Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 124 of 182
Found at i:38102443 original size:27 final size:26
Alignment explanation
Indices: 38102400--38102460 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
38102390 AAAAGGTTGT
* *
38102400 TAAATGACTGTAGTGCCCCT-GTAAGG
1 TAAATGACCGTAATGCCCCTAG-AAGG
38102426 TAAAATGACCGTAATGCCCCTAGAAGG
1 T-AAATGACCGTAATGCCCCTAGAAGG
38102453 TAAATGAC
1 TAAATGAC
38102461 TACTTTACCC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 8 0.26
27 22 0.71
28 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
TAAATGACCGTAATGCCCCTAGAAGG
Found at i:38115732 original size:23 final size:23
Alignment explanation
Indices: 38115705--38115826 Score: 192
Period size: 23 Copynumber: 5.3 Consensus size: 23
38115695 AATATTATTG
*
38115705 ATCAGTGGTAGCTTCGACTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
38115727 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
38115751 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
38115774 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
38115797 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
38115820 ATCAGTG
1 ATCAGTG
38115827 TGGCACTTAT
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.01
23 89 0.98
24 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:38119628 original size:27 final size:26
Alignment explanation
Indices: 38119584--38119737 Score: 136
Period size: 27 Copynumber: 5.8 Consensus size: 26
38119574 CTTTAAAGTC
*
38119584 GCCACAAAAGCTTA-TCTTTCATGTTTT
1 GCCACAAAGGC-TACTCTTTCAT-TTTT
** *
38119611 GCCTTAAAGGCTACTCTTTCATATTT
1 GCCACAAAGGCTACTCTTTCATTTTT
* *
38119637 GCCACAAAGGGTATTCTTTCATATTTT
1 GCCACAAAGGCTACTCTTTCAT-TTTT
* * *
38119664 GCCACAAAGGTTATTCTTTCATATTT
1 GCCACAAAGGCTACTCTTTCATTTTT
*
38119690 -CACTACAAGGGCTACT-TTTCATATTTT
1 GC-C-ACAAAGGCTACTCTTTCAT-TTTT
38119717 GCCACAAAGGCTACT-TTTCAT
1 GCCACAAAGGCTACTCTTTCAT
38119738 GTAACAGCCC
Statistics
Matches: 105, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.01
26 50 0.48
27 53 0.50
28 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (26 bp):
GCCACAAAGGCTACTCTTTCATTTTT
Found at i:38119664 original size:53 final size:54
Alignment explanation
Indices: 38119598--38119737 Score: 173
Period size: 53 Copynumber: 2.6 Consensus size: 54
38119588 CAAAAGCTTA
* ** *
38119598 TCTTTCATGTTTTGCCTTAAAGGCTACTCTTTCATATTTGC-C-ACAAAGGG-TAT
1 TCTTTCATATTTTGCCACAAAGGCTACTCTTTCATATTT-CACTAC-AAGGGCTAC
* *
38119651 TCTTTCATATTTTGCCACAAAGGTTATTCTTTCATATTTCACTACAAGGGCTAC
1 TCTTTCATATTTTGCCACAAAGGCTACTCTTTCATATTTCACTACAAGGGCTAC
38119705 T-TTTCATATTTTGCCACAAAGGCTACT-TTTCAT
1 TCTTTCATATTTTGCCACAAAGGCTACTCTTTCAT
38119738 GTAACAGCCC
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
52 7 0.09
53 64 0.84
54 5 0.07
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.42
Consensus pattern (54 bp):
TCTTTCATATTTTGCCACAAAGGCTACTCTTTCATATTTCACTACAAGGGCTAC
Found at i:38119709 original size:26 final size:26
Alignment explanation
Indices: 38119616--38119737 Score: 111
Period size: 26 Copynumber: 4.6 Consensus size: 26
38119606 GTTTTGCCTT
*
38119616 AAAGGCTACTCTTTCATATTT-GCCAC
1 AAAGGCTACT-TTTCATATTTCACCAC
* * **
38119642 AAAGGGTATTCTTTCATATTTTGCCAC
1 AAAGGCTACT-TTTCATATTTCACCAC
* * *
38119669 AAAGGTTATTCTTTCATATTTCACTAC
1 AAAGGCTACT-TTTCATATTTCACCAC
* **
38119696 AAGGGCTACTTTTCATATTTTGCCAC
1 AAAGGCTACTTTTCATATTTCACCAC
38119722 AAAGGCTACTTTTCAT
1 AAAGGCTACTTTTCAT
38119738 GTAACAGCCC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 47 0.57
27 35 0.43
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (26 bp):
AAAGGCTACTTTTCATATTTCACCAC
Found at i:38121253 original size:42 final size:43
Alignment explanation
Indices: 38121162--38121276 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 43
38121152 AATTAACTCA
*
38121162 TATGAG-TTTCAGTTTAACCTTAATGGGTTTCAGTTCAGCTGT
1 TATGAGCTTTCAGTTTAACCTTAATGGGTTTCAGTTCAGCTCT
*
38121204 T-TCGAGCTTT-AGTTTAACCCTT-CTGGGTTTTC-GTTCAGCTCT
1 TAT-GAGCTTTCAGTTTAA-CCTTAATGGG-TTTCAGTTCAGCTCT
* *
38121246 TATGAGCTTCCA-TTCAACCCTT-ATGGGTTTC
1 TATGAGCTTTCAGTTTAA-CCTTAATGGGTTTC
38121277 GATTTAGCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
41 5 0.08
42 44 0.71
43 13 0.21
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (43 bp):
TATGAGCTTTCAGTTTAACCTTAATGGGTTTCAGTTCAGCTCT
Found at i:38122497 original size:26 final size:26
Alignment explanation
Indices: 38122457--38122506 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38122447 GGGTGTTACA
38122457 TTTCATATTTATCCAAAAAGGCTACT
1 TTTCATATTTATCCAAAAAGGCTACT
* * *
38122483 TTTCATATTTCTCCACAGAGGCTA
1 TTTCATATTTATCCAAAAAGGCTA
38122507 ATTGTAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (26 bp):
TTTCATATTTATCCAAAAAGGCTACT
Found at i:38123997 original size:31 final size:31
Alignment explanation
Indices: 38123939--38123998 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
38123929 AAGGGCTTTT
* * *
38123939 TTTAGAGAGGTTTGCCACAACGACTTTTTCC
1 TTTACAGAGATTTGCCACAAAGACTTTTTCC
* *
38123970 TTTACAGAGATTTGCCATAAAGGCTTTTT
1 TTTACAGAGATTTGCCACAAAGACTTTTT
38123999 GTACAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (31 bp):
TTTACAGAGATTTGCCACAAAGACTTTTTCC
Found at i:38124069 original size:27 final size:27
Alignment explanation
Indices: 38124039--38124092 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
38124029 TTAGAGGCTT
* *
38124039 GCCACAAAAGTTTTTCTTTACAGATAC
1 GCCACAAAAGCTTTTCTTTACAAATAC
*
38124066 GCCACAAAGGCTTTTCTTTACAAATAC
1 GCCACAAAAGCTTTTCTTTACAAATAC
38124093 ACCGAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (27 bp):
GCCACAAAAGCTTTTCTTTACAAATAC
Found at i:38124101 original size:27 final size:27
Alignment explanation
Indices: 38124040--38124105 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
38124030 TAGAGGCTTG
* * * *
38124040 CCACAAAAGTTTTTCTTTACAGATACG
1 CCACAAAGGCTTTTCTTTACAAATACA
38124067 CCACAAAGGCTTTTCTTTACAAATACA
1 CCACAAAGGCTTTTCTTTACAAATACA
38124094 CCGA-AAAGGCTT
1 CC-ACAAAGGCTT
38124106 CTATTTCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (27 bp):
CCACAAAGGCTTTTCTTTACAAATACA
Found at i:38125651 original size:53 final size:53
Alignment explanation
Indices: 38125560--38125699 Score: 131
Period size: 53 Copynumber: 2.6 Consensus size: 53
38125550 GGATGCTACA
* * * * * *
38125560 CTACTATTTCATATTTCGCCATAAAGG-CTACTCTTTCATATTTCGCCACAAAAG
1 CTACTATTTCATATTTCGCCACAAAGGTGTTC-CCTTCATATTACACCAC-AAAG
*
38125614 CTACT-TTTCATATTTCGCCACAAAGGTGTTCCCTTCATATTACATCACAAAG
1 CTACTATTTCATATTTCGCCACAAAGGTGTTCCCTTCATATTACACCACAAAG
* ** * *
38125666 GTGGTTCTTTCATATTGCGCCACAAAGGTGTTCC
1 CT-ACTATTTCATATTTCGCCACAAAGGTGTTCC
38125700 TTTTATTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 5 0.07
53 34 0.47
54 33 0.46
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (53 bp):
CTACTATTTCATATTTCGCCACAAAGGTGTTCCCTTCATATTACACCACAAAG
Found at i:38125662 original size:27 final size:27
Alignment explanation
Indices: 38125566--38125758 Score: 176
Period size: 27 Copynumber: 7.2 Consensus size: 27
38125556 TACACTACTA
* * * *
38125566 TTTCATATTTCGCCATAAAGG-CTACTC
1 TTTCATATTACGCCACAAAGGTGTTC-C
* * * * *
38125593 TTTCATATTTCGCCACAAAAG-CTACT
1 TTTCATATTACGCCACAAAGGTGTTCC
*
38125619 TTTCATATTTCGCCACAAAGGTGTTCC
1 TTTCATATTACGCCACAAAGGTGTTCC
* **
38125646 CTTCATATTACATCACAAAGGTGGTT-C
1 TTTCATATTACGCCACAAAGGT-GTTCC
*
38125673 TTTCATATTGCGCCACAAAGGTGTTCC
1 TTTCATATTACGCCACAAAGGTGTTCC
* * *
38125700 TTTTATTTTACGCCATAAAGGTGTTCC
1 TTTCATATTACGCCACAAAGGTGTTCC
* *
38125727 TTTTATATTATGCCACAAAGGTGTTCC
1 TTTCATATTACGCCACAAAGGTGTTCC
38125754 TTTCA
1 TTTCA
38125759 GGGTTCACCG
Statistics
Matches: 140, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
26 23 0.16
27 114 0.81
28 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (27 bp):
TTTCATATTACGCCACAAAGGTGTTCC
Found at i:38131921 original size:55 final size:55
Alignment explanation
Indices: 38131837--38131951 Score: 221
Period size: 55 Copynumber: 2.1 Consensus size: 55
38131827 TGATTGGTCA
*
38131837 TTTGACACCACAAATCATGAAGCGTAAGTGCAATTAAGGGTAACTAGTTTGTTAT
1 TTTGAAACCACAAATCATGAAGCGTAAGTGCAATTAAGGGTAACTAGTTTGTTAT
38131892 TTTGAAACCACAAATCATGAAGCGTAAGTGCAATTAAGGGTAACTAGTTTGTTAT
1 TTTGAAACCACAAATCATGAAGCGTAAGTGCAATTAAGGGTAACTAGTTTGTTAT
38131947 TTTGA
1 TTTGA
38131952 CATAGTTGTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (55 bp):
TTTGAAACCACAAATCATGAAGCGTAAGTGCAATTAAGGGTAACTAGTTTGTTAT
Found at i:38137098 original size:11 final size:11
Alignment explanation
Indices: 38137082--38137106 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38137072 CTAAGCCTCG
38137082 TTTTTAATGTT
1 TTTTTAATGTT
38137093 TTTTTAATGTT
1 TTTTTAATGTT
38137104 TTT
1 TTT
38137107 GGAGTCCTCG
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTAATGTT
Found at i:38137958 original size:50 final size:52
Alignment explanation
Indices: 38137815--38137958 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 52
38137805 GGGGATGAGA
* * * *
38137815 TCCCATGTAAGACCATGTGTGGGACATGGCATTGGGATTATTGAGGTTATGGGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCA-TGGG--CATTGAGG-TATGAGAGG
* * * *
38137871 TCCCACATAAGAACATGTCTGGGACATGGCTTTGGCATTGA-G-ATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGGTATGAGAGG
* *
38137921 TCCCCCGTAAGACCATGTCTGGGACATGACATGGGCAT
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCAT
38137959 CGATATAAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
50 39 0.53
52 1 0.01
53 5 0.07
55 3 0.04
56 26 0.35
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (52 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGGTATGAGAGG
Found at i:38137981 original size:50 final size:49
Alignment explanation
Indices: 38137927--38138047 Score: 129
Period size: 50 Copynumber: 2.4 Consensus size: 49
38137917 GAGGTCCCCC
*
38137927 GTAAGACCATGTCTGGGACATGACATGGGCATCGATATAAG-AAC-TCCCAT
1 GTAAGACCATGTCTGGGACATGACATGGGCA--G-TACAAGAAACATCCCAT
* * * * * * *
38137977 GTAAGACCATATTTGAGATATGGCATTGGCAGTACAGGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGACATGGGCAGTACAAGAAACATCCCAT
38138026 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
38138048 GCTTTGGCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
47 4 0.07
48 4 0.07
49 24 0.42
50 25 0.44
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGACATGGGCAGTACAAGAAACATCCCAT
Found at i:38138049 original size:49 final size:49
Alignment explanation
Indices: 38137927--38138056 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
38137917 GAGGTCCCCC
* * *
38137927 GTAAGACCATGTCTGGGACATGACATGGGCATCGATATAAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CGATACAAGAACTCCCAT
* * * * *
38137977 GTAAGACCATATTTGAGATATGGCATTGGCA-G-TACAGGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACGATACAAG-AAC-TCCCAT
*
38138026 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
38138057 TGTTATTATC
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
47 4 0.06
48 4 0.06
49 32 0.49
50 25 0.38
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACGATACAAGAACTCCCAT
Found at i:38138283 original size:20 final size:20
Alignment explanation
Indices: 38138258--38138296 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38138248 TGAGTTATTT
38138258 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
38138278 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
38138297 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:38141019 original size:27 final size:27
Alignment explanation
Indices: 38140990--38141074 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
38140980 TTCATACTTT
* *
38140990 GCCACAGAGGCATTCCTTTCATATTGT
1 GCCACAAAGGCATTCCTTTCATATTGC
* *
38141017 GCCATAAAGGCGTTCCTTTCATATTGC
1 GCCACAAAGGCATTCCTTTCATATTGC
* * *
38141044 CCCAGAAAGGAATTCCTTTCATATTGC
1 GCCACAAAGGCATTCCTTTCATATTGC
38141071 GCCA
1 GCCA
38141075 TAAATGAGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (27 bp):
GCCACAAAGGCATTCCTTTCATATTGC
Found at i:38141086 original size:27 final size:27
Alignment explanation
Indices: 38141002--38141089 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
38140992 CACAGAGGCA
* *
38141002 TTCCTTTCATATTGTGCCATAAAGGCG
1 TTCCTTTCATATTGCGCCATAAAGGAG
* * *
38141029 TTCCTTTCATATTGCCCCAGAAAGGAA
1 TTCCTTTCATATTGCGCCATAAAGGAG
*
38141056 TTCCTTTCATATTGCGCCATAAATGAG
1 TTCCTTTCATATTGCGCCATAAAGGAG
38141083 TTCCTTT
1 TTCCTTT
38141090 AGGGTTTGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (27 bp):
TTCCTTTCATATTGCGCCATAAAGGAG
Found at i:38143569 original size:23 final size:23
Alignment explanation
Indices: 38143532--38143575 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
38143522 ATAGAATTCT
*
38143532 CCACAAAGGCTTCACAGAATACG
1 CCACAAAGGCTTCACAAAATACG
38143555 CCACAAAGG-TATCACAAAATA
1 CCACAAAGGCT-TCACAAAATA
38143576 GATCTTATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (23 bp):
CCACAAAGGCTTCACAAAATACG
Found at i:38145403 original size:16 final size:16
Alignment explanation
Indices: 38145379--38145410 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38145369 GCTATTTGAT
*
38145379 GTTGGACAAAAAATTG
1 GTTGAACAAAAAATTG
38145395 GTTGAACAAAAAATTG
1 GTTGAACAAAAAATTG
38145411 CCACATGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (16 bp):
GTTGAACAAAAAATTG
Found at i:38149238 original size:18 final size:17
Alignment explanation
Indices: 38149216--38149250 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
38149206 TCAAATATAT
38149216 AAAAAAATTATAGAAATAG
1 AAAAAAA-TATA-AAATAG
38149235 AAAAAAATATAAAATA
1 AAAAAAATATAAAATA
38149251 TCCATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAAAAATATAAAATAG
Found at i:38155007 original size:31 final size:31
Alignment explanation
Indices: 38154972--38155032 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
38154962 ACACACAGAG
* * *
38154972 ACTTATCATAGAGAGCTCGCATAGGGAGCTT
1 ACTTATCACAGAGAACTAGCATAGGGAGCTT
38155003 ACTTATCACAGAGAACTAGCATAGGGAGCT
1 ACTTATCACAGAGAACTAGCATAGGGAGCT
38155033 ATGCTCGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (31 bp):
ACTTATCACAGAGAACTAGCATAGGGAGCTT
Found at i:38155252 original size:34 final size:34
Alignment explanation
Indices: 38155209--38155278 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
38155199 GGAAACAAAG
38155209 TATATGAGTTAAAAATAGGGTTTTGTAGAAAACT
1 TATATGAGTTAAAAATAGGGTTTTGTAGAAAACT
38155243 TATATGAGTTAAAAATAGGGTTTTGTAGAAAACT
1 TATATGAGTTAAAAATAGGGTTTTGTAGAAAACT
38155277 TA
1 TA
38155279 CTGTTGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (34 bp):
TATATGAGTTAAAAATAGGGTTTTGTAGAAAACT
Found at i:38156964 original size:18 final size:18
Alignment explanation
Indices: 38156941--38156975 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38156931 GGAATTTGTG
38156941 CATTATTATGCTCATTAA
1 CATTATTATGCTCATTAA
*
38156959 CATTATTATTCTCATTA
1 CATTATTATGCTCATTA
38156976 GAATCAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (18 bp):
CATTATTATGCTCATTAA
Found at i:38159403 original size:27 final size:27
Alignment explanation
Indices: 38159361--38159580 Score: 196
Period size: 27 Copynumber: 8.1 Consensus size: 27
38159351 AATTATAGGC
* * *
38159361 AAATGACTGAAATACCCTCGATGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTA
* *
38159388 AAATGACCGAATTACCTTCGAAGGGTG
1 AAATGACCGAATTACCCTCGAAGGGTA
* * *
38159415 AAATGACAGAATTACCCTTGGAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTA
**
38159442 AAATGACTTAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTA
* *
38159469 AAATGATCGAATTACCCCCGAAGGGTA
1 AAATGACCGAATTACCCTCGAAGGGTA
* *
38159496 AAATGATCGAGTTA-CCTCCGAAGGGTA
1 AAATGACCGAATTACCCT-CGAAGGGTA
* * *
38159523 AAATGACTGAAATACACC-CTAAGGGTA
1 AAATGACCGAATTAC-CCTCGAAGGGTA
* * *
38159550 GAATG-CCTGAAATACCC-CCATAGGGTA
1 AAATGACC-GAATTACCCTCGA-AGGGTA
38159577 AAAT
1 AAAT
38159581 AACTGTTATA
Statistics
Matches: 159, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.04
27 150 0.94
29 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (27 bp):
AAATGACCGAATTACCCTCGAAGGGTA
Found at i:38159511 original size:81 final size:81
Alignment explanation
Indices: 38159361--38159580 Score: 243
Period size: 81 Copynumber: 2.7 Consensus size: 81
38159351 AATTATAGGC
* ** *
38159361 AAATGACTGAAATACCCTCGATGGGTAAAATGACCGAATTACCTTCGAAGGGTGAAATGACAGAA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACAGAA
* *
38159426 TTACC-CTTGGAGGGTA
66 TTACCTC-CGAAGGGTA
* * *
38159442 AAATGACTTAATTACCCTCGAAGGGTAAAATGATCGAATTACCCCCGAAGGGTAAAATGATC-GA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGA-CAGA
*
38159506 GTTACCTCCGAAGGGTA
65 ATTACCTCCGAAGGGTA
* * *
38159523 AAATGACTGAAATACACC-CTAAGGGTAGAATG-CCTGAAATACCCCC-ATAGGGTAAAAT
1 AAATGACTGAAATAC-CCTCGAAGGGTAAAATGACC-GAATTACCCCCGA-AGGGTAAAAT
38159581 AACTGTTATA
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
80 2 0.02
81 112 0.95
82 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (81 bp):
AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAATTACCCCCGAAGGGTAAAATGACAGAA
TTACCTCCGAAGGGTA
Found at i:38159762 original size:26 final size:26
Alignment explanation
Indices: 38159733--38159839 Score: 142
Period size: 26 Copynumber: 4.1 Consensus size: 26
38159723 TAGAGGAAGT
* *
38159733 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTACG
* * **
38159759 ATACTGTTATTGGCAACTTTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTACG
* *
38159785 ATACTGTTACTGGCAGCTTTGTTATG
1 ATACTGTTACTGGCAGCTTTGCTACG
38159811 ATACTGTTACTGGCAGCTTTGCTACG
1 ATACTGTTACTGGCAGCTTTGCTACG
38159837 ATA
1 ATA
38159840 TTGGTGTGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTACG
Found at i:38159961 original size:28 final size:28
Alignment explanation
Indices: 38159921--38160009 Score: 160
Period size: 28 Copynumber: 3.2 Consensus size: 28
38159911 ATTGCACTAT
38159921 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
38159949 ACTGTTATTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
38159977 ACTGTTACTGTATCGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
38160005 ACTGT
1 ACTGT
38160010 GCTATTACTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:38160007 original size:56 final size:60
Alignment explanation
Indices: 38159921--38160047 Score: 181
Period size: 56 Copynumber: 2.2 Consensus size: 60
38159911 ATTGCACTAT
* *
38159921 ACTGTTACTGTATTGGGCTAAGGCCCACACTGT-TATT-GT-ATT-GGGCTAAGGCCCAC
1 ACTGTTACTGTATCGGGCTAAGGCCCACACTGTCTATTACTGATTAGGGCTAAGGCCCAC
* *
38159977 ACTGTTACTGTATCGGGCTAAGGCCCACACTGTGCTATTACTGATTAGGGCTCAGGCCCAG
1 ACTGTTACTGTATCGGGCTAAGGCCCACACTGT-CTATTACTGATTAGGGCTAAGGCCCAC
38160038 ACTGTTACTG
1 ACTGTTACTG
38160048 CATGTTGTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 32 0.52
58 4 0.06
59 1 0.02
60 3 0.05
61 22 0.35
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.29
Consensus pattern (60 bp):
ACTGTTACTGTATCGGGCTAAGGCCCACACTGTCTATTACTGATTAGGGCTAAGGCCCAC
Found at i:38160018 original size:33 final size:32
Alignment explanation
Indices: 38159925--38160042 Score: 128
Period size: 28 Copynumber: 3.9 Consensus size: 32
38159915 CACTATACTG
38159925 TTACTGTATTGGGCTAAGGCCCACACTGT-TA
1 TTACTGTATTGGGCTAAGGCCCACACTGTGTA
38159956 -T--TGTATTGGGCTAAGGCCCACAC--TG--
1 TTACTGTATTGGGCTAAGGCCCACACTGTGTA
*
38159981 TTACTGTATCGGGCTAAGGCCCACACTGTGCTA
1 TTACTGTATTGGGCTAAGGCCCACACTGTG-TA
* *
38160014 TTACTG-ATTAGGGCTCAGGCCCAGACTGT
1 TTACTGTATT-GGGCTAAGGCCCACACTGT
38160043 TACTGCATGT
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
26 2 0.03
28 43 0.59
30 3 0.04
32 2 0.03
33 23 0.32
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (32 bp):
TTACTGTATTGGGCTAAGGCCCACACTGTGTA
Found at i:38161815 original size:27 final size:26
Alignment explanation
Indices: 38161783--38161846 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
38161773 ACAGAGGCTT
38161783 TCCTTTTAGAG-TCTCGCCACAAAGGAA
1 TCCTTTTAGAGAT-T-GCCACAAAGGAA
**
38161810 TCCTTTGATAGAGATTGCCACAAAGGCT
1 TCCTTT--TAGAGATTGCCACAAAGGAA
38161838 TCCTTTTAG
1 TCCTTTTAG
38161847 CAGAGATAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
26 3 0.09
27 6 0.19
28 16 0.50
29 6 0.19
30 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
TCCTTTTAGAGATTGCCACAAAGGAA
Found at i:38161867 original size:29 final size:29
Alignment explanation
Indices: 38161819--38161950 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
38161809 ATCCTTTGAT
* * * *
38161819 AGAGATTGCCACAAAGGCTTCCTTTTAGC
1 AGAGATAGCCAAAAAGACTTCCTTTTAAC
*
38161848 AGAGATAGCCATAAAAG-CTTCCTTTTCAC
1 AGAGATAGCCA-AAAAGACTTCCTTTTAAC
* * *
38161877 AGAGATAGCCAAAATGACTTTCTTTTAAT
1 AGAGATAGCCAAAAAGACTTCCTTTTAAC
* *
38161906 AGAGATAGCCACAAAGACTTCCTTTTAAT
1 AGAGATAGCCAAAAAGACTTCCTTTTAAC
* *
38161935 AAAGATAGCCATAAAG
1 AGAGATAGCCAAAAAG
38161951 GCATCCATTG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
28 4 0.05
29 80 0.91
30 4 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (29 bp):
AGAGATAGCCAAAAAGACTTCCTTTTAAC
Found at i:38161964 original size:29 final size:29
Alignment explanation
Indices: 38161877--38161970 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
38161867 TCCTTTTCAC
* * * *
38161877 AGAGATAGCCA-AAATGACTTTCTTTTAAT
1 AGAGATAGCCACAAA-GACATCCATTGAAT
* * *
38161906 AGAGATAGCCACAAAGACTTCCTTTTAAT
1 AGAGATAGCCACAAAGACATCCATTGAAT
* * *
38161935 AAAGATAGCCATAAAGGCATCCATTGAAT
1 AGAGATAGCCACAAAGACATCCATTGAAT
38161964 AGAGATA
1 AGAGATA
38161971 ACTACAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 53 0.95
30 3 0.05
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (29 bp):
AGAGATAGCCACAAAGACATCCATTGAAT
Found at i:38166356 original size:45 final size:45
Alignment explanation
Indices: 38166292--38166377 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
38166282 CTCGGAGGAT
*
38166292 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
*
38166337 TCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGT
38166378 TCAAATAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
Found at i:38166736 original size:30 final size:30
Alignment explanation
Indices: 38166700--38166780 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
38166690 ATACTTTGGA
** *
38166700 AAAATTATGATTTTTCCCCTAAAGTTTCAC
1 AAAATTACAATTTTGCCCCTAAAGTTTCAC
38166730 AAAATTACAATTTTGCCCCTAAAGTTTCAC
1 AAAATTACAATTTTGCCCCTAAAGTTTCAC
38166760 AAAATTACAATTTTGCCCCTA
1 AAAATTACAATTTTGCCCCTA
38166781 GGCTCGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAATTACAATTTTGCCCCTAAAGTTTCAC
Found at i:38169314 original size:10 final size:10
Alignment explanation
Indices: 38169301--38169337 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
38169291 CTTTTTCATA
38169301 CTTTTTTCTT
1 CTTTTTTCTT
38169311 CTTTTCTT-TT
1 CTTTT-TTCTT
38169321 CTTTTTTCTT
1 CTTTTTTCTT
38169331 -TTTTTTC
1 CTTTTTTC
38169338 ATTTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.36
10 14 0.56
11 2 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTTCTT
Found at i:38169314 original size:20 final size:20
Alignment explanation
Indices: 38169289--38169339 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
38169279 TTTTTTCAAA
38169289 TTCTTTTTCATACTTTTTTC
1 TTCTTTTTCATACTTTTTTC
* *
38169309 TTC-TTTTCTTTTCTTTTTTC
1 TTCTTTTTC-ATACTTTTTTC
*
38169329 TTTTTTTTCAT
1 TTCTTTTTCAT
38169340 TTTTTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.20
20 15 0.60
21 5 0.20
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCTTTTTCATACTTTTTTC
Found at i:38169322 original size:13 final size:12
Alignment explanation
Indices: 38169304--38169336 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38169294 TTTCATACTT
38169304 TTTTCTTCTTTTC
1 TTTTCTT-TTTTC
38169317 TTTTCTTTTTTC
1 TTTTCTTTTTTC
38169329 TTTT-TTTT
1 TTTTCTTTT
38169337 CATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:38169329 original size:17 final size:17
Alignment explanation
Indices: 38169304--38169344 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
38169294 TTTCATACTT
38169304 TTTTCTTCTTTTCTTTTC-
1 TTTT-TTCTTTT-TTTTCA
38169322 TTTTTTCTTTTTTTTCA
1 TTTTTTCTTTTTTTTCA
38169339 TTTTTT
1 TTTTTT
38169345 TAAGTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 13 0.59
18 4 0.18
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTCA
Found at i:38169345 original size:20 final size:19
Alignment explanation
Indices: 38169292--38169345 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
38169282 TTTCAAATTC
**
38169292 TTTTTCATACTTTTTTCTT
1 TTTTTCATTTTTTTTTCTT
* *
38169311 CTTTTCTTTTCTTTTTTCTTT
1 TTTTTCATTT-TTTTTTC-TT
38169332 TTTTTCATTTTTTT
1 TTTTTCATTTTTTT
38169346 AAGTATTAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 6 0.22
20 11 0.41
21 10 0.37
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTCATTTTTTTTTCTT
Found at i:38189121 original size:17 final size:17
Alignment explanation
Indices: 38189099--38189131 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38189089 GTTGTCACAT
38189099 GAATTAAATTAATTGGA
1 GAATTAAATTAATTGGA
*
38189116 GAATTAATTTAATTGG
1 GAATTAAATTAATTGG
38189132 GTAATCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (17 bp):
GAATTAAATTAATTGGA
Found at i:38191435 original size:51 final size:50
Alignment explanation
Indices: 38191305--38191549 Score: 208
Period size: 51 Copynumber: 4.9 Consensus size: 50
38191295 ATTATCATTC
* * * * *
38191305 GATACACGTAGTAGCCTTCACATAGTACTGCACACGTGATCA-AACTTTCC
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAA-TATCT
* * *
38191355 GGTTCACGTAGTAGTCTGCACATAGTACTACACACGTGACCATTAATATCT
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TAATATCT
* * * *
38191406 GATACATGTAGTAGCCTGCACATACTACTACACACGTGATCGA-AGCTATCT
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-ATATCT
* * * * * * * *
38191457 GGTACGCATAGTAGCCTGAACATAGTACTACACATGCGACCTTTCAT-TCT
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATAATATCT
* * * *
38191507 GATACATGTAGTATCCTACACATAGTAATACACACGTGACCAT
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
38191550 CACTTTCACT
Statistics
Matches: 151, Mismatches: 38, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
49 1 0.01
50 72 0.48
51 74 0.49
52 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAATATCT
Found at i:38191445 original size:101 final size:101
Alignment explanation
Indices: 38191301--38191545 Score: 296
Period size: 101 Copynumber: 2.4 Consensus size: 101
38191291 AACTATTATC
* * * * * *
38191301 ATTC-GATACACGTAGTAGCCTTCACATAGTACTGCACACGTGATC-AAACTTTCCGGTTCACGT
1 ATTCTGATACATGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACAT
* * *
38191364 AGTAGTCTGCACATAGTACTACACACGTGACCATTA
66 AGTAGCCTGAACATAGTACTACACACGCGACCATTA
* * * * *
38191400 ATATCTGATACATGTAGTAGCCTGCACATACTACTACACACGTGATCGAAGCTATCTGGTACGCA
1 AT-TCTGATACATGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACA
* * *
38191465 TAGTAGCCTGAACATAGTACTACACATGCGACCTTTC
65 TAGTAGCCTGAACATAGTACTACACACGCGACCATTA
* *
38191502 ATTCTGATACATGTAGTATCCTACACATAGTAATACACACGTGA
1 ATTCTGATACATGTAGTAGCCTACACATAGTACTACACACGTGA
38191546 CCATCACTTT
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
99 2 0.02
100 2 0.02
101 75 0.61
102 44 0.36
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (101 bp):
ATTCTGATACATGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACAT
AGTAGCCTGAACATAGTACTACACACGCGACCATTA
Found at i:38191680 original size:11 final size:11
Alignment explanation
Indices: 38191664--38191692 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
38191654 AATTTCTCAC
38191664 TTTTTCTCATT
1 TTTTTCTCATT
38191675 TTTTTCTCATT
1 TTTTTCTCATT
38191686 TTTTTCT
1 TTTTTCT
38191693 TTTTCACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTCATT
Found at i:38191682 original size:21 final size:19
Alignment explanation
Indices: 38191656--38191696 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
38191646 AATCGGGAAA
38191656 TTTCTCACTTTTTCTCATTTT
1 TTTCTCA-TTTTTCTC-TTTT
*
38191677 TTTCTCATTTTTTTCTTTT
1 TTTCTCATTTTTCTCTTTT
38191696 T
1 T
38191697 CACTAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCTCATTTTTCTCTTTT
Found at i:38193830 original size:36 final size:36
Alignment explanation
Indices: 38193783--38193855 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
38193773 TGATAGTAAC
38193783 TTGCATAATCTAAGTAGTTTTTAGAACTATCCAATA
1 TTGCATAATCTAAGTAGTTTTTAGAACTATCCAATA
38193819 TTGCATAATCTAAGTAGTTTTTAGAACTATCCAATA
1 TTGCATAATCTAAGTAGTTTTTAGAACTATCCAATA
38193855 T
1 T
38193856 CTCTCTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (36 bp):
TTGCATAATCTAAGTAGTTTTTAGAACTATCCAATA
Found at i:38196194 original size:43 final size:43
Alignment explanation
Indices: 38196137--38196279 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 43
38196127 CCCTTTTACC
38196137 CACAAACGCC-CTAAAGACCATGACCTTTAGCGGCGCTTTTAT
1 CACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTAT
*
38196179 CACAAACGCCGCTAAAG-CTCATGACCTTTAGCGGCGCTTTTGT
1 CACAAACGCCGCTAAAGAC-CATGACCTTTAGCGGCGCTTTTAT
* * * * * * **
38196222 TACAAACGCCGCTATAGAACA-AACCTTTAGCGACGCTTCTCG
1 CACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTAT
*
38196264 CAAAAACGCCGCTAAA
1 CACAAACGCCGCTAAA
38196280 AACATATCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
42 40 0.47
43 46 0.53
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
CACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTAT
Found at i:38200460 original size:19 final size:19
Alignment explanation
Indices: 38200419--38200464 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38200409 AAATTATAAT
* *
38200419 TTTTATTTTTTTAATTCAT
1 TTTTATTTTTGTAATTCAA
* *
38200438 TTTTATTTTTGTATTTTAA
1 TTTTATTTTTGTAATTCAA
38200457 TTTTATTT
1 TTTTATTT
38200465 CTTATAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATTTTTGTAATTCAA
Found at i:38201196 original size:22 final size:22
Alignment explanation
Indices: 38201178--38201220 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38201168 TCCCTAACTC
* *
38201178 TTAACCCCATAACCTCTAACCT
1 TTAAACCCATAACCGCTAACCT
*
38201200 TTAAACCCTTAACCGCTAACC
1 TTAAACCCATAACCGCTAACC
38201221 CCTAAACCTT
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:0.33, C:0.40, G:0.02, T:0.26
Consensus pattern (22 bp):
TTAAACCCATAACCGCTAACCT
Found at i:38201226 original size:22 final size:21
Alignment explanation
Indices: 38201187--38201232 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
38201177 CTTAACCCCA
* **
38201187 TAACCTCTAACCTTTAAACCCT
1 TAACCGCTAACCCCTAAA-CCT
38201209 TAACCGCTAACCCCTAAACCT
1 TAACCGCTAACCCCTAAACCT
38201230 TAA
1 TAA
38201233 ATTCCTACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.26
Consensus pattern (21 bp):
TAACCGCTAACCCCTAAACCT
Found at i:38201296 original size:301 final size:292
Alignment explanation
Indices: 38200758--38201351 Score: 766
Period size: 301 Copynumber: 2.0 Consensus size: 292
38200748 TTCAATATAT
38200758 TAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTA
1 TAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTA
*
38200823 ATTAATCTAAACCCAAAACCCCAACCCGACCCCTGAGGCCTAAACCTAAAATCCCTAACTATTAA
66 ATTAATCTAAACCCAAAAACCCAACCCGACCCCTGA-G-C---ACCTAAAATCCCTAACTATTAA
* * * ** *
38200888 CCCCAAAACATCTAACCCCAAAACCCCTAAACCTTAAATCCCAACCCTTAAACCATGTTCCTTAA
126 CCCCAAAACATCTAACCCCAAAACCCCTAAACCCTAAACCCCAAACCTTAAACCACCTTCCATAA
* *
38200953 TCTATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAATCGGCCTTAAATC
191 TCCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCGGCCTTAAATC
* *
38201018 TTAAATTAATCATATACCCTAAACTAAAAACCCTAAA
256 TTAAATTAATCATATACACTAAACCAAAAACCCTAAA
*
38201055 TAAATTTATTATTATTTCTTTTACAATTATATATATAAGAACATATTTAAAATATAAATTAAAAA
1 TAAATTTATTATTATCTCTTTTAC-A--AT-TATATAAGAACATATTTAAAATATAAATT-AAAA
* * * *
38201120 AACTAATTAATCTACACCCAAAAACCTAACCCGACCCC-GA-C-CCTTAAATCCCTAACTCTTAA
61 AACTAATTAATCTAAACCCAAAAACCCAACCCGACCCCTGAGCACCTAAAATCCCTAACTATTAA
* * *** *
38201182 CCCCATAACCTCTAACCTTTAAA-CCCTTAACCGCT-AACCCCTAAACCTTAAATTCCTACCCTT
126 CCCCAAAACATCTAACCCCAAAACCCCTAAACC-CTAAACCCC-AAACCTTAAA--CC-A-CCTT
* *
38201245 AAACCATAATCCATAATCCTTAAATTCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCGG
185 ---CCATAATCCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCGG
38201310 CCTTAAATCTTAAATTAATCATATACACTAAACCAAAAACCC
247 CCTTAAATCTTAAATTAATCATATACACTAAACCAAAAACCC
38201352 AAAACCCTAA
Statistics
Matches: 259, Mismatches: 24, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
293 13 0.05
294 47 0.18
296 2 0.01
297 24 0.09
298 4 0.02
300 2 0.01
301 128 0.49
302 39 0.15
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.28
Consensus pattern (292 bp):
TAAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTA
ATTAATCTAAACCCAAAAACCCAACCCGACCCCTGAGCACCTAAAATCCCTAACTATTAACCCCA
AAACATCTAACCCCAAAACCCCTAAACCCTAAACCCCAAACCTTAAACCACCTTCCATAATCCAT
AATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCGGCCTTAAATCTTAAA
TTAATCATATACACTAAACCAAAAACCCTAAA
Found at i:38201570 original size:41 final size:41
Alignment explanation
Indices: 38201507--38201874 Score: 468
Period size: 41 Copynumber: 9.0 Consensus size: 41
38201497 ATAGTATTTT
* * * *
38201507 GCATTAGCGGCGCTTTTGCAAAAACGCAGCTAAAGATCATA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
** *
38201548 GCACCAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGGCCAGA
1 GCATTAGCGGCGCTTTTCC-AAAAACGCCGCTAAAGACCAGA
** *
38201590 GCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* ** *
38201631 GCATTAACGG-GAAATTTCCAAAAATGCCGCTAAAGACCAGA
1 GCATTAGCGGCG-CTTTTCCAAAAACGCCGCTAAAGACCAGA
* * *
38201672 CCATTAGCAGCGCTTTGCCAAAAACGCCGCTAAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* *
38201713 GCATTCGCGGCGCTTTTCCAAAAACGCCGCTAAATACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
*
38201754 GCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* * *
38201795 GCATTAGCGGCGCTTTTCTAAAAACGCCACTGAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* * * *
38201836 GCATTAGAGGCGCTTTTCTAAAAACACCGTTAAAGACCA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCA
38201875 CGAAAGGCCT
Statistics
Matches: 282, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 247 0.88
42 34 0.12
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.18
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
Found at i:38201958 original size:39 final size:38
Alignment explanation
Indices: 38201922--38202045 Score: 106
Period size: 40 Copynumber: 3.2 Consensus size: 38
38201912 TTTGCGGCGC
38201922 TTTTTGGAAAACGCCGCTAATGCTCATTTTTAGCGGCA
1 TTTTTGGAAAACGCCGCTAATGCTCATTTTTAGCGGCA
* * * * * *
38201960 TTTTT-TAAAACTGTCGCTATTGCTAAATCTTTAGTGGCGA
1 TTTTTGGAAAAC-GCCGCTAATGCT-CATTTTTAGCGGC-A
*** * *
38202000 TTTTCATAAAGCGCCGCTAATGTTCGATTTTTAGCGGCA
1 TTTTTGGAAAACGCCGCTAATGCTC-ATTTTTAGCGGCA
38202039 TTTTTGG
1 TTTTTGG
38202046 TCCAATCGCC
Statistics
Matches: 64, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
37 5 0.08
38 15 0.23
39 15 0.23
40 24 0.38
41 5 0.08
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (38 bp):
TTTTTGGAAAACGCCGCTAATGCTCATTTTTAGCGGCA
Found at i:38203271 original size:51 final size:50
Alignment explanation
Indices: 38203138--38203382 Score: 217
Period size: 51 Copynumber: 4.9 Consensus size: 50
38203128 ATTATCATTC
* * * *
38203138 GATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTTCC
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATAA-TATCT
* * *
38203188 GGTTCACGTAGTAGTCTACACATAGTACTACACACGTGACCATTAATATCT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCA-TAATATCT
* * * *
38203239 GATACACATAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCATA-ATATCT
* * * ** * * * * *
38203290 GGTACGCATAGTAGCCTGTACATGGTACTACACATGCGACCTTTCAT-TCT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGACC-ATAATATCT
* *
38203340 GATACATGTAGTAGCCTACACATAGTACTACACACGTAACCAT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
38203383 CACTTTCACT
Statistics
Matches: 154, Mismatches: 35, Indels: 13
0.76 0.17 0.06
Matches are distributed among these distances:
49 1 0.01
50 73 0.47
51 76 0.49
52 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATAATATCT
Found at i:38203341 original size:101 final size:100
Alignment explanation
Indices: 38203132--38203376 Score: 303
Period size: 101 Copynumber: 2.4 Consensus size: 100
38203122 TTAACTATTA
* * * *
38203132 TCATTC-GATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACG
1 TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTACACA
* *
38203196 TAGTAGTCTACACATAGTACTACACACGTGACCAT
66 TAGTAGCCTACACATAGTACTACACACGCGACCAT
* * * * * *
38203231 TAATATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACG
1 TCAT-TCTGATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACTATCCGGTACA
** * * *
38203296 CATAGTAGCCTGTACATGGTACTACACATGCGACCTT
64 CATAGTAGCCTACACATAGTACTACACACGCGACCAT
*
38203333 TCATTCTGATACATGTAGTAGCCTACACATAGTACTACACACGT
1 TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGT
38203377 AACCATCACT
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 2 0.02
101 76 0.62
102 42 0.34
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (100 bp):
TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTACACA
TAGTAGCCTACACATAGTACTACACACGCGACCAT
Found at i:38203401 original size:101 final size:98
Alignment explanation
Indices: 38203132--38203412 Score: 260
Period size: 101 Copynumber: 2.8 Consensus size: 98
38203122 TTAACTATTA
* * * *
38203132 TCATTC-GATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACG
1 TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGT-AACCAACTTTCC-GTTCACA
* *
38203196 TAGTAGTCTACACATAGTACTACACACGTGACCAT
64 TAGTAGCCTACACATAGTACTACACACGCGACCAT
* * * * * * * * *
38203231 TAATATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACG
1 TCAT-TCTGATACACGTAGTAGCCTACACATAGTACTACACACGT-AACCAA-CTTTC-CGTTCA
** * * *
38203296 CATAGTAGCCTGTACATGGTACTACACATGCGACCTT
62 CATAGTAGCCTACACATAGTACTACACACGCGACCAT
* *
38203333 TCATTCTGATACATGTAGTAGCCTACACATAGTACTACACACGTAACCATCACTTTCACTTTCAC
1 TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGTAACCA--ACTTTC-CGTTCAC
38203398 ATAGT-GACCTACACA
63 ATAGTAG-CCTACACA
38203413 CAGGCCATGT
Statistics
Matches: 145, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
99 3 0.02
100 6 0.04
101 96 0.66
102 40 0.28
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (98 bp):
TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGTAACCAACTTTCCGTTCACATA
GTAGCCTACACATAGTACTACACACGCGACCAT
Found at i:38214616 original size:23 final size:24
Alignment explanation
Indices: 38214582--38214626 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
38214572 TTTCCTTTTG
38214582 TTTTTATGTTTT-ATTATCATTTAA
1 TTTTTATGTTTTAATT-TCATTTAA
38214606 TTTTTAT-TTTTAATTTCATTT
1 TTTTTATGTTTTAATTTCATTT
38214627 TTAACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTTATGTTTTAATTTCATTTAA
Found at i:38237749 original size:25 final size:25
Alignment explanation
Indices: 38237721--38237797 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
38237711 TCTTCTGAGT
*
38237721 TGAATAACGGAAAGCTCATGCGAGC
1 TGAATAACGGAAAGCTCATACGAGC
*
38237746 TGAATAACGGGAAGCTCATACGAGC
1 TGAATAACGGAAAGCTCATACGAGC
* * *
38237771 TGAGTATCGGGAAA-CTCATAAGAGC
1 TGAATAAC-GGAAAGCTCATACGAGC
38237796 TG
1 TG
38237798 TGGTGTGTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 41 0.91
26 4 0.09
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (25 bp):
TGAATAACGGAAAGCTCATACGAGC
Found at i:38240925 original size:17 final size:19
Alignment explanation
Indices: 38240889--38240925 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
38240879 GTTACAATAT
*
38240889 TCAATTACCGCATAACATA
1 TCAATTACCGAATAACATA
38240908 TCAATT-CCGAAT-ACATA
1 TCAATTACCGAATAACATA
38240925 T
1 T
38240926 TACAATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (19 bp):
TCAATTACCGAATAACATA
Found at i:38244604 original size:18 final size:19
Alignment explanation
Indices: 38244583--38244626 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
38244573 ATTTATTTTT
38244583 AAATTATAATTTGACCCAA
1 AAATTATAATTTGACCCAA
*
38244602 AATATT-T-ATTTTACCCAA
1 AA-ATTATAATTTGACCCAA
38244620 AAATTAT
1 AAATTAT
38244627 TTAAAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 3 0.14
20 3 0.14
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTATAATTTGACCCAA
Found at i:38246755 original size:18 final size:18
Alignment explanation
Indices: 38246734--38246770 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
38246724 TTTTTACATA
38246734 TATTAATAAATTTATATT
1 TATTAATAAATTTATATT
38246752 TATTAATAAATTTATATT
1 TATTAATAAATTTATATT
38246770 T
1 T
38246771 TAAATTGTTT
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:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTAATAAATTTATATT
Found at i:38248073 original size:32 final size:32
Alignment explanation
Indices: 38248022--38248082 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
38248012 TGTCAATCAT
38248022 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
38248054 TTCAGTATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
38248083 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:38248089 original size:27 final size:30
Alignment explanation
Indices: 38248022--38248095 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
38248012 TGTCAATCAT
*
38248022 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
38248054 TTCAGTATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
38248082 -TCAATATCTAACAA
1 TTCAATATCTAACAA
38248096 ATTCAAGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 13 0.33
28 2 0.05
29 2 0.05
32 22 0.56
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:38248303 original size:45 final size:45
Alignment explanation
Indices: 38248247--38248336 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
38248237 CATATAATTA
38248247 GTCCACATAGTTTGTGAAATTTCATCTCTCTTAGCAGACCATTCT
1 GTCCACATAGTTTGTGAAATTTCATCTCTCTTAGCAGACCATTCT
* *
38248292 GTCCATATAGTTTGTGCAATTTCATCTCTCTTAGCAGACCATTCT
1 GTCCACATAGTTTGTGAAATTTCATCTCTCTTAGCAGACCATTCT
38248337 CTTACTTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.39
Consensus pattern (45 bp):
GTCCACATAGTTTGTGAAATTTCATCTCTCTTAGCAGACCATTCT
Found at i:38253392 original size:16 final size:15
Alignment explanation
Indices: 38253371--38253400 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38253361 CAAAGTATAC
38253371 TATATTAAAATAAATT
1 TATATTAAAA-AAATT
38253387 TATATTAAAAAAAT
1 TATATTAAAAAAAT
38253401 CCCATAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TATATTAAAAAAATT
Found at i:38253501 original size:24 final size:25
Alignment explanation
Indices: 38253458--38253508 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
38253448 CACATAGAGC
*
38253458 ATTTTGAACAAAAAATTTACAAGGT
1 ATTTTGAACAAAAAAATTACAAGGT
*
38253483 ATTTTGAA-AAAAAAATTACATGGT
1 ATTTTGAACAAAAAAATTACAAGGT
38253507 AT
1 AT
38253509 ATTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (25 bp):
ATTTTGAACAAAAAAATTACAAGGT
Found at i:38255190 original size:29 final size:28
Alignment explanation
Indices: 38255145--38255201 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
38255135 AACACTTTCA
38255145 AAAATATTAACTCTTATTTAAATATTTT
1 AAAATATTAACTCTTATTTAAATATTTT
* *
38255173 AAAATATTTAATTTTTATTTAAATATTTT
1 AAAATA-TTAACTCTTATTTAAATATTTT
38255202 TATAAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (28 bp):
AAAATATTAACTCTTATTTAAATATTTT
Found at i:38257599 original size:21 final size:21
Alignment explanation
Indices: 38257575--38257625 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
38257565 TAGGTTATTC
38257575 TTATTTTATAAA-TAAATTATA
1 TTATTTTATAAAGT-AATTATA
* *
38257596 TTATTTTA-AAAGTATTTTTA
1 TTATTTTATAAAGTAATTATA
38257616 TTATTTTATA
1 TTATTTTATA
38257626 TCTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATTTTATAAAGTAATTATA
Found at i:38258990 original size:22 final size:22
Alignment explanation
Indices: 38258942--38258990 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
38258932 ATATCCAAAC
38258942 AATAACAACAAAATAGTAACAA
1 AATAACAACAAAATAGTAACAA
* * * * *
38258964 CATAATAATAAAATGGTAGCAA
1 AATAACAACAAAATAGTAACAA
38258986 AATAA
1 AATAA
38258991 GGAGAAAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAGTAACAA
Found at i:38267261 original size:21 final size:21
Alignment explanation
Indices: 38267237--38267287 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
38267227 TAGGTTATTC
38267237 TTATTTTATAAA-TAAATTATA
1 TTATTTTATAAAGT-AATTATA
* *
38267258 TTATTTTA-AAAGTATTTTTA
1 TTATTTTATAAAGTAATTATA
38267278 TTATTTTATA
1 TTATTTTATA
38267288 TCTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATTTTATAAAGTAATTATA
Found at i:38268623 original size:22 final size:22
Alignment explanation
Indices: 38268575--38268623 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
38268565 ATATCCAAAC
38268575 AATAACAACAAAATAGTAACAA
1 AATAACAACAAAATAGTAACAA
* * * * *
38268597 CATAATAATAAAATGGTAGCAA
1 AATAACAACAAAATAGTAACAA
38268619 AATAA
1 AATAA
38268624 GGAGAAAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAGTAACAA
Found at i:38277635 original size:24 final size:24
Alignment explanation
Indices: 38277572--38277623 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38277562 TTTCTAGAAG
* * *
38277572 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
38277596 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
38277620 ATTT
1 ATTT
38277624 GACTTTGATT
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):
ATTTAGCATTTATTAGCATAATAT
Found at i:38278024 original size:23 final size:24
Alignment explanation
Indices: 38277972--38278024 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
38277962 TAATGTCTGC
38277972 TCTTGGTAGCACGTTCTTTGTCTAT
1 TCTTGGTAGCACGTTCTTTG-CTAT
38277997 TCTTGGTAGCACGTT-TTATG-TAT
1 TCTTGGTAGCACGTTCTT-TGCTAT
38278020 TCTTG
1 TCTTG
38278025 TTTTCTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.30
24 2 0.07
25 17 0.63
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (24 bp):
TCTTGGTAGCACGTTCTTTGCTAT
Found at i:38290582 original size:21 final size:21
Alignment explanation
Indices: 38290556--38290613 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
38290546 CCAAAAATTT
38290556 ATTTTAAAAATTAAATTAAAA
1 ATTTTAAAAATTAAATTAAAA
* **
38290577 ATTTTAAAAAGTATTTTAAAA
1 ATTTTAAAAATTAAATTAAAA
*
38290598 ATATTTTAAAATTAAA
1 AT-TTTAAAAATTAAA
38290614 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTTAAAAATTAAATTAAAA
Found at i:38290592 original size:12 final size:11
Alignment explanation
Indices: 38290555--38290648 Score: 60
Period size: 11 Copynumber: 8.9 Consensus size: 11
38290545 ACCAAAAATT
38290555 TATTTTAAAAA
1 TATTTTAAAAA
**
38290566 TTAAATT-AAAA
1 -TATTTTAAAAA
38290577 -ATTTTAAAAA
1 TATTTTAAAAA
38290587 GTATTTTAAAAA
1 -TATTTTAAAAA
38290599 TATTTT--AAA
1 TATTTTAAAAA
38290608 -A--TTAAAAA
1 TATTTTAAAAA
*
38290616 -ATTTAAAAAAA
1 TATTT-TAAAAA
38290627 GTATTTTAAAAA
1 -TATTTTAAAAA
*
38290639 AATTTTAAAA
1 TATTTTAAAA
38290649 TTAAAAAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
6 2 0.03
8 5 0.08
9 6 0.09
10 5 0.08
11 24 0.37
12 19 0.29
13 4 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:38290656 original size:41 final size:40
Alignment explanation
Indices: 38290568--38290678 Score: 181
Period size: 40 Copynumber: 2.8 Consensus size: 40
38290558 TTTAAAAATT
* *
38290568 AAATT-AAAAATTT-TAAAAAGTATTTTAAAAATATTTTA
1 AAATTAAAAAATTTAAAAAAAGTATTTTAAAAAAATTTTA
38290606 AAATTAAAAAATTTAAAAAAAGTATTTTAAAAAAATTTTA
1 AAATTAAAAAATTTAAAAAAAGTATTTTAAAAAAATTTTA
38290646 AAATTAAAAAATTTTAAAAAAAGTATTTTAAAA
1 AAATTAAAAAA-TTTAAAAAAAGTATTTTAAAA
38290679 TTAAAAAAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
38 5 0.07
39 8 0.12
40 34 0.50
41 21 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
AAATTAAAAAATTTAAAAAAAGTATTTTAAAAAAATTTTA
Found at i:38290674 original size:30 final size:27
Alignment explanation
Indices: 38290629--38290686 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 27
38290619 TAAAAAAAGT
38290629 ATTTTAAAAAAATTTTAAAATTAAAAA
1 ATTTTAAAAAAATTTTAAAATTAAAAA
38290656 ATTTTAAAAAAAGTATTTTAAAATTAAAAA
1 ATTTT-AAAAAA--ATTTTAAAATTAAAAA
38290686 A
1 A
38290687 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 5 0.18
28 6 0.21
30 17 0.61
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATTTTAAAAAAATTTTAAAATTAAAAA
Found at i:38293897 original size:30 final size:30
Alignment explanation
Indices: 38293861--38293921 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
38293851 TTTGAACGGT
38293861 TAGAAGGATCACATGGAAATCTGTACTTGA
1 TAGAAGGATCACATGGAAATCTGTACTTGA
38293891 TAGAAGGATCACATGGAAATCTGTACTTGA
1 TAGAAGGATCACATGGAAATCTGTACTTGA
38293921 T
1 T
38293922 TATAATCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGAAGGATCACATGGAAATCTGTACTTGA
Found at i:38298380 original size:17 final size:18
Alignment explanation
Indices: 38298346--38298388 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
38298336 TTAGAAGAGG
38298346 TGTTGATTATGCTTTATAT
1 TGTT-ATTATGCTTTATAT
38298365 TGTTATTATG-TTTATAT
1 TGTTATTATGCTTTATAT
*
38298382 TTTTATT
1 TGTTATT
38298389 TGAAAGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.57
18 6 0.26
19 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.65
Consensus pattern (18 bp):
TGTTATTATGCTTTATAT
Found at i:38312364 original size:27 final size:27
Alignment explanation
Indices: 38312295--38312367 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
38312285 TTATTTTCTA
* *
38312295 CCACAAAGGATTTTCCTTCATATTACG
1 CCACAAAGGCTTTTCTTTCATATTACG
*
38312322 CCACAAAGGCTTTTCTTTCATATTATG
1 CCACAAAGGCTTTTCTTTCATATTACG
*
38312349 CCGCAAAGGCTTTTCTTTC
1 CCACAAAGGCTTTTCTTTC
38312368 CTGACGTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (27 bp):
CCACAAAGGCTTTTCTTTCATATTACG
Found at i:38313699 original size:26 final size:27
Alignment explanation
Indices: 38313663--38313726 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
38313653 CGACCCGGCC
* * *
38313663 TATTTTTAAAAT-AAACATTAAAAAAT
1 TATTTTAAAAATAAAAAATAAAAAAAT
38313689 TATTTTAAAAATAAAAAAATAAAAAAAT
1 TATTTTAAAAAT-AAAAAATAAAAAAAT
*
38313717 CATTTTAAAA
1 TATTTTAAAA
38313727 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.34
28 21 0.66
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
TATTTTAAAAATAAAAAATAAAAAAAT
Found at i:38318219 original size:25 final size:25
Alignment explanation
Indices: 38318112--38318213 Score: 132
Period size: 25 Copynumber: 4.1 Consensus size: 25
38318102 ACCACAACTT
38318112 GTATGAGCTTCTCGATTTACAGCTC
1 GTATGAGCTTCTCGATTTACAGCTC
* *
38318137 GTATGAGCTTTTCTATTTACAGCTC
1 GTATGAGCTTCTCGATTTACAGCTC
* * * **
38318162 GTATGAGGTTCCCAATTTGTAGCTC
1 GTATGAGCTTCTCGATTTACAGCTC
*
38318187 GTATGAGCTTCTCGATTCACAGCTC
1 GTATGAGCTTCTCGATTTACAGCTC
38318212 GT
1 GT
38318214 GAGAGCATAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (25 bp):
GTATGAGCTTCTCGATTTACAGCTC
Found at i:38318235 original size:50 final size:50
Alignment explanation
Indices: 38318124--38318236 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 50
38318114 ATGAGCTTCT
* * * * ** *
38318124 CGATTTACAGCTCGTATGAGCTTTTCTATTTACAGCTCGTATGAGGTTCC
1 CGATTTATAGCTCGTATGAGCTTCTCGATTCACAGCTCGTATGAGCATAC
* *
38318174 CAATTTGTAGCTCGTATGAGCTTCTCGATTCACAGCTCGTGA-GAGCATAC
1 CGATTTATAGCTCGTATGAGCTTCTCGATTCACAGCTCGT-ATGAGCATAC
*
38318224 TGATTTATAGCTC
1 CGATTTATAGCTC
38318237 ATATAGCATA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (50 bp):
CGATTTATAGCTCGTATGAGCTTCTCGATTCACAGCTCGTATGAGCATAC
Found at i:38340893 original size:12 final size:12
Alignment explanation
Indices: 38340862--38340895 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
38340852 TTCATCCCTA
*
38340862 CTCAATTAACCT
1 CTCAATTGACCT
38340874 CTTCAATTGACCT
1 C-TCAATTGACCT
38340887 CTCAATTGA
1 CTCAATTGA
38340896 GCTGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (12 bp):
CTCAATTGACCT
Found at i:38342550 original size:23 final size:24
Alignment explanation
Indices: 38342511--38342565 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
38342501 CTCACCGATA
* **
38342511 TTTT-AAAATTATAATTATTTAAT
1 TTTTAAAAATAATAATTATGAAAT
38342534 TTTTAAAAATAAT-ATTATGAAAT
1 TTTTAAAAATAATAATTATGAAAT
*
38342557 TATTAAAAA
1 TTTTAAAAA
38342566 GAATCCAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTTAAAAATAATAATTATGAAAT
Found at i:38346252 original size:53 final size:53
Alignment explanation
Indices: 38346177--38346400 Score: 312
Period size: 53 Copynumber: 4.2 Consensus size: 53
38346167 TTGGTGCTCT
* * * *
38346177 CCTGTCAAT-ACCACCACTAAGTACAAAAAAAATCAAATTTTTTTTGTGCTAG
1 CCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAATATTTTTTGTGCTGG
** *
38346229 CCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAATATTTTTAATGTTGG
1 CCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAATATTTTTTGTGCTGG
*
38346282 CCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAATATTTTTTGTGTTGG
1 CCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAATATTTTTTGTGCTGG
38346335 CCTGTCAATGGCCACCA-CAAGTACCCAAAAAAAAGT-AAAT-TTTTTTGTGCTGG
1 CCTGTCAATGGCCACCACCAAGTA--CAAAAAAAA-TCAAATATTTTTTGTGCTGG
*
38346388 CATGTCAATGGCC
1 CCTGTCAATGGCC
38346401 GGCACTAAAG
Statistics
Matches: 157, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
52 15 0.10
53 128 0.82
54 13 0.08
55 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (53 bp):
CCTGTCAATGGCCACCACCAAGTACAAAAAAAATCAAATATTTTTTGTGCTGG
Found at i:38348982 original size:45 final size:44
Alignment explanation
Indices: 38348902--38349113 Score: 189
Period size: 45 Copynumber: 4.8 Consensus size: 44
38348892 TATCTCATTG
* * *
38348902 AAGTTGCAGTGTAGCATATT-AAAATTACAAATCTTATTTCTCTGA
1 AAGTTGCAGTGAAGCAGATTGAAGA-TACAAATCTTATTTCTCT-A
* * *
38348947 AA-TTGCAATGAAGCAAATTGAAGATAGCAAATCTTATCTCTCTA
1 AAGTTGCAGTGAAGCAGATTGAAGATA-CAAATCTTATTTCTCTA
* * *
38348991 AAGTTGCAGT-AGAGCATATTGAAGCTACAAATCTTATTTCCCTA
1 AAGTTGCAGTGA-AGCAGATTGAAGATACAAATCTTATTTCTCTA
* * * * *
38349035 AAGTTGTAGTGGAGTAGATTGAAGATAACAAATATTATCTTC-CTG
1 AAGTTGCAGTGAAGCAGATTGAAGAT-ACAAATCTTAT-TTCTCTA
* * *
38349080 AAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
1 AAGTTGCAGTGAAGCAGATTGAAGATACAAATCT
38349114 AATCTCCCTG
Statistics
Matches: 138, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
44 62 0.45
45 73 0.53
46 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (44 bp):
AAGTTGCAGTGAAGCAGATTGAAGATACAAATCTTATTTCTCTA
Found at i:38349056 original size:89 final size:88
Alignment explanation
Indices: 38348886--38349174 Score: 291
Period size: 89 Copynumber: 3.3 Consensus size: 88
38348876 AGTTAACCAT
** *
38348886 AAATCTTATCTCAT-TGAAGTTGCAGTGTAGCATATTAAAATTACAAATCTTATTTCTCTGAAA-
1 AAATCTTATCTC-TCTGAAGTTGCAGTG-AGCATATTAAAGCTACAAATCTTATTTCCCT-AAAG
* * * * * *
38348949 TTGCAATGAAGCAAATTGAAGATAGC
63 TTGTAGTGGAGTAGATTGAAGATAAC
* *
38348975 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCATATTGAAGCTACAAATCTTATTTCCCTAAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGT-GAGCATATTAAAGCTACAAATCTTATTTCCCTAAAGTT
38349040 GTAGTGGAGTAGATTGAAGATAAC
65 GTAGTGGAGTAGATTGAAGATAAC
* * * * * *
38349064 AAATATTATCT-TCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTAATCTCCCTGAGGT
1 AAATCTTATCTCT-CTGAAGTTGCAGT-GAGCATATTAAAGCTACAAATCTTATTTCCCTAAAGT
* * *
38349128 TGTAGCGGAATAGATTGAA-ATTAC
64 TGTAGTGGAGTAGATTGAAGATAAC
*
38349152 AAATCCTATAC-CTCTGAAGTTGC
1 AAATCTTAT-CTCTCTGAAGTTGC
38349175 GGTGGGTTAG
Statistics
Matches: 169, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
88 26 0.15
89 142 0.84
90 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (88 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGAGCATATTAAAGCTACAAATCTTATTTCCCTAAAGTTG
TAGTGGAGTAGATTGAAGATAAC
Found at i:38349143 original size:44 final size:44
Alignment explanation
Indices: 38348886--38349173 Score: 166
Period size: 44 Copynumber: 6.5 Consensus size: 44
38348876 AGTTAACCAT
** * * * * **
38348886 AAATCTTATCTCATTGAAGTTGCAGTGTAGCATATTAAAATTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCTAC
* * * * * * * * * *
38348930 AAATCTTATTTCTCTGAAATTGCAATGAAGCAAATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCTA-C
* * * * * * *
38348975 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCATATTGAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCTAC
* * * *
38349019 AAATCTTATTTCCCTAAAGTTGTAGTGGAGTAGATTGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCT-AC
* * * *
38349064 AAATATTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCTAC
* * * * *
38349108 AAATCTAATCTCCCTGAGGTTGTAGCGGAATAGATTGAAA-TTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATT-AAAGCTAC
* *
38349152 AAATCCTATAC-CTCTGAAGTTG
1 AAATCTTAT-CTCCCTGAAGTTG
38349174 CGGTGGGTTA
Statistics
Matches: 194, Mismatches: 46, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
44 118 0.61
45 76 0.39
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCTAC
Found at i:38350585 original size:25 final size:27
Alignment explanation
Indices: 38350557--38350606 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38350547 CCGATATATG
38350557 GCTC-TTCA-GAGCTTCCCGATTAAAA
1 GCTCTTTCATGAGCTTCCCGATTAAAA
* *
38350582 GCTCTTTTATGAGCTTCTCGATTAA
1 GCTCTTTCATGAGCTTCCCGATTAA
38350607 TTGGCTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 3 0.14
27 14 0.67
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (27 bp):
GCTCTTTCATGAGCTTCCCGATTAAAA
Found at i:38350673 original size:24 final size:24
Alignment explanation
Indices: 38350532--38350673 Score: 69
Period size: 25 Copynumber: 5.7 Consensus size: 24
38350522 ACACAGCGCA
**
38350532 GCTCTTATGAGCGCCCCGATATATG
1 GCTCTTATGAGCTTCCCGAT-TATG
**
38350557 GCTCTTCA-GAGCTTCCCGATTAAAA
1 GCTCTT-ATGAGCTTCCCGATT-ATG
*
38350582 GCTCTTTTATGAGCTTCTCGATTAATTG
1 GCTC--TTATGAGCTTCCCGATT-A-TG
* *
38350610 GCT-TTCTGGAGCTTCCC-AATATTG
1 GCTCTTAT-GAGCTTCCCGATTA-TG
**
38350634 GCT-TGCT-TGAATTTCCCGATTATG
1 GCTCT--TATGAGCTTCCCGATTATG
38350658 GCTCTTATGAGCTTCC
1 GCTCTTATGAGCTTCC
38350674 TGTTATACAG
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
23 1 0.01
24 28 0.31
25 31 0.34
26 11 0.12
27 16 0.18
28 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATTATG
Found at i:38350711 original size:25 final size:25
Alignment explanation
Indices: 38350664--38350762 Score: 94
Period size: 25 Copynumber: 4.0 Consensus size: 25
38350654 TATGGCTCTT
* *
38350664 ATGAGCTTCCTGTTATACA-GCTCGA-
1 ATGAGCTTCCCGTTACA-AGGCTC-AC
38350689 ATGAGCTTCCCGTTACAAGGCTCAC
1 ATGAGCTTCCCGTTACAAGGCTCAC
* *
38350714 ATGAGCTTCTCGTTACAAGACTCAC
1 ATGAGCTTCCCGTTACAAGGCTCAC
* * * *
38350739 ATAAGCTTCTCGTTATATGGCTCA
1 ATGAGCTTCCCGTTACAAGGCTCA
38350763 AGAGAGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 2 0.03
25 62 0.97
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACAAGGCTCAC
Found at i:38353624 original size:16 final size:16
Alignment explanation
Indices: 38353603--38353642 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
38353593 CATTTAAATT
*
38353603 TTTATTTAGTCCTCTA
1 TTTATTTAGTCATCTA
* *
38353619 TTTATTTATTCATTTA
1 TTTATTTAGTCATCTA
38353635 TTTATTTA
1 TTTATTTA
38353643 CAGTTTAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTATTTAGTCATCTA
Found at i:38353968 original size:18 final size:19
Alignment explanation
Indices: 38353939--38353974 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38353929 ACTTCATTAT
*
38353939 TTTTATTTTTTATTATTTA
1 TTTTATTTTTTAGTATTTA
38353958 TTTTA-TTTTTAGTATTT
1 TTTTATTTTTTAGTATTT
38353975 TCATGTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTATTTTTTAGTATTTA
Found at i:38354292 original size:20 final size:20
Alignment explanation
Indices: 38354249--38354293 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
38354239 TAGTACCATT
*
38354249 ATTATAAAATTGATATTATT
1 ATTATAAAATTGATATTATC
*
38354269 ATTATAAAATTTG-TATTCTC
1 ATTATAAAA-TTGATATTATC
38354289 ATTAT
1 ATTAT
38354294 TATTGTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTATAAAATTGATATTATC
Found at i:38355197 original size:2 final size:2
Alignment explanation
Indices: 38355190--38355219 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
38355180 AATCAACCAC
38355190 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38355220 CACTGATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38356633 original size:22 final size:20
Alignment explanation
Indices: 38356599--38356640 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
38356589 ATTGAAAATC
38356599 TATAAAAACTTTATAAAATATA
1 TATAAAAAC-TT-TAAAATATA
38356621 TATAAATAA-TTTAAAATATA
1 TATAAA-AACTTTAAAATATA
38356641 AAAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 6 0.32
23 2 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAACTTTAAAATATA
Found at i:38356641 original size:16 final size:17
Alignment explanation
Indices: 38356620--38356654 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
38356610 TATAAAATAT
*
38356620 ATATAAATAAT-TTAAA
1 ATATAAAAAATATTAAA
38356636 ATATAAAAAATATTAAA
1 ATATAAAAAATATTAAA
38356653 AT
1 AT
38356655 TTGTAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAAAAATATTAAA
Found at i:38356802 original size:48 final size:48
Alignment explanation
Indices: 38356738--38356866 Score: 138
Period size: 48 Copynumber: 2.6 Consensus size: 48
38356728 TTACAATATT
*
38356738 GAAAACTTATCGAAAATCATAAAAATATAAAATTTAATATAAAT-TTATTA
1 GAAAA-TTATAGAAAATCATAAAAATATAAAATTTAATA-AAATGTTA-TA
* * *
38356788 GAAAATTATA-AAAATCATGGAAAAT-TATAATTTATTAAAATGTTATA
1 GAAAATTATAGAAAATCAT-AAAAATATAAAATTTAATAAAATGTTATA
* *
38356835 GAAAATTTTAGAAAATTATAAAAATATTAAAA
1 GAAAATTATAGAAAATCATAAAAATA-TAAAA
38356867 ATGAAAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
47 20 0.30
48 28 0.42
49 13 0.20
50 5 0.08
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (48 bp):
GAAAATTATAGAAAATCATAAAAATATAAAATTTAATAAAATGTTATA
Found at i:38356834 original size:37 final size:38
Alignment explanation
Indices: 38356779--38356855 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
38356769 ATTTAATATA
*
38356779 AATTTATTAGAAAATTATA-AAAATCATGGAAAATTAT
1 AATTTATTAGAAAATTATAGAAAATCATAGAAAATTAT
* **
38356816 AATTTATTA-AAATGTTATAGAAAATTTTAGAAAATTAT
1 AATTTATTAGAAA-ATTATAGAAAATCATAGAAAATTAT
38356854 AA
1 AA
38356856 AAATATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 3 0.09
37 14 0.41
38 17 0.50
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (38 bp):
AATTTATTAGAAAATTATAGAAAATCATAGAAAATTAT
Found at i:38356894 original size:10 final size:9
Alignment explanation
Indices: 38356750--38357008 Score: 68
Period size: 10 Copynumber: 27.4 Consensus size: 9
38356740 AAACTTATCG
*
38356750 AAAATCATA
1 AAAATTATA
38356759 AAAA-TATA
1 AAAATTATA
*
38356767 AAATTTAATA
1 AAAATT-ATA
*
38356777 TAAATTTATTA
1 -AAAATTA-TA
38356788 GAAAATTATA
1 -AAAATTATA
* *
38356798 AAAATCATGG
1 AAAATTAT-A
38356808 AAAATTAT-
1 AAAATTATA
*
38356816 -AATTTATTA
1 AAAATTA-TA
*
38356825 AAATGTTATA
1 AAA-ATTATA
*
38356835 GAAAATTTTA
1 -AAAATTATA
38356845 GAAAATTATA
1 -AAAATTATA
38356855 AAAA-TATTA
1 AAAATTA-TA
*
38356864 AAAATGA-A
1 AAAATTATA
**
38356872 AAAAAAATA
1 AAAATTATA
38356881 AAAATTATAGA
1 AAAATTAT--A
*
38356892 AAAACTATA
1 AAAATTATA
** *
38356901 CGATTTACTA
1 AAAATTA-TA
38356911 AAAA-TA-A
1 AAAATTATA
38356918 AAAATTATTA
1 AAAATTA-TA
* *
38356928 AAATGTTATT
1 AAA-ATTATA
*
38356938 AAAATTTTA
1 AAAATTATA
38356947 AAAATTATTA
1 AAAATTA-TA
**
38356957 AAAACCAT-
1 AAAATTATA
38356965 -AAATTAATA
1 AAAATT-ATA
38356974 GAAAATTATAGA
1 -AAAATTAT--A
38356986 AAAATTATA
1 AAAATTATA
**
38356995 TGAATTATTA
1 AAAATTA-TA
38357005 AAAA
1 AAAA
38357009 AAAAGTAAAA
Statistics
Matches: 183, Mismatches: 39, Indels: 55
0.66 0.14 0.20
Matches are distributed among these distances:
7 13 0.07
8 19 0.10
9 51 0.28
10 55 0.30
11 44 0.24
12 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:38356894 original size:17 final size:17
Alignment explanation
Indices: 38356846--38356895 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
38356836 AAAATTTTAG
38356846 AAAATTATAAAAATATTA
1 AAAATTATAAAAA-ATTA
* * *
38356864 AAAATGAAAAAAAAATA
1 AAAATTATAAAAAATTA
38356881 AAAATTATAGAAAAA
1 AAAATTATA-AAAAA
38356896 CTATACGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAATTATAAAAAATTA
Found at i:38356949 original size:8 final size:9
Alignment explanation
Indices: 38356918--38356959 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
38356908 CTAAAAATAA
38356918 AAAATTATT
1 AAAATTATT
38356927 AAAATGTTATT
1 AAAA--TTATT
38356938 AAAATT-TT
1 AAAATTATT
38356946 AAAAATTATT
1 -AAAATTATT
38356956 AAAA
1 AAAA
38356960 ACCATAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.07
9 16 0.55
10 2 0.07
11 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:38357573 original size:39 final size:36
Alignment explanation
Indices: 38357529--38357632 Score: 95
Period size: 39 Copynumber: 2.8 Consensus size: 36
38357519 TATTTTTTCC
*
38357529 TATAATT-TTCTACAATTTTTATAGTTTAATATTTTAAA
1 TATAATTATTCTA-AATTTTTATAGTTTAATAATTT--A
* *
38357567 TAATAATTATT-TATATTTTTATCATTTTAATAATTTA
1 T-ATAATTATTCTAAATTTTTAT-AGTTTAATAATTTA
*
38357604 TATAATTCTCTCTAAATTTTCTATAGTTT
1 TATAATTAT-TCTAAATTTT-TATAGTTT
38357633 TTTTTTTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
36 7 0.13
37 3 0.06
38 20 0.37
39 22 0.41
40 2 0.04
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (36 bp):
TATAATTATTCTAAATTTTTATAGTTTAATAATTTA
Found at i:38357580 original size:30 final size:29
Alignment explanation
Indices: 38357542--38357600 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
38357532 AATTTTCTAC
38357542 AATTTTTATAGTTTAAT-ATTTTAAATAAT
1 AATTTTTATAGTTTAATCATTTT-AATAAT
* *
38357571 AATTATTTATATTTTTATCATTTTAATAAT
1 AATT-TTTATAGTTTAATCATTTTAATAAT
38357601 TTATATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
AATTTTTATAGTTTAATCATTTTAATAAT
Found at i:38359339 original size:19 final size:17
Alignment explanation
Indices: 38359316--38359358 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
38359306 TTAAAATGAC
*
38359316 AAAAATACGAAAACTTAT
1 AAAAATAC-AAAAATTAT
38359334 AGAAAATTACAAAAATTAT
1 A-AAAA-TACAAAAATTAT
38359353 AAAAAT
1 AAAAAT
38359359 TTATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 5 0.23
19 13 0.59
20 3 0.14
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAAATACAAAAATTAT
Found at i:38359366 original size:9 final size:9
Alignment explanation
Indices: 38359325--38359368 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
38359315 CAAAAATACG
*
38359325 AAAACTTAT
1 AAAAATTAT
*
38359334 AGAAAATTAC
1 A-AAAATTAT
38359344 AAAAATTAT
1 AAAAATTAT
38359353 AAAAATTTAT
1 AAAAA-TTAT
38359363 AAAAAT
1 AAAAAT
38359369 ATTCAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:38368796 original size:27 final size:27
Alignment explanation
Indices: 38368765--38368942 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38368755 TAAATTGTAC
38368765 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38368792 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38368818 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38368846 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38368874 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38368901 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38368928 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38368943 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38368879 original size:82 final size:81
Alignment explanation
Indices: 38368766--38368921 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38368756 AAATTGTACA
* *
38368766 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38368830 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38368847 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38368912 TGCGAGTTGA
65 TGCGAATTGA
38368922 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38368933 original size:82 final size:81
Alignment explanation
Indices: 38368762--38368942 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38368752 GATTAAATTG
* *
38368762 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38368827 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38368843 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38368907 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38368925 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38368943 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38376859 original size:27 final size:27
Alignment explanation
Indices: 38376828--38377005 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38376818 TAAATTGTAC
38376828 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38376855 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38376881 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38376909 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38376937 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38376964 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38376991 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38377006 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38376942 original size:82 final size:81
Alignment explanation
Indices: 38376829--38376984 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38376819 AAATTGTACA
* *
38376829 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38376893 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38376910 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38376975 TGCGAGTTGA
65 TGCGAATTGA
38376985 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38376996 original size:82 final size:81
Alignment explanation
Indices: 38376825--38377005 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38376815 GATTAAATTG
* *
38376825 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38376890 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38376906 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38376970 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38376988 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38377006 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38382064 original size:42 final size:41
Alignment explanation
Indices: 38382000--38382078 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
38381990 CAATATGGTT
*
38382000 GTTGGAATCTAACAATTACAATATGGTCGTTAGAATTTGATC
1 GTTGGAATCTAACAATTACAATATGGGCGTT-GAATTTGATC
* ** *
38382042 GTTGGAATCTGACTGTTGCAATATGGGCGTTGAATTT
1 GTTGGAATCTAACAATTACAATATGGGCGTTGAATTT
38382079 TTTAGACCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.19
42 26 0.81
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (41 bp):
GTTGGAATCTAACAATTACAATATGGGCGTTGAATTTGATC
Found at i:38383562 original size:17 final size:19
Alignment explanation
Indices: 38383536--38383572 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
38383526 TATAAAGATC
38383536 TAAATAAAAA-C-AAAAAT
1 TAAATAAAAAGCTAAAAAT
*
38383553 TAAATTAAAAGCTAAAAAT
1 TAAATAAAAAGCTAAAAAT
38383572 T
1 T
38383573 CCTAATTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
TAAATAAAAAGCTAAAAAT
Found at i:38386474 original size:16 final size:18
Alignment explanation
Indices: 38386453--38386485 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
38386443 ATATTTAGTC
38386453 ATATAA-TAA-ATAATTA
1 ATATAATTAATATAATTA
38386469 ATATAATTAATATAATT
1 ATATAATTAATATAATT
38386486 TATCATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAATTAATATAATTA
Found at i:38386476 original size:9 final size:9
Alignment explanation
Indices: 38386453--38386485 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
38386443 ATATTTAGTC
38386453 ATATAA-TA
1 ATATAATTA
38386461 A-ATAATTA
1 ATATAATTA
38386469 ATATAATTA
1 ATATAATTA
38386478 ATATAATT
1 ATATAATT
38386486 TATCATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.17
8 4 0.17
9 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATAATTA
Found at i:38390592 original size:6 final size:6
Alignment explanation
Indices: 38390581--38390606 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38390571 GATTGTTTTA
38390581 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
38390607 GCAGAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Done.