Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 331 of 333
Found at i:107376540 original size:29 final size:29
Alignment explanation
Indices: 107376508--107376565 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
107376498 AAATAAAATA
107376508 AATAAATAAGTGAATATAAATAAAACATT
1 AATAAATAAGTGAATATAAATAAAACATT
107376537 AATAAATAAGTGAATATAAATAAAACATT
1 AATAAATAAGTGAATATAAATAAAACATT
107376566 TGATTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (29 bp):
AATAAATAAGTGAATATAAATAAAACATT
Found at i:107394824 original size:19 final size:18
Alignment explanation
Indices: 107394802--107394841 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
107394792 TGAATAGAAC
107394802 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
*
107394821 TTATCTTCCTAAATAAAT
1 TTATCTACCTAAATAAAT
107394839 TTA
1 TTA
107394842 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:107402295 original size:18 final size:18
Alignment explanation
Indices: 107402272--107402307 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
107402262 AGTAAGAGTA
*
107402272 AGTTCATTGGCAACACCT
1 AGTTCATCGGCAACACCT
107402290 AGTTCATCGGCAACACCT
1 AGTTCATCGGCAACACCT
107402308 CCCTTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (18 bp):
AGTTCATCGGCAACACCT
Found at i:107407908 original size:46 final size:45
Alignment explanation
Indices: 107407849--107408042 Score: 228
Period size: 46 Copynumber: 4.2 Consensus size: 45
107407839 ATGAAATGTG
*
107407849 TAAGACCATGGTTGAAAGATACCATGGTAACATGACGAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
* * *
107407895 TAAGACCATGGTTGAAAGATACCATGGCAGCGTAACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
* *
107407941 TAAGACCATGGTTGAAAGATATCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
* * ** * * *
107407987 TAAGACCATAGTTGAAAGACATTATGGCATCATGTCA-AAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAA-ATGAA
107408032 TAAGACCATGG
1 TAAGACCATGG
107408043 ATGGGAGACG
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.02
45 15 0.12
46 111 0.87
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:107408015 original size:92 final size:92
Alignment explanation
Indices: 107407839--107408007 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 92
107407829 GCTCTCTGAT
** *
107407839 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACATGACGAGAAATGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
* *
107407904 GGTTGAAAGATACCATGGCAGCGTAAC
66 AGTTGAAAGACACCATGGCAGCGTAAC
* *
107407931 ATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACATGAC-AGAAAATGAGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGAG-AAATGAATAAGACCA
107407995 TAGTTGAAAGACA
65 TAGTTGAAAGACA
107408008 TTATGGCATC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 2 0.03
92 67 0.97
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
AGTTGAAAGACACCATGGCAGCGTAAC
Found at i:107408322 original size:16 final size:17
Alignment explanation
Indices: 107408301--107408333 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107408291 ATGATGGAGC
107408301 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
107408317 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
107408334 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:107410726 original size:42 final size:42
Alignment explanation
Indices: 107410667--107410752 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
107410657 TAGCATGTAA
107410667 ACACACTTAAGGCGCTCTTCAGAATGGCTTGTCTTACAAGTT
1 ACACACTTAAGGCGCTCTTCAGAATGGCTTGTCTTACAAGTT
107410709 ACACACTTAAGGCGCTCTTCAGAATGGCTTGTCTTACAAGTT
1 ACACACTTAAGGCGCTCTTCAGAATGGCTTGTCTTACAAGTT
107410751 AC
1 AC
107410753 TCACCAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (42 bp):
ACACACTTAAGGCGCTCTTCAGAATGGCTTGTCTTACAAGTT
Found at i:107420907 original size:19 final size:18
Alignment explanation
Indices: 107420872--107420910 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
107420862 CTATAGAGCT
* *
107420872 AATTTTTATATTCTTTTA
1 AATTTTTATAATATTTTA
107420890 AATTTTTATAAATATTTTA
1 AATTTTTAT-AATATTTTA
107420909 AA
1 AA
107420911 AAATTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTTATAATATTTTA
Found at i:107421657 original size:11 final size:11
Alignment explanation
Indices: 107421641--107421668 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
107421631 GTGTTTGCTT
107421641 AAAAAAAAAGA
1 AAAAAAAAAGA
107421652 AAAAAAAAAGA
1 AAAAAAAAAGA
107421663 AAAAAA
1 AAAAAA
107421669 GAAACAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:107423345 original size:18 final size:18
Alignment explanation
Indices: 107423322--107423358 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
107423312 GCCTGAGAGG
107423322 TATGAGGCAAAAATCTCA
1 TATGAGGCAAAAATCTCA
107423340 TATGAGGCAAAAATCTCA
1 TATGAGGCAAAAATCTCA
107423358 T
1 T
107423359 CTCTCGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (18 bp):
TATGAGGCAAAAATCTCA
Found at i:107428531 original size:16 final size:17
Alignment explanation
Indices: 107428510--107428547 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
107428500 TAGTTGAACC
*
107428510 ATATTTT-ATATTTTTA
1 ATATTTTAATACTTTTA
107428526 ATATTTTAATACTTTTA
1 ATATTTTAATACTTTTA
107428543 A-ATTT
1 ATATTT
107428548 ATAGGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTTTAATACTTTTA
Found at i:107429486 original size:16 final size:17
Alignment explanation
Indices: 107429457--107429502 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
107429447 GCATTTATAT
107429457 AAAATTATAATAAATGAA
1 AAAATTAT-ATAAATGAA
*
107429475 AAAATTAT-TAAAT-TA
1 AAAATTATATAAATGAA
107429490 AAAA-TATATAAAT
1 AAAATTATATAAAT
107429503 TTTTTTAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 10 0.38
16 5 0.19
18 8 0.31
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTATATAAATGAA
Found at i:107436992 original size:20 final size:19
Alignment explanation
Indices: 107436969--107437011 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
107436959 ACATTACAAA
107436969 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAA-TTTT
* *
107436989 AAAAATTTAAAATAATTTT
1 AAAAAATCAAAATAATTTT
107437008 AAAA
1 AAAA
107437012 CTAAAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAATCAAAATAATTTT
Found at i:107436994 original size:19 final size:19
Alignment explanation
Indices: 107436969--107437038 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 19
107436959 ACATTACAAA
*
107436969 AAAAAATCAAAATAATTTTT
1 AAAAATTCAAAATAA-TTTT
*
107436989 AAAAATTTAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* * * *
107437008 -AAAACTAAAAATAGTTAT
1 AAAAATTCAAAATAATTTT
*
107437026 AAAAATTCTAAAT
1 AAAAATTCAAAAT
107437039 TTTATATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 14 0.35
19 13 0.32
20 13 0.32
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:107438519 original size:19 final size:21
Alignment explanation
Indices: 107438495--107438543 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
107438485 TTTTTATTTA
*
107438495 AAAAAAATTTATAT-ACT-AT
1 AAAAAAATTGATATGACTAAT
107438514 AAAAAAATTGATATGACTAAT
1 AAAAAAATTGATATGACTAAT
*
107438535 AAAATAATT
1 AAAAAAATT
107438544 AGACAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 13 0.50
20 3 0.12
21 10 0.38
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAAAAATTGATATGACTAAT
Found at i:107440161 original size:13 final size:13
Alignment explanation
Indices: 107440143--107440170 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
107440133 GGATGCTTAT
107440143 CCTTAACCTTAGG
1 CCTTAACCTTAGG
107440156 CCTTAACCTTAGG
1 CCTTAACCTTAGG
107440169 CC
1 CC
107440171 CCAAGCCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (13 bp):
CCTTAACCTTAGG
Found at i:107449870 original size:19 final size:21
Alignment explanation
Indices: 107449824--107449890 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 21
107449814 TCTTTGAAAT
107449824 TTTTTAAAAATATAAATTTTAGAA
1 TTTTTAAAAAT-T--ATTTTAGAA
*
107449848 TTTTTATAAA-TATTTTA-AA
1 TTTTTAAAAATTATTTTAGAA
*
107449867 -TTTTAAAAATTATTTTATAA
1 TTTTTAAAAATTATTTTAGAA
107449887 TTTT
1 TTTT
107449891 AGAAAGAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 8 0.21
19 9 0.24
20 8 0.21
21 3 0.08
22 1 0.03
24 9 0.24
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTTTAAAAATTATTTTAGAA
Found at i:107450820 original size:31 final size:32
Alignment explanation
Indices: 107450765--107450826 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
107450755 TCTTTTTTTA
* *
107450765 AATTAAATTTGGCATTCAATCTTTT-AAAAAG
1 AATTAAATTTGCCATTCAACCTTTTCAAAAAG
107450796 AATTAAATTTGACCATT-AACCTTTTCAAAAA
1 AATTAAATTTG-CCATTCAACCTTTTCAAAAA
107450827 TTGTTGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (32 bp):
AATTAAATTTGCCATTCAACCTTTTCAAAAAG
Found at i:107456612 original size:19 final size:16
Alignment explanation
Indices: 107456574--107456606 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
107456564 CAAAGATAGT
107456574 TCTTTTTTTACCTTTG
1 TCTTTTTTTACCTTTG
107456590 TCTTTTTTTACCTTTG
1 TCTTTTTTTACCTTTG
107456606 T
1 T
107456607 GGTCTTGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.70
Consensus pattern (16 bp):
TCTTTTTTTACCTTTG
Found at i:107483172 original size:21 final size:21
Alignment explanation
Indices: 107483140--107483180 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
107483130 GAACATTTGG
107483140 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
107483161 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
107483181 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:107495186 original size:17 final size:18
Alignment explanation
Indices: 107495164--107495198 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
107495154 AAAAGGAGTA
*
107495164 ATAATTTTTA-AAATTTT
1 ATAATTTATATAAATTTT
107495181 ATAATTTATATAAATTTT
1 ATAATTTATATAAATTTT
107495199 CCTATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTATATAAATTTT
Found at i:107495255 original size:29 final size:28
Alignment explanation
Indices: 107495162--107495255 Score: 72
Period size: 30 Copynumber: 3.3 Consensus size: 28
107495152 ATAAAAGGAG
* *
107495162 TAATAATTTT-TAAAATTTTATAATTTA
1 TAATAATTTTATAATATTTTATAATTTC
107495189 T-ATAAATTTTCCTATAAT-TTTTAT-ATTTC
1 TAAT-AA-TTT--TATAATATTTTATAATTTC
107495218 ATTAA-AATTTTATAATATTTTAATAATTTC
1 --TAATAATTTTATAATATTTT-ATAATTTC
107495248 TAATAATT
1 TAATAATT
107495256 GAAGATTCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 22
0.69 0.03 0.29
Matches are distributed among these distances:
26 2 0.04
27 9 0.17
28 10 0.19
29 13 0.25
30 14 0.26
31 4 0.08
32 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (28 bp):
TAATAATTTTATAATATTTTATAATTTC
Found at i:107499347 original size:16 final size:16
Alignment explanation
Indices: 107499313--107499363 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
107499303 AAATAAGATT
**
107499313 AATAATTAAAATTTGA
1 AATAATTAAAATTCAA
107499329 AATAATTAAAATTCAA
1 AATAATTAAAATTCAA
* * *
107499345 AATAACTCAAATTGAA
1 AATAATTAAAATTCAA
107499361 AAT
1 AAT
107499364 TACCCGAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (16 bp):
AATAATTAAAATTCAA
Found at i:107502841 original size:15 final size:16
Alignment explanation
Indices: 107502817--107502858 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
107502807 CAAATGATCT
107502817 AAACTCAAAATAATTC
1 AAACTCAAAATAATTC
* *
107502833 GAACT-AAAAAAATTC
1 AAACTCAAAATAATTC
107502848 AAACTCAAAAT
1 AAACTCAAAAT
107502859 TAATATGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (16 bp):
AAACTCAAAATAATTC
Found at i:107505631 original size:103 final size:102
Alignment explanation
Indices: 107505452--107505642 Score: 260
Period size: 103 Copynumber: 1.9 Consensus size: 102
107505442 ATCACTTCAA
** *
107505452 AAAGATATTACTTATTTAATTTCACTTGAATCCACAATTTCTAGGAATTTATGATAATATTAATG
1 AAAGATATTACTTATTTAATTTCACTTGAATCCACAATTTCTACAAATTTATAATAATATTAATG
107505517 TAAATTGATAATTATTTAATCAACTATACATATATGAT
66 TAAATTGATAATTATTTAA-CAACTATACATATATGAT
* ****
107505555 AAAGATATTA-TTCATTTAATTTTACTTGAATTTGTAATTTC-ACAAATTTATAATAATATTAAT
1 AAAGATATTACTT-ATTTAATTTCACTTGAATCCACAATTTCTACAAATTTATAATAATATTAAT
*
107505618 GTCAATTGAATAATTATTTAACAAC
65 GTAAATTG-ATAATTATTTAACAAC
107505643 GGTAAATTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
102 32 0.42
103 45 0.58
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (102 bp):
AAAGATATTACTTATTTAATTTCACTTGAATCCACAATTTCTACAAATTTATAATAATATTAATG
TAAATTGATAATTATTTAACAACTATACATATATGAT
Found at i:107520954 original size:16 final size:16
Alignment explanation
Indices: 107520933--107520965 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
107520923 AAATGTCCTT
107520933 CTATTATTAAATGAAC
1 CTATTATTAAATGAAC
107520949 CTATTATTAAATGAAC
1 CTATTATTAAATGAAC
107520965 C
1 C
107520966 AATTTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (16 bp):
CTATTATTAAATGAAC
Found at i:107523163 original size:19 final size:19
Alignment explanation
Indices: 107523124--107523161 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
107523114 AAAGTGAATC
*
107523124 TTGGTCCTTAACTTTCAAA
1 TTGGTCCTTAACTATCAAA
107523143 TTGGTCCTTAAACTATCAA
1 TTGGTCCTT-AACTATCAA
107523162 TTAAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGGTCCTTAACTATCAAA
Found at i:107524144 original size:15 final size:15
Alignment explanation
Indices: 107524099--107524145 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
107524089 AATGAGGTTT
*
107524099 TTTTATCTAACTTAA
1 TTTTATCTAATTTAA
107524114 TTATATAT-TAAATTTAA
1 TT-T-TATCT-AATTTAA
107524131 TTTTATCTAATTTAA
1 TTTTATCTAATTTAA
107524146 ACTAGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
15 12 0.44
16 4 0.15
17 11 0.41
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTATCTAATTTAA
Found at i:107533001 original size:5 final size:5
Alignment explanation
Indices: 107532991--107533015 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
107532981 TGCTGGACAA
107532991 AACCC AACCC AACCC AACCC AACCC
1 AACCC AACCC AACCC AACCC AACCC
107533016 GAACTAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCC
Found at i:107535241 original size:24 final size:24
Alignment explanation
Indices: 107535214--107535264 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
107535204 ACAGTAAACC
107535214 AAACAAACAAACAAAATATTAAA-A
1 AAACAAACAAACAAAAT-TTAAATA
*
107535238 AAACAAACCAACAAAATTTAAATA
1 AAACAAACAAACAAAATTTAAATA
107535262 AAA
1 AAA
107535265 AAATAGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (24 bp):
AAACAAACAAACAAAATTTAAATA
Found at i:107537915 original size:103 final size:103
Alignment explanation
Indices: 107537708--107537903 Score: 365
Period size: 103 Copynumber: 1.9 Consensus size: 103
107537698 TCTATACATT
107537708 TTTTAATTTAGAATTTTTATAAATTTTAAATTATTTGTTAACATTATATAATATAAATATTACCA
1 TTTTAATTTAGAATTTTTATAAATTTTAAATTATTTGTTAACATTATATAATATAAATATTACCA
107537773 TGTCAGTATGAAATACACGTAGACTAATATAGAAGTTG
66 TGTCAGTATGAAATACACGTAGACTAATATAGAAGTTG
* *
107537811 TTTTAATTTAGATTTTTTATAAATTTTAAATTATTTGTTAACATTTTATAATATAAATATTACCA
1 TTTTAATTTAGAATTTTTATAAATTTTAAATTATTTGTTAACATTATATAATATAAATATTACCA
*
107537876 TTTCAGTATGAAATACACGTAGACTAAT
66 TGTCAGTATGAAATACACGTAGACTAAT
107537904 GTGGGAGTTG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 90 1.00
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (103 bp):
TTTTAATTTAGAATTTTTATAAATTTTAAATTATTTGTTAACATTATATAATATAAATATTACCA
TGTCAGTATGAAATACACGTAGACTAATATAGAAGTTG
Found at i:107540925 original size:46 final size:46
Alignment explanation
Indices: 107540873--107541100 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
107540863 AGTGTGCTCT
107540873 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
107540919 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
107540965 TTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
107541011 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
107541057 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
107541101 TCACGTCAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:107541406 original size:23 final size:25
Alignment explanation
Indices: 107541362--107541407 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
107541352 ATAAATATAC
*
107541362 ATAAAATATATGGAAATGATGAAGT
1 ATAAAATATATGGAAATAATGAAGT
*
107541387 ATAAAATAT-T-GATATAATGAA
1 ATAAAATATATGGAAATAATGAA
107541408 ATGAATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 1 0.05
25 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.30
Consensus pattern (25 bp):
ATAAAATATATGGAAATAATGAAGT
Found at i:107551925 original size:7 final size:7
Alignment explanation
Indices: 107551915--107551940 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
107551905 TTTATATTTT
107551915 TTTAAAA
1 TTTAAAA
107551922 TTTAAAA
1 TTTAAAA
107551929 TTTAAAA
1 TTTAAAA
107551936 TTTAA
1 TTTAA
107551941 TGCAAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:107552044 original size:16 final size:16
Alignment explanation
Indices: 107552023--107552056 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
107552013 ATAAATTATC
107552023 AAAAATAAAATAAATT
1 AAAAATAAAATAAATT
* *
107552039 AAAAATAACATAATTT
1 AAAAATAAAATAAATT
107552055 AA
1 AA
107552057 CCTTTGCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATAAAATAAATT
Found at i:107560054 original size:98 final size:98
Alignment explanation
Indices: 107559885--107560079 Score: 275
Period size: 98 Copynumber: 2.0 Consensus size: 98
107559875 ACCCTAACGG
* * **
107559885 TTTGTTCGATTAGCTGAAATTTGGTTGCTCGGTTAATTCGAGAATATTGCTATATTCATTGTTTG
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
* *
107559950 TTTAAGATTATCATAGAATGTGTAGGAGCATGT
66 TTTAAGATGATCATACAATGTGTAGGAGCATGT
* * *
107559983 TTTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCATTATATGT-ATTGTTT
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATAT-TCATTGTTT
* *
107560047 GTTTAAGATGATGATACATTGTGTAGGAGCATG
65 GTTTAAGATGATCATACAATGTGTAGGAGCATG
107560080 CTTTCTTCAG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 84 0.99
99 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (98 bp):
TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
TTTAAGATGATCATACAATGTGTAGGAGCATGT
Found at i:107560298 original size:186 final size:186
Alignment explanation
Indices: 107559984--107560624 Score: 969
Period size: 186 Copynumber: 3.4 Consensus size: 186
107559974 GGAGCATGTT
* * * * * *
107559984 TTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCATTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
107560049 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
*
107560114 GAACTGTTTATATGCTGCTTCTGAGTCTGCTGAGGCTGCTAATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* ** ** *
107560170 TTGTTCGGTTAGCTGAAATTCAATTGCTCGGTTAATTTGAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
*
107560235 TTAAGACGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* *
107560300 GAGCTGTTTATATGCTGCTTCCGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* *
107560356 TTGTTCCATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* * * *
107560421 CTAAGATGATGATACATAGTGTAGGAGCATACTTTCTTCAGTATGAATCTCATTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* * *
107560486 GAACT-TTCTATATGCTGCTGCTGAGTCTGTTGAGGCTGCTAATCAACCCTAAAGGT
131 GAACTGTT-TATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* ** * **
107560542 TTGTTCAATTAGCTGAAATTTGATTGCTCAATTAATTCAAGAACATTGCTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* *
107560607 TTTAGATGATAATACATT
66 TTAAGATGATGATACATT
107560625 TTTTAGTAGT
Statistics
Matches: 413, Mismatches: 41, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
185 2 0.00
186 411 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (186 bp):
TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
Found at i:107565201 original size:31 final size:31
Alignment explanation
Indices: 107565155--107565216 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
107565145 AAAACTTGAT
107565155 TTAAATAAAAACTTTCAAATAGTTCAATGAC
1 TTAAATAAAAACTTTCAAATAGTTCAATGAC
* * *
107565186 TTAAATGAAAGCTTTCAAATAGTTCAGTGAC
1 TTAAATAAAAACTTTCAAATAGTTCAATGAC
107565217 CATATTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAGTTCAATGAC
Found at i:107567966 original size:18 final size:18
Alignment explanation
Indices: 107567943--107567982 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
107567933 TGTTTCATAT
107567943 AAAA-TTAAATTAATTTAA
1 AAAATTTAAATT-ATTTAA
*
107567961 AAAATTTAAATTTTTTAA
1 AAAATTTAAATTATTTAA
107567979 AAAA
1 AAAA
107567983 ATTATAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTTAAATTATTTAA
Found at i:107572291 original size:21 final size:21
Alignment explanation
Indices: 107572267--107572308 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
107572257 AAGTGACCAA
107572267 AATGTGAACTTGTTAATAGTT
1 AATGTGAACTTGTTAATAGTT
107572288 AATGTGAACTTGTTAATAGTT
1 AATGTGAACTTGTTAATAGTT
107572309 TAATATTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
AATGTGAACTTGTTAATAGTT
Found at i:107575091 original size:14 final size:13
Alignment explanation
Indices: 107575067--107575094 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
107575057 CATGATACTG
107575067 TTGGCTTTTTTTT
1 TTGGCTTTTTTTT
107575080 TTGGCTTTTTTTT
1 TTGGCTTTTTTTT
107575093 TT
1 TT
107575095 CATTTCTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.79
Consensus pattern (13 bp):
TTGGCTTTTTTTT
Found at i:107575577 original size:31 final size:31
Alignment explanation
Indices: 107575542--107575612 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
107575532 TCAATATTTG
* *
107575542 ATTTGGTATTTGAGCTTGG-TTTTGATATTCA
1 ATTTGGTACTTGAGCTTGGCTTTAG-TATTCA
* *
107575573 ATTTGTTACTTGAGTTTGGCTTTAGTATTCA
1 ATTTGGTACTTGAGCTTGGCTTTAGTATTCA
*
107575604 ATTTAGTAC
1 ATTTGGTAC
107575613 CTAACATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.21, C:0.08, G:0.20, T:0.51
Consensus pattern (31 bp):
ATTTGGTACTTGAGCTTGGCTTTAGTATTCA
Found at i:107579127 original size:23 final size:23
Alignment explanation
Indices: 107579101--107579145 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
107579091 CTACAAATGA
* *
107579101 CGTGATCCTCACTTGGTTTGCGC
1 CGTGATCCTCACTCGATTTGCGC
107579124 CGTGATCCTCACTCGATTTGCG
1 CGTGATCCTCACTCGATTTGCG
107579146 TGAGCTGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.31, G:0.24, T:0.33
Consensus pattern (23 bp):
CGTGATCCTCACTCGATTTGCGC
Found at i:107579431 original size:2 final size:2
Alignment explanation
Indices: 107579424--107579450 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
107579414 CCTAAAAAGT
107579424 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
107579451 GACACCCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107584969 original size:20 final size:19
Alignment explanation
Indices: 107584932--107584972 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
107584922 TATATATATC
107584932 ATAAAAATGAAAATAAAAT
1 ATAAAAATGAAAATAAAAT
107584951 ATAAAAATCAGAAAA-AAAAT
1 ATAAAAAT--GAAAATAAAAT
107584971 AT
1 AT
107584973 TTCGAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (19 bp):
ATAAAAATGAAAATAAAAT
Found at i:107589146 original size:67 final size:67
Alignment explanation
Indices: 107589038--107589170 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
107589028 TGAACAAATT
* *
107589038 ACTCAAAATGATCTAAACTCATGATGATTCAAATTAAAAGACTTAAGCTTAAAACTCGAATGACA
1 ACTCAAAATGATCTAAACCCATAATGATTCAAATTAAAAGACTTAAGCTTAAAACTCGAATGACA
107589103 TG
66 TG
* * *
107589105 ACTCAAAATGATCTAAACCCGTAATGA-TCAAAATTAAAAGACTTAAGTTTCAAACTCGAATGAC
1 ACTCAAAATGATCTAAACCCATAATGATTC-AAATTAAAAGACTTAAGCTTAAAACTCGAATGAC
107589169 AT
65 AT
107589171 AACATAGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 2 0.03
67 58 0.97
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.26
Consensus pattern (67 bp):
ACTCAAAATGATCTAAACCCATAATGATTCAAATTAAAAGACTTAAGCTTAAAACTCGAATGACA
TG
Found at i:107601536 original size:9 final size:9
Alignment explanation
Indices: 107601522--107601571 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
107601512 ATAAGTATAA
*
107601522 AATTAACTG
1 AATTAACCG
*
107601531 AATTAATCG
1 AATTAACCG
107601540 AATTAACCG
1 AATTAACCG
*
107601549 AATTACCCG
1 AATTAACCG
107601558 AATTAACCG
1 AATTAACCG
107601567 AATTA
1 AATTA
107601572 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:107601606 original size:5 final size:6
Alignment explanation
Indices: 107601591--107601631 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
107601581 AATTATATGT
*
107601591 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
107601632 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:107606812 original size:20 final size:20
Alignment explanation
Indices: 107606789--107606847 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
107606779 TATTAATGAA
107606789 TATTTGATGTAATTAATGGG
1 TATTTGATGTAATTAATGGG
* *
107606809 TATTTCA--TATTTAA----
1 TATTTGATGTAATTAATGGG
107606823 TATTTGATGTAATTAATGGG
1 TATTTGATGTAATTAATGGG
107606843 TATTT
1 TATTT
107606848 CATATTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
14 6 0.21
16 6 0.21
18 6 0.21
20 11 0.38
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.51
Consensus pattern (20 bp):
TATTTGATGTAATTAATGGG
Found at i:107606828 original size:34 final size:34
Alignment explanation
Indices: 107606787--107606861 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
107606777 ATTATTAATG
107606787 AATATTTGATGTAATTAATGGGTATTTCATATTT
1 AATATTTGATGTAATTAATGGGTATTTCATATTT
107606821 AATATTTGATGTAATTAATGGGTATTTCATATTT
1 AATATTTGATGTAATTAATGGGTATTTCATATTT
*
107606855 AAAATTT
1 AATATTT
107606862 AGGGTTGATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (34 bp):
AATATTTGATGTAATTAATGGGTATTTCATATTT
Found at i:107607259 original size:17 final size:18
Alignment explanation
Indices: 107607228--107607262 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
107607218 TTGGGAAACG
*
107607228 ATTCAACTCATTTCACTC
1 ATTCAACTCACTTCACTC
107607246 ATTC-ACTCACTTCACTC
1 ATTCAACTCACTTCACTC
107607263 CACCATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTCAACTCACTTCACTC
Found at i:107611475 original size:29 final size:30
Alignment explanation
Indices: 107611417--107611475 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
107611407 TTATAGGGAC
* *
107611417 TGGATCAAAATTAGCTCTTCTATTATTAAA
1 TGGATCAAAATTAGCTCTTCTACTAGTAAA
107611447 TGGATC-AAATTAG-TCTCTCTACTAGTAAA
1 TGGATCAAAATTAGCTCT-TCTACTAGTAAA
107611476 ACGAATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 17 0.65
30 6 0.23
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (30 bp):
TGGATCAAAATTAGCTCTTCTACTAGTAAA
Found at i:107613515 original size:11 final size:11
Alignment explanation
Indices: 107613501--107613536 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
107613491 AAGAAGCATT
*
107613501 AAAAATTTTAA
1 AAAAATATTAA
107613512 AAAAATATT-A
1 AAAAATATTAA
107613522 AAAAATATTAA
1 AAAAATATTAA
107613533 AAAA
1 AAAA
107613537 TAATTCAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATATTAA
Found at i:107613524 original size:10 final size:10
Alignment explanation
Indices: 107613501--107613538 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
107613491 AAGAAGCATT
*
107613501 AAAAATTTTAA
1 AAAAATATT-A
107613512 AAAAATATTA
1 AAAAATATTA
107613522 AAAAATATTA
1 AAAAATATTA
107613532 AAAAATA
1 AAAAATA
107613539 ATTCAACCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATATTA
Found at i:107619439 original size:99 final size:100
Alignment explanation
Indices: 107619301--107619992 Score: 494
Period size: 101 Copynumber: 6.9 Consensus size: 100
107619291 TCTCCCAAAG
* * * * *
107619301 GGGAGACAAGTGGACTATATACAATCTACACGTGACTTTTAAAT-CT-CACGTATTTGTCCTATG
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTACAC--ACTTGTCCTATG
* **
107619364 AGATTTGATGG-TTATAAGTCTTTCATCATAGTTTGA
64 AGATTTGATGGCTTATAAGCCTCCCATCATAGTTTGA
* * * * * **
107619400 GGGAGACAAATGAACTATACACGA-CTTACGCGTGGCTTTTACATGCTCCACACTTGTCCCACAA
1 GGGAGACAAATGAACTATACACGATC-TACACGTGACTTTTAAATGCTACACACTTGTCCTATGA
* * * * **
107619464 GACTTGATGGCTAAATATGCCTCCCATAATAACTTGA
65 GATTTGATGGCT-TATAAGCCTCCCATCATAGTTTGA
* * **
107619501 GGGAGAAAAATGAACTATACACGATCTACACATGACAATTAAATGCTACACACTTGTACC-ATGA
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTACACACTTGT-CCTATGA
* * * *
107619565 GATTTGAGGGCATATAAGCCTCCCATTATA-ATTGA
65 GATTTGATGGCTTATAAGCCTCCCATCATAGTTTGA
* * * ** *
107619600 GGGCAGACAAATGGACTATACACGATCTACACGTGACTTTTAAATCCCAGGCACTTGTCTTATGA
1 GGG-AGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTACACACTTGTCCTATGA
* *
107619665 GATTTGATGGC-TAAAAGCCTCCCATCATGGTTTGA
65 GATTTGATGGCTTATAAGCCTCCCATCATAGTTTGA
* * * * * * *
107619700 CGGAGACAAATGAACTATACACGA-CTTGCATGTGGCTTTTACATGCTCCACACTTGT-CTCATA
1 GGGAGACAAATGAACTATACACGATC-TACACGTGACTTTTAAATGCTACACACTTGTCCT-ATG
* **
107619763 AGACTTGAT-GCTATATAAAGCCTCCCATCATAACTTGA
64 AGATTTGATGGCT-TAT-AAGCCTCCCATCATAGTTTGA
* * * * * * ** * * *
107619801 GAGAGACAAGTGAACTATACACAATCTACACGTGACCTTTACATGTTGTATACATGTCCTACGAG
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTACACACTTGTCCTATGAG
* * * *** * * **
107619866 ATTTGAAGGGCATATAAGACTTTTATTATAATCAGA
66 ATTTG-ATGGCTTATAAGCCTCCCATCATAGTTTGA
* * * * * * *
107619902 GGGAGACAAGTGGACAATACATGATCTACACGTGATTTTTACATG-TCACACACTTGTCCTACGA
1 GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCT-ACACACTTGTCCTATGA
*
107619966 GATTTGATGGC-TAT-A-TCTCCCATCATA
65 GATTTGATGGCTTATAAGCCTCCCATCATA
107619993 ATCTCTCCCA
Statistics
Matches: 460, Mismatches: 113, Indels: 42
0.75 0.18 0.07
Matches are distributed among these distances:
97 7 0.02
98 6 0.01
99 131 0.28
100 90 0.20
101 214 0.47
102 10 0.02
103 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (100 bp):
GGGAGACAAATGAACTATACACGATCTACACGTGACTTTTAAATGCTACACACTTGTCCTATGAG
ATTTGATGGCTTATAAGCCTCCCATCATAGTTTGA
Found at i:107619869 original size:300 final size:301
Alignment explanation
Indices: 107619301--107619978 Score: 860
Period size: 300 Copynumber: 2.3 Consensus size: 301
107619291 TCTCCCAAAG
* * * *
107619301 GGGAGACAAGTGGACTATATACAATCTACACGTGACTTTTAAATCTCACGTATTTGTCCTATGAG
1 GGGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCTATGAG
* * * ** * *
107619366 ATTTGATGGTTATAAGTCTTTCATCATAGTTTGAGGGAGACAAATGAACTATACACGACTTACGC
66 ATTTGATGGCTAAAAGCCTCCCATCATAGTTTGACGGAGACAAATGAACTATACACGACTTACAC
*
107619431 GTGGCTTTTACATGCTCCACACTTGTCCCACAAGACTTGATGGCTAAATATGCCTCCCATAATAA
131 GTGGCTTTTACATGCTCCACACTTGTCCCACAAGACTTGATGGCTAAATAAGCCTCCCATAATAA
* * *
107619496 CTTGAGGGAGAAAAATGAACTATACACGATCTACACATGACAATTAAATGCTACACACTTGTACC
196 CTTGAGAGAGAAAAATGAACTATACACAATCTACACATGACAATTAAATGCTACACACATGTACC
* * *
107619561 ATGAGATTTG-AGGGCATATAAGCCTCCCATTATAAT-TGA
261 ACGAGATTTGAAGGGCATATAAGACTCCCATTATAATCAGA
* * * *
107619600 GGGCAGACAAATGGACTATACACGATCTACACGTGACTTTTAAATCCCAGGCACTTGTCTTATGA
1 GGG-AGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCTATGA
* *
107619665 GATTTGATGGCTAAAAGCCTCCCATCATGGTTTGACGGAGACAAATGAACTATACACGACTTGCA
65 GATTTGATGGCTAAAAGCCTCCCATCATAGTTTGACGGAGACAAATGAACTATACACGACTTACA
* * * * *
107619730 TGTGGCTTTTACATGCTCCACACTTGTCTCATAAGACTTGAT-GCTATATAAAGCCTCCCATCAT
130 CGTGGCTTTTACATGCTCCACACTTGTCCCACAAGACTTGATGGCTAAAT-AAGCCTCCCATAAT
* * * ** * * ** *
107619794 AACTTGAGAGAGACAAGTGAACTATACACAATCTACACGTGACCTTTACATGTTGTATACATGT-
194 AACTTGAGAGAGAAAAATGAACTATACACAATCTACACATGACAATTAAATGCTACACACATGTA
***
107619858 CCTACGAGATTTGAAGGGCATATAAGACTTTTATTATAATCAGA
259 CC-ACGAGATTTGAAGGGCATATAAGACTCCCATTATAATCAGA
* * * * * * *
107619902 GGGAGACAAGTGGACAATACATGATCTACACGTGATTTTTACATGTCACACACTTGTCCTACGAG
1 GGGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCTATGAG
107619967 ATTTGATGGCTA
66 ATTTGATGGCTA
107619979 TATCTCCCAT
Statistics
Matches: 321, Mismatches: 53, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
299 11 0.03
300 220 0.69
301 85 0.26
302 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (301 bp):
GGGAGACAAGTGGACTATACACGATCTACACGTGACTTTTAAATCTCACGCACTTGTCCTATGAG
ATTTGATGGCTAAAAGCCTCCCATCATAGTTTGACGGAGACAAATGAACTATACACGACTTACAC
GTGGCTTTTACATGCTCCACACTTGTCCCACAAGACTTGATGGCTAAATAAGCCTCCCATAATAA
CTTGAGAGAGAAAAATGAACTATACACAATCTACACATGACAATTAAATGCTACACACATGTACC
ACGAGATTTGAAGGGCATATAAGACTCCCATTATAATCAGA
Found at i:107620001 original size:15 final size:15
Alignment explanation
Indices: 107619981--107620009 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
107619971 GATGGCTATA
107619981 TCTCCCATCATAATC
1 TCTCCCATCATAATC
107619996 TCTCCCATCATAAT
1 TCTCCCATCATAAT
107620010 TTGAGGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (15 bp):
TCTCCCATCATAATC
Found at i:107624774 original size:29 final size:29
Alignment explanation
Indices: 107624740--107624825 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
107624730 GGTAAGGGGT
107624740 TCAAATTTTTTTATCAACTTTTAATGGGCC
1 TCAAATTTTTTTATCAACTTTTAA-GGGCC
* * *
107624770 -CAAATTTATTTTTTTAGCTTTTAAGGGCC
1 TCAAATTT-TTTTATCAACTTTTAAGGGCC
* *
107624799 TCAAAATTTTTTACCAACTTTTAAGGG
1 TCAAATTTTTTTATCAACTTTTAAGGG
107624826 ACTTAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
29 27 0.59
30 19 0.41
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (29 bp):
TCAAATTTTTTTATCAACTTTTAAGGGCC
Found at i:107624833 original size:29 final size:32
Alignment explanation
Indices: 107624787--107624855 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 32
107624777 ATTTTTTTAG
*
107624787 CTTTTAAGGGCCTC-AAAATT-TTTTAC-C-AA
1 CTTTTAAGGGACTCAAAAATTATTTT-CTCTAA
*
107624816 CTTTTAAGGGACTTAAAAATTATTTTCTCTAA
1 CTTTTAAGGGACTCAAAAATTATTTTCTCTAA
107624848 CTTTTAAG
1 CTTTTAAG
107624856 TAACCTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 12 0.35
30 7 0.21
31 5 0.15
32 10 0.29
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (32 bp):
CTTTTAAGGGACTCAAAAATTATTTTCTCTAA
Found at i:107634368 original size:28 final size:28
Alignment explanation
Indices: 107634336--107634395 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
107634326 TTTCTAAAAC
107634336 TTTAGAAAATATATA-ATTTTGTTTAATT
1 TTTAGAAAATATATAGATTTT-TTTAATT
**
107634364 TTTAGAATTTATATAGATTTTTTTAATT
1 TTTAGAAAATATATAGATTTTTTTAATT
107634392 TTTA
1 TTTA
107634396 AGTGATAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTAGAAAATATATAGATTTTTTTAATT
Found at i:107637202 original size:16 final size:16
Alignment explanation
Indices: 107637183--107637226 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
107637173 TTTTGTTGAG
*
107637183 TCATTTTAGGTTT-AGA
1 TCATTTTGGGTTTCA-A
*
107637199 TCATTTCGGGTTTCAA
1 TCATTTTGGGTTTCAA
107637215 TCATTTTGGGTT
1 TCATTTTGGGTT
107637227 ATTTGTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.50
Consensus pattern (16 bp):
TCATTTTGGGTTTCAA
Found at i:107644022 original size:18 final size:18
Alignment explanation
Indices: 107643999--107644034 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
107643989 CTCAACAAAA
107643999 AAAAATTAAAAAATTTAT
1 AAAAATTAAAAAATTTAT
**
107644017 AAAAATTTTAAAATTTAT
1 AAAAATTAAAAAATTTAT
107644035 GTTTTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTAAAAAATTTAT
Found at i:107644200 original size:16 final size:16
Alignment explanation
Indices: 107644181--107644211 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107644171 TTGAATTTTT
107644181 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
107644197 TTTCAAATTTATATG
1 TTTCAAATATATATG
107644212 CTTTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:107652628 original size:20 final size:19
Alignment explanation
Indices: 107652582--107652628 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
107652572 TATAAATAAA
107652582 AATAAAAA--TAATTAATT
1 AATAAAAATTTAATTAATT
* *
107652599 AATTATAATTTAATATAATT
1 AATAAAAATTTAAT-TAATT
107652619 AATAAAAATT
1 AATAAAAATT
107652629 ATTTTTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.26
19 4 0.17
20 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAAAAATTTAATTAATT
Found at i:107652628 original size:26 final size:26
Alignment explanation
Indices: 107652599--107652654 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
107652589 ATAATTAATT
*
107652599 AATTATAATTTA-ATATAATTAATAAA
1 AATTAT-ATTTATATAAAATTAATAAA
*
107652625 AATTATTTTTATATAAAATTAATAAA
1 AATTATATTTATATAAAATTAATAAA
107652651 AATT
1 AATT
107652655 CGTAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTATATTTATATAAAATTAATAAA
Found at i:107654985 original size:6 final size:6
Alignment explanation
Indices: 107654974--107655004 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
107654964 TTTCATCTGA
107654974 TTAATT TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT T
107655005 ATTCATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:107659275 original size:15 final size:15
Alignment explanation
Indices: 107659255--107659288 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
107659245 AATTGATACT
107659255 TAAACTTGAAAATCG
1 TAAACTTGAAAATCG
107659270 TAAACTTGAAAATCG
1 TAAACTTGAAAATCG
107659285 TAAA
1 TAAA
107659289 TTAATTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (15 bp):
TAAACTTGAAAATCG
Found at i:107659707 original size:6 final size:6
Alignment explanation
Indices: 107659692--107659721 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
107659682 TTGGGAAAGA
*
107659692 TCAAAT TCAAAC TCAAAC TCAAAC TCAAAC
1 TCAAAC TCAAAC TCAAAC TCAAAC TCAAAC
107659722 ATTCAAGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (6 bp):
TCAAAC
Found at i:107665450 original size:33 final size:33
Alignment explanation
Indices: 107665411--107665479 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
107665401 ATATAAAATG
* * *
107665411 ACAACAAAACAATTGAAAAACGATAAGAAAACA
1 ACAACAAAACAATAGAAAAACAACAAGAAAACA
*
107665444 ACAACAAAACAATAGAAAAACAACAATAAAACA
1 ACAACAAAACAATAGAAAAACAACAAGAAAACA
107665477 ACA
1 ACA
107665480 GTTTTTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.70, C:0.17, G:0.06, T:0.07
Consensus pattern (33 bp):
ACAACAAAACAATAGAAAAACAACAAGAAAACA
Found at i:107668561 original size:197 final size:194
Alignment explanation
Indices: 107668032--107668697 Score: 913
Period size: 194 Copynumber: 3.4 Consensus size: 194
107668022 ATTCTTTATA
* * * * *
107668032 TAATTCTGGTCAGTAACATCATCAATTATTAGTTTTTTAGAATGACCAATAGAGGCATGAAGTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAG-TGTTTAGAATGATCAATAGAGGAATGAAGTTT
* * * *
107668097 TTTGCGT-GGTCTGTGCTTTGTTGTACCTTCTCAGGGCTGCTATAAGTAGTTTTGTTCTTGTGTG
65 TTTGC-TCGGTTTATGCTTTGTT-TACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
*
107668161 TTTATGTTGAAGTTATTTGTTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGT
128 TTTATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGT
107668226 GG
193 GG
* * * *
107668228 TAGTTCTGGTCCATAACAGCATCAATTATTAGTGATTA-AATGATCAATAGAGGAATGAAGTTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
* * *
107668292 TTGCTCGGTTTGTGCTTTGTTTTACCTTGTTAGGGCTGCTATAAGGAGTTCTGTTCTTGTGTGTT
66 TTGCTCGGTTTATGCTTTG-TTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTT
* *
107668357 TATGTTGAAGTTATATGCTGTAATTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
130 TATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
* * *
107668422 TAATCCCGGTCAATAACAACATCAATTATTAGAGTTTAGAATATGATCAATAGAGGAATGAAGTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAG-A-ATGATCAATAGAGGAATGAAGTT
*
107668487 TTTTGCTCGGTTTATGCTTCGTTTCACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
64 TTTTGCTCGGTTTATGCTTTGTTT-ACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
* * * * * * * *
107668552 TTTATGTTGAAGTTATTTGCTGTAACTATACAGTTCGTTTGTCGGTCTAAGCATATCAACAATAT
128 TTTATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGT
107668617 GG
193 GG
** * * *
107668619 TAATTCTGGTCAATAATGACATCAATTATTACTGTTTCGAATGATCAGTAGAGGAATGAAGTTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
* *
107668684 TTTCTTGGTTTATG
66 TTGCTCGGTTTATG
107668698 TATGTTTTAA
Statistics
Matches: 417, Mismatches: 47, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
193 1 0.00
194 172 0.41
195 42 0.10
196 33 0.08
197 169 0.41
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (194 bp):
TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
TTGCTCGGTTTATGCTTTGTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTT
ATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
Found at i:107682889 original size:13 final size:13
Alignment explanation
Indices: 107682867--107682905 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
107682857 AAATTTGTAC
107682867 TTAA-GTTTAATT
1 TTAATGTTTAATT
107682879 TTAATGTTTAATT
1 TTAATGTTTAATT
*
107682892 TTAATGTTCAATT
1 TTAATGTTTAATT
107682905 T
1 T
107682906 AGTACTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (13 bp):
TTAATGTTTAATT
Found at i:107687390 original size:16 final size:16
Alignment explanation
Indices: 107687369--107687404 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
107687359 TCAATATTCA
107687369 AAATTAACCTCAATCT
1 AAATTAACCTCAATCT
* *
107687385 AAATTAACTTTAATCT
1 AAATTAACCTCAATCT
107687401 AAAT
1 AAAT
107687405 AAGTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTAACCTCAATCT
Found at i:107687711 original size:11 final size:11
Alignment explanation
Indices: 107687695--107687725 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
107687685 GGTTCACTTG
107687695 TTAATTATCTT
1 TTAATTATCTT
107687706 TTAATTATCTT
1 TTAATTATCTT
107687717 TTAATTATC
1 TTAATTATC
107687726 ATAACGTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (11 bp):
TTAATTATCTT
Found at i:107690097 original size:19 final size:19
Alignment explanation
Indices: 107690075--107690113 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
107690065 TATATTATAA
* *
107690075 ATTACATAATATATAAAAT
1 ATTACAAAATATAAAAAAT
*
107690094 ATTACAAAATTTAAAAAAT
1 ATTACAAAATATAAAAAAT
107690113 A
1 A
107690114 ACGTGCAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTACAAAATATAAAAAAT
Found at i:107699861 original size:60 final size:59
Alignment explanation
Indices: 107699750--107699866 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 59
107699740 ACATAAATAA
* * **
107699750 TTAATTAGAACAAAAAAAACTTAATTACCAAATTGAACATTGAAGTTAAACTCAGGTGC
1 TTAATTAGAACAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAGGTGC
* * * * *
107699809 TTAATTGGGACAATAAAAAACTCAAGTACCAACTTGAATATTGAAGCCAAACTTAGGT
1 TTAATTAGAACAA-AAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAGGT
107699867 ACCAATTTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
59 11 0.23
60 37 0.77
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (59 bp):
TTAATTAGAACAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAGGTGC
Found at i:107699869 original size:31 final size:30
Alignment explanation
Indices: 107699834--107699940 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 30
107699824 AAAAACTCAA
107699834 GTACCAACTTGAATATTGAAGCCAAACTTAG
1 GTACCAA-TTGAATATTGAAGCCAAACTTAG
* * *
107699865 GTACCAATTTGACTATTGAAGCCAAACTCAA
1 GTACCAA-TTGAATATTGAAGCCAAACTTAG
* * *
107699896 GTACCAAATTGAACATTAAAACCAAACTTAG
1 GTACC-AATTGAATATTGAAGCCAAACTTAG
*
107699927 ATACCAATT-AATAT
1 GTACCAATTGAATAT
107699941 ATTAACCCAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 4 0.06
30 4 0.06
31 53 0.84
32 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (30 bp):
GTACCAATTGAATATTGAAGCCAAACTTAG
Found at i:107701701 original size:18 final size:19
Alignment explanation
Indices: 107701678--107701723 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
107701668 TGAATCGGTT
107701678 AAATTATTAGT-ATTGTTA
1 AAATTATTAGTAATTGTTA
*
107701696 AAATTAAT-GTAATTGTTA
1 AAATTATTAGTAATTGTTA
* *
107701714 GAATAATTAG
1 AAATTATTAG
107701724 ATAGGAACAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (19 bp):
AAATTATTAGTAATTGTTA
Found at i:107701863 original size:14 final size:14
Alignment explanation
Indices: 107701844--107701875 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
107701834 CAACTACTAA
107701844 TATAAGGGTTTCAT
1 TATAAGGGTTTCAT
107701858 TATAAGGGTTTCAT
1 TATAAGGGTTTCAT
107701872 TATA
1 TATA
107701876 CTATTACGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (14 bp):
TATAAGGGTTTCAT
Found at i:107704697 original size:350 final size:351
Alignment explanation
Indices: 107704062--107704739 Score: 1001
Period size: 350 Copynumber: 1.9 Consensus size: 351
107704052 AAGACGGATT
* * * *
107704062 ACTAAGCTTTAGCCCTTACCTCAAAGTAATTTAAGGTTATACTCTATAGTTTTTGGATGATGACA
1 ACTAAGCTGTAGCCCTTACCTCAAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGACA
* *
107704127 ATCTATGGAAGTAATTGCGAGTAACTTCTCATGATATATTTCTATATATAGTGTTTGCTGGTTGA
66 ATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTTGA
* * * *
107704192 TCATGAGACTTCGATAGGGACTTAAGGGGTTAGTTTTGCTTATATAGAAACTCTGGGAAATGTTG
131 TCATGAGACTTCGATAGGGACTTAAGGAGTTAGCTTTGCTTATAGAGAAACTCTGGAAAATGTTG
* * *
107704257 ATGGTTGTTTCTGCTGAAATCATACCTATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTGTGG
196 ATGGTTGTTTCTGCTAAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTGTGG
* * * * * *
107704322 TTTTTTTGCTCCGTTGTAGATTTTCCTATGCAGAATTCTGCTAGGTGGTTGAGTTTCCTTGTAGA
261 ATTTTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATGCTAGGTGGTCGAGATTCATTGTAGA
107704387 ACTTTAGCCACTACCAATAATGAATC
326 ACTTTAGCCACTACCAATAATGAATC
**
107704413 ACTAAGCTGTAGCCCTTACCTTGAAGTAATTTAAGGCTATACTATATAG-TCTTGGATGATGACA
1 ACTAAGCTGTAGCCCTTACCTCAAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGACA
* *
107704477 ATCTATGGAAGTAATTGTGAGTAAATTCTCATGATGTATTTCTATATATAATGTTTGCTGGTTGA
66 ATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTTGA
107704542 TCATGAGACTTCGATA-GGACTT-AGGAAG-TAGACTTT-CTTATAGAGAAACTCTGCGAAAAT-
131 TCATGAGACTTCGATAGGGACTTAAGG-AGTTAG-CTTTGCTTATAGAGAAACTCTG-GAAAATG
* *
107704602 TTGATGGTTGTTTCTGCTAAAATCAAACATATTTCCGCCATTTTATTTGTTGATTTCGTAGCTTG
193 TTGATGGTTGTTTCTGCTAAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTG
* * *
107704667 T-GATTTTTTGCTCTGTTGTCGATTATTTTCCTACGCAGAATTATGTTAGGTGGTCGAGATTCAT
258 TGGATTTTTTGCTCCGTTGT--A-GATTTTCCTACGCAGAATTATGCTAGGTGGTCGAGATTCAT
107704731 TGTAGAACT
320 TGTAGAACT
107704740 ATAGGTTTGA
Statistics
Matches: 293, Mismatches: 28, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
347 16 0.05
348 83 0.28
349 16 0.05
350 134 0.46
351 44 0.15
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (351 bp):
ACTAAGCTGTAGCCCTTACCTCAAAGTAATTTAAGGCTATACTATATAGTTCTTGGATGATGACA
ATCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATTTCTATATATAATGTTTGCTGGTTGA
TCATGAGACTTCGATAGGGACTTAAGGAGTTAGCTTTGCTTATAGAGAAACTCTGGAAAATGTTG
ATGGTTGTTTCTGCTAAAATCAAACATATTTCAGCCATTTTATTTGTTGATTTCCTAGCTTGTGG
ATTTTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATGCTAGGTGGTCGAGATTCATTGTAGA
ACTTTAGCCACTACCAATAATGAATC
Found at i:107718449 original size:75 final size:74
Alignment explanation
Indices: 107718352--107718618 Score: 408
Period size: 75 Copynumber: 3.6 Consensus size: 74
107718342 ATGGGAACTG
* * * * * *
107718352 GGGTGCTGACCTAACTGTCTCTCTTGTATTCTGGCCCATATTTTGTGGTGGCTGTCGTGGCGTAT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGG-TGTCGTGGTGGAT
107718417 TTTGGAACCA
65 TTTGGAACCA
* *
107718427 GGATTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGGTTTCCGTGGTGGAT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGGTGT-CGTGGTGGAT
107718492 TTTGGAACCA
65 TTTGGAACCA
* *
107718502 GGGTTCTGACCTGACTGACTCTCTTGTATCCTGGCCCATATTTTGAGGTGGTTGCCGTGGTGGAT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGG-TGTCGTGGTGGAT
107718567 TTTGGAACCA
65 TTTGGAACCA
*
107718577 GGGTTCTGACCTGACTGACTCTCTTGTACTCTGGCCCATATT
1 GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATT
107718619 AGGTTGTTCC
Statistics
Matches: 176, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
74 2 0.01
75 173 0.98
76 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (74 bp):
GGGTTCTGACCTGACTGACTCTCTTGTATTCTGGCCCATATTTTGAGGTGGTGTCGTGGTGGATT
TTGGAACCA
Found at i:107728764 original size:10 final size:9
Alignment explanation
Indices: 107728751--107728802 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
107728741 ATATTTCATA
107728751 AAAAAAATT
1 AAAAAAATT
*
107728760 AAAAAGA-T
1 AAAAAAATT
107728768 AAAAAAATT
1 AAAAAAATT
*
107728777 CAAAAAAGTTT
1 -AAAAAA-ATT
*
107728788 ATAAAAATT
1 AAAAAAATT
107728797 AAAAAA
1 AAAAAA
107728803 CATATTTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 7 0.21
9 14 0.41
10 11 0.32
11 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (9 bp):
AAAAAAATT
Found at i:107728771 original size:18 final size:17
Alignment explanation
Indices: 107728751--107728801 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
107728741 ATATTTCATA
107728751 AAAAAAATTAAAAAGAT
1 AAAAAAATTAAAAAGAT
*
107728768 AAAAAAATTCAAAAAAGTTT
1 AAAAAAATT--AAAAAG-AT
*
107728788 ATAAAAATTAAAAA
1 AAAAAAATTAAAAA
107728802 ACATATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 6 0.21
20 9 0.31
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAAAAATTAAAAAGAT
Found at i:107729560 original size:23 final size:23
Alignment explanation
Indices: 107729534--107729587 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
107729524 GTATATTATT
*
107729534 TATTTATCTAA-GTAAAAATAAAA
1 TATTTATATAATGTAAAAA-AAAA
*
107729557 TATTTTATATAATTTAAAAAAAAA
1 TA-TTTATATAATGTAAAAAAAAA
*
107729581 TAGTTAT
1 TATTTAT
107729588 TCAACAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 6 0.23
24 14 0.54
25 6 0.23
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
TATTTATATAATGTAAAAAAAAA
Found at i:107729564 original size:24 final size:24
Alignment explanation
Indices: 107729536--107729582 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
107729526 ATATTATTTA
*
107729536 TTTATCTAA-GTAAAAATAAAATAT
1 TTTATATAATGTAAAAA-AAAATAT
*
107729560 TTTATATAATTTAAAAAAAAATA
1 TTTATATAATGTAAAAAAAAATA
107729583 GTTATTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
TTTATATAATGTAAAAAAAAATAT
Found at i:107740068 original size:15 final size:15
Alignment explanation
Indices: 107740050--107740080 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107740040 ATTTACTTGC
*
107740050 TGATGCTGAGGTTAT
1 TGATGCTAAGGTTAT
107740065 TGATGCTAAGGTTAT
1 TGATGCTAAGGTTAT
107740080 T
1 T
107740081 TCTTGTCACC
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:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (15 bp):
TGATGCTAAGGTTAT
Found at i:107742797 original size:11 final size:11
Alignment explanation
Indices: 107742783--107742807 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
107742773 AAAAATAGTA
107742783 AAAATTAGATT
1 AAAATTAGATT
107742794 AAAATTAGATT
1 AAAATTAGATT
107742805 AAA
1 AAA
107742808 GAGCGAACCG
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATTAGATT
Found at i:107745310 original size:78 final size:78
Alignment explanation
Indices: 107745181--107745337 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
107745171 GGAAAGTAAG
107745181 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
1 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
*
107745246 CCGCGGAAAATAT
66 CCGCAGAAAATAT
107745259 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
1 GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
107745324 CCGCAGAAAATAT
66 CCGCAGAAAATAT
107745337 G
1 G
107745338 GAGCACAGAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (78 bp):
GATGCTGTTATTTATTGTTTCCAAGGGTCGTATATGTTGAAGTTTGAGCTTACGACTTTCTTTTT
CCGCAGAAAATAT
Found at i:107748584 original size:6 final size:6
Alignment explanation
Indices: 107748573--107748607 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
107748563 TTCACCCTAC
107748573 TTTTGT TTTTGT TTTTGTT TTTTGT TTTT-T TTTTG
1 TTTTGT TTTTGT TTTTG-T TTTTGT TTTTGT TTTTG
107748608 GTGCAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:107748590 original size:12 final size:12
Alignment explanation
Indices: 107748573--107748607 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
107748563 TTCACCCTAC
107748573 TTTTGTTTTTGT
1 TTTTGTTTTTGT
107748585 TTTTGTTTTTTGT
1 TTTTG-TTTTTGT
107748598 TTTT-TTTTTG
1 TTTTGTTTTTG
107748608 GTGCAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.27
12 5 0.23
13 11 0.50
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTGTTTTTGT
Found at i:107752718 original size:16 final size:18
Alignment explanation
Indices: 107752699--107752735 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
107752689 ATTTTAACTA
*
107752699 TTATTAATT-TAAAAT-C
1 TTATAAATTATAAAATGC
107752715 TTATAAATTATAAAATGC
1 TTATAAATTATAAAATGC
107752733 TTA
1 TTA
107752736 AATAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATAAATTATAAAATGC
Found at i:107762546 original size:31 final size:31
Alignment explanation
Indices: 107762470--107762546 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
107762460 ACAAAAAACA
* * *
107762470 AAGTTTAA-GCTCCAATGTGAGAACAATTGTC
1 AAGTTTAAGGC-CTAATGTGAAAACAATTATC
* * * *
107762501 TAGTTCAAGCCCTAATGTGAAAATAATTATC
1 AAGTTTAAGGCCTAATGTGAAAACAATTATC
107762532 AAGTTTAAGGCCTAA
1 AAGTTTAAGGCCTAA
107762547 CTTGAATAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (31 bp):
AAGTTTAAGGCCTAATGTGAAAACAATTATC
Found at i:107763958 original size:29 final size:30
Alignment explanation
Indices: 107763915--107763985 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
107763905 AATAATCTAT
*
107763915 ATTTTTATAATTTTTAAATA-ATTAA-ATCAA
1 ATTTTTATTA-TTTT-AATAGATTAATATCAA
**
107763945 ATTTTTATTATTTTAATAGATTAATATTTA
1 ATTTTTATTATTTTAATAGATTAATATCAA
107763975 A-TTTTATTATT
1 ATTTTTATTATT
107763986 ACTAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.11
29 19 0.53
30 13 0.36
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (30 bp):
ATTTTTATTATTTTAATAGATTAATATCAA
Found at i:107766583 original size:23 final size:22
Alignment explanation
Indices: 107766539--107766581 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
107766529 TCCTTACTTA
* *
107766539 AAAATAGGTAACTTATTCTTTG
1 AAAATAGGTAAATTAGTCTTTG
*
107766561 AAAATGGGTAAATTAGTCTTT
1 AAAATAGGTAAATTAGTCTTT
107766582 TGTACATTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (22 bp):
AAAATAGGTAAATTAGTCTTTG
Found at i:107770296 original size:22 final size:24
Alignment explanation
Indices: 107770265--107770308 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
107770255 TATCTTTATA
107770265 AAAACTTTTATTT-TTTATTTTCT
1 AAAACTTTTATTTATTTATTTTCT
107770288 AAAA-TTTTATTTATTTATTTT
1 AAAACTTTTATTTATTTATTTT
107770309 TCAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (24 bp):
AAAACTTTTATTTATTTATTTTCT
Found at i:107773325 original size:22 final size:21
Alignment explanation
Indices: 107773276--107773324 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
107773266 GTAAAGAATG
*
107773276 GTATTTTCCGAAAATTTTATA
1 GTATTTTCCGAAAAATTTATA
107773297 GTATTTTCCGAAAAATTTATA
1 GTATTTTCCGAAAAATTTATA
*
107773318 GTTTTTT
1 GTATTTT
107773325 TGGGTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (21 bp):
GTATTTTCCGAAAAATTTATA
Found at i:107774236 original size:18 final size:18
Alignment explanation
Indices: 107774215--107774255 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
107774205 CGTCATTGCT
* *
107774215 ATCATCGCCATCATTGTC
1 ATCATCACCATCATTATC
*
107774233 ATCATCACCGTCATTATC
1 ATCATCACCATCATTATC
107774251 ATCAT
1 ATCAT
107774256 TGGACCAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (18 bp):
ATCATCACCATCATTATC
Found at i:107774680 original size:240 final size:237
Alignment explanation
Indices: 107774258--107774731 Score: 790
Period size: 237 Copynumber: 2.0 Consensus size: 237
107774248 ATCATCATTG
* *
107774258 GACCAGGTCAGGTTCAAGTTGAGTTTTCGATTTCGGGGCAGAATTGACAACTCTGCCACTGGCGC
1 GACCAGGTCAGGGTCAAGTTGAGTTTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCGC
* * * *
107774323 CTCATTGTCCTCATTGTCGTCATCACCATCATCATCAATAGCTTTACAAAGATGATCATCGTCGT
66 ATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCATCATCGTCGT
*
107774388 CGTCATCATCATCTTCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGAC-AGGAAGCTCG
131 CGTCATCATCATCATCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGACGA-GAAGCTCG
*
107774452 TTTTCGAACCTTTTGCAAAGAAGTAATAGCTGAGAGATCATCA
195 TTTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCATCA
*
107774495 GACCAGGTCAGGGTCGAGTTGACG-TTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCG
1 GACCAGGTCAGGGTCAAGTTGA-GTTTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCG
107774559 CATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCATTGTCATCG
65 CATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCA---TCATCG
* *
107774624 TCGTCGTCATCATCATCATCTTCTTCACCGTTTGACCAATCTAAGGAGAACAAACGACGAGAAGC
127 TCGTCGTCATCATCATCATCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGACGAGAAGC
107774689 TCGTTTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCA
192 TCGTTTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCA
107774732 GCTCCTTTGC
Statistics
Matches: 221, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
237 111 0.50
238 1 0.00
240 108 0.49
241 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (237 bp):
GACCAGGTCAGGGTCAAGTTGAGTTTTCGATTTCGGGGCAGAATTGACAACTCTGCAACTGGCGC
ATCATTGTCCACATTGTCGTCATCACCATCATCATCAATAGCTTTAAAAAGATCATCATCGTCGT
CGTCATCATCATCATCTTCTTCACCATTCGACCAATCTAAGGAGAACAAACGACGAGAAGCTCGT
TTTCGAACCTTTTGCAAAGAAGTAATAGCAGAGAGATCATCA
Found at i:107778152 original size:28 final size:28
Alignment explanation
Indices: 107778117--107778174 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
107778107 AACGAACTCT
107778117 TTATGGTCTTGGCAATTTCCACGCTTTC
1 TTATGGTCTTGGCAATTTCCACGCTTTC
*
107778145 TTATGGTCTTGGCAATTTTCACGCTTTC
1 TTATGGTCTTGGCAATTTCCACGCTTTC
107778173 TT
1 TT
107778175 CCATAGGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (28 bp):
TTATGGTCTTGGCAATTTCCACGCTTTC
Found at i:107782897 original size:17 final size:17
Alignment explanation
Indices: 107782875--107782911 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
107782865 CGATCCAATC
107782875 TATTTTCTATTTTGTAA
1 TATTTTCTATTTTGTAA
107782892 TATTTTCTATTTTGTAA
1 TATTTTCTATTTTGTAA
107782909 TAT
1 TAT
107782912 ATAGTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
TATTTTCTATTTTGTAA
Found at i:107784921 original size:21 final size:20
Alignment explanation
Indices: 107784887--107784927 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
107784877 GATGAAGCGG
* *
107784887 TTTATAATTTTTTAGTAATT
1 TTTATAATTATTTACTAATT
107784907 TTTATAAATTATTTACTAATT
1 TTTAT-AATTATTTACTAATT
107784928 ATTGAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATAATTATTTACTAATT
Found at i:107785142 original size:15 final size:16
Alignment explanation
Indices: 107785124--107785153 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
107785114 TGTTTTTTAT
107785124 GATCAAATT-AAATTA
1 GATCAAATTGAAATTA
107785139 GATCAAATTGAAATT
1 GATCAAATTGAAATT
107785154 TAAGTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (16 bp):
GATCAAATTGAAATTA
Found at i:107786587 original size:85 final size:85
Alignment explanation
Indices: 107786444--107786604 Score: 322
Period size: 85 Copynumber: 1.9 Consensus size: 85
107786434 GCGGTAAATG
107786444 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
1 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
107786509 TAAGAAAAGTATGCTAGATT
66 TAAGAAAAGTATGCTAGATT
107786529 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
1 ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
107786594 TAAGAAAAGTA
66 TAAGAAAAGTA
107786605 ATTGGTACGC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (85 bp):
ATATCACCCAAACAATCTTTTCCATTCTGATGACAAGGAAAATGTGTCAACCATTAAAGCAGATA
TAAGAAAAGTATGCTAGATT
Found at i:107795025 original size:21 final size:22
Alignment explanation
Indices: 107794996--107795042 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
107794986 CAGAAGGAGT
*
107794996 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
107795018 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
107795039 GAGT
1 GAGT
107795043 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:107798918 original size:22 final size:23
Alignment explanation
Indices: 107798893--107798940 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
107798883 TTTTCATAAA
* *
107798893 TTTA-AAATTTAGTCTTTGTATT
1 TTTATAAATTTAGTCTCTCTATT
*
107798915 TTTATGAATTTAGTCTCTCTATT
1 TTTATAAATTTAGTCTCTCTATT
107798938 TTT
1 TTT
107798941 TAGATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (23 bp):
TTTATAAATTTAGTCTCTCTATT
Found at i:107819400 original size:20 final size:20
Alignment explanation
Indices: 107819375--107819412 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
107819365 AAACTTGATT
107819375 CATTTAATAATAAAGAGATC
1 CATTTAATAATAAAGAGATC
107819395 CATTTAATAATAAAGAGA
1 CATTTAATAATAAAGAGA
107819413 CTAATTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (20 bp):
CATTTAATAATAAAGAGATC
Found at i:107823572 original size:42 final size:42
Alignment explanation
Indices: 107823513--107823601 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
107823503 TACTAATTGG
*
107823513 GAAAATAGTTACCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAATTACCTTATTCTAATAAACTACTAAAACATAAAA
* * *
107823555 GAAAATAATTCCCTTATTCTAGTAAACTACTAAAAGATAAAA
1 GAAAATAATTACCTTATTCTAATAAACTACTAAAACATAAAA
*
107823597 TAAAA
1 GAAAA
107823602 ATATTTCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAATTACCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:107829653 original size:42 final size:42
Alignment explanation
Indices: 107829594--107829682 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
107829584 TCCTAATTGG
107829594 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
* *
107829636 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
107829678 TAAAA
1 GAAAA
107829683 ATATTTCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:107829729 original size:19 final size:18
Alignment explanation
Indices: 107829707--107829743 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
107829697 TGAATAAAAC
107829707 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAA-AAGAT
107829726 TTATCTACCTAAAAAGAT
1 TTATCTACCTAAAAAGAT
107829744 ATATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (18 bp):
TTATCTACCTAAAAAGAT
Found at i:107854301 original size:36 final size:36
Alignment explanation
Indices: 107854243--107854311 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
107854233 CCCAACTACT
*
107854243 GTATACGTGAACAGTACTATATACGTAAATAGTATC
1 GTATACGTGAACAGTACCATATACGTAAATAGTATC
* * * *
107854279 GTATATGTGAATAGTGCCATATACGTGAATAGT
1 GTATACGTGAACAGTACCATATACGTAAATAGT
107854312 GCCGTAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (36 bp):
GTATACGTGAACAGTACCATATACGTAAATAGTATC
Found at i:107854314 original size:18 final size:18
Alignment explanation
Indices: 107854244--107854311 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
107854234 CCAACTACTG
* *
107854244 TATACGTGAACAGTACTA
1 TATACGTGAATAGTACCA
* * *
107854262 TATACGTAAATAGTATCG
1 TATACGTGAATAGTACCA
* *
107854280 TATATGTGAATAGTGCCA
1 TATACGTGAATAGTACCA
107854298 TATACGTGAATAGT
1 TATACGTGAATAGT
107854312 GCCGTAAATG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (18 bp):
TATACGTGAATAGTACCA
Found at i:107872742 original size:46 final size:46
Alignment explanation
Indices: 107872692--107872865 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
107872682 TGGTTGAGCA
107872692 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
107872738 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
107872783 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
107872831 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
107872866 TGGCGGGTTA
Statistics
Matches: 107, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 2 0.02
46 59 0.55
47 25 0.23
48 2 0.02
50 3 0.03
51 6 0.06
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:107872848 original size:93 final size:93
Alignment explanation
Indices: 107872689--107872858 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
107872679 GGATGGTTGA
* *
107872689 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
107872754 TGAGTCCGAGTTTGTGAAATGTAACTAG
66 TGAGTCCGAGTTTGTGAAATGTAACTAG
* *
107872782 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
107872847 TGAGTCCGAGTT
66 TGAGTCCGAGTT
107872859 CGCTTATTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:107873201 original size:47 final size:47
Alignment explanation
Indices: 107873147--107873241 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
107873137 GCTAATGTTG
107873147 ATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATGAACTT
1 ATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATGAACTT
107873194 ATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATGAACTT
1 ATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATGAACTT
107873241 A
1 A
107873242 CTAAGCATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (47 bp):
ATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATGAACTT
Found at i:107875388 original size:20 final size:19
Alignment explanation
Indices: 107875336--107875386 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
107875326 ATAGTATAAT
*
107875336 TTAATTATAATTAAACTTAA
1 TTAATTA-AATTTAACTTAA
*
107875356 TTAATTAACTTTAACTTAA
1 TTAATTAAATTTAACTTAA
107875375 TTAATTAAATTT
1 TTAATTAAATTT
107875387 TAATCATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATTAAATTTAACTTAA
Found at i:107890354 original size:18 final size:18
Alignment explanation
Indices: 107890330--107890418 Score: 124
Period size: 18 Copynumber: 4.9 Consensus size: 18
107890320 CCCAACTACT
*
107890330 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* **
107890348 ATATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
107890366 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
107890384 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
107890402 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
107890419 TGTAAACGGT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:107890382 original size:36 final size:36
Alignment explanation
Indices: 107890330--107890418 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
107890320 CCCAACTACT
* * *
107890330 GTATACGTGAACAGTACCATATACGTGAATAGTGTC
1 GTATACGTGAATAGTACCATATACGTAAATAGTGCC
*
107890366 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCATATACGTAAATAGTGCC
107890402 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
107890419 TGTAAACGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCATATACGTAAATAGTGCC
Found at i:107895950 original size:18 final size:18
Alignment explanation
Indices: 107895927--107896012 Score: 127
Period size: 18 Copynumber: 4.8 Consensus size: 18
107895917 CGTTTACAGT
*
107895927 ACTATTCATGTATACGGC
1 ACTATTCACGTATACGGC
* *
107895945 ACTATTCACGTATACAGT
1 ACTATTCACGTATACGGC
107895963 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
107895981 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
107895999 ACTGTTCACGTATA
1 ACTATTCACGTATA
107896013 TAGTAGTTGG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:107895968 original size:36 final size:36
Alignment explanation
Indices: 107895921--107896012 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 36
107895911 TACGACCGTT
*
107895921 TACAGTACTATTCATGTATACGGCACTATTCACGTA
1 TACAGTACTATTCACGTATACGGCACTATTCACGTA
107895957 TACAGTACTATTCACGTATACGGCACTATTCACGTA
1 TACAGTACTATTCACGTATACGGCACTATTCACGTA
* *
107895993 TACGGTACTGTTCACGTATA
1 TACAGTACTATTCACGTATA
107896013 TAGTAGTTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (36 bp):
TACAGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:107900298 original size:47 final size:47
Alignment explanation
Indices: 107900247--107900737 Score: 793
Period size: 47 Copynumber: 10.3 Consensus size: 47
107900237 GATGTGAATA
107900247 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107900294 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107900343 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900390 TATATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900439 TATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107900486 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
107900535 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAATG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900582 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900629 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * ** * * *
107900676 TATATATGTGACAGGGCCGAGCGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900723 TATAAATGTGATAAG
1 TATATATGTGATAAG
107900738 TCCCAAAGGG
Statistics
Matches: 419, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
47 280 0.67
49 139 0.33
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:107900307 original size:96 final size:96
Alignment explanation
Indices: 107900247--107900737 Score: 819
Period size: 96 Copynumber: 5.2 Consensus size: 96
107900237 GATGTGAATA
107900247 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
107900312 CCTAATGGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900343 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
107900408 CCTAATGGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900439 TATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
107900504 CCTAATGGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
107900535 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAATG--TATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
*
107900598 CCTAATAGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
107900629 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
* ** * * *
107900692 CCGAGCGGCCAACGTGATGGATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107900723 TATAAATGTGATAAG
1 TATATATGTGATAAG
107900738 TCCCAAAGGG
Statistics
Matches: 374, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 141 0.38
96 233 0.62
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTG
Done.