGC
Found at i:107372654 original size:3 final size:3
Alignment explanation
Indices: 107372594--107372645 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
107372584 GTACTTTTGC
* * * *
107372594 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TTT TAC TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
107372642 TAT T
1 TAT T
107372646 GGTATTATTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:107372831 original size:38 final size:35
Alignment explanation
Indices: 107372776--107372858 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 35
107372766 AATTTGTTTA
*
107372776 ATATATATATACATATACTCATATTTCTTTTTTTATAT
1 ATATATATATACATATA--CATATTT-TATTTTTATAT
*
107372814 ATATCTATATACATATACATATTTTATTTTTATA-
1 ATATATATATACATATACATATTTTATTTTTATAT
107372848 AGTATATATAT
1 A-TATATATAT
107372859 TTATATGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 1 0.02
35 17 0.41
36 7 0.17
38 16 0.39
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.53
Consensus pattern (35 bp):
ATATATATATACATATACATATTTTATTTTTATAT
Found at i:107377757 original size:7 final size:8
Alignment explanation
Indices: 107377736--107377765 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
107377726 TCTCATGAAT
107377736 TCAAAAAA
1 TCAAAAAA
107377744 TCAAAAAA
1 TCAAAAAA
107377752 TCAAAAAAA
1 TC-AAAAAA
107377761 TCAAA
1 TCAAA
107377766 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:107379596 original size:53 final size:53
Alignment explanation
Indices: 107379516--107379621 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
107379506 ATAAAAGAGG
107379516 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
1 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
107379569 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
1 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
107379622 CAAATTTTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (53 bp):
ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
Found at i:107380165 original size:88 final size:88
Alignment explanation
Indices: 107379936--107380802 Score: 1270
Period size: 88 Copynumber: 9.9 Consensus size: 88
107379926 CAATGAAGTT
* * * * *
107379936 AAAGATCTTGCCTTCCTGCATTGACAGTGAAACAGGTTGAAGACATAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
107380001 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107380024 AAAG--CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107380087 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
107380110 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGATACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107380175 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107380198 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107380263 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107380286 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107380351 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107380374 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
107380439 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
107380462 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
107380527 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
107380550 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
107380615 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * ** *
107380637 GCAGATCTTACCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCATCCATCGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
* * *
107380700 TTG-CAGTGGAGCTAGTTAAAGA-A
65 TTGTGA-TGGAGCTGGTTGAAGACA
** * * * **
107380723 GCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
107380786 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
107380803 AAAGGTTACA
Statistics
Matches: 736, Mismatches: 37, Indels: 14
0.94 0.05 0.02
Matches are distributed among these distances:
85 8 0.01
86 181 0.25
87 36 0.05
88 511 0.69
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:107381055 original size:43 final size:43
Alignment explanation
Indices: 107381006--107381161 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
107380996 ACTGTGACTA
* *
107381006 CAGTGGAGTATATTGAAGCCGATAATTCTATCTCCCTGGTTGG
1 CAGTGGAATAGATTGAAGCCGATAATTCTATCTCCCTGGTTGG
* * * *
107381049 CAGTGGAATAGATTGAAGATCATAGATGGCAGATTCTACCTCCCTGTGACT-A
1 CAGTGGAATAGATTGAAG--C--CGAT---A-ATTCTATCTCCCTG-G-TTGG
* *
107381101 CAGT-GAAGTACATTGAAGTCGATAATTCTATCTCCCTGGTTGG
1 CAGTGGAA-TAGATTGAAGCCGATAATTCTATCTCCCTGGTTGG
107381144 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
107381162 ATTTCAGATC
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 30 0.34
44 16 0.18
45 2 0.02
47 3 0.03
48 3 0.03
50 1 0.01
51 16 0.18
52 14 0.16
53 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (43 bp):
CAGTGGAATAGATTGAAGCCGATAATTCTATCTCCCTGGTTGG
Found at i:107381147 original size:95 final size:95
Alignment explanation
Indices: 107380984--107381163 Score: 315
Period size: 95 Copynumber: 1.9 Consensus size: 95
107380974 CTAAAGCCAG
* * *
107380984 AGATTTTACCTCACTGTGACTACAGTGGAGTATATTGAAGCCGATAATTCTATCTCCCTGGTTGG
1 AGATTCTACCTCACTGTGACTACAGTGAAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGG
107381049 CAGTGGAATAGATTGAAGATCATAGATGGC
66 CAGTGGAATAGATTGAAGATCATAGATGGC
* *
107381079 AGATTCTACCTCCCTGTGACTACAGTGAAGTACATTGAAGTCGATAATTCTATCTCCCTGGTTGG
1 AGATTCTACCTCACTGTGACTACAGTGAAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGG
107381144 CAGTGGAATAGATTGAAGAT
66 CAGTGGAATAGATTGAAGAT
107381164 TTCAGATCTT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (95 bp):
AGATTCTACCTCACTGTGACTACAGTGAAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGG
CAGTGGAATAGATTGAAGATCATAGATGGC
Found at i:107382781 original size:3 final size:3
Alignment explanation
Indices: 107382721--107382772 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
107382711 GTACTTTTGC
* * * *
107382721 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TTT TAC TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
107382769 TAT T
1 TAT T
107382773 GGTATTATTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:107386228 original size:15 final size:15
Alignment explanation
Indices: 107386208--107386238 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107386198 CACAACTCGG
107386208 GATTACACCTTATGA
1 GATTACACCTTATGA
*
107386223 GATTACGCCTTATGA
1 GATTACACCTTATGA
107386238 G
1 G
107386239 TTAGATCATG
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:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (15 bp):
GATTACACCTTATGA
Found at i:107394850 original size:29 final size:29
Alignment explanation
Indices: 107394817--107394874 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
107394807 ATCTTTTTAT
107394817 TAAAAATAGACAAATTAAGATCAAAGTAC
1 TAAAAATAGACAAATTAAGATCAAAGTAC
*
107394846 TAAAAATAGACAAATTAAGTTCAAAGTAC
1 TAAAAATAGACAAATTAAGATCAAAGTAC
107394875 AAATTATCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.22
Consensus pattern (29 bp):
TAAAAATAGACAAATTAAGATCAAAGTAC
Found at i:107400071 original size:59 final size:60
Alignment explanation
Indices: 107399998--107400171 Score: 156
Period size: 59 Copynumber: 3.0 Consensus size: 60
107399988 TTTTAATGAT
* * * * *
107399998 TAACTCGGACAAAAAAAAAGATTAGACCTCAATCTAGGAA-ATTTACCAAGTTTAACGCC
1 TAACTTGGACAAAAAAAAAGATTAGACCTCAATCTAAGAATAGTTACCAAGTTCAAAGCC
* * ** * ** *
107400057 TAATTTGGAC-AAAAAAAAGTTTAGGTCTCAATGTAAGAATAGTTGTCAAGTTCAAAGCT
1 TAACTTGGACAAAAAAAAAGATTAGACCTCAATCTAAGAATAGTTACCAAGTTCAAAGCC
* * * * * *
107400116 TAACTTGGACAAAAAAAAA-ATTAGACCCCAATGTGAGAAAAGTTACTAAATTCAAA
1 TAACTTGGACAAAAAAAAAGATTAGACCTCAATCTAAGAATAGTTACCAAGTTCAAA
107400172 CCTCAAAATG
Statistics
Matches: 89, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
58 24 0.27
59 57 0.64
60 8 0.09
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (60 bp):
TAACTTGGACAAAAAAAAAGATTAGACCTCAATCTAAGAATAGTTACCAAGTTCAAAGCC
Found at i:107409635 original size:15 final size:16
Alignment explanation
Indices: 107409615--107409644 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
107409605 TTTAACAATA
107409615 AAATTAA-AACAAATG
1 AAATTAACAACAAATG
107409630 AAATTAACAACAAAT
1 AAATTAACAACAAAT
107409645 ATGGTGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATTAACAACAAATG
Found at i:107414198 original size:9 final size:8
Alignment explanation
Indices: 107414176--107414209 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
107414166 CTTAAAAAAG
107414176 TTTAATTT
1 TTTAATTT
107414184 TTTAATTT
1 TTTAATTT
107414192 TTATAATTT
1 TT-TAATTT
107414201 TTTGAATTT
1 TTT-AATTT
107414210 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.46
9 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (8 bp):
TTTAATTT
Found at i:107416284 original size:12 final size:12
Alignment explanation
Indices: 107416264--107416294 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
107416254 GCAAGAGAGC
*
107416264 TATGCATGCATG
1 TATGTATGCATG
107416276 TATGTATGCATG
1 TATGTATGCATG
107416288 TATGTAT
1 TATGTAT
107416295 ATACCTCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (12 bp):
TATGTATGCATG
Found at i:107422579 original size:10 final size:10
Alignment explanation
Indices: 107422560--107422593 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
107422550 TTTAAAATAT
107422560 AATACACTAA
1 AATACACTAA
*
107422570 AATGCACTAA
1 AATACACTAA
*
107422580 AAAACACTAA
1 AATACACTAA
107422590 AATA
1 AATA
107422594 AAGTTTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (10 bp):
AATACACTAA
Found at i:107440026 original size:81 final size:81
Alignment explanation
Indices: 107439871--107440030 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
107439861 ATGAAACCTT
* * * * * * *
107439871 ACAAGAAGGTCATCAAGAGGAAGCTCAAGCGGAAGCTGATTCAAGTGCAATTGTAGCTTACGATG
1 ACAAGAAGGTCATCAAGAGGAAGCTCAAGCGGAAGCTGATACAAGTGAAATTCTACCATACAACG
*
107439936 GAGCCCAAATGGTTCA
66 GAACCCAAATGGTTCA
* * *
107439952 ACAAGAAGGTCATCAAGTGGAAAG-TGAAGCTGAAGCTGATACAAGTGAAATTCTACCATACAAC
1 ACAAGAAGGTCATCAAGAGG-AAGCTCAAGCGGAAGCTGATACAAGTGAAATTCTACCATACAAC
*
107440016 GGAACTCAAATGGTT
65 GGAACCCAAATGGTT
107440031 GAAAATGGGA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 63 0.95
82 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (81 bp):
ACAAGAAGGTCATCAAGAGGAAGCTCAAGCGGAAGCTGATACAAGTGAAATTCTACCATACAACG
GAACCCAAATGGTTCA
Found at i:107440099 original size:60 final size:60
Alignment explanation
Indices: 107440022--107440248 Score: 418
Period size: 60 Copynumber: 3.8 Consensus size: 60
107440012 CAACGGAACT
*
107440022 CAAATGGTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
*
107440082 CAAATGCTTGAACATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
**
107440142 CAAATGCTTGAAAATTTGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
107440202 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCAT
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCAT
107440249 TGATTATGGT
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 160 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (60 bp):
CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
Found at i:107443936 original size:21 final size:21
Alignment explanation
Indices: 107443910--107443950 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107443900 ATCTGCTCAA
* *
107443910 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
107443931 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
107443951 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:107444272 original size:24 final size:24
Alignment explanation
Indices: 107444244--107444292 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
107444234 GCAAACGATT
107444244 AACAAGATGGCCAGCGTATGTCAC
1 AACAAGATGGCCAGCGTATGTCAC
107444268 AACAAGATGGCCAGCGTATGTCAC
1 AACAAGATGGCCAGCGTATGTCAC
107444292 A
1 A
107444293 GCCTCAGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (24 bp):
AACAAGATGGCCAGCGTATGTCAC
Found at i:107450785 original size:24 final size:24
Alignment explanation
Indices: 107450758--107450809 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
107450748 TTTCTAAAAG
* *
107450758 ATTTAGCATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
*
107450782 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
107450806 ATTT
1 ATTT
107450810 GACCTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:107450820 original size:24 final size:24
Alignment explanation
Indices: 107450775--107450821 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
107450765 ATTTATGAGT
*
107450775 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTGATTAGC
* *
107450799 ATAATATATTTGACCTTGATTAG
1 ATAATATATTTAACATTGATTAG
107450822 AATTAGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAACATTGATTAGC
Found at i:107450967 original size:5 final size:5
Alignment explanation
Indices: 107450957--107450985 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
107450947 CAGTGTGTTC
107450957 TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
107450986 CTTTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:107451268 original size:19 final size:19
Alignment explanation
Indices: 107451244--107451341 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
107451234 AATCTTTAAG
107451244 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107451263 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107451282 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107451299 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107451318 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
107451339 GAT
1 GAT
107451342 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:107451290 original size:36 final size:37
Alignment explanation
Indices: 107451244--107451341 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
107451234 AATCTTTAAG
107451244 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
107451282 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
107451318 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
107451342 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
40 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:107456911 original size:24 final size:24
Alignment explanation
Indices: 107456871--107456916 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
107456861 ATTTAGAAGT
*
107456871 ATAATATATTTAGCCTTTATTAGC
1 ATAATATATTTAGCCTTGATTAGC
107456895 ATAATATATTT-GACCTTGATTA
1 ATAATATATTTAG-CCTTGATTA
107456917 AAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (24 bp):
ATAATATATTTAGCCTTGATTAGC
Found at i:107464123 original size:81 final size:81
Alignment explanation
Indices: 107463968--107464127 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
107463958 ATGAAACCTT
* * * * * * *
107463968 ACAAGAAGGTCATCAAGAGGAAGCTCAAGCGGAAGCTGATTCAAGTGCAATTGTAGCTTACGATG
1 ACAAGAAGGTCATCAAGAGGAAGCTCAAGCGGAAGCTGATACAAGTGAAATTCTACCATACAACG
*
107464033 GAGCCCAAATGGTTCA
66 GAACCCAAATGGTTCA
* * *
107464049 ACAAGAAGGTCATCAAGTGGAAAG-TGAAGCTGAAGCTGATACAAGTGAAATTCTACCATACAAC
1 ACAAGAAGGTCATCAAGAGG-AAGCTCAAGCGGAAGCTGATACAAGTGAAATTCTACCATACAAC
*
107464113 GGAACTCAAATGGTT
65 GGAACCCAAATGGTT
107464128 GAAAATGGGA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 63 0.95
82 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (81 bp):
ACAAGAAGGTCATCAAGAGGAAGCTCAAGCGGAAGCTGATACAAGTGAAATTCTACCATACAACG
GAACCCAAATGGTTCA
Found at i:107464196 original size:60 final size:60
Alignment explanation
Indices: 107464119--107464345 Score: 427
Period size: 60 Copynumber: 3.8 Consensus size: 60
107464109 CAACGGAACT
*
107464119 CAAATGGTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
*
107464179 CAAATGCTTGAACATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
*
107464239 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATCCTAGTTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
107464299 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCAT
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCAT
107464346 TGATTATGGT
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 163 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (60 bp):
CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
Found at i:107468902 original size:24 final size:24
Alignment explanation
Indices: 107468857--107468903 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
107468847 GTTTATGAGT
*
107468857 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
107468881 ATAATATATTT-GACATTGATTAG
1 ATAATATATTTAG-CATTGATTAG
107468904 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:107473208 original size:24 final size:24
Alignment explanation
Indices: 107473174--107473225 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
107473164 TTTCTAGAAG
* *
107473174 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
107473198 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
107473222 ATTT
1 ATTT
107473226 GACCTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:107477974 original size:21 final size:21
Alignment explanation
Indices: 107477948--107477988 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107477938 ATCTGCTCAA
* *
107477948 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
107477969 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
107477989 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:107481694 original size:103 final size:103
Alignment explanation
Indices: 107481487--107481750 Score: 440
Period size: 103 Copynumber: 2.6 Consensus size: 103
107481477 TAACCGTTAT
* **
107481487 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAA-CCCTCGGGGG
107481552 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
107481591 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCTCGGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGGA
*
107481656 ATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
107481694 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACATAGCAACCC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
107481751 CCTTTTTACA
Statistics
Matches: 151, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 100 0.66
104 51 0.34
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:107481796 original size:77 final size:78
Alignment explanation
Indices: 107481651--107481828 Score: 324
Period size: 77 Copynumber: 2.3 Consensus size: 78
107481641 GCAACCCTCG
107481651 GGGGAATCAGCACATAGCAA-CCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
1 GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
107481715 CCACCAATGAATC
66 CCACCAATGAATC
*
107481728 GGGGAATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATATGGTGGATCACGCACATAGC-
1 GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
107481792 CCACCAATGAATC
66 CCACCAATGAATC
*
107481805 GGGGAATCAGCACACAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
107481829 TTTATATACA
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
77 56 0.57
78 42 0.43
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (78 bp):
GGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGTGGATCACGCACATAGCA
CCACCAATGAATC
Found at i:107482188 original size:30 final size:30
Alignment explanation
Indices: 107482154--107482217 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
107482144 TAATCCACCA
107482154 CCAAACTTTTTG-AAAATTACAATTTTGCCC
1 CCAAAC-TTTTGCAAAATTACAATTTTGCCC
* * *
107482184 CCAAACTTTTGCATAATTACACTTTTGTCC
1 CCAAACTTTTGCAAAATTACAATTTTGCCC
107482214 CCAA
1 CCAA
107482218 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (30 bp):
CCAAACTTTTGCAAAATTACAATTTTGCCC
Found at i:107483287 original size:24 final size:24
Alignment explanation
Indices: 107483242--107483288 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
107483232 GTTTATGAGT
*
107483242 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
107483266 ATAATATATTT-GACATTGATTAG
1 ATAATATATTTAG-CATTGATTAG
107483289 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:107487589 original size:24 final size:24
Alignment explanation
Indices: 107487555--107487606 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
107487545 TTTCTAGAAG
* *
107487555 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
107487579 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
107487603 ATTT
1 ATTT
107487607 GACCTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:107492373 original size:21 final size:21
Alignment explanation
Indices: 107492347--107492387 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107492337 ATCTGCTCAA
* *
107492347 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
107492368 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
107492388 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:107495350 original size:60 final size:60
Alignment explanation
Indices: 107495273--107495436 Score: 292
Period size: 60 Copynumber: 2.7 Consensus size: 60
107495263 CAACGGAACT
* *
107495273 CAAATGGTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGTTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGCTCC
*
107495333 CAAATGCTTGAACATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGCTCC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGCTCC
*
107495393 CAAATGCTTGAAAATGAGATTGCATTTGCACCTCTTTATGAACC
1 CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACC
107495437 TATTGATTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 99 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (60 bp):
CAAATGCTTGAAAATGGGATTGCATTTGCACCTCTTTATGAACCCATAAATACTAGCTCC
Found at i:107500164 original size:45 final size:44
Alignment explanation
Indices: 107500064--107500173 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
107500054 TTTTCCATTA
107500064 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
107500103 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
107500148 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
107500174 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:107500201 original size:16 final size:16
Alignment explanation
Indices: 107500154--107500202 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
107500144 GATTTGCTAT
* *
107500154 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
107500170 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
107500186 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
107500202 T
1 T
107500203 TCAGCGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:107510274 original size:36 final size:38
Alignment explanation
Indices: 107510248--107510419 Score: 262
Period size: 36 Copynumber: 4.6 Consensus size: 38
107510238 AATCTTTAAG
*
107510248 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATAT
*
107510286 GATATACAATCTTAGATATG--ATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATAT
107510322 GATATGCAATCTTAGATATG--ATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATAT
* *
107510358 AATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATAT
107510396 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
107510420 CTTGTAATCT
Statistics
Matches: 124, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
36 69 0.56
38 46 0.37
40 9 0.07
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATACAATCTTAGATAT
Found at i:107510277 original size:19 final size:19
Alignment explanation
Indices: 107510248--107510419 Score: 235
Period size: 19 Copynumber: 9.2 Consensus size: 19
107510238 AATCTTTAAG
*
107510248 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
107510267 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
107510286 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
107510305 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
107510322 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
107510341 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
107510358 AATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
107510377 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
107510396 GATATGCAATCTTGAAGATAT
1 GATATACAATCTT--AGATAT
107510417 GAT
1 GAT
107510420 CTTGTAATCT
Statistics
Matches: 139, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
17 32 0.23
19 98 0.71
21 9 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:107510313 original size:55 final size:56
Alignment explanation
Indices: 107510248--107510419 Score: 251
Period size: 55 Copynumber: 3.1 Consensus size: 56
107510238 AATCTTTAAG
**
107510248 GATATGCAATCTTAGATATGATATATAATCTTAGATATGATATACAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATATGATATACAATCTTAGATAT
107510305 GATA-CAATCTTAGATATGATATGCAATCTTAGATATG--ATACAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATATGATATACAATCTTAGATAT
* *
107510358 AATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATATGATATACAATCTT--AGATAT
107510417 GAT
1 GAT
107510420 CTTGTAATCT
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
53 19 0.18
55 64 0.62
57 13 0.12
59 8 0.08
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (56 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATATGATATACAATCTTAGATAT
Found at i:107512273 original size:24 final size:24
Alignment explanation
Indices: 107512246--107512297 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
107512236 TTTCTAAAAG
* *
107512246 ATTTAGCATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
*
107512270 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
107512294 ATTT
1 ATTT
107512298 GACCTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:107512308 original size:24 final size:24
Alignment explanation
Indices: 107512263--107512309 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
107512253 ATTTATGAGT
*
107512263 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTGATTAGC
* *
107512287 ATAATATATTTGACCTTGATTAG
1 ATAATATATTTAACATTGATTAG
107512310 AATTAGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAACATTGATTAGC
Found at i:107512502 original size:5 final size:5
Alignment explanation
Indices: 107512447--107512494 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
107512437 CACTGTGTTC
107512447 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
107512495 TTTATTTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:107512774 original size:19 final size:19
Alignment explanation
Indices: 107512750--107512847 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
107512740 AATCTTTAAG
107512750 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107512769 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107512788 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107512805 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107512824 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
107512845 GAT
1 GAT
107512848 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:107512781 original size:36 final size:35
Alignment explanation
Indices: 107512740--107512847 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
107512730 ATGAAAATAT
107512740 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
107512776 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
107512812 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
107512848 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:107519675 original size:10 final size:10
Alignment explanation
Indices: 107519616--107519675 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 10
107519606 TTCTATTTCA
107519616 AAAAAAAAAG
1 AAAAAAAAAG
*
107519626 -GAAAAAAAG
1 AAAAAAAAAG
*
107519635 AAAAGAAAAGG
1 AAAA-AAAAAG
* *
107519646 AAAATAAAAT
1 AAAAAAAAAG
107519656 AAAATAAAAAG
1 AAAA-AAAAAG
107519667 AAAAAAAAA
1 AAAAAAAAA
107519676 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 8 0.21
10 14 0.36
11 17 0.44
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:107519676 original size:21 final size:21
Alignment explanation
Indices: 107519627--107519676 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
107519617 AAAAAAAAGG
* *
107519627 AAAAAAAGAAAAGAAAAGGAA
1 AAAAAAATAAAAGAAAAAGAA
* *
107519648 AATAAAATAAAATAAAAAGAA
1 AAAAAAATAAAAGAAAAAGAA
107519669 AAAAAAAT
1 AAAAAAAT
107519677 GGAGAGGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (21 bp):
AAAAAAATAAAAGAAAAAGAA
Found at i:107520681 original size:43 final size:43
Alignment explanation
Indices: 107520633--107520771 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
107520623 CGCCATAATC
107520633 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTT
1 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTT
* * ** * * * *
107520676 CCCTAAGCAGT-AGTGGAGCAAATCGAAGA-TT-C-G-CCTTAATC
1 CCCTAAGCAGTAAG-GTAACAGGT-TAA-ATTTGCAGATCTTATTT
* *
107520717 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTT
107520760 CCCTAAGCAGTA
1 CCCTAAGCAGTA
107520772 GTGGAGCAGA
Statistics
Matches: 70, Mismatches: 18, Indels: 16
0.67 0.17 0.15
Matches are distributed among these distances:
39 1 0.01
40 4 0.06
41 22 0.31
42 5 0.07
43 33 0.47
44 4 0.06
45 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTT
Found at i:107520728 original size:41 final size:41
Alignment explanation
Indices: 107520676--107520813 Score: 122
Period size: 41 Copynumber: 3.3 Consensus size: 41
107520666 GATCTTATTT
*
107520676 CCCTAAGCAGTAGTGGAGCAAATCGAAGATTCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
* * * *
107520717 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TT-C-G-CCTTAATC
**
107520759 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
*
107520801 CCCTAAGCTGTAG
1 CCCTAAGCAGTAG
107520814 GGTAACAGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
39 1 0.01
40 6 0.08
41 33 0.44
42 8 0.11
43 22 0.29
44 4 0.05
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGATTCGCCTTAATC
Found at i:107520769 original size:84 final size:84
Alignment explanation
Indices: 107520623--107520912 Score: 440
Period size: 84 Copynumber: 3.4 Consensus size: 84
107520613 CAAAATTCAG
* * *
107520623 CGCCATAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATATCCCTAAGCAGTA
* *
107520688 GTGGAGCAAATCGAAGATT
66 GTGGAGCAGATCGAAGATC
*
107520707 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATATCCCTAAGCAGTA
*
107520772 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGATC
*
107520791 CGCCTTAATCCCCTAAGCTGTAGGGTAACAGGTTAAATTTGCAGAT-TT-TATCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATATCCCTAAGCAGTA
* *
107520854 GCGGAGCAGATCGAAGAAGATG
66 GTGGAGCAGATC---GAAGATC
*
107520876 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
107520913 GTATAGCAGA
Statistics
Matches: 190, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
82 25 0.13
83 2 0.01
84 123 0.65
85 40 0.21
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATATCCCTAAGCAGTA
GTGGAGCAGATCGAAGATC
Found at i:107521192 original size:87 final size:88
Alignment explanation
Indices: 107521031--107521192 Score: 236
Period size: 87 Copynumber: 1.8 Consensus size: 88
107521021 ATTCGATGGA
* * * *
107521031 GAGCAAATCGAAGACACAGCAGATCTGACCTTCAGATATTTTCACATTGAAGTAGATCCAAGATG
1 GAGCAAATCAAAGACACAGCAGATCTGACCTTCAGA-ATGTTCACACTGAAGCAGATCCAAGATG
107521096 ATTTAGCATCCTTGTGTTTACAAG
65 ATTTAGCATCCTTGTGTTTACAAG
* * *
107521120 GAGCAAATCAAAGACATAGCAGATCTGGCCTTCAG-GTGTTCACACTGAAGCAGATCCAAGATGA
1 GAGCAAATCAAAGACACAGCAGATCTGACCTTCAGAATGTTCACACTGAAGCAGATCCAAGATGA
*
107521184 TTTGGCATC
66 TTTAGCATC
107521193 TCTGTATTGT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
87 33 0.51
89 32 0.49
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (88 bp):
GAGCAAATCAAAGACACAGCAGATCTGACCTTCAGAATGTTCACACTGAAGCAGATCCAAGATGA
TTTAGCATCCTTGTGTTTACAAG
Found at i:107521214 original size:87 final size:88
Alignment explanation
Indices: 107521029--107521225 Score: 231
Period size: 87 Copynumber: 2.2 Consensus size: 88
107521019 ATATTCGATG
* * *
107521029 GAGAGCAAATCGAAGACACAGCAGATCTGACCTTCAGATATTTTCACATTGAAGTAGATCCAAGA
1 GAGAGCAAATCGAAGACACAGCAGATCTGACCTTCAGA-ATGTTCACACTGAAGCAGATCCAAGA
*
107521094 TGATTTAGCATCCTTGTGTTTACA
65 TGATTTAGCATCCTTGTATTTACA
* * * *
107521118 -AGGAGCAAATCAAAGACATAGCAGATCTGGCCTTCAG-GTGTTCACACTGAAGCAGATCCAAGA
1 GA-GAGCAAATCGAAGACACAGCAGATCTGACCTTCAGAATGTTCACACTGAAGCAGATCCAAGA
*
107521181 TGATTTGGCAT-CTCTGTATTGT-CA
65 TGATTTAGCATCCT-TGTATT-TACA
* *
107521205 GAGAACAAATCGAAGAAACAG
1 GAGAGCAAATCGAAGACACAG
107521226 ATTTGGCATC
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
86 2 0.02
87 54 0.59
88 3 0.03
89 32 0.35
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (88 bp):
GAGAGCAAATCGAAGACACAGCAGATCTGACCTTCAGAATGTTCACACTGAAGCAGATCCAAGAT
GATTTAGCATCCTTGTATTTACA
Found at i:107521297 original size:220 final size:220
Alignment explanation
Indices: 107520915--107521319 Score: 801
Period size: 220 Copynumber: 1.8 Consensus size: 220
107520905 AGGTTAAAGT
107520915 ATAGCAGATCTGGCCTTCAGGTGTTCACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGGCCTTCAGGTGTTCACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
107520980 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAAATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAAATCGAAGA
*
107521045 CACAGCAGATCTGACCTTCAGATATTTTCACATTGAAGTAGATCCAAGATGATTTAGCATCCTTG
131 CACAGCAGATCTGACCTTCAGATATTTTCACATTGAAGCAGATCCAAGATGATTTAGCATCCTTG
107521110 TGTTTACAAGGAGCAAATCAAAGAC
196 TGTTTACAAGGAGCAAATCAAAGAC
107521135 ATAGCAGATCTGGCCTTCAGGTGTTCACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGGCCTTCAGGTGTTCACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
107521200 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAAATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAAATCGAAGA
107521265 CACAGCAGATCTGACCTTCAGATATTTTCACATTGAAGCAGATCCAAGATGATTT
131 CACAGCAGATCTGACCTTCAGATATTTTCACATTGAAGCAGATCCAAGATGATTT
107521320 GACATCTTTG
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 184 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (220 bp):
ATAGCAGATCTGGCCTTCAGGTGTTCACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAAATCGAAGA
CACAGCAGATCTGACCTTCAGATATTTTCACATTGAAGCAGATCCAAGATGATTTAGCATCCTTG
TGTTTACAAGGAGCAAATCAAAGAC
Found at i:107521758 original size:19 final size:19
Alignment explanation
Indices: 107521730--107521841 Score: 147
Period size: 19 Copynumber: 5.8 Consensus size: 19
107521720 AATCTTTAAG
*
107521730 GATATGCAATCTCAGATAT
1 GATATGCAATCTTAGATAT
*
107521749 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107521768 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107521785 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
107521804 GATATGCAATCTTTAAGATAT
1 GATATGCAATC-TT-AGATAT
* *
107521825 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
107521842 GATTTAATTT
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.20
19 45 0.54
20 5 0.06
21 11 0.13
22 6 0.07
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:107521760 original size:36 final size:35
Alignment explanation
Indices: 107521720--107521815 Score: 88
Period size: 36 Copynumber: 2.6 Consensus size: 35
107521710 ATGGAAATAT
107521720 AATCTTTAAGGATATGCAATCTCAGATATGATATAC
1 AATCTTTAA-GATATGCAATCTCAGATATGATATAC
* *
107521756 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTCAGATATGATATAC
*
107521792 AATCTTAGATATGATATGCAATCT
1 AATCTT---TAAGATATGCAATCT
107521816 TTAAGATATG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
33 6 0.12
34 1 0.02
35 2 0.04
36 26 0.53
37 1 0.02
38 6 0.12
40 1 0.02
41 6 0.12
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTCAGATATGATATAC
Found at i:107536703 original size:12 final size:13
Alignment explanation
Indices: 107536686--107536720 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
107536676 CTCCTATCTT
107536686 TTTATTTTTAT-C
1 TTTATTTTTATGC
107536698 TTTATTTTTATGC
1 TTTATTTTTATGC
*
107536711 TTAATTTTTA
1 TTTATTTTTA
107536721 ATTTCATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTATTTTTATGC
Found at i:107546426 original size:6 final size:6
Alignment explanation
Indices: 107546417--107546500 Score: 109
Period size: 6 Copynumber: 14.3 Consensus size: 6
107546407 GAAGTTTAAG
* * * * *
107546417 AAAATA AAAATA AACAGA AAAATA AAAATA AAACTA AAACTA AAACTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
107546465 AAAATA AAAATA AAAATA AAAAT- AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
107546501 TGGACTCAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
5 10 0.14
6 61 0.86
ACGTcount: A:0.79, C:0.05, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:107548149 original size:30 final size:31
Alignment explanation
Indices: 107548115--107548180 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
107548105 TCAAATAACT
107548115 AATAATAATAATA-A-TAATAA-ACAATAAAGA
1 AATAATAATAATATATTAATAATA-AAT-AAGA
107548145 AATAA-AATAATATATTAATAATAAATAAGA
1 AATAATAATAATATATTAATAATAAATAAGA
107548175 AATAAT
1 AATAAT
107548181 TAAATAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
29 7 0.22
30 15 0.47
31 9 0.28
32 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (31 bp):
AATAATAATAATATATTAATAATAAATAAGA
Found at i:107550052 original size:29 final size:29
Alignment explanation
Indices: 107549989--107550044 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
107549979 GTGTACCACA
107549989 TGAAAAGGGATAGCTTCGGCTATCAAAAG
1 TGAAAAGGGATAGCTTCGGCTATCAAAAG
107550018 TGAAAAGGGATAGCTTCGGCTATCAAA
1 TGAAAAGGGATAGCTTCGGCTATCAAA
107550045 CTTGAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (29 bp):
TGAAAAGGGATAGCTTCGGCTATCAAAAG
Found at i:107550107 original size:33 final size:33
Alignment explanation
Indices: 107550050--107550306 Score: 288
Period size: 33 Copynumber: 7.8 Consensus size: 33
107550040 TCAAACTTGA
*
107550050 AAATGAATC-G-GTACTTTGTATATACCGCCTG
1 AAATGAATCGGTGTACTTTGTGTATACCGCCTG
*
107550081 AAATGAATCGGTGTACTTTGTGTATACCGCCTA
1 AAATGAATCGGTGTACTTTGTGTATACCGCCTG
* *
107550114 AAATGAATTGGTGTACTTTGTGTATACTGCCTG
1 AAATGAATCGGTGTACTTTGTGTATACCGCCTG
* *
107550147 AAATGAATCGGTGTACTTTGTGTATACCACCTA
1 AAATGAATCGGTGTACTTTGTGTATACCGCCTG
* * *
107550180 AAATGAATCGATGTACTTTGTGTATACCACATG
1 AAATGAATCGGTGTACTTTGTGTATACCGCCTG
* * * * *
107550213 AAATGGACCGGTGTACTTTGTGCATACCACGTG
1 AAATGAATCGGTGTACTTTGTGTATACCGCCTG
* * *
107550246 AAAAGTAA-CGGTGTACTTTGCGTATACCGCATG
1 AAATG-AATCGGTGTACTTTGTGTATACCGCCTG
* * *
107550279 AAAAGGAA-AGGTATACTTTGTGTATACC
1 -AAATGAATCGGTGTACTTTGTGTATACC
107550307 ATCTAAAAAG
Statistics
Matches: 195, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
31 9 0.05
32 1 0.01
33 180 0.92
34 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (33 bp):
AAATGAATCGGTGTACTTTGTGTATACCGCCTG
Found at i:107550134 original size:66 final size:66
Alignment explanation
Indices: 107550049--107550314 Score: 317
Period size: 66 Copynumber: 4.1 Consensus size: 66
107550039 ATCAAACTTG
* * *
107550049 AAAATGAATC-G-GTACTTTGTATATACCGCCTGAAATGAATCGGTGTACTTTGTGTATACCGCC
1 AAAATGAATCGGTGTACTTTGTGTATACCGCATGAAATGAATCGGTGTACTTTGTGTATACCACC
107550112 T
66 T
* * *
107550113 AAAATGAATTGGTGTACTTTGTGTATACTGCCTGAAATGAATCGGTGTACTTTGTGTATACCACC
1 AAAATGAATCGGTGTACTTTGTGTATACCGCATGAAATGAATCGGTGTACTTTGTGTATACCACC
107550178 T
66 T
* * * * * *
107550179 AAAATGAATCGATGTACTTTGTGTATACCACATGAAATGGACCGGTGTACTTTGTGCATACCACG
1 AAAATGAATCGGTGTACTTTGTGTATACCGCATGAAATGAATCGGTGTACTTTGTGTATACCACC
107550244 T
66 T
* * * *
107550245 GAAAA-GTAA-CGGTGTACTTTGCGTATACCGCATGAAAAGGAA-AGGTATACTTTGTGTATACC
1 -AAAATG-AATCGGTGTACTTTGTGTATACCGCATG-AAATGAATCGGTGTACTTTGTGTATACC
*
107550307 ATCT
63 ACCT
107550311 AAAA
1 AAAA
107550315 AGGTATACTT
Statistics
Matches: 174, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
64 9 0.05
65 5 0.03
66 149 0.86
67 11 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (66 bp):
AAAATGAATCGGTGTACTTTGTGTATACCGCATGAAATGAATCGGTGTACTTTGTGTATACCACC
T
Found at i:107550316 original size:33 final size:32
Alignment explanation
Indices: 107550094--107550404 Score: 167
Period size: 33 Copynumber: 9.7 Consensus size: 32
107550084 TGAATCGGTG
** * * *
107550094 TACTTTGTGTATACCGCCTAAAATGAATTGGTG
1 TACTTTGTGTATACCATCTAAAAGGAA-AGGTA
*** * * * *
107550127 TACTTTGTGTATACTGCCTGAAATGAATCGGTG
1 TACTTTGTGTATACCATCTAAAAGGAA-AGGTA
* * * * *
107550160 TACTTTGTGTATACCACCTAAAATGAATCGATG
1 TACTTTGTGTATACCATCTAAAAGGAA-AGGTA
* ** *
107550193 TACTTTGTGTATACCA-CATGAAATGGACCGGTG
1 TACTTTGTGTATACCATC-T-AAAAGGAAAGGTA
* * * *
107550226 TACTTTGTGCATACCA-CGTGAAAAGTAACGGTG
1 TACTTTGTGTATACCATC-T-AAAAGGAAAGGTA
* *
107550259 TACTTTGCGTATACCGCAT-GAAAAGGAAAGGTA
1 TACTTTGTGTATA-C-CATCTAAAAGGAAAGGTA
107550292 TACTTTGTGTATACCATCT--AA--AAAGGTA
1 TACTTTGTGTATACCATCTAAAAGGAAAGGTA
107550320 TACTTTGTGTATACCATCT--AA--AAAGGTA
1 TACTTTGTGTATACCATCTAAAAGGAAAGGTA
* *
107550348 TACTTTGTGTAAACCATTTGAAAAGGGAAAGGTA
1 TACTTTGTGTATACCATCT-AAAA-GGAAAGGTA
* *
107550382 TACTTCGTGTATACCACCTAAAA
1 TACTTTGTGTATACCATCTAAAA
107550405 AAGGAAATGT
Statistics
Matches: 236, Mismatches: 30, Indels: 24
0.81 0.10 0.08
Matches are distributed among these distances:
28 52 0.22
30 2 0.01
31 5 0.02
32 2 0.01
33 145 0.61
34 28 0.12
35 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (32 bp):
TACTTTGTGTATACCATCTAAAAGGAAAGGTA
Found at i:107550325 original size:28 final size:28
Alignment explanation
Indices: 107550285--107550405 Score: 152
Period size: 28 Copynumber: 4.1 Consensus size: 28
107550275 CATGAAAAGG
107550285 AAAGGTATACTTTGTGTATACCATCTAA
1 AAAGGTATACTTTGTGTATACCATCTAA
107550313 AAAGGTATACTTTGTGTATACCATCTAA
1 AAAGGTATACTTTGTGTATACCATCTAA
* *
107550341 AAAGGTATACTTTGTGTAAACCATTTGAAAA
1 AAAGGTATACTTTGTGTATACCATCT---AA
* *
107550372 GGGAAAGGTATACTTCGTGTATACCACCTAA
1 ---AAAGGTATACTTTGTGTATACCATCTAA
107550403 AAA
1 AAA
107550406 AGGAAATGTA
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
28 55 0.68
31 4 0.05
34 22 0.27
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (28 bp):
AAAGGTATACTTTGTGTATACCATCTAA
Found at i:107561472 original size:28 final size:28
Alignment explanation
Indices: 107561432--107561486 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
107561422 GCCACGGACT
107561432 AAAACTGATTACCAAGAGGAAACATTGG
1 AAAACTGATTACCAAGAGGAAACATTGG
107561460 AAAACTGATTACCAAGAGGAAACATTG
1 AAAACTGATTACCAAGAGGAAACATTG
107561487 AAGTCATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (28 bp):
AAAACTGATTACCAAGAGGAAACATTGG
Found at i:107561828 original size:22 final size:21
Alignment explanation
Indices: 107561794--107561834 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
107561784 AATGTATCAA
107561794 ATAAAAAAATC-AAATAAACC
1 ATAAAAAAATCAAAATAAACC
107561814 ATAATAAAAAGTCAAAATAAA
1 ATAA-AAAAA-TCAAAATAAA
107561835 GAGGAATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 2 0.11
23 7 0.39
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.17
Consensus pattern (21 bp):
ATAAAAAAATCAAAATAAACC
Found at i:107579750 original size:27 final size:26
Alignment explanation
Indices: 107579690--107579751 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
107579680 ATTTTATTTT
107579690 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
107579716 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
107579744 ATTTTATT
1 ATTTTATT
107579752 TTAATTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:107579774 original size:20 final size:20
Alignment explanation
Indices: 107579746--107579793 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
107579736 AATTTAGGAT
* *
107579746 TTTAT-TTTAATTATATTTA
1 TTTATCTTTAATTAAATGTA
107579765 TTTATCTTTAATTAAATGTA
1 TTTATCTTTAATTAAATGTA
107579785 TTTATCTTT
1 TTTATCTTT
107579794 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATCTTTAATTAAATGTA
Found at i:107583697 original size:11 final size:11
Alignment explanation
Indices: 107583681--107583706 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
107583671 TTATATTGAG
107583681 TTAAAAAAAAT
1 TTAAAAAAAAT
107583692 TTAAAAAAAAT
1 TTAAAAAAAAT
107583703 TTAA
1 TTAA
107583707 TTCGTAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TTAAAAAAAAT
Found at i:107590930 original size:17 final size:17
Alignment explanation
Indices: 107590908--107590941 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107590898 ATCCACTAAT
*
107590908 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
107590925 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
107590942 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:107595568 original size:17 final size:17
Alignment explanation
Indices: 107595546--107595579 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107595536 ATCCACTAAT
*
107595546 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
107595563 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
107595580 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:107599636 original size:10 final size:10
Alignment explanation
Indices: 107599621--107599645 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
107599611 TATTCTCTAA
107599621 CAACCTTAAT
1 CAACCTTAAT
107599631 CAACCTTAAT
1 CAACCTTAAT
107599641 CAACC
1 CAACC
107599646 AATACAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (10 bp):
CAACCTTAAT
Found at i:107601905 original size:50 final size:50
Alignment explanation
Indices: 107601830--107601934 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
107601820 TTACATGACT
*
107601830 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
107601880 AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
107601930 -ATACT
1 AATACT
107601935 CACATTAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 5 0.09
50 49 0.91
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGACAATGCCTTTGGCTAAATCATAATATTAC
Found at i:107602954 original size:20 final size:18
Alignment explanation
Indices: 107602920--107602956 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
107602910 GCAACTCATT
107602920 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
107602938 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
107602957 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:107608321 original size:13 final size:11
Alignment explanation
Indices: 107608289--107608313 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
107608279 AAATTTAATA
107608289 ACTCATAATTT
1 ACTCATAATTT
107608300 ACTCATAATTT
1 ACTCATAATTT
107608311 ACT
1 ACT
107608314 GACATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (11 bp):
ACTCATAATTT
Found at i:107610142 original size:129 final size:130
Alignment explanation
Indices: 107609912--107610163 Score: 409
Period size: 129 Copynumber: 1.9 Consensus size: 130
107609902 CTCGCTTTAG
* *
107609912 AAAACACCAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCAAAACCCAG
1 AAAACACCAGTAAAATTCCAAAGGAATATTCGATTATTCTGAACAAACGAGAAATCAAAACCCAG
107609977 CACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCC-TTGTTTTAATGTTTTGAA
66 CACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTAATGTTTTGAA
* ** * **
107610041 AAAACACGAGTAAAATTTTAAAGGAATATTCGATTATTCTGAACAAACGGGAAATCGGAACCCAG
1 AAAACACCAGTAAAATTCCAAAGGAATATTCGATTATTCTGAACAAACGAGAAATCAAAACCCAG
107610106 CACGATAGGGCACTATTCCCCG-ATATTCCAAACATCGAATATTGCCTTTGTTTTAATG
66 CACGATAGGGCACTATTCCCCGAAT-TTCCAAACATCGAATATTGCCTTTGTTTTAATG
107610164 AATCTTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
128 2 0.02
129 100 0.88
130 11 0.10
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (130 bp):
AAAACACCAGTAAAATTCCAAAGGAATATTCGATTATTCTGAACAAACGAGAAATCAAAACCCAG
CACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTAATGTTTTGAA
Found at i:107612073 original size:126 final size:128
Alignment explanation
Indices: 107611848--107612109 Score: 456
Period size: 126 Copynumber: 2.0 Consensus size: 128
107611838 CAAAGCTCTC
107611848 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCATGCAAACACCAATCCTGGGTTTCAT
1 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCATGCAAACACCAATCCTGGGTTTCAT
107611913 CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGA-CC-CACGGAAAAACGAGAGGACACCT
66 CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGACCCACACGGAAAAACGAGAGGACACCT
* *
107611974 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCGTGCAAACACCGATCCTGGGTTTCAT
1 CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCATGCAAACACCAATCCTGGGTTTCAT
*
107612039 CGGCGTTAACGCCTCCACCTCCGCCATGGTACTTGACCCAAGTCACGGAAAAACGAGAGGACACC
66 CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGACCC-A--CACGGAAAAACGAGAGGACACC
107612104 T
128 T
107612105 CCTTT
1 CCTTT
107612110 GGTTCGATAT
Statistics
Matches: 128, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
126 98 0.77
127 2 0.02
131 28 0.22
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (128 bp):
CCTTTCCCCTCTCATACCGCCGAACTCTAATCCCCTTTCATGCAAACACCAATCCTGGGTTTCAT
CGGCGTTAACGCCTCCACCTCCACCATGGTACTTGACCCACACGGAAAAACGAGAGGACACCT
Found at i:107614540 original size:29 final size:29
Alignment explanation
Indices: 107614507--107614566 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
107614497 TTAAATAAAA
107614507 AAAGTA-AGAGCACTTACTTTTTAGCTTTT
1 AAAGTACA-AGCACTTACTTTTTAGCTTTT
** *
107614536 AAAGTACAATTACTTATTTTTTAGCTTTT
1 AAAGTACAAGCACTTACTTTTTAGCTTTT
107614565 AA
1 AA
107614567 CTCCTAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (29 bp):
AAAGTACAAGCACTTACTTTTTAGCTTTT
Found at i:107616009 original size:15 final size:15
Alignment explanation
Indices: 107615989--107616027 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
107615979 TGGTAAACTG
107615989 AAAATTAAGTACTAA
1 AAAATTAAGTACTAA
* **
107616004 AAAATTCAGTGTTAA
1 AAAATTAAGTACTAA
107616019 AAAATTAAG
1 AAAATTAAG
107616028 AGTTGAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.28
Consensus pattern (15 bp):
AAAATTAAGTACTAA
Found at i:107618197 original size:13 final size:13
Alignment explanation
Indices: 107618179--107618205 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
107618169 CTTTTAAGAA
107618179 AAGAAATCCATGT
1 AAGAAATCCATGT
107618192 AAGAAATCCATGT
1 AAGAAATCCATGT
107618205 A
1 A
107618206 GCATTTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AAGAAATCCATGT
Found at i:107620482 original size:20 final size:19
Alignment explanation
Indices: 107620457--107620503 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
107620447 AAATTTAAAT
107620457 ATTTAATT-TAATTAATTTAA
1 ATTTAATTGT-ATTAA-TTAA
*
107620477 ATTTAAATTGTATTAATTCA
1 ATTT-AATTGTATTAATTAA
107620497 ATTTAAT
1 ATTTAAT
107620504 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 9 0.38
22 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTAATTGTATTAATTAA
Done.