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 603 of 770
Found at i:188669171 original size:119 final size:120
Alignment explanation
Indices: 188668963--188669186 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
188668953 GCTACTCGTT
*
188668963 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
188669028 ATTTAGTAACTCACACCAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
66 ATATAGTAACTCACACCAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
* * * **
188669082 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
188669144 CGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
63 CGGATATAGTAACTCA-CACCAAAGCCTTCGGGACTTAGCCCGG
188669187 ACATCATTCG
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 6 0.07
119 70 0.78
120 14 0.16
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCACACCAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
Found at i:188669187 original size:40 final size:40
Alignment explanation
Indices: 188668944--188669187 Score: 266
Period size: 40 Copynumber: 6.1 Consensus size: 40
188668934 TGGAATTTAA
** *
188668944 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
188668984 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
188669024 CCGGATTTAGTAACTCACACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
188669063 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
188669103 CCGGATTTAGTAACTCGCACAAATGCCTT-TGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
188669143 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
188669183 CCGGA
1 CCGGA
188669188 CATCATTCGA
Statistics
Matches: 176, Mismatches: 20, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.19
40 130 0.74
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:188672631 original size:124 final size:124
Alignment explanation
Indices: 188672409--188672633 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
188672399 GAATTATGTG
* * * ** * * *
188672409 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
188672474 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
188672533 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
188672598 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
188672634 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:188672755 original size:40 final size:40
Alignment explanation
Indices: 188672628--188672757 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
188672618 ATGCTGGAAA
* *
188672628 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
188672668 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
188672708 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
188672748 TTATATCCGG
1 TTATATCCGG
188672758 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:188672756 original size:80 final size:80
Alignment explanation
Indices: 188672590--188672757 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
188672580 CAATTGAATG
* * *
188672590 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
188672655 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
188672670 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
188672734 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
188672750 ATATCCGG
1 ATATCCGG
188672758 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:188680801 original size:40 final size:40
Alignment explanation
Indices: 188680674--188680803 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
188680664 ATGCTGGAAA
* *
188680674 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
188680714 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
188680754 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
188680794 TTATATCCGG
1 TTATATCCGG
188680804 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:188680802 original size:80 final size:79
Alignment explanation
Indices: 188680637--188680803 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
188680627 CAATTGAATG
* *
188680637 ATATCCGGGCTAAGTCCCGAAGACATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
188680702 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * ** *
188680716 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
188680780 -ATTCGTGC-ACGTGGTT
64 AATT-GTGCTA-GTGGCT
188680796 ATATCCGG
1 ATATCCGG
188680804 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 29 0.39
80 45 0.61
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:188687186 original size:28 final size:28
Alignment explanation
Indices: 188687121--188687221 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
188687111 ATAGTGAATC
*
188687121 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
188687150 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
188687178 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
188687208 CGCACACTTAGTGC
1 CGCACACTTAGTGC
188687222 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:188692136 original size:80 final size:80
Alignment explanation
Indices: 188692052--188692200 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
188692042 TATGGTAACC
* * * *
188692052 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
188692116 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
188692132 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
188692197 CCGG
66 CCGG
188692201 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:188692142 original size:40 final size:38
Alignment explanation
Indices: 188692093--188692200 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
188692083 ATCACGATTT
*
188692093 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
188692133 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
188692173 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
188692201 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:188699521 original size:40 final size:40
Alignment explanation
Indices: 188699436--188699586 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
188699426 AATTGAATGA
* * *
188699436 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
188699476 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
188699517 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
188699556 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
188699587 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:188699600 original size:40 final size:40
Alignment explanation
Indices: 188699472--188699602 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
188699462 TATGCTGGAA
* * *
188699472 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
188699512 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
188699552 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
188699592 ATTATATCCGG
1 ATTATATCCGG
188699603 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:188706418 original size:40 final size:40
Alignment explanation
Indices: 188706381--188706566 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
188706371 GCTACTCGTT
*
188706381 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
188706421 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
188706461 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
188706501 CAAATGCCCTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
188706542 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
188706567 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:188711565 original size:46 final size:46
Alignment explanation
Indices: 188711510--188711690 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
188711500 TAGGATGGTT
188711510 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
188711556 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
188711602 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
188711649 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
188711691 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:188711671 original size:93 final size:93
Alignment explanation
Indices: 188711512--188711682 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
188711502 GGATGGTTGA
* *
188711512 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
188711577 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
188711605 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
188711670 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
188711683 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:188714646 original size:15 final size:15
Alignment explanation
Indices: 188714607--188714685 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
188714597 GTATCTTGGG
*
188714607 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
188714622 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
188714637 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
188714651 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
188714666 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
188714680 TTTCTT
1 TTTCTT
188714686 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:188714670 original size:29 final size:29
Alignment explanation
Indices: 188714598--188714684 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
188714588 CATAGTATCG
* * * *
188714598 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
188714628 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
188714657 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
188714685 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:188717093 original size:46 final size:46
Alignment explanation
Indices: 188717038--188717218 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
188717028 TAGGATGGTT
188717038 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
188717084 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
188717130 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
188717177 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
188717219 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:188717199 original size:93 final size:93
Alignment explanation
Indices: 188717040--188717210 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
188717030 GGATGGTTGA
* *
188717040 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
188717105 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
188717133 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
188717198 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
188717211 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:188728766 original size:71 final size:71
Alignment explanation
Indices: 188728680--188728843 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188728670 CGATTTGTCT
188728680 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
188728745 CTTTCA
66 CTTTCA
188728751 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
188728816 CTTTCA
66 CTTTCA
188728822 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
188728844 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:188728881 original size:71 final size:70
Alignment explanation
Indices: 188728680--188728877 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
188728670 CGATTTGTCT
* * * *
188728680 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
188728745 CTTTCA
65 CTTTCA
* * * *
188728751 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
188728816 CTTTCA
65 CTTTCA
* *
188728822 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
188728878 TACAGGGTGT
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:188759833 original size:40 final size:39
Alignment explanation
Indices: 188759668--188759851 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
188759658 AAATTGAATG
* * *
188759668 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
188759708 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
188759748 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
188759788 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
188759827 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
188759852 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:188759876 original size:80 final size:81
Alignment explanation
Indices: 188759708--188759896 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
188759698 GCTGGAAATT
* * * *
188759708 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
188759773 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
188759789 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
188759852 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
188759868 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
188759897 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:188767951 original size:40 final size:39
Alignment explanation
Indices: 188767786--188767969 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
188767776 AAATTGAATG
* * *
188767786 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
188767826 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
188767866 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
188767906 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
188767945 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
188767970 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:188767994 original size:80 final size:81
Alignment explanation
Indices: 188767826--188768014 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
188767816 GCTGGAAATT
* * * *
188767826 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
188767891 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
188767907 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
188767970 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
188767986 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
188768015 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:188771044 original size:40 final size:40
Alignment explanation
Indices: 188770956--188771045 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
188770946 ATGCTGGAAA
*
188770956 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
* *
188770996 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGG
188771036 TTATATCCGG
1 TTATATCCGG
188771046 TAGTATTCCG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGG
Found at i:188772486 original size:29 final size:29
Alignment explanation
Indices: 188772461--188772539 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
188772451 TTCATATTTT
188772461 ACCATTTGGCTTCGGGTCATGCATATCGA
1 ACCATTTGGCTTCGGGTCATGCATATCGA
**
188772490 ATGATTTGGCTTCGGGTCATGCATATCGA
1 ACCATTTGGCTTCGGGTCATGCATATCGA
** *
188772519 ATGATTTGGCTTCGGGCCATG
1 ACCATTTGGCTTCGGGTCATG
188772540 ATAATAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (29 bp):
ACCATTTGGCTTCGGGTCATGCATATCGA
Found at i:188774986 original size:60 final size:60
Alignment explanation
Indices: 188774922--188775124 Score: 169
Period size: 60 Copynumber: 3.4 Consensus size: 60
188774912 ATAGCTTTGG
* *
188774922 CTATCAAATTATGAAAAGGGATGGTGACGACCATCAAAT-TATGTAAAGGGTTGACTTCAA
1 CTATCAAATTATGAAAAGGGATGGTGACGACCATC-AATCTATGAAAAGGGATGACTTCAA
** * ** * * *
188774982 CTATCGTACTATGAATTGGGATGGCT-TCGACTATCAATCTATGAAAAGGGATGGCTTCAA
1 CTATCAAATTATGAAAAGGGATGG-TGACGACCATCAATCTATGAAAAGGGATGACTTCAA
* ** * * * *
188775042 CTATCAAATTATAAAAAAAGATGGTGACGACCATTGAA-CAATGAAAAGGGATAACTTCAG
1 CTATCAAATTATGAAAAGGGATGGTGACGACCA-TCAATCTATGAAAAGGGATGACTTCAA
* * * *
188775102 TTATCGAATTATGGAAACGGATG
1 CTATCAAATTATGAAAAGGGATG
188775125 TATTATTATT
Statistics
Matches: 108, Mismatches: 31, Indels: 8
0.73 0.21 0.05
Matches are distributed among these distances:
59 4 0.04
60 100 0.93
61 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (60 bp):
CTATCAAATTATGAAAAGGGATGGTGACGACCATCAATCTATGAAAAGGGATGACTTCAA
Found at i:188775024 original size:30 final size:30
Alignment explanation
Indices: 188774902--188775048 Score: 104
Period size: 30 Copynumber: 4.9 Consensus size: 30
188774892 TCCTTGACAA
* ***
188774902 ATGAAAAGGGATAGCTTTGGCTATCAAAT-T
1 ATGAAAAGGGATGGCTTCAACTATC-AATCT
* * *
188774932 ATGAAAAGGGATGG-TGACGACCATCAAAT-T
1 ATGAAAAGGGATGGCT-TCAACTATC-AATCT
* * * *
188774962 ATGTAAAGGGTTGACTTCAACTATC-GTACT
1 ATGAAAAGGGATGGCTTCAACTATCAAT-CT
** *
188774992 ATGAATTGGGATGGCTTCGACTATCAATCT
1 ATGAAAAGGGATGGCTTCAACTATCAATCT
188775022 ATGAAAAGGGATGGCTTCAACTATCAA
1 ATGAAAAGGGATGGCTTCAACTATCAA
188775049 ATTATAAAAA
Statistics
Matches: 90, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
28 1 0.01
29 1 0.01
30 86 0.96
31 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCAACTATCAATCT
Found at i:188775065 original size:30 final size:30
Alignment explanation
Indices: 188775001--188775065 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
188774991 TATGAATTGG
* * **
188775001 GATGGCTTCGACTATCAATCTATGAAAAGG
1 GATGGCTTCAACTATCAATCTATAAAAAAA
188775031 GATGGCTTCAACTATCAAAT-TATAAAAAAA
1 GATGGCTTCAACTATC-AATCTATAAAAAAA
188775061 GATGG
1 GATGG
188775066 TGACGACCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (30 bp):
GATGGCTTCAACTATCAATCTATAAAAAAA
Found at i:188780103 original size:31 final size:30
Alignment explanation
Indices: 188780058--188780125 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
188780048 AAAATTTTGT
* * *
188780058 TATACACATGAAAC-TTGAATTTTGGTTCATA
1 TATATACAAGAAACTTTG-ATTTTGATTCA-A
188780089 TATATACAAGAAACTTTGATTTTGATTCAA
1 TATATACAAGAAACTTTGATTTTGATTCAA
188780119 T-TATACA
1 TATATACA
188780126 CATTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.18
30 2 0.06
31 22 0.67
32 3 0.09
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (30 bp):
TATATACAAGAAACTTTGATTTTGATTCAA
Found at i:188784292 original size:46 final size:46
Alignment explanation
Indices: 188784239--188784414 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
188784229 TATTTGGGCA
*
188784239 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
188784285 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
188784332 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
188784378 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
188784415 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:188784394 original size:93 final size:93
Alignment explanation
Indices: 188784235--188784406 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
188784225 AGGATATTTG
* * *
188784235 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
188784300 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
188784328 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
188784393 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
188784407 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:188787385 original size:15 final size:15
Alignment explanation
Indices: 188787365--188787433 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
188787355 GTATCTTGGG
188787365 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
188787380 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
188787395 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
188787410 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
188787425 TTTCTTTAT
1 TTTCTTTAT
188787434 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:188787434 original size:30 final size:30
Alignment explanation
Indices: 188787356--188787443 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
188787346 CATAGTATCG
* * * *
188787356 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
188787386 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
188787416 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
188787444 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:188789918 original size:47 final size:46
Alignment explanation
Indices: 188789799--188789972 Score: 189
Period size: 47 Copynumber: 3.8 Consensus size: 46
188789789 AGGATATTTG
*
188789799 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
188789846 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
188789892 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
188789939 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
188789973 TATGGGCGGG
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 4 0.04
45 32 0.29
46 33 0.30
47 34 0.31
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:188789966 original size:45 final size:45
Alignment explanation
Indices: 188789804--188789977 Score: 219
Period size: 45 Copynumber: 3.8 Consensus size: 45
188789794 ATTTGGGCAT
* *
188789804 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGC
* * *
188789850 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---GC
188789895 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
*
188789942 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
188789978 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 38 0.34
46 28 0.25
47 30 0.27
48 2 0.02
50 7 0.06
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
Found at i:188793598 original size:41 final size:40
Alignment explanation
Indices: 188793461--188793666 Score: 179
Period size: 41 Copynumber: 5.2 Consensus size: 40
188793451 CAATTGAATG
* * ** * **
188793461 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTATATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-CGTT
* * * *
188793502 ATATCCGGG-TTAGACCCGAAGGCA--AGTGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG-TT
* *
188793539 ACATCCGGGCTAAGACCCGAAGGCATTCGTTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCG-TGCAAGTCGTT
* * *
188793580 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
188793620 CTA-CCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
188793659 ATATCCGG
1 ATATCCGG
188793667 TTGTATTCCG
Statistics
Matches: 135, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
37 9 0.07
38 21 0.16
39 34 0.25
40 28 0.21
41 42 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:188793637 original size:39 final size:40
Alignment explanation
Indices: 188793541--188793666 Score: 164
Period size: 39 Copynumber: 3.1 Consensus size: 40
188793531 TAGTGACTAC
*
188793541 ATCCGGGCTAAGACCCGAAGGCATTCGTTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCG-TGCAAGTCGTTAA
* * **
188793582 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * *
188793622 A-CCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
188793661 ATCCGG
1 ATCCGG
188793667 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
39 34 0.46
40 15 0.20
41 25 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:188795076 original size:27 final size:27
Alignment explanation
Indices: 188795041--188795138 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 27
188795031 CACTGGACCG
* * *
188795041 ATTCACACACATAGTGCTCGGTTAAGA
1 ATTCGCACACACAGTGCTCGGTAAAGA
** **
188795068 ATTCGCACACACAGTG-TCCACTGACCG-
1 ATTCGCACACACAGTGCT-CGGT-AAAGA
*
188795095 ATCTCGCACACATAGTGCTCGGTAAAGA
1 AT-TCGCACACACAGTGCTCGGTAAAGA
*
188795123 ATTCGCGCACACAGTG
1 ATTCGCACACACAGTG
188795139 TCTCAATTCA
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
26 1 0.02
27 32 0.62
28 18 0.35
29 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (27 bp):
ATTCGCACACACAGTGCTCGGTAAAGA
Found at i:188795089 original size:55 final size:55
Alignment explanation
Indices: 188795018--188795140 Score: 187
Period size: 55 Copynumber: 2.2 Consensus size: 55
188795008 CGGGGTGTTA
*
188795018 CACACACAGT-TCCCACTGGACCGAT-TCACACACATAGTGCTCGGTTAAGAATTCG
1 CACACACAGTGT-CCACT-GACCGATCTCACACACATAGTGCTCGGTAAAGAATTCG
*
188795073 CACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTAAAGAATTCG
1 CACACACAGTGTCCACTGACCGATCTCACACACATAGTGCTCGGTAAAGAATTCG
*
188795128 CGCACACAGTGTC
1 CACACACAGTGTC
188795141 TCAATTCATT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
54 7 0.11
55 55 0.87
56 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (55 bp):
CACACACAGTGTCCACTGACCGATCTCACACACATAGTGCTCGGTAAAGAATTCG
Found at i:188795391 original size:40 final size:39
Alignment explanation
Indices: 188795347--188795640 Score: 461
Period size: 40 Copynumber: 7.5 Consensus size: 39
188795337 CACATCATCG
* * *
188795347 GCACGAATGCCCTTCAGGACTTAGCCCGAATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAG-CCGGATGTAACACCA
188795387 GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
* *
188795426 ACACAAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAG-CCGGATGTAACACCA
188795466 GCACGAATGCTCTTCGGGACTTAGCCGGA-GTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
188795504 GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
*
188795543 GCACGAATGCTTTTCGGGACTTAGCCCGGATGT---ACCA
1 GCACGAATGCTCTTCGGGACTTAG-CCGGATGTAACACCA
188795580 GCAGCGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
1 GCA-CGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
188795620 GCACGAATGCTTCTTCGGGAC
1 GCACGAATGC-TCTTCGGGAC
188795641 ATAACCCGGA
Statistics
Matches: 237, Mismatches: 9, Indels: 16
0.90 0.03 0.06
Matches are distributed among these distances:
37 15 0.06
38 58 0.24
39 80 0.34
40 84 0.35
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (39 bp):
GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCA
Found at i:188795559 original size:117 final size:115
Alignment explanation
Indices: 188795347--188795640 Score: 473
Period size: 117 Copynumber: 2.5 Consensus size: 115
188795337 CACATCATCG
* * *
188795347 GCACGAATGCCCTTCAGGACTTAGCCCGAATGTAACACCAGCACGAATGCTCTTCGGGACTTAGC
1 GCACGAATGCTCTTCGGGACTTAG-CCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAGC
188795412 CGGATGTAACACCAACACAAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
65 CGGATGTAACACCAACACAAATGCTCTTCGGGACTTAGCCCGGATGT---ACCA
188795466 GCACGAATGCTCTTCGGGACTTAGCCGGA-GTAACACCAGCACGAATGCTCTTCGGGACTTAGCC
1 GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAGCC
* * *
188795530 GGATGTAACACCAGCACGAATGCTTTTCGGGACTTAGCCCGGATGTACCA
66 GGATGTAACACCAACACAAATGCTCTTCGGGACTTAGCCCGGATGTACCA
188795580 GCAGCGAATGCTCTTCGGGACTTAGCCGGATGTAACACCAGCACGAATGCTTCTTCGGGAC
1 GCA-CGAATGCTCTTCGGGACTTAGCCGGATGTAACACCAGCACGAATGC-TCTTCGGGAC
188795641 ATAACCCGGA
Statistics
Matches: 166, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
114 7 0.04
115 26 0.16
116 19 0.11
117 88 0.53
118 4 0.02
119 22 0.13
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (115 bp):
GCACGAATGCTCTTCGGGACTTAGCCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAGCC
GGATGTAACACCAACACAAATGCTCTTCGGGACTTAGCCCGGATGTACCA
Found at i:188795568 original size:77 final size:79
Alignment explanation
Indices: 188795347--188795640 Score: 465
Period size: 77 Copynumber: 3.8 Consensus size: 79
188795337 CACATCATCG
* * *
188795347 GCACGAATGCCCTTCAGGACTTAGCCCGAATGTAACACCAGCACGAATGCTCTTCGGGACTTAGC
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAGC
188795412 CGGATGTAACACCA
66 CGGATGTAACACCA
* *
188795426 ACACAAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAGC
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAGC
188795491 CGGA-GTAACACCA
66 CGGATGTAACACCA
*
188795504 GCACGAATGCTCTTCGGGACTTAG-CCGGATGTAACACCAGCACGAATGCTTTTCGGGACTTAGC
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAG-
188795568 CCGGATGT---ACCA
65 CCGGATGTAACACCA
188795580 GCAGCGAATGCTCTTCGGGACTTAG-CCGGATGTAACACCAGCACGAATGCTTCTTCGGGAC
1 GCA-CGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGAATGC-TCTTCGGGAC
188795641 ATAACCCGGA
Statistics
Matches: 202, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
76 7 0.03
77 84 0.42
78 45 0.22
79 66 0.33
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (79 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCGGGACTTAGC
CGGATGTAACACCA
Found at i:188795794 original size:36 final size:37
Alignment explanation
Indices: 188795738--188795816 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
188795728 AGCCACCAGA
*
188795738 TCTTTACCCGGGCATAATCTCCACAT-TAGTCATCGGG
1 TCTTTACCCGGACATAATCTCCACATATAGTCATC-GG
* * *
188795775 TCTTTACCCGGACA-CATCTCTACTTATAGTCATCGG
1 TCTTTACCCGGACATAATCTCCACATATAGTCATCGG
188795811 TCTTTA
1 TCTTTA
188795817 AGCCCGGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (37 bp):
TCTTTACCCGGACATAATCTCCACATATAGTCATCGG
Found at i:188797829 original size:47 final size:47
Alignment explanation
Indices: 188797766--188798199 Score: 701
Period size: 47 Copynumber: 9.3 Consensus size: 47
188797756 CCCTTCGGGA
* *
188797766 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
188797813 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
188797860 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
188797907 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
188797954 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
188798001 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
188798048 CTTATCTCATATATACACTTTCACATTCATCACATTGG-CATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
188798094 CTTATCACATATATACACTTT-ACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
188798140 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
188798187 CTTATCACATATA
1 CTTATCACATATA
188798200 CATATCTTGT
Statistics
Matches: 355, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 15 0.04
46 53 0.15
47 287 0.81
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:188803629 original size:30 final size:30
Alignment explanation
Indices: 188803594--188803654 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
188803584 TCGTGATGCT
188803594 TACCTTGCATATGTATTGGATACAAAAGTG
1 TACCTTGCATATGTATTGGATACAAAAGTG
188803624 TACCTTGCATATGTATTGGATACAAAAGTG
1 TACCTTGCATATGTATTGGATACAAAAGTG
188803654 T
1 T
188803655 CTGAATCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (30 bp):
TACCTTGCATATGTATTGGATACAAAAGTG
Found at i:188807616 original size:40 final size:40
Alignment explanation
Indices: 188807569--188807768 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
188807559 CGGGCTTCAA
** *
188807569 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
188807609 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
188807649 CCGGATATAGTAACTTGCACAAATGCCTTCGGAACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
188807689 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
188807729 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
188807769 TCGGTTATCA
Statistics
Matches: 144, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:188815793 original size:39 final size:40
Alignment explanation
Indices: 188815643--188815844 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
188815633 CGGGCTTCAA
** *
188815643 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
188815683 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
188815723 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
188815763 CCGGA-ATTAGTAACT-GCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
188815802 CCGGA-ATTAGTCACTAGC-CAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
188815841 CCGG
1 CCGG
188815845 TTATCATCCG
Statistics
Matches: 150, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 64 0.43
40 86 0.57
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:188817797 original size:40 final size:40
Alignment explanation
Indices: 188817714--188817921 Score: 175
Period size: 40 Copynumber: 5.2 Consensus size: 40
188817704 CGGGATTTAA
* * * * * * *
188817714 CCGGATATAGCGACTCGCTCGATTGTCTTCAGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
188817754 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
188817794 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
188817834 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
188817874 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
188817914 CCGGATAT
1 CCGGATAT
188817922 CATTCCACTG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 136 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:188817852 original size:80 final size:80
Alignment explanation
Indices: 188817768--188817921 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
188817758 TTATAGTGAT
* * ** * *
188817768 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
188817833 CCCGGATATAACAAC
66 CCCGGATATAACAAC
* * * *
188817848 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
188817913 CCCGGATAT
66 CCCGGATAT
188817922 CATTCCACTG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
CCCGGATATAACAAC
Found at i:188819606 original size:71 final size:71
Alignment explanation
Indices: 188819518--188819681 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
188819508 GAGATGTATC
188819518 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188819583 AGGACA
66 AGGACA
*
188819589 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
188819654 CGGACA
66 AGGACA
188819660 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188819682 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188826661 original size:41 final size:41
Alignment explanation
Indices: 188826616--188826733 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
188826606 TGAAAGATAA
188826616 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
188826657 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188826687 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188826728 ATGTAG
1 ATGTAG
188826734 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:188826672 original size:71 final size:71
Alignment explanation
Indices: 188826584--188826747 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188826574 GAGATGTATC
188826584 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188826649 AGGACA
66 AGGACA
188826655 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188826720 AGGACA
66 AGGACA
188826726 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188826748 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188832470 original size:40 final size:40
Alignment explanation
Indices: 188832425--188832591 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
188832415 CGGAATATAA
* *
188832425 CCGGATATAACCA-TGTGCTCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
188832465 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
188832505 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
188832545 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
188832584 CCGGATAT
1 CCGGATAT
188832592 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 88 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:188843062 original size:43 final size:43
Alignment explanation
Indices: 188842980--188843084 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
188842970 TGTGATTACA
* ** *
188842980 TGTAAGACCATGTTTGGGACATCGGCATTGTATTGTGATTAT-G
1 TGTAAGACCATGTCTGGGACATCGGCACCGTATTATGATT-TCG
* *
188843023 TGTAAGACCATGTCTGGGACATTGGTACCGT-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACATCGGCACCGTAT-TATGATTTCG
* *
188843066 TATAAGACCTTGTCTGGGA
1 TGTAAGACCATGTCTGGGA
188843085 TAGTGGCATC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
42 2 0.04
43 50 0.96
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCACCGTATTATGATTTCG
Found at i:188846639 original size:41 final size:41
Alignment explanation
Indices: 188846589--188846687 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
188846579 CTATTATAAT
* *
188846589 CTCGAAAACTAAGTGCCTTTCATAGAGAAAGCTTTCTCAAC
1 CTCGCAAACTAAGTGCCTTTCATAGACAAAGCTTTCTCAAC
* * *
188846630 CTTGCAAACTAAGTGCGTTTTATAGACAAAGCTTTCTCAAC
1 CTCGCAAACTAAGTGCCTTTCATAGACAAAGCTTTCTCAAC
*
188846671 CTCGCACACTAAGTGCC
1 CTCGCAAACTAAGTGCC
188846688 ATATATAGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (41 bp):
CTCGCAAACTAAGTGCCTTTCATAGACAAAGCTTTCTCAAC
Found at i:188846703 original size:41 final size:41
Alignment explanation
Indices: 188846547--188846703 Score: 108
Period size: 41 Copynumber: 3.8 Consensus size: 41
188846537 TATTCGATAT
* * * *
188846547 CTCGCACACTAAGTGCCGA-AGCATAGCTGAAGCTATTAT-AAT
1 CTCGCAAACTAAGTGCC-ATA-TATAGCTGAAGCT-TTCTCAAC
* * *
188846589 CTCGAAAACTAAGTGCC-TTTCATAG-AGAAAGCTTTCTCAAC
1 CTCGCAAACTAAGTGCCATAT-ATAGCTG-AAGCTTTCTCAAC
* ** * *
188846630 CTTGCAAACTAAGTGCGTTTTATAGAC-AAAGCTTTCTCAAC
1 CTCGCAAACTAAGTGCCATATATAG-CTGAAGCTTTCTCAAC
*
188846671 CTCGCACACTAAGTGCCATATATAGCTGAAGCT
1 CTCGCAAACTAAGTGCCATATATAGCTGAAGCT
188846704 ATTGCAATTC
Statistics
Matches: 90, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
40 5 0.06
41 67 0.74
42 18 0.20
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (41 bp):
CTCGCAAACTAAGTGCCATATATAGCTGAAGCTTTCTCAAC
Found at i:188850392 original size:33 final size:33
Alignment explanation
Indices: 188850355--188850458 Score: 136
Period size: 33 Copynumber: 3.2 Consensus size: 33
188850345 CCCACAATGC
* *
188850355 TACTGTATAGGGCTAAGGCCCAGACTGTACTGT
1 TACTGAATAGGGCTATGGCCCAGACTGTACTGT
* * * *
188850388 TACTGAATATGGCTGTGGACCAGACTGTACTAT
1 TACTGAATAGGGCTATGGCCCAGACTGTACTGT
* *
188850421 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGAATAGGGCTATGGCCCAGACTGTACTGT
188850454 TACTG
1 TACTG
188850459 TGTTGGTTAC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (33 bp):
TACTGAATAGGGCTATGGCCCAGACTGTACTGT
Found at i:188851800 original size:7 final size:7
Alignment explanation
Indices: 188851788--188851812 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
188851778 GTTGTCTTCT
188851788 TGTTTGA
1 TGTTTGA
188851795 TGTTTGA
1 TGTTTGA
188851802 TGTTTGA
1 TGTTTGA
188851809 TGTT
1 TGTT
188851813 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:188852741 original size:27 final size:28
Alignment explanation
Indices: 188852685--188852754 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
188852675 AAATTTGTAC
188852685 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
188852713 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
188852740 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
188852755 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:188855201 original size:39 final size:39
Alignment explanation
Indices: 188855147--188855299 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
188855137 GAATGTTCGA
*
188855147 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
188855186 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
188855225 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
188855264 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
188855300 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:188855315 original size:40 final size:39
Alignment explanation
Indices: 188855148--188855329 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
188855138 AATGTTCGAG
* *
188855148 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
188855187 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
188855226 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
188855265 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
188855305 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
188855330 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:188863277 original size:39 final size:39
Alignment explanation
Indices: 188863223--188863375 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
188863213 GAATGTTCGA
*
188863223 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
188863262 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
188863301 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
188863340 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
188863376 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:188863391 original size:40 final size:39
Alignment explanation
Indices: 188863224--188863405 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
188863214 AATGTTCGAG
* *
188863224 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
188863263 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
188863302 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
188863341 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
188863381 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
188863406 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:188870206 original size:76 final size:80
Alignment explanation
Indices: 188870112--188870287 Score: 229
Period size: 76 Copynumber: 2.2 Consensus size: 80
188870102 GGACTAAGAT
* * * *
188870112 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-CCCGAAGGC-TTTGTGC-AGTTACTA
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
188870174 -AATCC-GGGTTAAG-C
66 TAA-CCGGGGTT-AGTC
*
188870188 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
*
188870253 TAACCGGGGTTTGTC
66 TAACCGGGGTTAGTC
*
188870268 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
188870288 CGTTATATCC
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
76 34 0.39
77 9 0.10
78 6 0.07
79 11 0.13
80 27 0.31
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
TAACCGGGGTTAGTC
Found at i:188870220 original size:39 final size:40
Alignment explanation
Indices: 188870112--188870287 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
188870102 GGACTAAGAT
* * * *
188870112 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
*
188870151 CCGAAGGC-TTTGTGC-AGTTACTAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
188870188 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
* * *
188870228 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCCGGGTTAAGTC
*
188870268 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTTGTGCGAGT
188870288 CGTTATATCC
Statistics
Matches: 125, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
37 29 0.23
38 13 0.10
39 28 0.22
40 46 0.37
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:188883179 original size:27 final size:28
Alignment explanation
Indices: 188883123--188883190 Score: 129
Period size: 27 Copynumber: 2.5 Consensus size: 28
188883113 AAATTTGTAC
188883123 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
188883151 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
188883178 AGCACTAAGTGTG
1 AGCACTAAGTGTG
188883191 GGACTCACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:188895344 original size:17 final size:17
Alignment explanation
Indices: 188895309--188895343 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
188895299 TTTCTCTCTA
*
188895309 TTCTTTTTGATTTCTTT
1 TTCTTTTTCATTTCTTT
188895326 TTCTTTTTCA-TTCTTT
1 TTCTTTTTCATTTCTTT
188895342 TT
1 TT
188895344 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.77
Consensus pattern (17 bp):
TTCTTTTTCATTTCTTT
Found at i:188897795 original size:29 final size:29
Alignment explanation
Indices: 188897762--188897892 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
188897752 CCTTCGAGCT
** * *
188897762 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
188897791 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
188897820 CGCACACTTAGTGCCATATA-TTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
188897848 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
188897877 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
188897893 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 28 0.30
29 65 0.70
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:188897858 original size:57 final size:57
Alignment explanation
Indices: 188897733--188897892 Score: 203
Period size: 57 Copynumber: 2.8 Consensus size: 57
188897723 AATTTAAGCC
* *** * * ** * *
188897733 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATA-TATTCCAGCA
* *
188897791 TGCACACTTAGTGTCATATATTTCCAGCACGCACACTTAGTGCCATATATTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTCCAGCA
188897848 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
188897893 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
57 52 0.59
58 36 0.41
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (57 bp):
CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTCCAGCA
Found at i:188902666 original size:41 final size:41
Alignment explanation
Indices: 188902621--188902738 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
188902611 TGAAAGATAA
188902621 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
188902662 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188902692 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188902733 ATGTAG
1 ATGTAG
188902739 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:188902677 original size:71 final size:71
Alignment explanation
Indices: 188902589--188902752 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188902579 GAGATGTATC
188902589 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188902654 AGGACA
66 AGGACA
188902660 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188902725 AGGACA
66 AGGACA
188902731 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188902753 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188910242 original size:41 final size:41
Alignment explanation
Indices: 188910197--188910314 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
188910187 TGAAAGATAA
188910197 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
188910238 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188910268 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188910309 ATGTAG
1 ATGTAG
188910315 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:188910253 original size:71 final size:71
Alignment explanation
Indices: 188910165--188910328 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188910155 GAGATGTATC
188910165 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188910230 AGGACA
66 AGGACA
188910236 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188910301 AGGACA
66 AGGACA
188910307 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188910329 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188917806 original size:41 final size:41
Alignment explanation
Indices: 188917761--188917878 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
188917751 TGAAAGATAA
188917761 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
188917802 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188917832 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188917873 ATGTAG
1 ATGTAG
188917879 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:188917817 original size:71 final size:71
Alignment explanation
Indices: 188917729--188917892 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188917719 GAGATGTATC
188917729 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188917794 AGGACA
66 AGGACA
188917800 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188917865 AGGACA
66 AGGACA
188917871 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188917893 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188925386 original size:41 final size:41
Alignment explanation
Indices: 188925341--188925458 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
188925331 TGAAAGATAA
188925341 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
188925382 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188925412 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188925453 ATGTAG
1 ATGTAG
188925459 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:188925397 original size:71 final size:71
Alignment explanation
Indices: 188925309--188925472 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188925299 GAGATGTATC
188925309 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188925374 AGGACA
66 AGGACA
188925380 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188925445 AGGACA
66 AGGACA
188925451 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188925473 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188932965 original size:41 final size:41
Alignment explanation
Indices: 188932920--188933037 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
188932910 TGAAAGATAA
188932920 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
188932961 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188932991 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188933032 ATGTAG
1 ATGTAG
188933038 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:188932976 original size:71 final size:71
Alignment explanation
Indices: 188932888--188933051 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188932878 GAGATGTATC
188932888 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188932953 AGGACA
66 AGGACA
188932959 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188933024 AGGACA
66 AGGACA
188933030 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188933052 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188942714 original size:40 final size:40
Alignment explanation
Indices: 188942655--188942862 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
188942645 CAATTGAATG
* * * *
188942655 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
188942695 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
188942735 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
188942775 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
188942815 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
188942855 ATATCCGG
1 ATATCCGG
188942863 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:188942793 original size:80 final size:80
Alignment explanation
Indices: 188942657--188942862 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
188942647 ATTGAATGAT
* * ** * * *
188942657 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
188942721 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
188942737 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
188942802 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
188942817 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
188942863 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:188944843 original size:6 final size:6
Alignment explanation
Indices: 188944825--188944951 Score: 100
Period size: 6 Copynumber: 20.7 Consensus size: 6
188944815 AAGAAACATT
*
188944825 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAAA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
188944872 GTGACAGA ATCAGA ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
188944923 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCA
188944952 AAAAGTGAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
5 6 0.06
6 78 0.80
7 10 0.10
8 3 0.03
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:188944883 original size:31 final size:31
Alignment explanation
Indices: 188944845--188944954 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
188944835 GAATCAGAAT
* ** *
188944845 CAGAATCAGAATCAGAATCAAAATCAGGTGA
1 CAGAATCAGAATCAAAATCAGTATCAGGTAA
188944876 CAGAATCAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGTATCAGGTAA
188944907 CAGAATCAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGTATCAGGTAA
*
188944938 CAGAATCAAAATCAAAA
1 CAGAATCAGAATCAAAA
188944955 AGTGAATGCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAAAATCAGTATCAGGTAA
Found at i:188944910 original size:25 final size:24
Alignment explanation
Indices: 188944824--188944951 Score: 109
Period size: 25 Copynumber: 5.0 Consensus size: 24
188944814 TAAGAAACAT
*
188944824 TATCAGAA-CTAGAATCAGAATCAG
1 TATCAGAATC-AGAATCAAAATCAG
*
188944848 AATCAGAATCAGAATCAAAATCAGG
1 TATCAGAATCAGAATCAAAATCA-G
188944873 TGA-CAGAATCAGAATCAAAATCAG
1 T-ATCAGAATCAGAATCAAAATCAG
188944897 TATCAGGTAACAGAATCAGAATCAAAATCAG
1 --T-A--T--CAGAATCAGAATCAAAATCAG
188944928 TATCAGGTAA-CAGAATCAAAATCA
1 TATCA-G-AATCAGAATCAAAATCA
188944952 AAAAGTGAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 23
0.77 0.03 0.20
Matches are distributed among these distances:
24 22 0.25
25 37 0.42
26 6 0.07
28 1 0.01
29 1 0.01
31 21 0.24
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (24 bp):
TATCAGAATCAGAATCAAAATCAG
Found at i:188945125 original size:28 final size:26
Alignment explanation
Indices: 188945070--188945151 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 26
188945060 AGCATTGCTG
* * *
188945070 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
188945096 CCAGATACAGATATTTGTGGCATAGCCA
1 CCAGA-ACAGATA-TTGTGGCAAAGCCA
*
188945124 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAAAGCCA
188945151 C
1 C
188945152 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.10
27 21 0.44
28 22 0.46
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:188945357 original size:22 final size:22
Alignment explanation
Indices: 188945309--188945367 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
188945299 GTAAATACGT
*
188945309 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
188945331 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
188945353 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
188945368 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:188945494 original size:27 final size:26
Alignment explanation
Indices: 188945455--188945536 Score: 119
Period size: 27 Copynumber: 3.1 Consensus size: 26
188945445 TCGATCGGTC
* *
188945455 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
188945481 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
188945508 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
188945535 AA
1 AA
188945537 TGCTTCCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:188945766 original size:27 final size:27
Alignment explanation
Indices: 188945736--188945923 Score: 232
Period size: 27 Copynumber: 7.0 Consensus size: 27
188945726 GGGGCAAAAT
* * * *
188945736 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
188945763 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
188945790 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
188945817 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
188945844 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
188945871 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
188945898 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
188945924 TACTAATTTC
Statistics
Matches: 138, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:188945802 original size:54 final size:54
Alignment explanation
Indices: 188945736--188945923 Score: 268
Period size: 54 Copynumber: 3.5 Consensus size: 54
188945726 GGGGCAAAAT
* * * *
188945736 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * **
188945790 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* **
188945844 GGTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
*
188945898 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
188945924 TACTAATTTC
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
Found at i:188945880 original size:81 final size:81
Alignment explanation
Indices: 188945755--188945923 Score: 257
Period size: 81 Copynumber: 2.1 Consensus size: 81
188945745 ACCCCACAAA
* * * *
188945755 GGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
*
188945820 AATTCTACCCTACGGG
66 AATTCTACCCTACAGG
* * * *
188945836 GGTATTTCGGTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
188945901 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
188945917 GGTATTT
1 GGTATTT
188945924 TACTAATTTC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:188945974 original size:27 final size:27
Alignment explanation
Indices: 188945943--188946297 Score: 411
Period size: 27 Copynumber: 13.1 Consensus size: 27
188945933 CACAATTGAA
188945943 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
188945970 GGTAAAAC-GATAATTTTGTAAACCGAG
1 GGTAAAACAG-TAATTCTGTAAATCGAG
* *
188945997 GGTAAACCAGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
188946024 GGTAAAACAGTAATT-T-TACAAGTCGAG
1 GGTAAAACAGTAATTCTGTA-AA-TCGAG
188946051 GGTAAAACAGTAATTCTGTAAA-CTGAG
1 GGTAAAACAGTAATTCTGTAAATC-GAG
188946078 GGTAAAAC-GATAATTCTGTAAATCGAG
1 GGTAAAACAG-TAATTCTGTAAATCGAG
**
188946105 GGTAAAATGGTAATTCTGTAAA-CTGAG
1 GGTAAAACAGTAATTCTGTAAATC-GAG
* *
188946132 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* ** * *
188946159 GGTAAAACAGTAATTTTACAAATTGAA
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
188946186 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
*
188946213 GGTAAAATAGTAATTCTGTAAA-CTGAG
1 GGTAAAACAGTAATTCTGTAAATC-GAG
**
188946240 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
*
188946267 GGTAAAA-AGGTAATTCTGTAAATCAAG
1 GGTAAAACA-GTAATTCTGTAAATCGAG
188946294 GGTA
1 GGTA
188946298 CTTTGGTAAT
Statistics
Matches: 287, Mismatches: 26, Indels: 30
0.84 0.08 0.09
Matches are distributed among these distances:
25 2 0.01
26 8 0.03
27 267 0.93
28 8 0.03
29 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
GGTAAAACAGTAATTCTGTAAATCGAG
Found at i:188946082 original size:108 final size:105
Alignment explanation
Indices: 188945943--188946289 Score: 455
Period size: 108 Copynumber: 3.2 Consensus size: 105
188945933 CACAATTGAA
* * **
188945943 GGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACCGAGGGTAAACCAGT
1 GGTAAAACAGTAATTCTGTAAAT-GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGT
* *
188946008 AATTCTATAAA-TCGAGGGTAAAACAGTAATTTTACAAGTCGAG
65 AATTCTGTAAACT-GAGGGTAAAACGGTAATTTTA-AA-TCGAG
*
188946051 GGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGT
1 GGTAAAACAGTAATTCTGTAAA-TGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGT
188946116 AATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAG
65 AATTCTGTAAACTGAGGGTAAAACGGTAATT-T-TAAATCGAG
* ** * * *
188946159 GGTAAAACAGTAATTTTACAAATTGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGT
1 GGTAAAACAGTAATTCTGTAAA-TGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGT
*
188946224 AATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAG
65 AATTCTGTAAACTGAGGGTAAAACGGTAATT-T-TAAATCGAG
188946267 GGTAAAA-AGGTAATTCTGTAAAT
1 GGTAAAACA-GTAATTCTGTAAAT
188946290 CAAGGGTACT
Statistics
Matches: 214, Mismatches: 20, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
107 2 0.01
108 205 0.96
109 5 0.02
110 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (105 bp):
GGTAAAACAGTAATTCTGTAAATGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTA
ATTCTGTAAACTGAGGGTAAAACGGTAATTTTAAATCGAG
Found at i:188946322 original size:27 final size:27
Alignment explanation
Indices: 188946293--188946549 Score: 261
Period size: 27 Copynumber: 9.6 Consensus size: 27
188946283 TGTAAATCAA
* **
188946293 GGGTACTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
** **
188946319 AGGGTATTTTAATAATTTTACAAGTC-G
1 -GGGTATTTTGGTAATTTTACAAACCAG
** * *
188946346 AGGGTATTTCAGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
*
188946374 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
188946401 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
188946428 GGGTACTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
188946455 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
188946482 GTGTATTTTAGTAATTTTACAAACCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
188946508 -GGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
188946534 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
188946550 GGTAAACTAA
Statistics
Matches: 198, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
25 21 0.11
27 176 0.89
28 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:188947568 original size:33 final size:33
Alignment explanation
Indices: 188947526--188947619 Score: 188
Period size: 33 Copynumber: 2.8 Consensus size: 33
188947516 TTGAACTTGA
188947526 ATAGAATTACTAGTATTAACATGGATGATATGG
1 ATAGAATTACTAGTATTAACATGGATGATATGG
188947559 ATAGAATTACTAGTATTAACATGGATGATATGG
1 ATAGAATTACTAGTATTAACATGGATGATATGG
188947592 ATAGAATTACTAGTATTAACATGGATGA
1 ATAGAATTACTAGTATTAACATGGATGA
188947620 AACAAAATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (33 bp):
ATAGAATTACTAGTATTAACATGGATGATATGG
Found at i:188948244 original size:17 final size:17
Alignment explanation
Indices: 188948199--188948244 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
188948189 ATTATAGTAT
* *
188948199 TTTATTAATTATAAATA
1 TTTATTAATAATAAAAA
*
188948216 TTT-TTAAAAATAAAAA
1 TTTATTAATAATAAAAA
188948232 TTTATTAATAATA
1 TTTATTAATAATA
188948245 TAATAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTAATAATAAAAA
Found at i:188951282 original size:14 final size:15
Alignment explanation
Indices: 188951263--188951291 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
188951253 ATTTAGATAA
188951263 ATTGTGAAC-TTTAG
1 ATTGTGAACATTTAG
188951277 ATTGTGAACATTTAG
1 ATTGTGAACATTTAG
188951292 GAGGATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (15 bp):
ATTGTGAACATTTAG
Found at i:188956970 original size:46 final size:43
Alignment explanation
Indices: 188956896--188957145 Score: 232
Period size: 46 Copynumber: 5.5 Consensus size: 43
188956886 GTCTATGCTG
* * *
188956896 TGTCCCAGACAGGTCTTATACT-GACACATGTAACTGTGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT--C-GTGCCGATGCA
* *
188956942 TGTCCCAGACATGTCTTATACTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGT-GCCGATGCA
* * * *
188956986 TATCCCAGACATGTCTTACACTAGCACATCTCATAGTCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGT-GCCGATGCA
* * * *
188957030 TGTCCCAGACATGTCTGACATTGGCTAGCATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-A-CATCTCG-TGCCGATGCA
* *
188957076 TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCA--CATCTC-GTGCCGATG-CA
188957123 TGTCCCAGACATAGTCTTACACT
1 TGTCCCAGACAT-GTCTTACACT
188957146 GGCTCTCATT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.01
44 70 0.40
45 2 0.01
46 74 0.43
47 15 0.09
48 10 0.06
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTGCCGATGCA
Found at i:188956996 original size:44 final size:44
Alignment explanation
Indices: 188956933--188957145 Score: 234
Period size: 44 Copynumber: 4.7 Consensus size: 44
188956923 ATGTAACTGT
* *
188956933 GCCGATGCATGTCCCAGACATGTCTTATACTAGCACATCTCGTA
1 GCCGACGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTA
* *
188956977 GCCGACGCATATCCCAGACATGTCTTACACTAGCACATCTCATA
1 GCCGACGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTA
* * * *
188957021 GTCGACGCATGTCCCAGACATGTCTGACATTGGCTAGCATCTCG-A
1 GCCGACGCATGTCCCAGACATGTCTTACACTAGC-A-CATCTCGTA
*
188957066 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTC-TCAA
1 -GCCGACGCATGTCCCAGACATGTCTTACACTAGCACATC-TCGT--A
*
188957112 TGCCGATGCCATGTCCCAGACATAGTCTTACACT
1 -GCCGACG-CATGTCCCAGACAT-GTCTTACACT
188957146 GGCTCTCATT
Statistics
Matches: 144, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
43 2 0.01
44 72 0.50
45 3 0.02
46 43 0.30
47 14 0.10
48 10 0.07
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (44 bp):
GCCGACGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTA
Found at i:188957184 original size:93 final size:90
Alignment explanation
Indices: 188956933--188957149 Score: 253
Period size: 90 Copynumber: 2.4 Consensus size: 90
188956923 ATGTAACTGT
* * * * * *
188956933 GCCGATGCATGTCCCAGACATGTCTTATACTAGC-A-CATCTCGTA-GCCGACGCATATCCCAGA
1 GCCGACGCATGTCCCAGACATGTCTGACACTGGCTAGCATCTCG-AGGCCGATGCATGTCCCAGA
188956995 CATGTCTTACACTAGCACATCTCATA
65 CATGTCTTACACTAGCACATCTCATA
* *
188957021 GTCGACGCATGTCCCAGACATGTCTGACATTGGCTAGCATCTCGAGGCCGATGCATGTCCCAGAC
1 GCCGACGCATGTCCCAGACATGTCTGACACTGGCTAGCATCTCGAGGCCGATGCATGTCCCAGAC
*
188957086 ATGTCTTACACTAGCACTCGTCTCA-A
66 ATGTCTTACACTAGCA--CATCTCATA
* *
188957112 TGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCT
1 -GCCGACG-CATGTCCCAGACAT-GTCTGACACTGGCT
188957150 CTCATTATGT
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
88 28 0.26
89 2 0.02
90 40 0.37
91 1 0.01
92 11 0.10
93 14 0.13
94 12 0.11
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (90 bp):
GCCGACGCATGTCCCAGACATGTCTGACACTGGCTAGCATCTCGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACATCTCATA
Found at i:188959351 original size:21 final size:21
Alignment explanation
Indices: 188959327--188959367 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
188959317 TATAAATCAT
*
188959327 AATTCATAATCATTTTTTTAC
1 AATTCATAATAATTTTTTTAC
*
188959348 AATTTATAATAATTTTTTTA
1 AATTCATAATAATTTTTTTA
188959368 AATCAGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTCATAATAATTTTTTTAC
Found at i:188974400 original size:39 final size:37
Alignment explanation
Indices: 188974351--188974460 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 37
188974341 TATCACGATT
*
188974351 TGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAAC-AC
*
188974390 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAC
*
188974428 TAGCACAATTGCCTTCGGGTCTTAACCCGGATA
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
188974461 ATTTCCAGCA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
38 5 0.08
39 60 0.92
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (37 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAC
Found at i:188982479 original size:39 final size:38
Alignment explanation
Indices: 188982430--188982543 Score: 147
Period size: 39 Copynumber: 2.9 Consensus size: 38
188982420 TATCACGATT
*
188982430 TGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
188982469 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
188982508 TAGCACAATTGCCTTCGGGTCTTAACCCGGTTATAA
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
188982544 TTTCCAGCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.58
40 28 0.42
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (38 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:188982537 original size:40 final size:40
Alignment explanation
Indices: 188982399--188982581 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
188982389 CCGCACCAAG
* * * * * * * *
188982399 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
188982439 GCCTTCGGGTCTTAGCCCGGATTTAACAACT-GCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
188982478 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * * * *
188982518 GCCTTCGGGTCTTAACCCGGTTATAATTTCCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
188982558 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
188982582 CATTCAATTT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.29
40 84 0.71
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:188984611 original size:27 final size:27
Alignment explanation
Indices: 188984557--188984667 Score: 163
Period size: 27 Copynumber: 4.1 Consensus size: 27
188984547 AGCATGGCTG
* *
188984557 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
188984583 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
188984610 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
188984637 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
188984664 CCAG
1 CCAG
188984668 GATGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 15 0.19
27 61 0.78
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:188988492 original size:6 final size:6
Alignment explanation
Indices: 188988483--188988530 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
188988473 AGTATAGTTG
* * * *
188988483 ATATAT ATATAT ATATAT ATATAG ATATAG ATATAT AGATAT ACATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
188988531 TCGGCCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (6 bp):
ATATAT
Found at i:188988496 original size:8 final size:8
Alignment explanation
Indices: 188988483--188988530 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
188988473 AGTATAGTTG
188988483 ATATATAT
1 ATATATAT
188988491 ATATATAT
1 ATATATAT
*
188988499 ATATATAG
1 ATATATAT
*
188988507 ATATAGAT
1 ATATATAT
*
188988515 ATATAGAT
1 ATATATAT
*
188988523 ATACATAT
1 ATATATAT
188988531 TCGGCCATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (8 bp):
ATATATAT
Found at i:188988502 original size:14 final size:14
Alignment explanation
Indices: 188988483--188988530 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
188988473 AGTATAGTTG
*
188988483 ATATATATATATAT
1 ATATATATAGATAT
188988497 ATATATATAGATAT
1 ATATATATAGATAT
*
188988511 AGATATATAGATAT
1 ATATATATAGATAT
*
188988525 ACATAT
1 ATATAT
188988531 TCGGCCATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATATATAGATAT
Found at i:188989205 original size:29 final size:29
Alignment explanation
Indices: 188989170--188989243 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
188989160 GTTGTGAGAT
* *
188989170 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
188989199 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
188989228 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
188989244 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:188993343 original size:29 final size:29
Alignment explanation
Indices: 188993301--188993460 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
188993291 GTGACGAGAT
188993301 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
188993330 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
188993359 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
188993388 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
188993417 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
188993446 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
188993461 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:188995969 original size:27 final size:26
Alignment explanation
Indices: 188995915--188995998 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
188995905 AGCATGGCTG
* *
188995915 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
188995941 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
188995968 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
188995995 CCAG
1 CCAG
188995999 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 13 0.25
27 39 0.75
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:188996408 original size:16 final size:15
Alignment explanation
Indices: 188996387--188996416 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
188996377 AAAATACTGA
188996387 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
188996403 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
188996417 CCGATCTAGT
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:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:188999255 original size:39 final size:39
Alignment explanation
Indices: 188999174--188999336 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
188999164 TATGGTAACC
* *
188999174 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
188999214 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
188999253 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
188999292 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
188999331 CGCACA
1 CGCACA
188999337 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:189007168 original size:39 final size:39
Alignment explanation
Indices: 189007087--189007249 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
189007077 TATGGTAACC
* *
189007087 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
189007127 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
189007166 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
189007205 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
189007244 CGCACA
1 CGCACA
189007250 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:189013383 original size:30 final size:29
Alignment explanation
Indices: 189013328--189013458 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
189013318 ATAGTGAATC
189013328 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
189013357 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
189013387 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
189013416 CGCACACTT-GTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
189013444 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
189013459 GTACAATTTT
Statistics
Matches: 99, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
28 27 0.27
29 43 0.43
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:189013420 original size:59 final size:57
Alignment explanation
Indices: 189013328--189013458 Score: 235
Period size: 59 Copynumber: 2.3 Consensus size: 57
189013318 ATAGTGAATC
189013328 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTT-GTGCTATAT-ATTTTCAGCT
*
189013387 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTGTGCTATATATTTTCAGCT
189013444 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
189013459 GTACAATTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
57 24 0.34
58 9 0.13
59 38 0.54
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTGTGCTATATATTTTCAGCT
Found at i:189013565 original size:67 final size:71
Alignment explanation
Indices: 189013444--189013600 Score: 250
Period size: 67 Copynumber: 2.2 Consensus size: 71
189013434 ATTTTCAGTT
*
189013444 CGCACACTTAGTGCTGTACAATTTTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 CGCACACTTAGTGCCG-ACAATTTTT-AACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
189013509 TTTATACA
64 TTTATACA
189013517 CGCACACTTAGTGCCGACAA-TTTT-ACCCGCAC-CTTAGTG-CAATCTTGTCACCGTGTCCATT
1 CGCACACTTAGTGCCGACAATTTTTAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCATT
*
189013578 TATACC
66 TATACA
189013584 CGCACACTTAGTGCCGA
1 CGCACACTTAGTGCCGA
189013601 GACCAATACT
Statistics
Matches: 82, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
67 44 0.54
68 7 0.09
69 8 0.10
71 4 0.05
72 4 0.05
73 15 0.18
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (71 bp):
CGCACACTTAGTGCCGACAATTTTTAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCATT
TATACA
Found at i:189014842 original size:19 final size:18
Alignment explanation
Indices: 189014818--189014853 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
189014808 TCCCCTTTTT
*
189014818 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
189014837 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
189014854 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:189017961 original size:40 final size:40
Alignment explanation
Indices: 189017888--189018070 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
189017878 CCGCACCAAG
* * * * *
189017888 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
189017927 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
189017967 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
189018007 GCCTTCGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-T
* *
189018047 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
189018071 CATTCAATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 13 0.11
40 99 0.84
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Done.