Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 590 of 770
Found at i:184502976 original size:2 final size:2
Alignment explanation
Indices: 184502971--184502998 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
184502961 GCTCTCTTTG
184502971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
184502999 GGAAAGGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:184503160 original size:15 final size:14
Alignment explanation
Indices: 184503140--184503184 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
184503130 TATGATATTG
184503140 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
184503154 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
184503169 TAATCTTGGTTTTCT
1 T-ATCTTGGATTTCT
184503184 T
1 T
184503185 GTTATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:184505981 original size:50 final size:50
Alignment explanation
Indices: 184505862--184506156 Score: 313
Period size: 50 Copynumber: 5.9 Consensus size: 50
184505852 ATTGTGAGAA
* *** *
184505862 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTGTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-T-TAGGT
* * *
184505914 CACGTGTGTAGTACTAAGTGCAGACTACTATGTGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * * *
184505964 CCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTTAGGT
* * * *
184506015 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * *
184506065 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGAT-TTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * *
184506114 CGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
184506157 ACTTCGGTTA
Statistics
Matches: 203, Mismatches: 38, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
49 41 0.20
50 84 0.41
51 41 0.20
52 37 0.18
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:184506043 original size:101 final size:99
Alignment explanation
Indices: 184505913--184506156 Score: 292
Period size: 101 Copynumber: 2.4 Consensus size: 99
184505903 TGGTTGTAGG
* *
184505913 TCACGTGTGTAGTACTAAGTGCAGACTACTATGTGTACTAGATAGTTAGGTCCCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTAGGTCACATGTGTAGTAC
* *
184505978 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
66 TAAGTGCAAGCTACTACGCGTA-CC-ACAACTTCGA
* * *
184506014 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-AGATAGTTAGGTCACATGTGTAGTA
* * ** * *
184506078 CTAAGTGCAAGCTACTACGTGTACCAGATTTTTGG
65 CTAAGTGCAAGCTACTACGCGTACCACAACTTCGA
* * * * *
184506113 TCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATA
184506157 ACTTCGGTTA
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 41 0.34
100 3 0.02
101 77 0.64
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAAGCTACTACGCGTACCACAACTTCGA
Found at i:184506048 original size:28 final size:28
Alignment explanation
Indices: 184506016--184506099 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
184506006 AACTTCGATC
184506016 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
184506044 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
184506066 ACGTGTGTAGTACTAAGTGCAAGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
184506094 ACGTGT
1 ACGTGT
184506100 ACCAGATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 5 0.12
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:184506160 original size:150 final size:153
Alignment explanation
Indices: 184505866--184506162 Score: 449
Period size: 150 Copynumber: 2.0 Consensus size: 153
184505856 TGAGAACACA
* * *
184505866 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTGTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTGTAGGTCACGTGTGTAGTACTAA
* * *
184505931 GTGCAGACTACTATGTGTACTAGATAGTTAGGTCCCATGTGTAGTACTAAGTGCAGGCTACTATG
66 GTGCAGACTACTACGTGTACCAGATAGTTAGGTCCCATGTATAGTACTAAGTGCAGGCTACTATG
*
184505996 CGTACCCGACAACTTCGATCACG
131 CGTACCAGACAACTTCGATCACG
*
184506019 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-T-TAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTGTAGGTCACGTGTGTAGTACTAA
* * *
184506082 GTGCA-AGCTACTACGTGTACCAGAT-TTTTGGTCGCATGTATAGTACTAAGTGCAGGCTACTAT
66 GTGCAGA-CTACTACGTGTACCAGATAGTTAGGTCCCATGTATAGTACTAAGTGCAGGCTACTAT
*
184506145 GCGTACCAGATAACTTCG
130 GCGTACCAGACAACTTCG
184506163 GTTACAAGGG
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
150 51 0.39
151 43 0.33
152 1 0.01
153 36 0.27
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (153 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTGTAGGTCACGTGTGTAGTACTAA
GTGCAGACTACTACGTGTACCAGATAGTTAGGTCCCATGTATAGTACTAAGTGCAGGCTACTATG
CGTACCAGACAACTTCGATCACG
Found at i:184506376 original size:16 final size:15
Alignment explanation
Indices: 184506355--184506384 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
184506345 GAATGGAGTA
184506355 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
184506371 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
184506385 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:184507838 original size:25 final size:25
Alignment explanation
Indices: 184507800--184507847 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
184507790 TGGAGGACAC
*
184507800 AGCCTAGCATATGGGCGTGTGGCCT
1 AGCCTAGCACATGGGCGTGTGGCCT
184507825 AGCCTAGCACATGGGCGTGTGGC
1 AGCCTAGCACATGGGCGTGTGGC
184507848 TTGGCCGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.21
Consensus pattern (25 bp):
AGCCTAGCACATGGGCGTGTGGCCT
Found at i:184512372 original size:44 final size:42
Alignment explanation
Indices: 184512321--184512485 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 42
184512311 GATATGGTTA
184512321 TCGTGTAAGACCACGTCTGGGACATTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTAC-T-TGATT
* **
184512364 TGCGTGTAAGACCATGTCTGGGATGTTGGCATCGTACTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTACTTGATT
* * *
184512407 TCGTGTAAGACTCTA--TTTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGAC-C-ACGTCTGGGACATTGGCATCG-TACTTGATT
* * * ** *
184512450 ACATGTAAGACCACGTCCGGGATGTTGGCATTGTAC
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGTAC
184512486 AAGCTTTTCG
Statistics
Matches: 98, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 37 0.38
44 31 0.32
45 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTACTTGATT
Found at i:184512712 original size:28 final size:30
Alignment explanation
Indices: 184512649--184512712 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
184512639 GAACAACTGA
*
184512649 TGATATGTGACAAATGTATGAGAACATATG
1 TGATATGTGACAAATGAATGAGAACATATG
**
184512679 CAATATGTG-CAAATGAATTG-GAA-ATATG
1 TGATATGTGACAAATGAA-TGAGAACATATG
184512707 TGATAT
1 TGATAT
184512713 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 9 0.32
29 10 0.36
30 9 0.32
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (30 bp):
TGATATGTGACAAATGAATGAGAACATATG
Found at i:184515047 original size:39 final size:39
Alignment explanation
Indices: 184514993--184515145 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
184514983 GAATGTTCGA
*
184514993 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
184515032 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
184515071 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
184515110 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
184515146 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:184515161 original size:40 final size:39
Alignment explanation
Indices: 184514994--184515164 Score: 243
Period size: 39 Copynumber: 4.4 Consensus size: 39
184514984 AATGTTCGAG
* *
184514994 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
184515033 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
184515072 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
184515111 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
184515151 CCATAACCGGGCTA
1 TGATATCCGGGCTA
184515165 TGTGCCGAAG
Statistics
Matches: 118, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 88 0.75
40 30 0.25
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:184519074 original size:40 final size:40
Alignment explanation
Indices: 184519029--184519195 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
184519019 CGGAATATAA
184519029 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
184519069 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
184519109 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
184519149 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
184519188 CCGGATAT
1 CCGGATAT
184519196 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184519179 original size:80 final size:79
Alignment explanation
Indices: 184519045--184519195 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
184519035 ATAATCACGT
*
184519045 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
184519110 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
184519125 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
184519188 CCGGATAT
64 CCGGATAT
184519196 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:184529522 original size:71 final size:71
Alignment explanation
Indices: 184529438--184529601 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
184529428 CGATTTGTCT
184529438 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
184529503 CTTTCA
66 CTTTCA
184529509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
184529574 CTTTCA
66 CTTTCA
184529580 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
184529602 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:184529639 original size:71 final size:70
Alignment explanation
Indices: 184529438--184529635 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
184529428 CGATTTGTCT
* * * *
184529438 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
184529503 CTTTCA
65 CTTTCA
* * * *
184529509 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
184529574 CTTTCA
65 CTTTCA
* *
184529580 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
184529636 TACAGGTGTC
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:184534624 original size:29 final size:29
Alignment explanation
Indices: 184534613--184534685 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
184534603 TTTTCAGCTT
*
184534613 GCACACATAGTGTCATATTTTTCCAGCAC
1 GCACACATAGTGCCATATTTTTCCAGCAC
* *
184534642 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACATAGTGCCATATTTTTCCAGCAC
*
184534671 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
184534686 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
GCACACATAGTGCCATATTTTTCCAGCAC
Found at i:184537561 original size:39 final size:39
Alignment explanation
Indices: 184537454--184537644 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
184537444 TGAATGATGT
** * *
184537454 CCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTA-AA
* * ** * *
184537494 CCAGACTAAGAT-CCGAAGGTGTTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
184537533 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACGAAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
184537572 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** *
184537613 CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
184537645 CGTTATATCC
Statistics
Matches: 120, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
39 32 0.27
40 80 0.67
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:184539414 original size:27 final size:27
Alignment explanation
Indices: 184539368--184539421 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
184539358 TTGGTATGCC
*
184539368 ATTGTTTCATAACAGGGTTACTGTGCA
1 ATTGTTTCATAACAGAGTTACTGTGCA
*
184539395 ATTGTTTCATAGCAGAGTTACTGTGCA
1 ATTGTTTCATAACAGAGTTACTGTGCA
184539422 TCCTTTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (27 bp):
ATTGTTTCATAACAGAGTTACTGTGCA
Found at i:184546669 original size:21 final size:22
Alignment explanation
Indices: 184546645--184546702 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
184546635 TATAAGATTT
*
184546645 TAATTAATAGATATATAAAT-A
1 TAATTAATAAATATATAAATAA
*
184546666 TAATTATTAAATAT-TAAATAA
1 TAATTAATAAATATATAAATAA
*
184546687 TAAATAATAAATATAT
1 TAATTAATAAATATAT
184546703 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 5 0.16
21 25 0.81
22 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATTAATAAATATATAAATAA
Found at i:184546692 original size:14 final size:14
Alignment explanation
Indices: 184546649--184546700 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
184546639 AGATTTTAAT
*
184546649 TAATAGATATATAAA
1 TAATAAATAT-TAAA
*
184546664 T-ATAATTATTAAA
1 TAATAAATATTAAA
* *
184546677 TATTAAATAATAAA
1 TAATAAATATTAAA
184546691 TAATAAATAT
1 TAATAAATAT
184546701 ATTTTTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 23 0.79
15 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TAATAAATATTAAA
Found at i:184546894 original size:9 final size:9
Alignment explanation
Indices: 184546858--184546901 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 9
184546848 ATATCTCTAC
184546858 TTATAATAAA
1 TTATAA-AAA
184546868 TTATAAAATA
1 TTATAAAA-A
184546878 TATAATAAAAA
1 T-T-ATAAAAA
184546889 TTATAAAAA
1 TTATAAAAA
184546898 TTAT
1 TTAT
184546902 TTAAGTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 13 0.42
10 9 0.29
11 3 0.10
12 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TTATAAAAA
Found at i:184548971 original size:13 final size:13
Alignment explanation
Indices: 184548953--184548981 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
184548943 CTTTCTTCTT
184548953 TATAAAATAGAAG
1 TATAAAATAGAAG
184548966 TATAAAATAGAAG
1 TATAAAATAGAAG
184548979 TAT
1 TAT
184548982 GGTCAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (13 bp):
TATAAAATAGAAG
Found at i:184551894 original size:2 final size:2
Alignment explanation
Indices: 184551887--184551923 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
184551877 TACTTTTGTT
184551887 TA TA TA TA TA 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 TA TA TA TA TA T
184551924 TAAAAGAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:184552427 original size:26 final size:26
Alignment explanation
Indices: 184552398--184552448 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
184552388 TCAAATATCT
184552398 CTTTTACATATTATTTATCTTAAACC
1 CTTTTACATATTATTTATCTTAAACC
* *
184552424 CTTTTATATATTATTTATTTTAAAC
1 CTTTTACATATTATTTATCTTAAAC
184552449 TATTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (26 bp):
CTTTTACATATTATTTATCTTAAACC
Found at i:184552461 original size:26 final size:26
Alignment explanation
Indices: 184552405--184552461 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
184552395 TCTCTTTTAC
* *
184552405 ATATTATTTATCTTAAACCCTTTTAT
1 ATATTATTTATCTTAAACCATTTGAT
* *
184552431 ATATTATTTATTTTAAACTATTTGAT
1 ATATTATTTATCTTAAACCATTTGAT
*
184552457 TTATT
1 ATATT
184552462 TACTTTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (26 bp):
ATATTATTTATCTTAAACCATTTGAT
Found at i:184554696 original size:40 final size:40
Alignment explanation
Indices: 184554637--184554778 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
184554627 AAATTGAATG
* * *
184554637 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
184554677 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
184554717 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
184554757 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
184554779 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:184554802 original size:40 final size:39
Alignment explanation
Indices: 184554675--184554804 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
184554665 ATGCTGGAAA
* * *
184554675 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
184554716 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
184554754 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
184554795 TTATATCCGG
1 TTATATCCGG
184554805 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:184562689 original size:40 final size:40
Alignment explanation
Indices: 184562623--184562773 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
184562613 AAATTGAATG
* * *
184562623 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
184562662 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
184562702 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
184562742 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
184562774 ACATGTTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:184566646 original size:80 final size:80
Alignment explanation
Indices: 184566562--184566710 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
184566552 TATGGTAACC
* * * *
184566562 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
184566626 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
184566642 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
184566707 CCGG
66 CCGG
184566711 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:184566652 original size:40 final size:38
Alignment explanation
Indices: 184566603--184566710 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
184566593 ATCACGATTT
*
184566603 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
184566643 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
184566683 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
184566711 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:184574763 original size:80 final size:80
Alignment explanation
Indices: 184574679--184574827 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
184574669 TATGGTAACC
* * * *
184574679 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
184574743 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
184574759 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
184574824 CCGG
66 CCGG
184574828 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:184574769 original size:40 final size:38
Alignment explanation
Indices: 184574720--184574827 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
184574710 ATCACGATTT
*
184574720 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
184574760 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
184574800 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
184574828 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:184595483 original size:80 final size:80
Alignment explanation
Indices: 184595399--184595547 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
184595389 TATGGTAACC
* * * *
184595399 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
184595463 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
184595479 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
184595544 CCGG
66 CCGG
184595548 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:184595489 original size:40 final size:38
Alignment explanation
Indices: 184595440--184595547 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
184595430 ATCACGATTT
*
184595440 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
184595480 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
184595520 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
184595548 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:184607163 original size:40 final size:39
Alignment explanation
Indices: 184606995--184607165 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
184606985 AGAAATTGAA
* *
184606995 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
184607035 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
184607075 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
184607115 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
184607155 TGATATCCGGG
1 TGATATCCGGG
184607166 TAAAGTCCGT
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:184611604 original size:40 final size:40
Alignment explanation
Indices: 184611496--184611705 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
184611486 CGGGATTTAA
* * * * *
184611496 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
184611536 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184611576 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184611616 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184611656 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184611696 CCGGATATAT
1 CCGGATATAT
184611706 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:184619742 original size:40 final size:40
Alignment explanation
Indices: 184619634--184619843 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
184619624 CGGGATTTAA
* * * * *
184619634 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
184619674 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184619714 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184619754 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184619794 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184619834 CCGGATATAT
1 CCGGATATAT
184619844 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:184623140 original size:13 final size:13
Alignment explanation
Indices: 184623122--184623146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
184623112 CACAAACAAT
184623122 AAAATTTTCACAC
1 AAAATTTTCACAC
184623135 AAAATTTTCACA
1 AAAATTTTCACA
184623147 GATATCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:184630228 original size:29 final size:29
Alignment explanation
Indices: 184630194--184630271 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
184630184 GTGACGAGAT
* *
184630194 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
184630223 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
184630252 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
184630272 CGAGGGTATG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:184638086 original size:29 final size:29
Alignment explanation
Indices: 184638012--184638086 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
184638002 GTGACGAGAT
* * *
184638012 CACTAAGTGTGCGTGCTGGAAATATATGG
1 CACTAAGTGTGCGAGCTGGAAAAATACGG
*
184638041 CACTAAGTGTGCAAGCTGGAAAAATACGG
1 CACTAAGTGTGCGAGCTGGAAAAATACGG
**
184638070 CACTGGGTGTGCGAGCT
1 CACTAAGTGTGCGAGCT
184638087 CGAGGGTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (29 bp):
CACTAAGTGTGCGAGCTGGAAAAATACGG
Found at i:184646679 original size:39 final size:39
Alignment explanation
Indices: 184646580--184646679 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
184646570 TATGGTATTT
* * * *
184646580 AAAATATATATAT-ATATATATGTATATAATAGTATTTA
1 AAAATATATACATAATATATATATATATAATAGCATTAA
* * * *
184646618 AGAATATATACATAAGAAATATATA-ACTAATGGCATTAA
1 AAAATATATACATAATATATATATATA-TAATAGCATTAA
184646657 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
184646680 AAATACCTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 12 0.24
39 37 0.76
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATATATAATAGCATTAA
Found at i:184647204 original size:16 final size:16
Alignment explanation
Indices: 184647185--184647270 Score: 67
Period size: 16 Copynumber: 5.7 Consensus size: 16
184647175 TTTCTTCTTT
184647185 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTTAGG
184647201 TTTTTTTTGGG-TAGG
1 TTTTTTTTGGGTTAGG
*
184647216 TTTTTCTTT---TT--C
1 TTTTT-TTTGGGTTAGG
*** * *
184647228 TTTTTTTTTTCTTTGT
1 TTTTTTTTGGGTTAGG
184647244 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTTAGG
184647260 TTTTTTTTGGG
1 TTTTTTTTGGG
184647271 GGGCTTAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
11 3 0.05
12 5 0.09
14 3 0.05
15 9 0.16
16 36 0.64
ACGTcount: A:0.03, C:0.03, G:0.22, T:0.71
Consensus pattern (16 bp):
TTTTTTTTGGGTTAGG
Found at i:184647220 original size:43 final size:44
Alignment explanation
Indices: 184647173--184647264 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 44
184647163 AGGTTTTTCT
*
184647173 TTTTTCTTCTTT-TTTTTTTTGGGTTAGGTTTTTTTTGGG-TAGG
1 TTTTTCTT-TTTCTTTTTTTTGGCTTAGGTTTTTTTTGGGTTAGG
** * *
184647216 TTTTTCTTTTTCTTTTTTTTTTCTTTGTTTTTTTTTGGGTTAGG
1 TTTTTCTTTTTCTTTTTTTTGGCTTAGGTTTTTTTTGGGTTAGG
184647260 TTTTT
1 TTTTT
184647265 TTTGGGGGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 3 0.07
43 30 0.71
44 9 0.21
ACGTcount: A:0.03, C:0.05, G:0.17, T:0.74
Consensus pattern (44 bp):
TTTTTCTTTTTCTTTTTTTTGGCTTAGGTTTTTTTTGGGTTAGG
Found at i:184647236 original size:17 final size:17
Alignment explanation
Indices: 184647216--184647251 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
184647206 TTTGGGTAGG
184647216 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
184647233 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
184647250 TT
1 TT
184647252 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:184647246 original size:12 final size:11
Alignment explanation
Indices: 184647216--184647249 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
184647206 TTTGGGTAGG
184647216 TTTTTCTTTTTC
1 TTTTT-TTTTTC
184647228 TTTTTTTTTTC
1 TTTTTTTTTTC
184647239 TTTGTTTTTTT
1 TTT-TTTTTTT
184647250 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:184648316 original size:47 final size:47
Alignment explanation
Indices: 184648263--184648374 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 47
184648253 TTCCTTTAAG
* * * * * *
184648263 TATTTAATTTGTCTTAAGTTTATTTAGTTTGTTCTAATTAGTTCAGC
1 TATTTAATATGTCTTAAGTTTATTTAATATGTTCTAATTAATACAAC
* * *
184648310 TATTTAATATGTCCTAAGTTTATTTAATATGTTTTAGTTAATACAAC
1 TATTTAATATGTCTTAAGTTTATTTAATATGTTCTAATTAATACAAC
*
184648357 TATTTAATGTGTCTTAAG
1 TATTTAATATGTCTTAAG
184648375 CTTAGGCAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (47 bp):
TATTTAATATGTCTTAAGTTTATTTAATATGTTCTAATTAATACAAC
Found at i:184652110 original size:43 final size:40
Alignment explanation
Indices: 184652012--184652122 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 40
184652002 TGTGTTGTCG
* * *
184652012 TGTAAGACCAAGTCTGGAACATTGGCATCGACTTGTTACG
1 TGTAAGACCAAGTCTGGGACAGTGGCATCGACTTGTTACA
* *
184652052 TGTAAGACTC-TGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGAC-CAAGTCTGGGACAGTGGCATCG--ACTTG-TTACA
*
184652095 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCAAGTCTGGGACAG-TGGCAT
184652123 TGTACAAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
40 25 0.42
41 1 0.02
42 6 0.10
43 27 0.46
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
TGTAAGACCAAGTCTGGGACAGTGGCATCGACTTGTTACA
Found at i:184657414 original size:21 final size:21
Alignment explanation
Indices: 184657353--184657401 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
184657343 GTTTTCTTGT
184657353 TGGTTTAGTGCATTATTTTGA
1 TGGTTTAGTGCATTATTTTGA
184657374 TGGTTTAGTGCATTATTTTGA
1 TGGTTTAGTGCATTATTTTGA
184657395 TGGTTTA
1 TGGTTTA
184657402 AGTGATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.53
Consensus pattern (21 bp):
TGGTTTAGTGCATTATTTTGA
Found at i:184661483 original size:7 final size:7
Alignment explanation
Indices: 184661471--184661495 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
184661461 GTTGTCTTCT
184661471 TGTTTGA
1 TGTTTGA
184661478 TGTTTGA
1 TGTTTGA
184661485 TGTTTGA
1 TGTTTGA
184661492 TGTT
1 TGTT
184661496 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:184662423 original size:27 final size:28
Alignment explanation
Indices: 184662367--184662436 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
184662357 AAATTTGTAC
184662367 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
184662395 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
184662422 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
184662437 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:184664213 original size:37 final size:37
Alignment explanation
Indices: 184664154--184664299 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
184664144 AGCTCAGACG
* * * *
184664154 AAATCTCCACATGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
184664191 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
184664228 TAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
184664265 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
184664300 ATATATTTCC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:184664518 original size:47 final size:47
Alignment explanation
Indices: 184664461--184664732 Score: 391
Period size: 47 Copynumber: 5.7 Consensus size: 47
184664451 ACACGTTTCG
* * *
184664461 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
184664508 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
184664555 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
184664602 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
184664649 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* *
184664700 CATTGGCCATTCGGCCTTATCACACATACGCAT
1 CATTGGCCATTCGGCCTTATCACATATATGCAT
184664733 TGTAACACCC
Statistics
Matches: 204, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
47 159 0.78
49 6 0.03
51 39 0.19
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:184664655 original size:141 final size:143
Alignment explanation
Indices: 184664461--184664732 Score: 431
Period size: 141 Copynumber: 1.9 Consensus size: 143
184664451 ACACGTTTCG
* **
184664461 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
184664526 AT-CTC-ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
66 ATACACAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
184664589 TTCACATTCATCA
131 TTCACATTCATCA
* *
184664602 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
184664667 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 AT-ACACA-ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
184664732 T
129 T
184664733 TGTAACACCC
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 62 0.53
143 2 0.02
145 54 0.46
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (143 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATACACAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
TTCACATTCATCA
Found at i:184666192 original size:40 final size:40
Alignment explanation
Indices: 184666084--184666293 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
184666074 CGGGATTTAA
* * * * *
184666084 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
184666124 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184666164 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184666204 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184666244 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184666284 CCGGATATAT
1 CCGGATATAT
184666294 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:184674259 original size:40 final size:40
Alignment explanation
Indices: 184674151--184674360 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
184674141 CGGGATTTAA
* * * * *
184674151 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
184674191 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184674231 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184674271 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184674311 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
184674351 CCGGATATAT
1 CCGGATATAT
184674361 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:184676180 original size:47 final size:47
Alignment explanation
Indices: 184676054--184676268 Score: 340
Period size: 47 Copynumber: 4.5 Consensus size: 47
184676044 GGGCTGTCAC
184676054 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
***
184676101 ATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
*
184676152 ACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
184676199 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
1 ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
* *
184676246 GCGCATGTTCACATCCATCACAT
1 ACGCATGTTCACATTCATCACAT
184676269 AAAATCCTAA
Statistics
Matches: 154, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
47 110 0.71
51 44 0.29
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (47 bp):
ACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
Found at i:184687103 original size:73 final size:73
Alignment explanation
Indices: 184686869--184687678 Score: 611
Period size: 73 Copynumber: 10.5 Consensus size: 73
184686859 TTTGTTTCAA
* **
184686869 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
184686934 TGCTTTTC
66 TGTTTTTC
** * *
184686942 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA---
184687007 CTGTTCAATTTATGTTTTTC
62 -T-TTC------TGTTTTTC
*
184687027 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGGTATTTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
184687091 TAGTTTTTC
66 T-GTTTTTC
* * * *
184687100 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA----
*
184687165 TGTGTTTCAACCTATTTTTC
62 ----TTT----CTGTTTTTC
* ** *
184687185 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
184687250 TGTTTGTC
66 TGTTTTTC
* *
184687258 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTT
*
184687322 CTGCTTTTC
65 CTGTTTTTC
* * * * * * * * * *
184687331 AATTTTTTTTTAAA-AAAATCA-ACT-C-ATATTGCGAGAGGTGAG-TTGAGCCTCGAGACAC-G
1 AA---------AAATCAACTCATATTGCGAGA--G-GTGAGTTGAGCCTCAG----GACACGCTG
* * * *
184687390 CTGAG-GTAATTTCAATTTCTG-TTTTC
50 -AG-GTAT-TTTC-AATTTCTGTTTTTC
* *
184687416 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
184687481 TG-TTTTC
66 TGTTTTTC
* ** * * *
184687488 AAAATTCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
184687553 TG-TTTTC
66 TGTTTTTC
* *
184687560 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCA
*
184687624 ATTTCTGTCTTTC
61 ATTTCTGTTTTTC
* *
184687637 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCTTCAG
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
184687679 ATCACACACT
Statistics
Matches: 594, Mismatches: 81, Indels: 118
0.75 0.10 0.15
Matches are distributed among these distances:
72 78 0.13
73 139 0.23
74 100 0.17
75 1 0.00
76 27 0.05
77 59 0.10
78 9 0.02
79 9 0.02
80 7 0.01
81 16 0.03
82 3 0.01
83 2 0.00
84 59 0.10
85 76 0.13
86 9 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTC
Found at i:184687183 original size:158 final size:155
Alignment explanation
Indices: 184686869--184687638 Score: 926
Period size: 158 Copynumber: 4.9 Consensus size: 155
184686859 TTTGTTTCAA
* **
184686869 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
** ** *
184686934 TGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATT
66 TG-TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-T
*
184686999 TTCAATTTCTG--TTCAATTTATGTTTTTC
128 TTCAATTTCTGTTTTCAATCTA--TTTTTC
*
184687027 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGGTATTTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
184687091 TAGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGGTATT
66 T-G-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
* *
184687156 GTCAATTTTTGTGTTTCAACCTATTTTTC
129 -TCAATTTCTGT-TTTCAATCTATTTTTC
* ** *
184687185 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
184687250 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAAT
66 TGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGCTGAGGT-AT
* * *
184687314 TTCAATTTCTGCTTTTCAATTTTTTTTTAA
128 TTCAATTTCTG-TTTTCAATCTATTTTT-C
*
184687344 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTATTTTCAATTT
184687408 CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
65 CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT-ATT
184687473 TCAATTTCTG------------TTTTC
129 TCAATTTCTGTTTTCAATCTATTTTTC
* ** * * *
184687488 AAAATTCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * *
184687553 TGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTA
66 TGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTA
184687618 TTTTCAATTTCTGTCTTTCAA
127 -TTTCAATTTCTGT-TTTCAA
184687639 AAAAATCAAC
Statistics
Matches: 541, Mismatches: 44, Indels: 56
0.84 0.07 0.09
Matches are distributed among these distances:
144 64 0.12
145 4 0.01
146 39 0.07
147 1 0.00
148 23 0.04
156 2 0.00
157 62 0.11
158 267 0.49
159 72 0.13
160 7 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (155 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTC
AATTTCTGTTTTCAATCTATTTTTC
Found at i:184687237 original size:85 final size:83
Alignment explanation
Indices: 184687094--184687638 Score: 460
Period size: 72 Copynumber: 7.0 Consensus size: 83
184687084 TCAATTTTAG
* * *
184687094 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAAGCTGAGGT-ATTGT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-T
*
184687158 CAATTTTTGTGTTTCAACCTA
65 CAATTTCTGT-TTTCAA-CTA
* **
184687179 TTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
184687244 AATTTCTG----------
66 AATTTCTGTTTTCAACTA
* *
184687252 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTT
* *
184687316 CAATTTCTGCTTTTCAATTTT
65 CAATTTCTG-TTTTCAA-CTA
*
184687337 TTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGTAATT
1 TTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATT
184687401 TCAATTTCTG----------
64 TCAATTTCTGTTTTCAACTA
*
184687411 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTC
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
184687475 AATTTCTG----------
66 AATTTCTGTTTTCAACTA
* ** * * * *
184687483 -TTTTCAAAATTCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
184687547 AATTTCTGTTTTC-A--A
66 AATTTCTGTTTTCAACTA
* * *
184687562 ------AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAAT
184687620 TTCAATTTCTGTCTTTCAA
63 TTCAATTTCTGT-TTTCAA
184687639 AAAAATCAAC
Statistics
Matches: 398, Mismatches: 32, Indels: 67
0.80 0.06 0.13
Matches are distributed among these distances:
72 129 0.32
73 70 0.18
74 36 0.09
76 25 0.06
77 4 0.01
78 1 0.00
84 1 0.00
85 67 0.17
86 65 0.16
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (83 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTGTTTTCAACTA
Found at i:184687355 original size:86 final size:85
Alignment explanation
Indices: 184687258--184687417 Score: 284
Period size: 86 Copynumber: 1.9 Consensus size: 85
184687248 TCTGTTTGTC
* *
184687258 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
184687323 TGCTTTTCAATTTTTTTTTAA
66 TG-TTTTCAATTTTTTTTTAA
*
184687344 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
184687409 TGTTTTCAA
66 TGTTTTCAA
184687418 AAATCAACTC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 7 0.10
86 64 0.90
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (85 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAATTTTTTTTTAA
Found at i:184687698 original size:77 final size:74
Alignment explanation
Indices: 184687326--184687673 Score: 494
Period size: 72 Copynumber: 4.7 Consensus size: 74
184687316 CAATTTCTGC
*
184687326 TTTTCAATTT-T-TTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACAC
184687389 GCTGAGGTA
66 GCTGAGGTA
* *
184687398 ATTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACAC
184687461 GCTGAGGTA
66 GCTGAGGTA
* * ** * *
184687470 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAATTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACAC
*
184687533 GTTGAGGTA
66 GCTGAGGTA
*
184687542 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCG-GTTCA
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG---A
*
184687606 CATGCTGAGGTA
63 CACGCTGAGGTA
*
184687618 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
184687674 TTCAGATCAC
Statistics
Matches: 249, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
72 144 0.58
73 2 0.01
74 37 0.15
76 25 0.10
77 41 0.16
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACAC
GCTGAGGTA
Found at i:184688891 original size:17 final size:17
Alignment explanation
Indices: 184688869--184688907 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
184688859 CCTAAAGGTG
*
184688869 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
184688886 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
184688903 ATTTT
1 ATTTT
184688908 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:184689672 original size:11 final size:11
Alignment explanation
Indices: 184689648--184689692 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
184689638 TTCTAATAGG
*
184689648 TATATATATAT
1 TATATATATTT
*
184689659 TATATGTATTT
1 TATATATATTT
*
184689670 TATATATATTA
1 TATATATATTT
*
184689681 TGTATATATTT
1 TATATATATTT
184689692 T
1 T
184689693 TTAATGCCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:184690035 original size:16 final size:16
Alignment explanation
Indices: 184689996--184690036 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
184689986 CTAATATTTT
*
184689996 CTTTTATTA-TAGATA
1 CTTTTATTATTACATA
184690011 -TTATTATTATTACATA
1 CTT-TTATTATTACATA
184690027 CTTTTATTAT
1 CTTTTATTAT
184690037 GCATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 2 0.09
15 6 0.27
16 12 0.55
17 2 0.09
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (16 bp):
CTTTTATTATTACATA
Found at i:184691072 original size:32 final size:32
Alignment explanation
Indices: 184691034--184691193 Score: 239
Period size: 32 Copynumber: 5.0 Consensus size: 32
184691024 TATAACTATG
*
184691034 CTACTTTTTTATATGTAAAACTAATATATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
184691066 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
184691098 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
184691130 ATACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
184691162 CTACTTTTTTATAGGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
184691194 ATTTTTTATG
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 113 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:184691135 original size:64 final size:64
Alignment explanation
Indices: 184691034--184691195 Score: 270
Period size: 64 Copynumber: 2.5 Consensus size: 64
184691024 TATAACTATG
* * *
184691034 CTACTTTTTTATATGTAAAACTAATATATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATGCAAAACTAATGTATGAT
* *
184691098 CTACTTTTTTATATGTGAACCTAATGTATGATATACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATGCAAAACTAATGTATGAT
*
184691162 CTACTTTTTTATAGGTAAACCTAATGTATGATAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATAT
184691196 TTTTTATGTT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 91 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:184693227 original size:21 final size:21
Alignment explanation
Indices: 184693201--184693256 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
184693191 TACCGCTGTT
184693201 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
184693222 TCTAATCTCACCACTACAGTA
1 TCTAATCTCACCGCTACAGTA
* *
184693243 ACCAATCTCACCGC
1 TCTAATCTCACCGC
184693257 CATACCTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.38, G:0.07, T:0.25
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:184697573 original size:3 final size:3
Alignment explanation
Indices: 184697567--184697598 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
184697557 TAAAAGTATG
184697567 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
184697599 TCTACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:184697824 original size:14 final size:14
Alignment explanation
Indices: 184697780--184697842 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
184697770 TGGTATTTAA
184697780 AATATATATAT-A-
1 AATATATATATAAG
*
184697792 TATATATATATATA-
1 AATATATATATA-AG
* *
184697806 TATATATATTTAAG
1 AATATATATATAAG
*
184697820 AATATATACATAAG
1 AATATATATATAAG
184697834 AA-ATATATA
1 AATATATATA
184697843 ACTAATGGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
12 10 0.24
13 7 0.17
14 25 0.60
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (14 bp):
AATATATATATAAG
Found at i:184697827 original size:2 final size:2
Alignment explanation
Indices: 184697781--184697814 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
184697771 GGTATTTAAA
184697781 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
184697815 TTAAGAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:184699521 original size:79 final size:77
Alignment explanation
Indices: 184699398--184699618 Score: 248
Period size: 79 Copynumber: 2.8 Consensus size: 77
184699388 AAAACAGATT
** * * * *
184699398 TTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTT
1 TTGAAAATACCTCAG-CGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
184699462 TGAAAAATATAAA
65 TGAAAAACAAAAA
* * * * *
184699475 TTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAATTCACCTCTCGCAATATGAGTTGATTTT
1 TTG--AAAATACCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
184699539 TTTGAAAGACAAAAA
63 TTTGAAAAACAAAAA
* *
184699554 TTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
184699619 TTTGAAAGGC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
76 2 0.02
77 55 0.45
79 62 0.51
80 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (77 bp):
TTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAAACAAAAA
Found at i:184699597 original size:77 final size:79
Alignment explanation
Indices: 184699424--184699618 Score: 245
Period size: 77 Copynumber: 2.5 Consensus size: 79
184699414 ATGTGACCCG
* * *
184699424 AGGCTCAACTC-ACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
1 AGGCTCAACTCAAC-TCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTG-AAAAATACC
* * * *
184699488 TCAGTGTGTGATCTGA
64 TCAGCGCGTGAGCTCA
* * * *
184699504 A-GCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTG-AAAATAGCTC
1 AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTC
184699567 AGCGCGTGAGC-CA
66 AGCGCGTGAGCTCA
184699580 AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTT
1 AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTT
184699619 TTTGAAAGGC
Statistics
Matches: 100, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
76 2 0.02
77 52 0.52
79 44 0.44
80 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (79 bp):
AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTC
AGCGCGTGAGCTCA
Found at i:184699639 original size:14 final size:14
Alignment explanation
Indices: 184699628--184699654 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
184699618 TTTTGAAAGG
184699628 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
184699642 CAGAAATTGAAAA
1 CAGAAATTGAAAA
184699655 TACTTCGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:184699704 original size:94 final size:94
Alignment explanation
Indices: 184699540--184699712 Score: 215
Period size: 94 Copynumber: 1.8 Consensus size: 94
184699530 GTTGATTTTT
* * *
184699540 TTGAAAGACAAAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCAACTCTCGCAATAT
1 TTGAAAAACAAAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCAACTCTCACAATAC
*
184699605 GAGTTGATTTTTTTTTTGAAAGGCAGAAA
66 AAGTTGATTTTTTTTTTGAAAGGCAGAAA
* * * * ** *
184699634 TTGAAAAACAGAAATTGAAAATA-CTTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCATAAT
1 TTGAAAAACAAAAATTGAAAATAGC-TCAGCGCGTGAGCC-AAGGCTCAACTCAACTCTCACAAT
184699697 ACAAGTTGATTTTTTT
64 ACAAGTTGATTTTTTT
184699713 GACAATAGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
93 3 0.05
94 63 0.95
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (94 bp):
TTGAAAAACAAAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCAACTCTCACAATAC
AAGTTGATTTTTTTTTTGAAAGGCAGAAA
Found at i:184699778 original size:74 final size:77
Alignment explanation
Indices: 184699634--184699806 Score: 217
Period size: 76 Copynumber: 2.3 Consensus size: 77
184699624 AAGGCAGAAA
* * * * *
184699634 TTGAAAAACAGAAATTGAAAATACTTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCATAATAC
1 TTGAAAAATAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCACAATAC
184699699 AAGTTG-ATTTTT
65 AAGTTGAATTTTT
* * * **
184699711 TTG-ACAATAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAATAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATACA
184699774 AGTTGAATTTTT
66 AGTTGAATTTTT
*
184699786 TTGAAAAATATAAATTGAAAA
1 TTGAAAAATAGAAATTGAAAA
184699807 GCAGAAATTG
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
74 30 0.37
75 9 0.11
76 39 0.48
77 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (77 bp):
TTGAAAAATAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATACA
AGTTGAATTTTT
Found at i:184699896 original size:73 final size:72
Alignment explanation
Indices: 184699800--184700267 Score: 303
Period size: 73 Copynumber: 6.0 Consensus size: 72
184699790 AAAATATAAA
* * *
184699800 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGACTCAACTCATCTCTCGCAATATGA
1 TTGAAAA-CAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGA
184699865 GTTGATTT
65 GTTGATTT
* * * *
184699873 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAACAAAAATTGAAAATACCTCAACGTG-CCTTGAGGCTCAACTCATCTCTCGCAATATG
*
184699937 AGTTAATTT
64 AGTTGATTT
* * * ** ** * * * * * *
184699946 TTGAAAA-ATAGATTGAAACACAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACC
1 TTGAAAACAAAAATTG-AA-A-ATACCTCAAC-GTGCCT---TGAGGCTC-A-ACTC-A-T---C
184700010 TCTCGCAATATGAGTTGATTT
52 TCTCGCAATATGAGTTGATTT
* * *
184700031 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
1 TTG-AAAACAAAAATTGAAAATACCTCAACGTG-CCTTGAGGCTCAACTCATCTCTCGCAATATG
184700095 AGTTGATTT
64 AGTTGATTT
* * *
184700104 TTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTG-AAAAC---------A-A-AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTC
184700169 TCGCAATATGAGTTGATTTTTTTT
54 TCGCAATATGAGTTGA-----TTT
* * * *
184700193 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGA
184700258 GTTGATTT
65 GTTGATTT
184700266 TT
1 TT
184700268 TTGAAAAACA
Statistics
Matches: 309, Mismatches: 48, Indels: 76
0.71 0.11 0.18
Matches are distributed among these distances:
71 6 0.02
72 5 0.02
73 101 0.33
74 10 0.03
75 1 0.00
77 1 0.00
78 64 0.21
79 3 0.01
80 9 0.03
81 1 0.00
82 2 0.01
83 2 0.01
84 58 0.19
85 23 0.07
86 6 0.02
87 6 0.02
88 3 0.01
89 8 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
TTGAAAACAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTT
Found at i:184699913 original size:163 final size:161
Alignment explanation
Indices: 184699505--184700287 Score: 842
Period size: 158 Copynumber: 4.8 Consensus size: 161
184699495 GTGATCTGAA
* *
184699505 GCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAAAAATTGAAAATACCTCA--
* * * * ** *
184699570 GCGTGAGCC-AAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAGAAA
62 GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTTTTGAAAAACATAAA
* **
184699634 TTGAAAAACAGAAATTGAAAATACTTCGGCGTGTGACC-TGAG
124 TTG-AAAACAGAAATTG-AAATACCTCAAC--GTG-CCTTGAG
* ** ** * * * *
184699676 GCTCAACTCGCCTCTCATAATACAAGTTGATTTTTTTGACAATAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAAAAATTGAAAATACCTCAGCG
*
184699741 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAA
65 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACATAAATTGAAA
184699806 AGCAGAAATTGAAATTACCTCAACGTGCCTTGAG
130 A-CAGAAATTGAAA-TACCTCAACGTGCCTTGAG
* * *
184699840 ACTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAAAAATTGAAAATACCTCAGCG
** * *
184699904 TGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTT-AA--TTTTTG-AAAA-ATAGATTGAAA
65 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACATAAATTGAAA
* ** **
184699964 CACAAAAATTGACAATACCTCAGTGTGCCCCGAG
130 -ACAGAAATTGA-AATACCTCAACGTGCCTTGAG
*
184699998 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAAAAATTGAAAATACCTCAGCG
184700062 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAAAACATAAATTG--A
65 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACATAAATTGAAA
*
184700122 ACAGAAATTGAAACTACCTCAACGTGTCTTGAG
130 ACAGAAATTGAAA-TACCTCAACGTGCCTTGAG
**
184700155 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAAAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAA-ACAAAAATTGAAAATACCTC
* * ** *
184700220 AGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTTTTGAAAAACAGAAATT
61 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACATAAATT
184700284 -AAAA
126 GAAAA
184700288 GGCTTAACTC
Statistics
Matches: 527, Mismatches: 63, Indels: 50
0.82 0.10 0.08
Matches are distributed among these distances:
156 2 0.00
157 52 0.10
158 134 0.25
159 12 0.02
160 13 0.02
161 3 0.01
162 73 0.14
163 59 0.11
164 48 0.09
165 9 0.02
166 33 0.06
167 2 0.00
168 36 0.07
170 17 0.03
171 34 0.06
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (161 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAGCGT
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACATAAATTGAAAA
CAGAAATTGAAATACCTCAACGTGCCTTGAG
Found at i:184699975 original size:85 final size:85
Alignment explanation
Indices: 184699880--184700038 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 85
184699870 TTTTTGACAA
* * ** *
184699880 ACAAAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTAAT
1 ACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
184699944 TTTTGAAAAATAGATTGAAAC
65 TTTTGAAAAATAGATTGAAAC
* *
184699965 ACAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
184700030 TTTGAAAAA
66 TTTGAAAAA
184700039 CAGAAATTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 64 0.97
86 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (85 bp):
ACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
TTTGAAAAATAGATTGAAAC
Found at i:184700178 original size:84 final size:84
Alignment explanation
Indices: 184700037--184700283 Score: 310
Period size: 84 Copynumber: 3.0 Consensus size: 84
184700027 ATTTTTGAAA
* **
184700037 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
184700102 TTTTGAAAAACATAAATTG
66 TTTTGAAAAACATAAATTG
* *
184700121 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
****
184700186 TTTT----TTTTTGAAA--G
66 TTTTGAAAAACAT-AAATTG
* *
184700200 -ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
*
184700264 TTTTTTGAAAAACAGAAATT
65 -TTTTTGAAAAACATAAATT
184700284 AAAAGGCTTA
Statistics
Matches: 136, Mismatches: 18, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
78 59 0.43
79 1 0.01
80 6 0.04
81 3 0.02
83 3 0.02
84 64 0.47
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (84 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
TTTTGAAAAACATAAATTG
Found at i:184700244 original size:78 final size:78
Alignment explanation
Indices: 184699958--184700269 Score: 330
Period size: 78 Copynumber: 4.0 Consensus size: 78
184699948 GAAAAATAGA
* * * * *
184699958 TTGAAACACAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
184700023 GTTGA-----TTT
66 GTTGATTTTTTTT
* *
184700031 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
***
184700096 GTTGATTTTTGAAAAAC
66 GTTGATTTTT----TTT
* * * * * **
184700113 AT-AAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTGAAA--G-ACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
184700177 TGAGTTGATTTTTTTT
63 TGAGTTGATTTTTTTT
* * **
184700193 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
184700258 GTTGATTTTTTT
66 GTTGATTTTTTT
184700270 GAAAAACAGA
Statistics
Matches: 202, Mismatches: 24, Indels: 21
0.82 0.10 0.09
Matches are distributed among these distances:
73 64 0.32
78 66 0.33
79 1 0.00
80 1 0.00
81 6 0.03
82 1 0.00
84 63 0.31
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (78 bp):
TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTT
Found at i:184700348 original size:55 final size:55
Alignment explanation
Indices: 184700231--184700395 Score: 260
Period size: 55 Copynumber: 3.0 Consensus size: 55
184700221 GCATGTCTTG
* ** *
184700231 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAA-AACAGAAATTAAA
1 AGGCTTAACTCACCTCTCGCAACATGAGTTGA--TTTTTGAAACAACAGAAATTAAA
184700287 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAAA
1 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAAA
*
184700342 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAA
1 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAA
184700396 GAATACCTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
54 9 0.09
55 66 0.64
56 28 0.27
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (55 bp):
AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAAA
Found at i:184700610 original size:142 final size:143
Alignment explanation
Indices: 184700342--184700657 Score: 343
Period size: 142 Copynumber: 2.2 Consensus size: 143
184700332 AGAAATTAAA
* * * * *
184700342 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAAGAATACCTCAG
1 AGGCTTAACTCACCTCTCGCAATATGAG-TCATATTT-AAACAACAAAAACTAAAAATACCTCAG
* ** * * *
184700407 TGTGACCTAAGGCTTGACTCACTTCTCGCAGTTTGAGTCAAAATTTGAAACATAAACTAAAAATA
64 CGTGACCTAAGGCTCAACTCACTTCTCGCAATATGAGTCAAAATTTGAAACAAAAACTAAAAATA
* *
184700472 CTTCAGCGCGTGGCTTG
129 CCTCA--ACGTGGCTTG
* *
184700489 AGGCTTGACTCACCTCTCGCAATATGAGTCA-ATTT-AA-AACATAAACTAAAAATACCTCAGCG
1 AGGCTTAACTCACCTCTCGCAATATGAGTCATATTTAAACAACAAAAACTAAAAATACCTCAGCG
* * ** * *
184700551 TGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGT-TGATTTTGAAAACAAAAATTAAAAATAC
66 TGACCTAAGGCTCAACTCACTTCTCGCAATATGAGTCAAAATTTG-AAACAAAAACTAAAAATAC
*
184700615 CTCAACGTGTCTTG
130 CTCAACGTGGCTTG
* *
184700629 AGGCTCAACTCATCTCTCGCAATATGAGT
1 AGGCTTAACTCACCTCTCGCAATATGAGT
184700658 TGATTTCCCT
Statistics
Matches: 143, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
140 34 0.24
141 5 0.03
142 71 0.50
143 2 0.01
145 3 0.02
146 2 0.01
147 26 0.18
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (143 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCATATTTAAACAACAAAAACTAAAAATACCTCAGCG
TGACCTAAGGCTCAACTCACTTCTCGCAATATGAGTCAAAATTTGAAACAAAAACTAAAAATACC
TCAACGTGGCTTG
Found at i:184700658 original size:71 final size:70
Alignment explanation
Indices: 184700342--184700663 Score: 290
Period size: 71 Copynumber: 4.5 Consensus size: 70
184700332 AGAAATTAAA
* * *
184700342 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAAGAATACCTCAG
1 AGGCTTAACTCA-CTCTCGCAATATGAGTTGA-TTTTG-AA-AACAAAAACTAAAAATACCTCAG
* *
184700407 TGTGACCTA
62 CGTGACCTG
* * * ** * * *
184700416 AGGCTTGACTCACTTCTCGCAGTTTGAGTCAAAATTTG-AAACATAAACTAAAAATACTTCAGCG
1 AGGCTTAACTCAC-TCTCGCAATATGAGT-TGATTTTGAAAACAAAAACTAAAAATACCTCA--G
* *
184700480 CGTGGCTTG
62 CGTGACCTG
* * * *
184700489 AGGCTTGACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTTAACTCA-CTCTCGCAATATGAGTTGATTTTGAAAACAAAAACTAAAAATACCTCAGCGT
*
184700552 GCCCTG
65 GACCTG
* * *
184700558 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTTAACTCAC-TCTCGCAATATGAGTTGATTTTGAAAACAAAAACTAAAAATACCTCAGCGT
* *
184700623 GTCTTG
65 GACCTG
*
184700629 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AGGCTTAACTCA-CTCTCGCAATATGAGTTGATTT
184700664 CCCTTGAAAA
Statistics
Matches: 207, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
68 1 0.00
69 32 0.15
70 5 0.02
71 107 0.52
72 2 0.01
73 31 0.15
74 28 0.14
75 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (70 bp):
AGGCTTAACTCACTCTCGCAATATGAGTTGATTTTGAAAACAAAAACTAAAAATACCTCAGCGTG
ACCTG
Found at i:184709957 original size:22 final size:22
Alignment explanation
Indices: 184709929--184709977 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
184709919 GGTTTCTTGG
184709929 TTTTTTTTGGGGGTTAGGTTTT
1 TTTTTTTTGGGGGTTAGGTTTT
**
184709951 TTTTTTTTTTGGGTTAGGTTTT
1 TTTTTTTTGGGGGTTAGGTTTT
184709973 TTTTT
1 TTTTT
184709978 AGGGGGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.04, C:0.00, G:0.24, T:0.71
Consensus pattern (22 bp):
TTTTTTTTGGGGGTTAGGTTTT
Found at i:184714411 original size:34 final size:34
Alignment explanation
Indices: 184714368--184714437 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
184714358 AGGCAAAGAT
184714368 AATTTTACTATAATGACAAAAGAACGAATAGTAC
1 AATTTTACTATAATGACAAAAGAACGAATAGTAC
*
184714402 AATTTTACTATAATGGCAAAAGAACGAATAGTAC
1 AATTTTACTATAATGACAAAAGAACGAATAGTAC
184714436 AA
1 AA
184714438 AAGATTGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (34 bp):
AATTTTACTATAATGACAAAAGAACGAATAGTAC
Found at i:184717212 original size:46 final size:46
Alignment explanation
Indices: 184717162--184717337 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
184717152 TATTTGGGCA
184717162 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
184717208 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
184717255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
184717301 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
184717338 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:184717317 original size:93 final size:93
Alignment explanation
Indices: 184717158--184717329 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
184717148 TGGATATTTG
* *
184717158 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
184717223 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
184717251 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
184717316 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
184717330 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:184720308 original size:15 final size:15
Alignment explanation
Indices: 184720288--184720356 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
184720278 GTATCTTGGG
184720288 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
184720303 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
184720318 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
184720333 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
184720348 TTTCTTTAT
1 TTTCTTTAT
184720357 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:184720357 original size:30 final size:30
Alignment explanation
Indices: 184720279--184720366 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
184720269 CATAGTATCG
* * * *
184720279 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
184720309 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
184720339 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
184720367 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:184722802 original size:46 final size:46
Alignment explanation
Indices: 184722752--184722927 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
184722742 TATTTGGGCA
184722752 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
184722798 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
184722845 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
184722891 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
184722928 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:184722907 original size:93 final size:93
Alignment explanation
Indices: 184722748--184722919 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
184722738 TGGATATTTG
* *
184722748 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
184722813 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
184722841 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
184722906 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
184722920 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:184725898 original size:15 final size:15
Alignment explanation
Indices: 184725878--184725946 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
184725868 GTATCTTGGG
184725878 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
184725893 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
184725908 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
184725923 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
184725938 TTTCTTTAT
1 TTTCTTTAT
184725947 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:184725947 original size:30 final size:30
Alignment explanation
Indices: 184725869--184725956 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
184725859 CATAGTATCG
* * * *
184725869 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
184725899 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
184725929 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
184725957 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:184728394 original size:46 final size:46
Alignment explanation
Indices: 184728341--184728516 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
184728331 TATTTGGGCA
184728341 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
184728387 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
184728434 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
184728480 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
184728517 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:184728496 original size:93 final size:93
Alignment explanation
Indices: 184728337--184728508 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
184728327 GGGATATTTG
* *
184728337 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
184728402 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
184728430 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
184728495 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
184728509 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:184745647 original size:40 final size:40
Alignment explanation
Indices: 184745562--184745712 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
184745552 AATTGAATGA
* * *
184745562 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
184745602 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
184745643 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
184745682 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
184745713 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:184745726 original size:40 final size:40
Alignment explanation
Indices: 184745599--184745728 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
184745589 ATGCTGGAAA
* * * *
184745599 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
184745639 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
184745679 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
184745719 TTATATCCGG
1 TTATATCCGG
184745729 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:184755223 original size:39 final size:40
Alignment explanation
Indices: 184755167--184755265 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 40
184755157 ATTGAATGAT
* *
184755167 ATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATTAC
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACTAC
* * * * * *
184755206 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACTAC
184755246 ATCCGGGCTAAGACCCGAAG
1 ATCCGGGCTAAGACCCGAAG
184755266 GCATTCGTGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 27 0.54
40 23 0.46
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.20
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACTAC
Found at i:184755258 original size:40 final size:40
Alignment explanation
Indices: 184755165--184755347 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
184755155 AAATTGAATG
* * * * *
184755165 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
184755204 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
184755244 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
184755284 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
184755324 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
184755348 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 31 0.26
40 86 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:184763411 original size:40 final size:40
Alignment explanation
Indices: 184763300--184763412 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
184763290 GCTGAAAATT
* * *
184763300 AATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTA
1 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTA
* * * *
184763340 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTA
184763380 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
184763413 ATCGTGATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (40 bp):
AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTA
Found at i:184763425 original size:40 final size:38
Alignment explanation
Indices: 184763256--184763442 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
184763246 TGAGAAATTG
* * *
184763256 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
184763296 AAT-TA-ATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
184763332 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
184763372 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
184763412 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
184763443 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
36 4 0.03
37 2 0.02
38 2 0.02
39 23 0.19
40 87 0.73
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:184768222 original size:29 final size:29
Alignment explanation
Indices: 184768189--184768348 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
184768179 GTGACGAGAT
184768189 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
184768218 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
184768247 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
184768276 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
184768305 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
184768334 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
184768349 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:184776068 original size:27 final size:26
Alignment explanation
Indices: 184776006--184776100 Score: 86
Period size: 27 Copynumber: 3.5 Consensus size: 26
184775996 AGCATGGCTG
* * *
184776006 CCAGAACTGATAATGTGACAG-AGTCA
1 CCAGAACAGATAATGTGGCAGAACT-A
184776032 CCAGATACAGATAATCGTGGCAGAACTA
1 CCAGA-ACAGATAAT-GTGGCAGAACTA
*
184776060 CCAGAACAGATATATGTGGCA-AAGCCA
1 CCAGAACAGATA-ATGTGGCAGAA-CTA
*
184776087 CCAGATCAGATAAT
1 CCAGAACAGATAAT
184776101 TTGTGGCATA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
26 9 0.15
27 34 0.58
28 14 0.24
29 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAACTA
Found at i:184776114 original size:28 final size:28
Alignment explanation
Indices: 184776030--184776118 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
184776020 GTGACAGAGT
*
184776030 CACCAGATACAGATAA-TCGTGGCAGAA-C
1 CACCAGAT-CAGATAATTTGTGGCA-AAGC
* * *
184776058 TACCAGAACAGAT-ATATGTGGCAAAGC
1 CACCAGATCAGATAATTTGTGGCAAAGC
*
184776085 CACCAGATCAGATAATTTGTGGCATAGC
1 CACCAGATCAGATAATTTGTGGCAAAGC
184776113 CACCAG
1 CACCAG
184776119 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
26 3 0.06
27 23 0.46
28 24 0.48
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (28 bp):
CACCAGATCAGATAATTTGTGGCAAAGC
Found at i:184776118 original size:55 final size:54
Alignment explanation
Indices: 184776006--184776118 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 54
184775996 AGCATGGCTG
* * * *
184776006 CCAGAACTGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACTA
1 CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * *
184776060 CCAGAACAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGATACAGATAA-TCGTGGCAGAACCA
184776115 CCAG
1 CCAG
184776119 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
54 18 0.37
55 31 0.63
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:184776263 original size:25 final size:25
Alignment explanation
Indices: 184776222--184776270 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
184776212 CAAAATTAAC
*
184776222 CCTAGGGGCATATTGGTCATTTACA
1 CCTAGGGGCATATTGGTAATTTACA
*
184776247 CCTAGGGGTATCA-TGGTAATTTAC
1 CCTAGGGGCAT-ATTGGTAATTTAC
184776271 CATACATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCATATTGGTAATTTACA
Found at i:184778673 original size:29 final size:29
Alignment explanation
Indices: 184778632--184778821 Score: 299
Period size: 29 Copynumber: 6.6 Consensus size: 29
184778622 CCTCCGAACT
** * * *
184778632 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
184778661 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
184778690 CTCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
184778719 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
184778748 CGCACACTTAGTGCCATATATTTCCAACA
1 CGCACACTTAGTGCCATATATTTCCAGCA
184778777 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
184778806 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
184778822 ATCTCGTCAC
Statistics
Matches: 148, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 148 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:184778696 original size:87 final size:87
Alignment explanation
Indices: 184778603--184778821 Score: 233
Period size: 87 Copynumber: 2.5 Consensus size: 87
184778593 AATTTAAGCT
** * * * * **
184778603 CGCACACACAGTGCCATA-CCCTCCGAACTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACA
1 CGCACACTTAGTGCCATATACCTCC-AACACGCACACCCAGTGCCATATATTTCCAGCACGCACA
*
184778667 CTTAGTGCCAAATATTTCCAGCA
65 CTTAGTGCCAAATATTTCCAACA
* ** * **
184778690 CTCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCATATACCTCCAACACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
*
184778755 TTAGTGCCATATATTTCCAACA
66 TTAGTGCCAAATATTTCCAACA
** * **
184778777 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATATACCTCCAACACGCACACCCAGTGCCA
184778822 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
87 111 0.97
88 3 0.03
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.26
Consensus pattern (87 bp):
CGCACACTTAGTGCCATATACCTCCAACACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCAAATATTTCCAACA
Found at i:184786554 original size:29 final size:29
Alignment explanation
Indices: 184786496--184786606 Score: 215
Period size: 29 Copynumber: 3.9 Consensus size: 29
184786486 GCTGCACAGC
184786496 TTTCCAGCACGCACAC-TAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
184786524 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
184786553 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
184786582 TTTCCAGCACGCACACTTAGTGCCA
1 TTTCCAGCACGCACACTTAGTGCCA
184786607 ATCTCGTCAC
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
28 16 0.20
29 66 0.80
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:184794159 original size:40 final size:40
Alignment explanation
Indices: 184794114--184794279 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
184794104 TCGGAATAAA
184794114 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
184794154 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
184794194 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * *
184794234 CCGGATATAATTTCCAGCA-TAATGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
184794272 CCGGATAT
1 CCGGATAT
184794280 CATTCAATTT
Statistics
Matches: 102, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
38 13 0.13
39 11 0.11
40 78 0.76
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184802165 original size:40 final size:40
Alignment explanation
Indices: 184802120--184802286 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
184802110 CGGAATACAA
184802120 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
184802160 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
184802200 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
184802240 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
184802279 CCGGATAT
1 CCGGATAT
184802287 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184810155 original size:40 final size:40
Alignment explanation
Indices: 184810110--184810276 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
184810100 CGGAATATAA
184810110 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
184810150 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
184810190 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
184810230 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
184810269 CCGGATAT
1 CCGGATAT
184810277 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184818106 original size:40 final size:40
Alignment explanation
Indices: 184818061--184818227 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
184818051 CGGAATATAA
184818061 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
184818101 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
184818141 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
184818181 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
184818220 CCGGATAT
1 CCGGATAT
184818228 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:184826056 original size:40 final size:39
Alignment explanation
Indices: 184826011--184826138 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 39
184826001 CGGAATATAA
184826011 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
184826051 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
* * * *
184826089 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
184826129 CCGGATATAA
1 CCGGATATAA
184826139 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
38 32 0.44
40 40 0.56
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:184826153 original size:40 final size:40
Alignment explanation
Indices: 184826027--184826175 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
184826017 ATAACCACGT
* *
184826027 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATCT-C-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* ** * *
184826065 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
184826105 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
184826145 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
184826176 CATTCAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
38 29 0.32
39 17 0.19
40 45 0.49
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:184832674 original size:29 final size:29
Alignment explanation
Indices: 184832641--184832743 Score: 179
Period size: 29 Copynumber: 3.6 Consensus size: 29
184832631 GTGACGAGAT
184832641 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
184832670 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
184832699 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
184832728 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
184832744 GGCTTAAATT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:184840973 original size:40 final size:40
Alignment explanation
Indices: 184840864--184841082 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
184840854 ACCCAAGTAT
* ** * *
184840864 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
184840902 CTTCGGGTCTTAGCCC-GATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
184840941 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
184840981 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
184841021 CTTC-GGATCTTAGTCCGAATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
184841061 ATTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
184841083 CATTCCAATA
Statistics
Matches: 148, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
38 23 0.16
39 24 0.16
40 97 0.66
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:184841074 original size:120 final size:117
Alignment explanation
Indices: 184840864--184841082 Score: 314
Period size: 120 Copynumber: 1.8 Consensus size: 117
184840854 ACCCAAGTAT
* * * *
184840864 CTTCGGGATTTAGCCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGATATGGTCAC
1 CTTCGGGATTTAGCCAGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGATATAGTCAC
* *
184840929 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 TAGCATAAAAGCATTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * *
184840981 CTTCGGG-TCTTAGCCCAGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGAATATAG
1 CTTCGGGAT-TTAG-CCAGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCG-ATATAG
184841045 TCACTAGCATAAAAGCATTCGGGACTTAGCCCGGATAT
62 TCACTAGCATAAAAGCATTCGGGACTTAGCCCGGATAT
184841083 CATTCCAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
116 1 0.01
117 11 0.12
118 17 0.19
119 19 0.21
120 41 0.46
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (117 bp):
CTTCGGGATTTAGCCAGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGATATAGTCAC
TAGCATAAAAGCATTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:184844726 original size:37 final size:36
Alignment explanation
Indices: 184844676--184844762 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
184844666 TACGAAGTCT
184844676 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
184844712 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
184844749 TCACCCGGAACATA
1 T-ACCCGG-ACATA
184844763 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Done.