Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005466.1 Hibiscus syriacus cultivar Beakdansim tig00012523_pilon, whole genome shotgun sequence
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: 1151987
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 1 of 4
Found at i:719 original size:129 final size:129
Alignment explanation
Indices: 577--810 Score: 441
Period size: 129 Copynumber: 1.8 Consensus size: 129
567 CTTTGACTCT
577 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
1 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
642 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAGTAATTTGGCTTGGTGTTATAATCA
66 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAGTAATTTGGCTTGGTGTTATAATCA
* *
706 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGTCTTTTCTGTCTCTTCTGG
1 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
*
771 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTTATAG
66 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAG
811 GAGTTATACT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 102 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (129 bp):
GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAGTAATTTGGCTTGGTGTTATAATCA
Found at i:832 original size:129 final size:129
Alignment explanation
Indices: 577--843 Score: 419
Period size: 129 Copynumber: 2.1 Consensus size: 129
567 CTTTGACTCT
577 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
1 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
* * * **
642 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAGTAATTTGGCTTGGTGTTATAATCA
66 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAGGAATTTGACTTAGTGCCATAATCA
* *
706 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGTCTTTTCTGTCTCTTCTGG
1 GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
* *
771 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTTATAGGAGTTAT-ACTTAGTGCCATAATCA
66 CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAGGAATT-TGACTTAGTGCCATAATCA
**
835 CTCTTTTCT
1 GGCTTTTCT
844 TCCTGTTTTA
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 125 0.99
130 1 0.01
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.45
Consensus pattern (129 bp):
GGCTTTTCTGGTTGTGGTTGATAGACTGGTTTTGTGCTATAACCAGACTTTTCTCTCTCTTCTGG
CATTGGCTTCTCTTTCTCTTGATCTGGCTGTGGTTCATAGGAATTTGACTTAGTGCCATAATCA
Found at i:2706 original size:22 final size:23
Alignment explanation
Indices: 2678--2738 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
2668 TTTATTATAA
2678 TATTAAAAATATAATAT-AATAT
1 TATTAAAAATATAATATAAATAT
* *
2700 TATTAAAAAATATATTTTAAATAT
1 TATT-AAAAATATAATATAAATAT
*
2724 T-TTAATAAT-TAATAT
1 TATTAAAAATATAATAT
2739 TTTGATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.12
22 9 0.28
23 13 0.41
24 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTAAAAATATAATATAAATAT
Found at i:2787 original size:25 final size:25
Alignment explanation
Indices: 2733--2788 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
2723 TTTTAATAAT
*
2733 TAATATTTTGATTAAAATGATATTA
1 TAATATTTTGATTAAAATGAAATTA
* * *
2758 AAATATTTT-ATTAATATTAAATTCA
1 TAATATTTTGATTAAAATGAAATT-A
2783 TAATAT
1 TAATAT
2789 AAAATTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (25 bp):
TAATATTTTGATTAAAATGAAATTA
Found at i:6502 original size:2 final size:2
Alignment explanation
Indices: 6495--6521 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6485 CACCAAATCA
6495 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6522 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9742 original size:23 final size:23
Alignment explanation
Indices: 9710--9759 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
9700 TATAAAATCT
*
9710 GATCTGGATTAGTTCGATCAATA
1 GATCTAGATTAGTTCGATCAATA
9733 GATCTAGATTAGTTCGATCAATA
1 GATCTAGATTAGTTCGATCAATA
9756 GATC
1 GATC
9760 ATATACTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (23 bp):
GATCTAGATTAGTTCGATCAATA
Found at i:11369 original size:2 final size:2
Alignment explanation
Indices: 11362--11394 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11352 TCGTATTTAC
11362 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11395 TGAATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11715 original size:238 final size:245
Alignment explanation
Indices: 11383--11853 Score: 805
Period size: 240 Copynumber: 1.9 Consensus size: 245
11373 ATATATATAT
* *
11383 ATATATATATATTGAATTTTTATTTGTTTACGCTATATTGTATTATATTCTTATGTTTATATATA
1 ATATATATATATTGAATTTTTATTTGTTTACGCTATATTGTATTATAGTCTTA-GTATATATATA
11448 TATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTA-T-TATATATACTACTCATATC
65 TATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTATTATATATATACTACTCATATC
11511 TTTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTTTATTTATTTGTTTATATTTTTT
130 TTTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTTTATTTATTTGTTTATATTTTTT
* *
11576 TCATTTCTTTCCTTTTTCTTCATTTGAATTTTCGTATTTACTATTTACTTAC
195 CCATTTCTTTCC-TTTTCCTCATTTGAATTTTCGTATTTACTATTTACTTAC
*
11628 ATATATATAT-TTGAATTTTTATTTGTTTACGCTATA-T-TCTTAT-GT-TTA-TATATATATAT
1 ATATATATATATTGAATTTTTATTTGTTTACGCTATATTGTATTATAGTCTTAGTATATATATAT
*
11687 ATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTATTATATATATACTACTCATGTCT
66 ATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTATTATATATATACTACTCATATCT
*
11752 TTCTTCATCTTCTTTGTTTTTACATTTTTTCACATATATTTTTATTTATTTGTTTATATTTTTTC
131 TTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTTTATTTATTTGTTTATATTTTTTC
11817 CATTTCTTTCCTTTTCCTCATTTGAATTTTCGTATTT
196 CATTTCTTTCCTTTTCCTCATTTGAATTTTCGTATTT
11854 TTCCTTGCAT
Statistics
Matches: 217, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
238 52 0.24
239 26 0.12
240 96 0.44
241 1 0.00
242 5 0.02
243 1 0.00
244 26 0.12
245 10 0.05
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (245 bp):
ATATATATATATTGAATTTTTATTTGTTTACGCTATATTGTATTATAGTCTTAGTATATATATAT
ATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTATTATATATATACTACTCATATCT
TTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTTTATTTATTTGTTTATATTTTTTC
CATTTCTTTCCTTTTCCTCATTTGAATTTTCGTATTTACTATTTACTTAC
Found at i:23287 original size:105 final size:105
Alignment explanation
Indices: 23105--25017 Score: 3246
Period size: 105 Copynumber: 18.3 Consensus size: 105
23095 AGGTTTTACC
* *
23105 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
23170 ACGAAGGGACCGCTGGTTGTCAACCAACATTTTTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
23210 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
23275 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
**
23315 CAGAGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
23380 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
23420 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
23485 ACGAAGGGACCGCTGGTTTTCAACAAACATTTTTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
23525 CAGAGCCAATTCCAACTTCACAATGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
23590 ACGAAGGGACCGCTGGTTGTCAACAAACATTCCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
23630 CAGAGCCAAGTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
23695 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
**
23735 CAGAGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
23800 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
23840 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
23905 ACGAAGGGACCGCTGGTTGTCAACAAACATTTTTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
23945 CAGAGCCAATTCCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
24010 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
**
24050 CAGAGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
24115 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
24155 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
24220 ACGAAGGGACCGCTGGTTGTCAACAAACATTTTTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
24260 CAGAGCCAATTCCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
24325 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
**
24365 CAGAGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
24430 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
24470 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
24535 ACGAAGGGACCGCTGGTTGTCAACAAACATTTTTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
24575 CAGAGCCAATTCCAACTTCACAATGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
24640 ACGAAGGGACCGCTGGTTGTCAACAAACATTCCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
24680 CATAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
24745 ACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATCT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
*
24785 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
24850 ACGAAGGGACCGCTGCTTGTCAAC-AACGACTTCCCAATCT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
24890 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
24955 ACGAAGGGACCGCTGCTTGTCAACAAA-A-TT-TC-A-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
** *
24990 CAGATTCAATTTTAACTTCACAACGAAG
1 CAGAGCCAATTTCAACTTCACAACGAAG
25018 TATCTTTGGC
Statistics
Matches: 1715, Mismatches: 91, Indels: 9
0.94 0.05 0.00
Matches are distributed among these distances:
100 26 0.02
101 1 0.00
102 1 0.00
103 2 0.00
104 4 0.00
105 1679 0.98
106 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:26822 original size:240 final size:241
Alignment explanation
Indices: 26377--26867 Score: 825
Period size: 241 Copynumber: 2.0 Consensus size: 241
26367 TTTTATTATA
*
26377 TTTCGTATTTACTATATATATATATATATTTGAATTTTTATTTGTTTTACGCTATATTGTATTAT
1 TTTCGTATTTACTATATATATACATATATTTGAATTTTTATTTGTTTTACGCTATATTGTATTAT
26442 ATTCTTATGTTTATATATAATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTATTAT
66 ATTCTTATGTTTATATATAATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTATTAT
26507 ATATACTACTCATATCTTTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTTTATTTA
131 ATATACTACTCATATCTTTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTTTATTTA
* *
26572 TTTGTTTATATTTTTTTCATTTC-TTTCCTTTTTCTTCATTTGAAT
196 TTTGTTTATATTTTTTCCATTTCTTTTCCTTTTTCCTCATTTGAAT
*
26617 TTTCGTATTTACTATTTACT-TACATATATTTGAATTTTTATTTG-TTTACGCTATATTGTATTA
1 TTTCGTATTTACTATATA-TATACATATATTTGAATTTTTATTTGTTTTACGCTATATTGTATTA
26680 TATTCTTATGTTTATATATATATATATATACATTA-CTATTTTCCTTTA-TTATATGTTA-TTTA
65 TATTCTTATG-TT-TATATATA-ATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTA
* *
26742 TTATATATATACTACTCATGTCTTTCTTCATCTTCTTTGTTTTTACATTTTTTCACATATATTTT
127 -T-TATATATACTACTCATATCTTTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTT
26807 TA-TTATTTGTTTATATTTTTTCCATTTCTTTTCCTTTTTCCTCATTTGAAT
190 TATTTATTTGTTTATATTTTTTCCATTTCTTTTCCTTTTTCCTCATTTGAAT
26858 TTTCGTATTT
1 TTTCGTATTT
26868 TTCCTTGCAT
Statistics
Matches: 238, Mismatches: 6, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
239 33 0.14
240 78 0.33
241 115 0.48
242 12 0.05
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (241 bp):
TTTCGTATTTACTATATATATACATATATTTGAATTTTTATTTGTTTTACGCTATATTGTATTAT
ATTCTTATGTTTATATATAATATATACATTACCTATTTTCCTTTATTTATATGTTATTTTATTAT
ATATACTACTCATATCTTTCTTCATCTTCTTTGTTTTTACATTTTTTCACATACATTTTTATTTA
TTTGTTTATATTTTTTCCATTTCTTTTCCTTTTTCCTCATTTGAAT
Found at i:33409 original size:55 final size:55
Alignment explanation
Indices: 33348--33464 Score: 171
Period size: 55 Copynumber: 2.1 Consensus size: 55
33338 ATTAAAACGT
* * * * *
33348 AATAAAAACCTAAGATTAAATAAATATGATTTAAATAAAATAATTGAGTGATTAA
1 AATAAAAACATAACATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAA
**
33403 AATAAAATTATAACATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAA
1 AATAAAAACATAACATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAA
33458 AATAAAA
1 AATAAAA
33465 TTATAAAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (55 bp):
AATAAAAACATAACATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAA
Found at i:33465 original size:55 final size:55
Alignment explanation
Indices: 33362--33470 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
33352 AAAACCTAAG
* * *
33362 ATTAAATAAATATGATTTAAATAAAATAATTGAGTGATTAAAATAAAATTATAAC
1 ATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAAAATAAAATTATAAC
33417 ATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAAAATAAAATTATAA
1 ATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAAAATAAAATTATAA
33471 AAGTAATTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (55 bp):
ATTAAATAAATATGATTTAAAGAAAATAATTGACTGACTAAAATAAAATTATAAC
Found at i:36140 original size:24 final size:24
Alignment explanation
Indices: 36111--36157 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
36101 CCGTGACTTG
36111 CAACATTTCATTCAGGTTAATTAC
1 CAACATTTCATTCAGGTTAATTAC
36135 CAACATTTCATTCAGGTTAATTA
1 CAACATTTCATTCAGGTTAATTA
36158 TTAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (24 bp):
CAACATTTCATTCAGGTTAATTAC
Found at i:39253 original size:20 final size:20
Alignment explanation
Indices: 39224--39270 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
39214 GAAATGTAAG
*
39224 ATTACTAGTGGGAATAAAAA
1 ATTACCAGTGGGAATAAAAA
*
39244 ATTACCAGTGGGAATAAAAT
1 ATTACCAGTGGGAATAAAAA
39264 ATTACCA
1 ATTACCA
39271 AGGAATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.26
Consensus pattern (20 bp):
ATTACCAGTGGGAATAAAAA
Found at i:39275 original size:18 final size:19
Alignment explanation
Indices: 39234--39277 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
39224 ATTACTAGTG
*
39234 GGAATAAAAAATTACCAGTG
1 GGAATAAAAAATTACCAG-A
*
39254 GGAATAAAATATTACCA-A
1 GGAATAAAAAATTACCAGA
39272 GGAATA
1 GGAATA
39278 TGATTACTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.20
Consensus pattern (19 bp):
GGAATAAAAAATTACCAGA
Found at i:41676 original size:34 final size:34
Alignment explanation
Indices: 41638--41726 Score: 144
Period size: 37 Copynumber: 2.6 Consensus size: 34
41628 TTAATTAAAT
41638 AAGTAAATATTTAATATTATTTTGATTTATATAA
1 AAGTAAATATTTAATATTATTTTGATTTATATAA
41672 AAGTAAATATTATTTAATATTATTTTGATTTATATAA
1 AAGT-AA-A-TATTTAATATTATTTTGATTTATATAA
41709 AAGTAAATATTTAA-ATTA
1 AAGTAAATATTTAATATTA
41727 ATAAATAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
33 4 0.08
34 11 0.21
35 3 0.06
36 3 0.06
37 31 0.60
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (34 bp):
AAGTAAATATTTAATATTATTTTGATTTATATAA
Found at i:41692 original size:37 final size:37
Alignment explanation
Indices: 41645--41719 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
41635 AATAAGTAAA
41645 TATTTAATATTATTTTGATTTATATAAAAGTAAATAT
1 TATTTAATATTATTTTGATTTATATAAAAGTAAATAT
41682 TATTTAATATTATTTTGATTTATATAAAAGTAAATAT
1 TATTTAATATTATTTTGATTTATATAAAAGTAAATAT
41719 T
1 T
41720 TAAATTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (37 bp):
TATTTAATATTATTTTGATTTATATAAAAGTAAATAT
Found at i:45425 original size:27 final size:26
Alignment explanation
Indices: 45373--45428 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
45363 GGGTATTGCG
* * *
45373 TAAAAAGTTTAAAGTAATTTTTATAA
1 TAAAAAGTTTAAAGTAAGTCTAATAA
*
45399 TAAAAATGTTTAAAGTTAGTCTAATAA
1 TAAAAA-GTTTAAAGTAAGTCTAATAA
45426 TAA
1 TAA
45429 TCATTTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (26 bp):
TAAAAAGTTTAAAGTAAGTCTAATAA
Found at i:45439 original size:16 final size:16
Alignment explanation
Indices: 45418--45450 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45408 TTAAAGTTAG
45418 TCTAATAATAATCATT
1 TCTAATAATAATCATT
45434 TCTAATAATAATCATT
1 TCTAATAATAATCATT
45450 T
1 T
45451 AAAATGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
TCTAATAATAATCATT
Found at i:45792 original size:25 final size:25
Alignment explanation
Indices: 45763--45813 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45753 CAATTACTCT
* * *
45763 AACAATCGATTGGTTTAGCGGGATA
1 AACAACCGATTGGTTTAACAGGATA
*
45788 AACAACCGGTTGGTTTAACAGGATA
1 AACAACCGATTGGTTTAACAGGATA
45813 A
1 A
45814 GGTGTTAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (25 bp):
AACAACCGATTGGTTTAACAGGATA
Found at i:51681 original size:10 final size:11
Alignment explanation
Indices: 51652--51681 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51642 TACGATTATA
51652 TTAATTAAAAT
1 TTAATTAAAAT
51663 TTAATTAAAAT
1 TTAATTAAAAT
51674 TT-ATTAAA
1 TTAATTAAA
51682 TTAAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATTAAAAT
Found at i:54301 original size:79 final size:81
Alignment explanation
Indices: 54168--54330 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 81
54158 TACTTATACC
* *
54168 TAATGTAAAATTAAACATTTTCATGATTATTGGATGGAGAAAAATCAAAAAAAGATA-TACTTTA
1 TAATGTAAAATTAAACATTTTCATGATTATTGGATGGAGAAAAATCAAAAAAAGAGATTAATTTA
54232 TT-GTTTTTTTCACTG
66 TTAGTTTTTTTCACTG
* * *
54247 TAATGTAGAATTAAACATTTTCATGATTATTGGATGGAGAGAAATCAAATAAAGAGATTAATTTA
1 TAATGTAAAATTAAACATTTTCATGATTATTGGATGGAGAAAAATCAAAAAAAGAGATTAATTTA
*
54312 TTATTTTTTTTCACTG
66 TTAGTTTTTTTCACTG
54328 TAA
1 TAA
54331 AATTTATTAG
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 53 0.70
80 8 0.11
81 15 0.20
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (81 bp):
TAATGTAAAATTAAACATTTTCATGATTATTGGATGGAGAAAAATCAAAAAAAGAGATTAATTTA
TTAGTTTTTTTCACTG
Found at i:54445 original size:2 final size:2
Alignment explanation
Indices: 54438--54465 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
54428 CATTGTAGTG
54438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54466 CAAGTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54550 original size:28 final size:28
Alignment explanation
Indices: 54491--54550 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
54481 ATGATATTCG
* *
54491 ATTAAACATTAAGTTTATAAGTAATTAT
1 ATTAAACATTAAGTTTATAAGTAACTAA
* *
54519 ATTAAACATT-TGATTTATATGTAACTAA
1 ATTAAACATTAAG-TTTATAAGTAACTAA
54547 ATTA
1 ATTA
54551 GATATTAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (28 bp):
ATTAAACATTAAGTTTATAAGTAACTAA
Found at i:59666 original size:57 final size:57
Alignment explanation
Indices: 59578--59747 Score: 340
Period size: 57 Copynumber: 3.0 Consensus size: 57
59568 GTTCAATGAC
59578 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
1 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
59635 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
1 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
59692 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATA
1 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATA
59748 AGACAAAACG
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 113 1.00
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (57 bp):
GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
Found at i:64064 original size:57 final size:57
Alignment explanation
Indices: 63976--64145 Score: 340
Period size: 57 Copynumber: 3.0 Consensus size: 57
63966 GTTCAATGAC
63976 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
1 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
64033 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
1 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
64090 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATA
1 GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATA
64146 AGACAAAACG
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 113 1.00
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (57 bp):
GTTCTTTCTTTCTTTCCTTAATCATTAACCTAACTAAAATCTTTAAATAAATAATAT
Found at i:67684 original size:19 final size:19
Alignment explanation
Indices: 67660--67697 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
67650 CATATACTCA
67660 CCATGCAGACGAGCCATAC
1 CCATGCAGACGAGCCATAC
67679 CCATGCAGACGAGCCATAC
1 CCATGCAGACGAGCCATAC
67698 AAGCCATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.21, T:0.11
Consensus pattern (19 bp):
CCATGCAGACGAGCCATAC
Found at i:67756 original size:32 final size:32
Alignment explanation
Indices: 67712--67782 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
67702 CATATACTCA
* *
67712 CCATGCAGACGAGCCAGCCAACGGAGAGGTCG
1 CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
*
67744 CCATGCAAACGAGCCAGCCAATAGAGAGGTCG
1 CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
67776 CCATGCA
1 CCATGCA
67783 GTCTGGGCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.31, G:0.30, T:0.08
Consensus pattern (32 bp):
CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
Found at i:67873 original size:29 final size:29
Alignment explanation
Indices: 67770--67864 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
67760 GCCAATAGAG
* **
67770 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
67799 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
67828 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
67857 AGGTCGCC
1 AGGTCGCC
67865 CCGGCGTCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:67963 original size:49 final size:49
Alignment explanation
Indices: 67891--68002 Score: 171
Period size: 49 Copynumber: 2.4 Consensus size: 49
67881 CCCGAGACCA
67891 TGCATG-C-ACATGCA-GCCAAATAACTTCACGTGCTCCTGCT-CCCGC
1 TGCATGCCTACATGCATGCCAAATAACTTCACGTGCTCCTGCTCCCCGC
*
67936 TGCATGCCTGCATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAA-ATAACTTCACGTGCTCCTGCTCCCCGC
67986 TGCATGCCTACA-GCATG
1 TGCATGCCTACATGCATG
68003 ACATGTGATC
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
45 6 0.10
46 1 0.02
47 6 0.10
48 5 0.08
49 26 0.43
50 16 0.27
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (49 bp):
TGCATGCCTACATGCATGCCAAATAACTTCACGTGCTCCTGCTCCCCGC
Found at i:68238 original size:16 final size:18
Alignment explanation
Indices: 68217--68255 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
68207 GGAGATAAGG
*
68217 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
68233 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
68251 TAAAT
1 TAAAT
68256 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:68399 original size:46 final size:47
Alignment explanation
Indices: 68360--68449 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 47
68350 TTATATAGTT
*
68360 AAAAA-TAATTAATTAG-TTTGTTTTGTT-AATAGTTAGTTATATAAA
1 AAAAATTAATTAATTAGTTTTG-TTAGTTAAATAGTTAGTTATATAAA
*
68405 AAAAATTATTTAATTAGTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTAATTAATTAGTTTTGTTAGTTAAATAGTT-AGTTATAT
68450 TGTTTGTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 5 0.13
46 15 0.38
47 11 0.28
48 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (47 bp):
AAAAATTAATTAATTAGTTTTGTTAGTTAAATAGTTAGTTATATAAA
Found at i:68492 original size:12 final size:12
Alignment explanation
Indices: 68475--68526 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
68465 TTATGTAAAA
68475 ATTAGTTAGTTT
1 ATTAGTTAGTTT
68487 ATTAGTTAGTTT
1 ATTAGTTAGTTT
*
68499 AGTTAGTAAGTTT
1 A-TTAGTTAGTTT
*
68512 ATTAG-TAGTAT
1 ATTAGTTAGTTT
68523 ATTA
1 ATTA
68527 ATGAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 8 0.22
12 17 0.47
13 11 0.31
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (12 bp):
ATTAGTTAGTTT
Found at i:68568 original size:34 final size:32
Alignment explanation
Indices: 68507--68586 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 32
68497 TTAGTTAGTA
* *
68507 AGTTTATTAG-TAG-TATATTAATGAAAAAAT
1 AGTTTATTAGTTAGTTTTATTAATAAAAAAAT
68537 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAAT
1 AGTTTATTAGTTAGTTTTA-TTA-ATAAAAAAAT
*
68571 ATTTTATTAGTT-GTTT
1 AGTTTATTAGTTAGTTT
68587 AAGGGTTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.23
31 3 0.07
32 3 0.07
33 7 0.16
34 20 0.47
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (32 bp):
AGTTTATTAGTTAGTTTTATTAATAAAAAAAT
Found at i:68635 original size:8 final size:8
Alignment explanation
Indices: 68622--68652 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
68612 TTTAAAAAGT
68622 TTAGTTTG
1 TTAGTTTG
68630 TTAGTTTG
1 TTAGTTTG
*
68638 TTAGTTTA
1 TTAGTTTG
68646 TTAGTTT
1 TTAGTTT
68653 ATTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (8 bp):
TTAGTTTG
Found at i:68653 original size:8 final size:8
Alignment explanation
Indices: 68622--68656 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
68612 TTTAAAAAGT
*
68622 TTAGTTTG
1 TTAGTTTA
*
68630 TTAGTTTG
1 TTAGTTTA
68638 TTAGTTTA
1 TTAGTTTA
68646 TTAGTTTA
1 TTAGTTTA
68654 TTA
1 TTA
68657 TATTATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (8 bp):
TTAGTTTA
Found at i:68662 original size:16 final size:16
Alignment explanation
Indices: 68630--68676 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
68620 GTTTAGTTTG
*
68630 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
68646 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
68662 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
68677 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:68671 original size:15 final size:14
Alignment explanation
Indices: 68651--68681 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
68641 GTTTATTAGT
68651 TTATTATATTATAAG
1 TTATTATATTA-AAG
68666 TTATTATATTAAAG
1 TTATTATATTAAAG
68680 TT
1 TT
68682 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:70579 original size:30 final size:30
Alignment explanation
Indices: 70539--70648 Score: 175
Period size: 30 Copynumber: 3.7 Consensus size: 30
70529 TTTGGCGAGC
*
70539 TGGGCGTGCATGGAGGTCGTTGGCCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGACGTGCA
* *
70569 TGGCCGTGCATGGAGGTCGTTGGACGTGCC
1 TGGGCGTGCATGGAGGTCGTTGGACGTGCA
* *
70599 TGGGCATGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGACGTGCA
70629 TGGGCGTGCATGGAGGTCGT
1 TGGGCGTGCATGGAGGTCGT
70649 GGGGTAGGTC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.11, C:0.19, G:0.46, T:0.24
Consensus pattern (30 bp):
TGGGCGTGCATGGAGGTCGTTGGACGTGCA
Found at i:70696 original size:29 final size:29
Alignment explanation
Indices: 70655--70766 Score: 206
Period size: 29 Copynumber: 3.9 Consensus size: 29
70645 TCGTGGGGTA
*
70655 GGTCGCAGGGCGTGCATGGCGACCTGGTT
1 GGTCGCCGGGCGTGCATGGCGACCTGGTT
70684 GGTCGCCGGGCGTGCATGGCGACCTGGTT
1 GGTCGCCGGGCGTGCATGGCGACCTGGTT
*
70713 GGTCGCCGGGCGTGCATGGCGACCTTGTT
1 GGTCGCCGGGCGTGCATGGCGACCTGGTT
70742 GGTCGCCGGGCGTGCATGGCGACCT
1 GGTCGCCGGGCGTGCATGGCGACCT
70767 ACCCCCGGTA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.08, C:0.28, G:0.44, T:0.21
Consensus pattern (29 bp):
GGTCGCCGGGCGTGCATGGCGACCTGGTT
Found at i:71694 original size:6 final size:6
Alignment explanation
Indices: 71683--71710 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
71673 AGACACGTAT
71683 GACCAC GACCAC GACCAC GACCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACC
71711 CAACCCGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:72333 original size:22 final size:22
Alignment explanation
Indices: 72307--72359 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
72297 AATTTAGAAA
72307 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
72329 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
72351 ATCGCAACG
1 ATCGCAACG
72360 CGATTTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:72377 original size:21 final size:21
Alignment explanation
Indices: 72348--72424 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
72338 ACAACTGTAG
*
72348 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTCCA
* ** **
72369 ACTACCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTCCA
*
72390 A-AATCGCAACGCGATTTCCA
1 ACTATCGCAACGCGATTTCCA
72410 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
72425 AATGCAACGC
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTCCA
Found at i:72400 original size:41 final size:41
Alignment explanation
Indices: 72351--72428 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
72341 ACTGTAGACT
*
72351 ATCGCAACGCGATTTTCAACTACCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTCCAACTACCGCAACGCGAAATGGAAA
*
72392 ATCGCAACGCGATTTCCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGATTTCCAACTACCGCAACGCGAAATG
72429 CAACGCGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGATTTCCAACTACCGCAACGCGAAATGGAAA
Found at i:74284 original size:26 final size:25
Alignment explanation
Indices: 74228--74284 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
74218 TGCTGTCCTC
74228 TAAAAA-TTTATAATTATTATATAT
1 TAAAAATTTTATAATTATTATATAT
** * *
74252 TTTAAATTTTTTAATGTATTTTATAT
1 TAAAAATTTTATAAT-TATTATATAT
74278 TAAAAAT
1 TAAAAAT
74285 ATGTTTTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 4 0.16
25 7 0.28
26 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TAAAAATTTTATAATTATTATATAT
Found at i:83582 original size:3 final size:3
Alignment explanation
Indices: 83574--83599 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
83564 GTGACATGAC
83574 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
83600 ATAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:88444 original size:21 final size:21
Alignment explanation
Indices: 88408--88457 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
88398 GGTTCAACTT
*
88408 AATTTTTTTTATTTTTTATTA
1 AATTTTTTGTATTTTTTATTA
*
88429 AATGTTTTTGTA-TTTTTATTT
1 AAT-TTTTTGTATTTTTTATTA
88450 AATTTTTT
1 AATTTTTT
88458 AAATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 14 0.54
22 7 0.27
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (21 bp):
AATTTTTTGTATTTTTTATTA
Found at i:89915 original size:29 final size:29
Alignment explanation
Indices: 89873--89929 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
89863 GTGATAAAAG
* *
89873 GAGGTCGCCATGCACTCCGGGTGACCAAT
1 GAGGTCGCCATGCAATCCGGGCGACCAAT
89902 GAGGTCGCCATGCAATCCGGGCGACCAA
1 GAGGTCGCCATGCAATCCGGGCGACCAA
89930 GGAATGATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.32, G:0.32, T:0.14
Consensus pattern (29 bp):
GAGGTCGCCATGCAATCCGGGCGACCAAT
Found at i:89959 original size:31 final size:31
Alignment explanation
Indices: 89924--89987 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
89914 CAATCCGGGC
89924 GACCAAGGAATGATGCATGTAGGAGCTGTGG
1 GACCAAGGAATGATGCATGTAGGAGCTGTGG
* *
89955 GACCAAGGAGTGATGCATGTGGGAGCTGTGG
1 GACCAAGGAATGATGCATGTAGGAGCTGTGG
89986 GA
1 GA
89988 TGCATGTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.12, G:0.42, T:0.19
Consensus pattern (31 bp):
GACCAAGGAATGATGCATGTAGGAGCTGTGG
Found at i:90004 original size:20 final size:20
Alignment explanation
Indices: 89966--90004 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89956 ACCAAGGAGT
*
89966 GATGCATGTGGGAGCTGTGG
1 GATGCATGTGAGAGCTGTGG
*
89986 GATGCATGTGAGAGTTGTG
1 GATGCATGTGAGAGCTGTG
90005 CATGGGCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.08, G:0.46, T:0.28
Consensus pattern (20 bp):
GATGCATGTGAGAGCTGTGG
Found at i:90109 original size:29 final size:29
Alignment explanation
Indices: 90029--90112 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
90019 GTCGAATGGT
*
90029 GTAGGTCGCCATGGAGTCCCGACGACATG
1 GTAGGTCGCCATGGAGTCCCGGCGACATG
90058 GTAGGTCGCCATGGAGTCCCGGCGACATG
1 GTAGGTCGCCATGGAGTCCCGGCGACATG
* *
90087 GTAGGTCGACATGGAGTCTCGGCGAC
1 GTAGGTCGCCATGGAGTCCCGGCGAC
90113 CAAGCTCCTG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.19, C:0.26, G:0.37, T:0.18
Consensus pattern (29 bp):
GTAGGTCGCCATGGAGTCCCGGCGACATG
Found at i:90250 original size:44 final size:44
Alignment explanation
Indices: 90200--90299 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 44
90190 GCATGTGTTT
* *
90200 CATCCATAGCTGGGAGATTTCTGCATCCGTAGCTGCATGCAATG
1 CATCCATAGCTGGGAGATTCCTACATCCGTAGCTGCATGCAATG
**
90244 CATCCATAGCTGGGAGATTCCTACATCCGTAGCTGCATGCGTTG
1 CATCCATAGCTGGGAGATTCCTACATCCGTAGCTGCATGCAATG
90288 CATCCATAGCTG
1 CATCCATAGCTG
90300 CATTATTGCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (44 bp):
CATCCATAGCTGGGAGATTCCTACATCCGTAGCTGCATGCAATG
Found at i:90703 original size:28 final size:27
Alignment explanation
Indices: 90672--90741 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
90662 ATCTAGTTAA
90672 TTAGTTT-GTTAGTAAAATTATTAGTTTG
1 TTAGTTTAGTTA-TAAAA-TATTAGTTTG
**
90700 TTAGTTTAAGTTATATTATATTAGTTTG
1 TTAGTTT-AGTTATAAAATATTAGTTTG
*
90728 TTAGTTAAGTTATA
1 TTAGTTTAGTTATA
90742 TATATTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.19
28 23 0.62
29 3 0.08
30 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (27 bp):
TTAGTTTAGTTATAAAATATTAGTTTG
Found at i:90809 original size:43 final size:46
Alignment explanation
Indices: 90712--90821 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 46
90702 AGTTTAAGTT
*
90712 ATATTATATTAGTTTGTTAG-TTAAGTTATATATATTATATAAAAAA
1 ATATTA-ATTAGTTTGTTAGTTTAAGTTATATATAATATATAAAAAA
* *
90758 TTAGTTAATTAGTTTCTTAGTTTAAGTTAT-TA-AATATA-AAAAAA
1 ATA-TTAATTAGTTTGTTAGTTTAAGTTATATATAATATATAAAAAA
*
90802 ATATTAATTAATTTGTTAGT
1 ATATTAATTAGTTTGTTAGT
90822 GTCTTTAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
43 15 0.27
44 8 0.14
45 5 0.09
46 16 0.29
47 12 0.21
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (46 bp):
ATATTAATTAGTTTGTTAGTTTAAGTTATATATAATATATAAAAAA
Found at i:90813 original size:47 final size:46
Alignment explanation
Indices: 90714--90814 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 46
90704 TTTAAGTTAT
* * *
90714 ATTATATTAGTTTGTTAGTTAAGTTATATATATTATATAAAAAATTA
1 ATTA-ATTAGTTTCTTAGTTAAGTTATAAATATTATAAAAAAAATTA
*
90761 GTTAATTAGTTTCTTAGTTTAAGTTATTAAATA-TA-AAAAAAATATTA
1 ATTAATTAGTTTCTTAG-TTAAGTTA-TAAATATTATAAAAAAA-ATTA
90808 ATTAATT
1 ATTAATT
90815 TGTTAGTGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
46 18 0.39
47 23 0.50
48 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.48
Consensus pattern (46 bp):
ATTAATTAGTTTCTTAGTTAAGTTATAAATATTATAAAAAAAATTA
Found at i:91147 original size:14 final size:14
Alignment explanation
Indices: 91128--91154 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91118 GTAATTTATT
91128 ATTTTTTGTTGTTC
1 ATTTTTTGTTGTTC
91142 ATTTTTTGTTGTT
1 ATTTTTTGTTGTT
91155 GTGTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (14 bp):
ATTTTTTGTTGTTC
Found at i:94229 original size:15 final size:16
Alignment explanation
Indices: 94209--94242 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
94199 CAACAAAAAT
94209 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
94224 TAATATAATAAACTTA
1 TAATATAATAAACTTA
94240 TAA
1 TAA
94243 AGTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:94728 original size:13 final size:13
Alignment explanation
Indices: 94689--94735 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
94679 CTCACAAGAG
94689 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
* *
94703 CTTTTTCTTCCTTT
1 C-CTTTCTCCCTTT
94717 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
94730 -CTTTCT
1 CCTTTCT
94736 TTCTCGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 10 0.36
14 10 0.36
15 2 0.07
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:94780 original size:26 final size:26
Alignment explanation
Indices: 94734--94791 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
94724 CCCTTTCTTT
* *
94734 CTTTC-TCGGCTGCACTATCTTCTCA
1 CTTTCTTCGGATGCAATATCTTCTCA
* *
94759 CTTTCTTCGGATGCAATCTCTTCTCC
1 CTTTCTTCGGATGCAATATCTTCTCA
94785 CTTTCTT
1 CTTTCTT
94792 TCTTTTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.10, C:0.34, G:0.10, T:0.45
Consensus pattern (26 bp):
CTTTCTTCGGATGCAATATCTTCTCA
Found at i:95065 original size:29 final size:29
Alignment explanation
Indices: 95032--95091 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
95022 ATGTAAAAAA
* *
95032 TACAAGGTTGCTGGGAGTACATGGCGACC
1 TACAAGGTCGCTCGGAGTACATGGCGACC
*
95061 TACAAGGTCGCTCGGAGTGCATGGCGACC
1 TACAAGGTCGCTCGGAGTACATGGCGACC
95090 TA
1 TA
95092 TGGGTTGGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.20
Consensus pattern (29 bp):
TACAAGGTCGCTCGGAGTACATGGCGACC
Found at i:96264 original size:60 final size:61
Alignment explanation
Indices: 96162--96293 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 61
96152 AATTGAATTA
* ** *
96162 TTCAAAAGTTTGGGGGACTAATTTAGAATGAAAATCACAATTTGGGGATGAAAATGAAATG
1 TTCAAAAGTTTGGAGGACTAATTTAGAATGAAAATCACAATTTAAGGATGAAAATAAAATG
* * ** * *
96223 TTCAAAAGTTT-GAGGACTAATTTCA-AATGATAGTCTTAATTTAAGGTTGAAATTAAAATG
1 TTCAAAAGTTTGGAGGACTAATTT-AGAATGAAAATCACAATTTAAGGATGAAAATAAAATG
*
96283 TTTAAAAGTTT
1 TTCAAAAGTTT
96294 AAGAATCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 47 0.80
61 12 0.20
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (61 bp):
TTCAAAAGTTTGGAGGACTAATTTAGAATGAAAATCACAATTTAAGGATGAAAATAAAATG
Found at i:100260 original size:20 final size:21
Alignment explanation
Indices: 100219--100262 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
100209 TAAGTAACTT
100219 TTAATTTTGTAATGGTTTAAA
1 TTAATTTTGTAATGGTTTAAA
**
100240 TTAATTTTGTGTTGG-TTAAA
1 TTAATTTTGTAATGGTTTAAA
100260 TTA
1 TTA
100263 GGTGTTCGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTAATTTTGTAATGGTTTAAA
Found at i:107047 original size:117 final size:117
Alignment explanation
Indices: 106923--107155 Score: 312
Period size: 117 Copynumber: 2.0 Consensus size: 117
106913 AAAAAAAACA
* *
106923 TGATTAAATTTAATTCAAAATT-ACCGAATAAAT-AAGAGAAATGGAAAAAGA-GGTAAAAAACT
1 TGATTAAATTTAATTCAAAATTAAACGAATAAATAAAAAGAAATGGAAAAAGATGGT--AAAACT
* * *
106985 AAACATTTTTATGAAATTATAAAAATTAGAG-ACCCTAATTATAAATATAAAAAAT
64 AAA-AATTTAATAAAATTATAAAAATTAG-GTACCCTAATTATAAATATAAAAAAT
* * *
107040 TGATTAAATTTAATTCAAAATTAAATGAATTAATAAAAAGGAATGGAAAAAGATGGTAAAACTAA
1 TGATTAAATTTAATTCAAAATTAAACGAATAAATAAAAAGAAATGGAAAAAGATGGTAAAACTAA
* *
107105 AAATTTAATAAAATTATAAAAATTAGGTATCCTAGTTATAAATATAAAAAA
66 AAATTTAATAAAATTATAAAAATTAGGTACCCTAATTATAAATATAAAAAA
107156 ATAAGGATTC
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
116 1 0.01
117 65 0.64
118 17 0.17
119 16 0.16
120 3 0.03
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.29
Consensus pattern (117 bp):
TGATTAAATTTAATTCAAAATTAAACGAATAAATAAAAAGAAATGGAAAAAGATGGTAAAACTAA
AAATTTAATAAAATTATAAAAATTAGGTACCCTAATTATAAATATAAAAAAT
Found at i:107156 original size:30 final size:29
Alignment explanation
Indices: 107114--107185 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
107104 AAAATTTAAT
* * *
107114 AAAAT-TATAAAAATTAGGTATCCTAGTTA
1 AAAATATAAAAAAATAAGG-ATCCTAATTA
* *
107143 TAAATATAAAAAAATAAGGATTCTAATTA
1 AAAATATAAAAAAATAAGGATCCTAATTA
107172 AAAATATAAAAAAA
1 AAAATATAAAAAAA
107186 ATTGGAGCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 25 0.69
30 11 0.31
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (29 bp):
AAAATATAAAAAAATAAGGATCCTAATTA
Found at i:109159 original size:15 final size:17
Alignment explanation
Indices: 109128--109160 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
109118 ATATATTTTT
109128 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
109145 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
109160 A
1 A
109161 AAAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:109202 original size:19 final size:17
Alignment explanation
Indices: 109161--109202 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
109151 TTGAATTTAA
109161 AAAAAATAAAAAATTAC
1 AAAAAATAAAAAATTAC
*
109178 TAAAAATCAGAAAAATTAC
1 AAAAAAT-A-AAAAATTAC
109197 AAAAAA
1 AAAAAA
109203 AAGATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAAAATTAC
Found at i:109202 original size:114 final size:111
Alignment explanation
Indices: 109097--109487 Score: 464
Period size: 114 Copynumber: 3.6 Consensus size: 111
109087 AAACATAAGC
*
109097 ATGTTTATTTATCTAATTTCAATATATTTTTATCTATCTTGCAATTTAATCTACTTGAATTTAAA
1 ATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTTAAA
*
109162 AAAAATA-AAAAATTACTAAAAATCAGAAAAATTACAAAAAAAAGATTA-T
66 AAAAATAGAAAAATTACAAAAAAT-AGAAAAATT--AAAAAAAA-A-TAGT
*
109211 ATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTAAAA
1 ATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTTAAA
* *
109276 AAAAACATAAAAATTACAAAAAAATAGAAAAATT-AAAAAAAATAGT
66 AAAAATAGAAAAATTAC-AAAAAATAGAAAAATTAAAAAAAAATAGT
* *
109322 ATGTTTATTTATCTAATTTCAATGTATTTTTAAT-TATCTTGTAATTTAATATACTTGAA-TT-A
1 ATGTTTATTTATCTAATTTCAATGTATTTTT-ATCTATCTTGCAATTTAATCTACTTGAATTTAA
109384 AAAAAATCAGAAAAATTAC--AAAA-A-AAAAA-T---------TAGT
65 AAAAAAT-AGAAAAATTACAAAAAATAGAAAAATTAAAAAAAAATAGT
* * * *
109418 ATGTTTATTTATCTAATTTCAATGTATTTTTATTTATCTTGTAGTTTCATCTACTTGAA-TTAAA
1 ATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTTAAA
109482 AAAAAT
66 AAAAAT
109488 TAAATTGTAG
Statistics
Matches: 258, Mismatches: 12, Indels: 31
0.86 0.04 0.10
Matches are distributed among these distances:
95 2 0.01
96 59 0.23
97 8 0.03
104 1 0.00
105 5 0.02
106 1 0.00
107 4 0.02
109 7 0.03
110 13 0.05
111 56 0.22
112 9 0.03
114 69 0.27
115 18 0.07
116 6 0.02
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (111 bp):
ATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTTAAA
AAAAATAGAAAAATTACAAAAAATAGAAAAATTAAAAAAAAATAGT
Found at i:109288 original size:96 final size:95
Alignment explanation
Indices: 109179--109487 Score: 359
Period size: 96 Copynumber: 3.1 Consensus size: 95
109169 AAAAATTACT
109179 AAAAATCAGAAAAATTACAAAAAAAAGATTATATGTTTATTTATCTAATTTCAATGTATTTTTAT
1 AAAAATCAGAAAAATTACAAAAAAAAGATTATATGTTTATTTATCTAATTTCAATGTATTTTTAT
*
109244 CTATCTTGCAATTTAATCTACTTGAATTAAA
66 -TATCTTGTAATTTAATCTACTTGAATTAAA
* * * *
109275 AAAAAACATAAAAATTACAAAAAAATAGAAAAATTAAAAAAAATAGTATGTTTATTTATCTAATT
1 AAAAATCAGAAAAATTACAAAAAAA-AG----ATT-----ATAT-GT-T-TAT-T-TATCTAATT
*
109340 TCAATGTATTTTTAATTATCTTGTAATTTAATATACTTGAATT-AA
51 TCAATGTATTTTT-ATTATCTTGTAATTTAATCTACTTGAATTAAA
*
109385 AAAAATCAGAAAAATTACAAAAAAAAAATTAGTATGTTTATTTATCTAATTTCAATGTATTTTTA
1 AAAAATCAGAAAAATTACAAAAAAAAGATTA-TATGTTTATTTATCTAATTTCAATGTATTTTTA
* *
109450 TTTATCTTGTAGTTTCATCTACTTGAATTAAA
65 -TTATCTTGTAATTTAATCTACTTGAATTAAA
109482 AAAAAT
1 AAAAAT
109488 TAAATTGTAG
Statistics
Matches: 180, Mismatches: 14, Indels: 37
0.78 0.06 0.16
Matches are distributed among these distances:
95 1 0.01
96 70 0.39
97 11 0.06
98 2 0.01
99 1 0.01
100 3 0.02
101 5 0.03
105 3 0.02
106 3 0.02
107 2 0.01
108 1 0.01
109 3 0.02
110 26 0.14
111 47 0.26
112 2 0.01
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (95 bp):
AAAAATCAGAAAAATTACAAAAAAAAGATTATATGTTTATTTATCTAATTTCAATGTATTTTTAT
TATCTTGTAATTTAATCTACTTGAATTAAA
Found at i:109317 original size:18 final size:18
Alignment explanation
Indices: 109268--109320 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
109258 AATCTACTTG
* *
109268 AATTAAAAAAAAACATAAA
1 AATT-AAAAAAAATAGAAA
109287 AATTACAAAAAAATAGAAA
1 AATTA-AAAAAAATAGAAA
109306 AATTAAAAAAAATAG
1 AATTAAAAAAAATAG
109321 TATGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (18 bp):
AATTAAAAAAAATAGAAA
Found at i:110332 original size:23 final size:23
Alignment explanation
Indices: 110306--110350 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
110296 TTTGAGAAGG
110306 AGAA-CTGCAAAAAGAAAGAAAAA
1 AGAAGCTGCAAAAAG-AAGAAAAA
*
110329 AGAAGCTGCAAGAAGAAGAAAA
1 AGAAGCTGCAAAAAGAAGAAAA
110351 GAAATTGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.09, G:0.22, T:0.04
Consensus pattern (23 bp):
AGAAGCTGCAAAAAGAAGAAAAA
Found at i:120295 original size:29 final size:31
Alignment explanation
Indices: 120257--120336 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 31
120247 AAACTATCAG
* * *
120257 TTTTAGTTCATTTTGGTACCTAAC-TTTCAT
1 TTTTATTTCATTTTAGTACCTAACATTTAAT
*** *
120287 TTTT-TTTCAAAATCGTACCTAACATTTAAT
1 TTTTATTTCATTTTAGTACCTAACATTTAAT
120317 TTTTATTTCATTTTAGTACC
1 TTTTATTTCATTTTAGTACC
120337 CACAATTAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
29 14 0.37
30 13 0.34
31 11 0.29
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (31 bp):
TTTTATTTCATTTTAGTACCTAACATTTAAT
Found at i:123455 original size:49 final size:50
Alignment explanation
Indices: 123389--123487 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 50
123379 GTTAATTTGT
123389 CCTATTCGAATATTTTTTTTACTATCAAAATGATTAATTTAATCTATTTA
1 CCTATTCGAATATTTTTTTTACTATCAAAATGATTAATTTAATCTATTTA
*
123439 CCTATTCGATTA-TTTTTTTACTATCAAAATGATTAATTTAATCTATTTA
1 CCTATTCGAATATTTTTTTTACTATCAAAATGATTAATTTAATCTATTTA
123488 AAAATAAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 37 0.77
50 11 0.23
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (50 bp):
CCTATTCGAATATTTTTTTTACTATCAAAATGATTAATTTAATCTATTTA
Found at i:123962 original size:166 final size:169
Alignment explanation
Indices: 123772--124107 Score: 642
Period size: 166 Copynumber: 2.0 Consensus size: 169
123762 AATATTAACT
123772 TAAATCTAAATTAAATTAAAAATATATACATTCTTTTATAAAAAAAATAAAAATATCTTTAAACT
1 TAAATCTAAATTAAATTAAAAATATATACATTCTTTTATAAAAAAAATAAAAATATCTTTAAACT
123837 TGAAAATAAAATGCAGTAAATAAAATTAAAAAGATAACATATTTTGCCCATTAATAATTAAATTC
66 TGAAAATAAAATGCAGTAAATAAAATTAAAAAGATAACATATTTTGCCCATTAATAATTAAATTC
*
123902 CTACTG-CGCATTC-ATAATCACACAGTACACGTTAGAA
131 ATACTGACGCATTCAATAATCACACAGTACACGTTAGAA
123939 TAAAT-TAAATTAAATTAAAAATATATACATTCTTTTATAAAAAAAATAAAAATATCTTTAAACT
1 TAAATCTAAATTAAATTAAAAATATATACATTCTTTTATAAAAAAAATAAAAATATCTTTAAACT
124003 TGAAAATAAAATGCAGTAAATAAAATTAAAAAGATAACATATTTTGCCCATTAATAATTAAATTC
66 TGAAAATAAAATGCAGTAAATAAAATTAAAAAGATAACATATTTTGCCCATTAATAATTAAATTC
124068 ATACTGACGCATTCAATAATCACACAGTACACGTTAGAA
131 ATACTGACGCATTCAATAATCACACAGTACACGTTAGAA
124107 T
1 T
124108 TATTTTGTTT
Statistics
Matches: 166, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
166 129 0.78
167 12 0.07
168 25 0.15
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (169 bp):
TAAATCTAAATTAAATTAAAAATATATACATTCTTTTATAAAAAAAATAAAAATATCTTTAAACT
TGAAAATAAAATGCAGTAAATAAAATTAAAAAGATAACATATTTTGCCCATTAATAATTAAATTC
ATACTGACGCATTCAATAATCACACAGTACACGTTAGAA
Found at i:125626 original size:17 final size:17
Alignment explanation
Indices: 125604--125638 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
125594 TATATATATA
125604 TATATATATTTAAATTT
1 TATATATATTTAAATTT
* *
125621 TATATATTTTTATATTT
1 TATATATATTTAAATTT
125638 T
1 T
125639 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATATATATTTAAATTT
Found at i:125627 original size:2 final size:2
Alignment explanation
Indices: 125582--125612 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
125572 GGTGAATTAT
125582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125613 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125631 original size:10 final size:10
Alignment explanation
Indices: 125579--125635 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
125569 ATAGGTGAAT
125579 TATTATATATA
1 TATT-TATATA
*
125590 TATATATATA
1 TATTTATATA
*
125600 TATATATATA
1 TATTTATATA
125610 TATTTA-A-A
1 TATTTATATA
125618 T-TTTATATA
1 TATTTATATA
*
125627 TTTTTATAT
1 TATTTATAT
125636 TTTTTAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
7 4 0.10
8 3 0.07
9 3 0.07
10 28 0.68
11 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Found at i:127602 original size:21 final size:21
Alignment explanation
Indices: 127569--127608 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
127559 GTTGATCGTA
*
127569 ACTGTGCTAATGTGACAGTTT
1 ACTGTACTAATGTGACAGTTT
*
127590 ACTGTACTGATGTGACAGT
1 ACTGTACTAATGTGACAGT
127609 CTACAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (21 bp):
ACTGTACTAATGTGACAGTTT
Found at i:127753 original size:26 final size:21
Alignment explanation
Indices: 127698--127757 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
127688 ACATGACAGA
*
127698 TGAACTGTCATGTCAGCACCT
1 TGAACTGCCATGTCAGCACCT
127719 TGAACTGCCATGTCAGCACCT
1 TGAACTGCCATGTCAGCACCT
* *
127740 TGAAATGCCATGCCAGCA
1 TGAACTGCCATGTCAGCA
127758 TCGTAACAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (21 bp):
TGAACTGCCATGTCAGCACCT
Found at i:134222 original size:28 final size:28
Alignment explanation
Indices: 134182--134237 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
134172 TATTCCTCTT
134182 GTCTAATCATATAATATGATCACCTAAC
1 GTCTAATCATATAATATGATCACCTAAC
134210 GTCTAATCATATAATATGATCACCTAAC
1 GTCTAATCATATAATATGATCACCTAAC
134238 CCTAAACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.32
Consensus pattern (28 bp):
GTCTAATCATATAATATGATCACCTAAC
Found at i:134370 original size:31 final size:31
Alignment explanation
Indices: 134310--134373 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
134300 ATTGGCTGTG
* *
134310 AAAAAAATTAGATGACCCTATTTTTATATGT
1 AAAAAAATTAGATGACCCTATTCTCATATGT
* *
134341 AAAAAAATTAGATGACTCTGTTCTCATATGT
1 AAAAAAATTAGATGACCCTATTCTCATATGT
134372 AA
1 AA
134374 TGGGATAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (31 bp):
AAAAAAATTAGATGACCCTATTCTCATATGT
Found at i:138154 original size:22 final size:23
Alignment explanation
Indices: 138111--138156 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
138101 ATATTCATTT
*
138111 TACATAACTTAGAAATAAAAAAA
1 TACATAACTTACAAATAAAAAAA
*
138134 TACATAAC-TACAAATATAAAAA
1 TACATAACTTACAAATAAAAAAA
138156 T
1 T
138157 TCTTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (23 bp):
TACATAACTTACAAATAAAAAAA
Found at i:138379 original size:16 final size:16
Alignment explanation
Indices: 138352--138394 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
138342 GATATGAGAA
138352 AAATTCAATTTAAATTT
1 AAATT-AATTTAAATTT
*
138369 AAATTAATTTAATTTT
1 AAATTAATTTAAATTT
*
138385 AAAATAATTT
1 AAATTAATTT
138395 TAATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATTAATTTAAATTT
Found at i:140052 original size:36 final size:35
Alignment explanation
Indices: 139976--140052 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 35
139966 TGGAAAGGGT
* *
139976 GGTGGTGGATTCGGTGGTAGCGGTGGAGGTTCCGGC
1 GGTGGTGGATTCGGTGGTAGCGGTGGAGGGT-CGGA
* *
140012 GGTGGTGGGTTCGGTGGTAGTGGTGGAGTGGGT-GGA
1 GGTGGTGGATTCGGTGGTAGCGGTGGA--GGGTCGGA
140048 GGTGG
1 GGTGG
140053 AGGCGCTAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 32 0.91
38 3 0.09
ACGTcount: A:0.08, C:0.08, G:0.58, T:0.26
Consensus pattern (35 bp):
GGTGGTGGATTCGGTGGTAGCGGTGGAGGGTCGGA
Found at i:140106 original size:30 final size:30
Alignment explanation
Indices: 140072--140139 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
140062 CGGTGGTGTA
*
140072 GGTGTTGGAGGTGGTA-TTGGAGCTGGTGGT
1 GGTGTTGGAGGTGG-AGTTGGAGCAGGTGGT
* * *
140102 GGTGTTGGGGGTGGAGTTGGCGGAGGTGGT
1 GGTGTTGGAGGTGGAGTTGGAGCAGGTGGT
140132 GGTGTTGG
1 GGTGTTGG
140140 GGCAGGAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.07, C:0.03, G:0.59, T:0.31
Consensus pattern (30 bp):
GGTGTTGGAGGTGGAGTTGGAGCAGGTGGT
Found at i:140138 original size:18 final size:18
Alignment explanation
Indices: 140111--140172 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
140101 TGGTGTTGGG
* *
140111 GGTGGAGTTGGCGGAGGT
1 GGTGGTGTTGGCGGAGGA
140129 GGTGGTGTTGG-GGCAGGA
1 GGTGGTGTTGGCGG-AGGA
* *
140147 GGTGGTGCTGGCGCAGGA
1 GGTGGTGTTGGCGGAGGA
140165 GGTGGTGT
1 GGTGGTGT
140173 CGGTGGTGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 2 0.05
18 34 0.92
19 1 0.03
ACGTcount: A:0.10, C:0.08, G:0.60, T:0.23
Consensus pattern (18 bp):
GGTGGTGTTGGCGGAGGA
Found at i:140198 original size:27 final size:27
Alignment explanation
Indices: 140168--140279 Score: 63
Period size: 27 Copynumber: 4.1 Consensus size: 27
140158 CGCAGGAGGT
* *
140168 GGTGTCGGTGGTGGTGTAGGTGCTGGA
1 GGTGTCGGTGGTGGAGGAGGTGCTGGA
* *
140195 -G-GT-GGTGGTGGAGGACGTGGTGGA
1 GGTGTCGGTGGTGGAGGAGGTGCTGGA
* * *
140219 GGCGGTAC--TGGTGGAGGAGGAGTTGGA
1 GG-TGT-CGGTGGTGGAGGAGGTGCTGGA
* *
140246 GTTGGTGTCGGTGGTGGTGTAGGTGCTGGA
1 ---GGTGTCGGTGGTGGAGGAGGTGCTGGA
140276 GGTG
1 GGTG
140280 GAGGTGGAGG
Statistics
Matches: 63, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
24 17 0.27
25 3 0.05
26 1 0.02
27 22 0.35
28 1 0.02
29 2 0.03
30 17 0.27
ACGTcount: A:0.11, C:0.06, G:0.57, T:0.26
Consensus pattern (27 bp):
GGTGTCGGTGGTGGAGGAGGTGCTGGA
Found at i:140205 original size:36 final size:36
Alignment explanation
Indices: 140165--140493 Score: 108
Period size: 36 Copynumber: 9.2 Consensus size: 36
140155 TGGCGCAGGA
*
140165 GGTGGTGTCGGTGGTGGTGTAGGTGCTGGAGGTGGT
1 GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
* * * * * *
140201 GGTGGAGGACGTGGTGGAGGCGGTACTGGTGGAGGAGGAGTTGGA
1 GGTGG-TGTC--GGTGGTGG-TGTA--GGTGCAGGA-G-G-TGGT
* * *
140246 GTTGGTGTCGGTGGTGGTGTAGGTGCTGGAGGTGGA
1 GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
* * * *
140282 GGT-G-G-AGGTGGT-G-CT-GGTGGAGGAGGTCGT
1 GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
* * * ** *
140312 GGTGGAGGT-GGTGTTGGCGGCGGTGCAGGAGGTGGA
1 GGTGG-TGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
* * * * *
140348 GTTGGAGTTGGTGGGGGTGTAGGTGCTGGAGGTGGT
1 GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
* * * * * * * * * *
140384 GTTGGAGTTGGTGGTGGAGGAGGAGGACGTGGTGGA
1 GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
* *
140420 GGAGGTGTTGGTGGTGGTGTA-G-G-AGGAGGTGGT
1 GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
* * * *
140453 GGT-GT-T-GGTGGTGGTGTAGGTGTAGGTGCTGGA
1 GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
140486 GGTGGTGT
1 GGTGGTGT
140494 TGGAGCTGGT
Statistics
Matches: 214, Mismatches: 57, Indels: 45
0.68 0.18 0.14
Matches are distributed among these distances:
30 26 0.12
31 4 0.02
32 4 0.02
33 31 0.14
34 5 0.02
35 5 0.02
36 90 0.42
37 3 0.01
38 1 0.00
39 14 0.07
40 3 0.01
41 3 0.01
42 14 0.07
43 1 0.00
44 3 0.01
45 7 0.03
ACGTcount: A:0.11, C:0.05, G:0.58, T:0.26
Consensus pattern (36 bp):
GGTGGTGTCGGTGGTGGTGTAGGTGCAGGAGGTGGT
Found at i:140214 original size:15 final size:15
Alignment explanation
Indices: 140196--140239 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
140186 GGTGCTGGAG
*
140196 GTGGTGGTGGAGGAC
1 GTGGTGGAGGAGGAC
*
140211 GTGGTGGAGGCGGTAC
1 GTGGTGGAGGAGG-AC
140227 -TGGTGGAGGAGGA
1 GTGGTGGAGGAGGA
140240 GTTGGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 1 0.04
15 22 0.88
16 2 0.08
ACGTcount: A:0.16, C:0.07, G:0.59, T:0.18
Consensus pattern (15 bp):
GTGGTGGAGGAGGAC
Found at i:140292 original size:30 final size:29
Alignment explanation
Indices: 140258--140325 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
140248 TGGTGTCGGT
* *
140258 GGTGGTGTAGGTGCTGGAGGTGGAGGTGGA
1 GGTGGTGT-GGTGCAGGAGGTCGAGGTGGA
* *
140288 GGTGGTGCTGGTGGAGGAGGTCGTGGTGGA
1 GGTGGTG-TGGTGCAGGAGGTCGAGGTGGA
140318 GGTGGTGT
1 GGTGGTGT
140326 TGGCGGCGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 31 0.94
31 1 0.03
ACGTcount: A:0.10, C:0.04, G:0.60, T:0.25
Consensus pattern (29 bp):
GGTGGTGTGGTGCAGGAGGTCGAGGTGGA
Found at i:140294 original size:24 final size:24
Alignment explanation
Indices: 140267--140403 Score: 67
Period size: 24 Copynumber: 6.0 Consensus size: 24
140257 TGGTGGTGTA
140267 GGTGCTGGAGGTGGAGGTGGAGGT
1 GGTGCTGGAGGTGGAGGTGGAGGT
140291 GGTGCT---GGTGGA---GGAGGT
1 GGTGCTGGAGGTGGAGGTGGAGGT
* * * * * *
140309 CGTGGTGGAGGTGGTGTTGGCGGC
1 GGTGCTGGAGGTGGAGGTGGAGGT
* * *
140333 GGTGCAGGAGGTGGAGTTGGAGTT
1 GGTGCTGGAGGTGGAGGTGGAGGT
*
140357 GGTG--GG-GGTGTAGGTGCTGGAGGT
1 GGTGCTGGAGGTGGA-G-G-TGGAGGT
* * *
140381 GGTGTTGGAGTTGGTGGTGGAGG
1 GGTGCTGGAGGTGGAGGTGGAGG
140404 AGGAGGACGT
Statistics
Matches: 83, Mismatches: 18, Indels: 24
0.66 0.14 0.19
Matches are distributed among these distances:
18 10 0.12
21 16 0.19
22 3 0.04
24 47 0.57
25 1 0.01
26 3 0.04
27 3 0.04
ACGTcount: A:0.10, C:0.05, G:0.60, T:0.25
Consensus pattern (24 bp):
GGTGCTGGAGGTGGAGGTGGAGGT
Found at i:140346 original size:30 final size:30
Alignment explanation
Indices: 140312--140388 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
140302 AGGAGGTCGT
140312 GGTGGAGGTGGTGTTGGCGGCGGTGCAGGA
1 GGTGGAGGTGGTGTTGGCGGCGGTGCAGGA
* * * * * *
140342 GGTGGAGTTGGAGTTGGTGGGGGTGTAGGT
1 GGTGGAGGTGGTGTTGGCGGCGGTGCAGGA
*
140372 GCTGGAGGTGGTGTTGG
1 GGTGGAGGTGGTGTTGG
140389 AGTTGGTGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.09, C:0.05, G:0.60, T:0.26
Consensus pattern (30 bp):
GGTGGAGGTGGTGTTGGCGGCGGTGCAGGA
Found at i:140427 original size:102 final size:102
Alignment explanation
Indices: 140177--140562 Score: 382
Period size: 102 Copynumber: 3.7 Consensus size: 102
140167 TGGTGTCGGT
* * * * * * * ** *
140177 GGTGGTGTAGGTGCTGGAGGTGGTGGTGGAGGACGTGGTGGAGGCGGTACTGGTGG-AG-G-AGG
1 GGTGGTGTTGGAGTTGGTGGTGGAGGAGGAGGACGTGGTGGAGGAGGTGTTGGTGGTGGTGTAGG
* * *
140239 AGTTGGAGTTGGTGTCGGTGGTGGTGTAGGTGCTGGA
66 AGGTGGAGTTGGTGTTGGTGGGGGTGTAGGTGCTGGA
* * * * * * * * * *
140276 GGTGGAGGTGGAGGTGGTGCTGGTGGAGGAGGTCGTGGTGGAGGTGGTGTTGGCGGCGGTGCAGG
1 GGTGGTGTTGGAGTTGGTGGTGGAGGAGGAGGACGTGGTGGAGGAGGTGTTGGTGGTGGTGTAGG
*
140341 AGGTGGAGTTGGAGTTGGTGGGGGTGTAGGTGCTGGA
66 AGGTGGAGTTGGTGTTGGTGGGGGTGTAGGTGCTGGA
140378 GGTGGTGTTGGAGTTGGTGGTGGAGGAGGAGGACGTGGTGGAGGAGGTGTTGGTGGTGGTGTAGG
1 GGTGGTGTTGGAGTTGGTGGTGGAGGAGGAGGACGTGGTGGAGGAGGTGTTGGTGGTGGTGTAGG
* * *
140443 AGGAGGTGGTGGTGTTGGTGGTGGTGTAGGTGTAGGTGCTGGA
66 AGGTGGAGTTGGTG-T--TGGTGG-G--GGTGTAGGTGCTGGA
* *
140486 GGTGGTGTTGGAGCTGGTGGTAGAGGAGGAGGAGGAGGACGTGGTGGAGGAGGTATTGGTGGTGG
1 GGTGGTGTTGGAG-T--TGGT---GGTGGAGGAGGAGGACGTGGTGGAGGAGGTGTTGGTGGTGG
140551 TGTAGGAGGTGG
60 TGTAGGAGGTGG
140563 TGCTGGTGCC
Statistics
Matches: 237, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
99 43 0.18
100 1 0.00
101 1 0.00
102 101 0.43
103 1 0.00
105 6 0.03
106 1 0.00
108 28 0.12
109 1 0.00
111 4 0.02
114 50 0.21
ACGTcount: A:0.13, C:0.04, G:0.58, T:0.25
Consensus pattern (102 bp):
GGTGGTGTTGGAGTTGGTGGTGGAGGAGGAGGACGTGGTGGAGGAGGTGTTGGTGGTGGTGTAGG
AGGTGGAGTTGGTGTTGGTGGGGGTGTAGGTGCTGGA
Found at i:140449 original size:24 final size:24
Alignment explanation
Indices: 140417--140462 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
140407 AGGACGTGGT
*
140417 GGAGGAGGTGTTGGTGGTGGTGTA
1 GGAGGAGGTGGTGGTGGTGGTGTA
*
140441 GGAGGAGGTGGTGGTGTTGGTG
1 GGAGGAGGTGGTGGTGGTGGTG
140463 GTGGTGTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.61, T:0.28
Consensus pattern (24 bp):
GGAGGAGGTGGTGGTGGTGGTGTA
Found at i:140469 original size:12 final size:12
Alignment explanation
Indices: 140447--140496 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
140437 TGTAGGAGGA
140447 GGTGGTGGTGTT
1 GGTGGTGGTGTT
*
140459 GGTGGTGGTGTA
1 GGTGGTGGTGTT
*
140471 GGT-GTAGGTGCT
1 GGTGGT-GGTGTT
*
140483 GGAGGTGGTGTT
1 GGTGGTGGTGTT
140495 GG
1 GG
140497 AGCTGGTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 2 0.06
12 27 0.87
13 2 0.06
ACGTcount: A:0.06, C:0.02, G:0.58, T:0.34
Consensus pattern (12 bp):
GGTGGTGGTGTT
Found at i:140494 original size:36 final size:36
Alignment explanation
Indices: 140333--140505 Score: 115
Period size: 36 Copynumber: 4.8 Consensus size: 36
140323 TGTTGGCGGC
* * * * *
140333 GGTGCAGGAGGTGGAGTTGGAGTTGGTGGGGGTGTA
1 GGTGCTGGAGGTGGTGTTGGTGGTGGTGGAGGTGTA
* *
140369 GGTGCTGGAGGTGGTGTTGGAGTTGGTGGTGGAGGAGGA
1 GGTGCTGGAGGTGGTGTT-G-G-TGGTGGTGGAGGTGTA
* * *
140408 GGACGTGGTGGAGGAGGTGTTGGTGGTGGTGTA-G-G-A
1 -G--GTGCTGGAGGTGGTGTTGGTGGTGGTGGAGGTGTA
* * *
140444 -G-G-AGGTGGTGGTGTTGGTGGTGGTGTAGGTGTA
1 GGTGCTGGAGGTGGTGTTGGTGGTGGTGGAGGTGTA
* *
140477 GGTGCTGGAGGTGGTGTTGGAGCTGGTGG
1 GGTGCTGGAGGTGGTGTTGGTGGTGGTGG
140506 TAGAGGAGGA
Statistics
Matches: 107, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
30 22 0.21
31 2 0.02
32 2 0.02
33 1 0.01
34 1 0.01
35 1 0.01
36 36 0.34
37 2 0.02
38 2 0.02
39 20 0.19
40 2 0.02
41 1 0.01
42 15 0.14
ACGTcount: A:0.12, C:0.03, G:0.58, T:0.27
Consensus pattern (36 bp):
GGTGCTGGAGGTGGTGTTGGTGGTGGTGGAGGTGTA
Found at i:140497 original size:12 final size:12
Alignment explanation
Indices: 140450--140564 Score: 52
Period size: 12 Copynumber: 9.6 Consensus size: 12
140440 AGGAGGAGGT
*
140450 GGTGGTGTTGGT
1 GGTGGTGTTGGA
*
140462 GGTGGTGTAGG-
1 GGTGGTGTTGGA
* *
140473 TGTAGGTGCTGGA
1 GGT-GGTGTTGGA
140486 GGTGGTGTTGGA
1 GGTGGTGTTGGA
* * *
140498 GCTGGTGGTAGA
1 GGTGGTGTTGGA
* * **
140510 GGAGGAGGAGGA
1 GGTGGTGTTGGA
** *
140522 GGACGTGGTGGA
1 GGTGGTGTTGGA
* * *
140534 GGAGGTATTGGT
1 GGTGGTGTTGGA
*
140546 GGTGGTGTAGGA
1 GGTGGTGTTGGA
140558 GGTGGTG
1 GGTGGTG
140565 CTGGTGCCGG
Statistics
Matches: 76, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
11 2 0.03
12 72 0.95
13 2 0.03
ACGTcount: A:0.14, C:0.03, G:0.57, T:0.26
Consensus pattern (12 bp):
GGTGGTGTTGGA
Found at i:140558 original size:36 final size:36
Alignment explanation
Indices: 140390--140618 Score: 120
Period size: 36 Copynumber: 6.2 Consensus size: 36
140380 TGGTGTTGGA
* *
140390 GTTGGTGGTGGAGGAGGAGGACGTGGTGGAGGAGGT
1 GTTGGTGGTGGTGTAGGAGGACGTGGTGGAGGAGGT
* * **
140426 GTTGGTGGTGGTGTAGGAGGAGGTGGTGGTGTTGGT
1 GTTGGTGGTGGTGTAGGAGGACGTGGTGGAGGAGGT
* * * ** *
140462 GGTGGT-GTAGGTGTAGGTGCTGGAGGTGGTGTTGGAGCT
1 GTTGGTGGT-GGTGTA-G-G-AGGACGTGGTGGAGGAGGT
* * * *
140501 GGTGGTAGAGGAGGAGGAGGAGGACGTGGTGGAGGAGGT
1 GTTGGT---GGTGGTGTAGGAGGACGTGGTGGAGGAGGT
* ** * * ** *
140540 ATTGGTGGTGGTGTAGGAGGTGGTGCTGGTGCCGGA
1 GTTGGTGGTGGTGTAGGAGGACGTGGTGGAGGAGGT
* * * *
140576 GCTGGTGGTGGAGGAGGAGGACGTGGCGGAGGTA-GT
1 GTTGGTGGTGGTGTAGGAGGACGTGGTGGAGG-AGGT
140612 GTTGGTG
1 GTTGGTG
140619 TAGGAGGAGG
Statistics
Matches: 139, Mismatches: 45, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
35 2 0.01
36 90 0.65
37 1 0.01
38 1 0.01
39 38 0.27
40 1 0.01
41 1 0.01
42 4 0.03
43 1 0.01
ACGTcount: A:0.14, C:0.04, G:0.58, T:0.24
Consensus pattern (36 bp):
GTTGGTGGTGGTGTAGGAGGACGTGGTGGAGGAGGT
Found at i:140559 original size:72 final size:66
Alignment explanation
Indices: 140483--140642 Score: 158
Period size: 72 Copynumber: 2.3 Consensus size: 66
140473 TGTAGGTGCT
*
140483 GGAGGTGGTGTTGGAGCTGGTGGTAGAGGAGGAGGAGGAGGACGTGGTGGAGGAGGTATTGGTGG
1 GGAGGTGGTGTTGGAGCTGGTGCTAGAGGAGGAGGAGGAGGAC---GTGGAGGAGGTA---GTGG
140548 TGGTGTA
60 TGGTGTA
* * * * * * * * *
140555 GGAGGTGGTGCTGGTGCCGGAGCTGGTGGTGGAGGAGGAGGACGTGGCGGAGGTAGTGTTGGTGT
1 GGAGGTGGTGTTGGAGCTGGTGCTAGAGGAGGAGGAGGAGGACGTGGAGGAGGTAGTGGTGGTGT
140620 A
66 A
* *
140621 GGAGGAGGAGTTGGAGCTGGTG
1 GGAGGTGGTGTTGGAGCTGGTG
140643 TTGGTGGTGG
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
66 26 0.36
69 11 0.15
72 35 0.49
ACGTcount: A:0.16, C:0.06, G:0.57, T:0.21
Consensus pattern (66 bp):
GGAGGTGGTGTTGGAGCTGGTGCTAGAGGAGGAGGAGGAGGACGTGGAGGAGGTAGTGGTGGTGT
A
Found at i:140563 original size:18 final size:18
Alignment explanation
Indices: 140351--140586 Score: 105
Period size: 18 Copynumber: 12.8 Consensus size: 18
140341 AGGTGGAGTT
* *
140351 GGAGTTGGTGGGGGTGTA
1 GGAGGTGGTGGTGGTGTA
* * * *
140369 GGTGCTGGAGGTGGTGTT
1 GGAGGTGGTGGTGGTGTA
* * *
140387 GGAGTTGGTGGTGGAGGA
1 GGAGGTGGTGGTGGTGTA
** * *
140405 GGAGGACGTGGTGGAGGA
1 GGAGGTGGTGGTGGTGTA
* *
140423 GGTGTTGGTGGTGGTGTA
1 GGAGGTGGTGGTGGTGTA
* *
140441 GGAGGAGGTGGTGGTGTT
1 GGAGGTGGTGGTGGTGTA
*
140459 GGTGGTGGT-GTAGGTGTA
1 GGAGGTGGTGGT-GGTGTA
* * * *
140477 GGTGCTGGAGGTGGTGTT
1 GGAGGTGGTGGTGGTGTA
* * *
140495 GGAGCTGGTGGTAGAGGAGGA
1 GGAGGTGGTGGT---GGTGTA
* ** *
140516 GGAGGAGGACGTGGTGGA
1 GGAGGTGGTGGTGGTGTA
140534 GGAGGTATTGGTGGTGGTGTA
1 GGAGG---TGGTGGTGGTGTA
* **
140555 GGAGGTGGTGCTGGTGCC
1 GGAGGTGGTGGTGGTGTA
*
140573 GGAGCTGGTGGTGG
1 GGAGGTGGTGGTGG
140587 AGGAGGAGGA
Statistics
Matches: 161, Mismatches: 49, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
17 2 0.01
18 132 0.82
19 2 0.01
21 25 0.16
ACGTcount: A:0.13, C:0.04, G:0.58, T:0.25
Consensus pattern (18 bp):
GGAGGTGGTGGTGGTGTA
Found at i:140594 original size:18 final size:18
Alignment explanation
Indices: 140526--140594 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
140516 GGAGGAGGAC
*
140526 GTGGTGGAGGAGGTA-TTG
1 GTGGTGGAGGAGG-AGCTG
* * *
140544 GTGGTGGTGTAGGAGGTG
1 GTGGTGGAGGAGGAGCTG
* * **
140562 GTGCTGGTGCCGGAGCTG
1 GTGGTGGAGGAGGAGCTG
140580 GTGGTGGAGGAGGAG
1 GTGGTGGAGGAGGAG
140595 GACGTGGCGG
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 1 0.03
18 38 0.97
ACGTcount: A:0.13, C:0.06, G:0.58, T:0.23
Consensus pattern (18 bp):
GTGGTGGAGGAGGAGCTG
Found at i:140684 original size:18 final size:18
Alignment explanation
Indices: 140663--140741 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
140653 AGGTGCCGGC
140663 GGTGGTGCAGGTGTTGGA
1 GGTGGTGCAGGTGTTGGA
* * *
140681 GGTGGTGTTA-GTGTCGGC
1 GGTGGTG-CAGGTGTTGGA
* * * * *
140699 GGTAGAGTAGGTGTAGGT
1 GGTGGTGCAGGTGTTGGA
*
140717 GGTGGTGCAGGGGTTGGA
1 GGTGGTGCAGGTGTTGGA
140735 GGTGGTG
1 GGTGGTG
140742 TTGGGGCCGG
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
17 2 0.04
18 43 0.93
19 1 0.02
ACGTcount: A:0.11, C:0.05, G:0.56, T:0.28
Consensus pattern (18 bp):
GGTGGTGCAGGTGTTGGA
Found at i:140799 original size:24 final size:24
Alignment explanation
Indices: 140772--140841 Score: 106
Period size: 24 Copynumber: 2.9 Consensus size: 24
140762 GGAGCTGGAG
*
140772 TTGGGGCTGGCGG-AGGTGGTGGCA
1 TTGGAGCTGG-GGTAGGTGGTGGCA
140796 TTGGAGCTGGGGTAGGTGGTGGCA
1 TTGGAGCTGGGGTAGGTGGTGGCA
*
140820 TTAGAGCTGGGGTAGGTGGTGG
1 TTGGAGCTGGGGTAGGTGGTGG
140842 TGTAGGAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.11, C:0.09, G:0.56, T:0.24
Consensus pattern (24 bp):
TTGGAGCTGGGGTAGGTGGTGGCA
Found at i:140850 original size:24 final size:24
Alignment explanation
Indices: 140777--140850 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 24
140767 TGGAGTTGGG
140777 GCTGGCGG-AGGTGGTGGCATT-GGA
1 GCTGG-GGTAGGTGGTGG-ATTAGGA
140801 GCTGGGGTAGGTGGTGGCATTA-GA
1 GCTGGGGTAGGTGGTGG-ATTAGGA
140825 GCTGGGGTAGGTGGTGG-TGTAGGA
1 GCTGGGGTAGGTGGTGGAT-TAGGA
140849 GC
1 GC
140851 AGGTGGTGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.02
23 4 0.09
24 41 0.89
ACGTcount: A:0.14, C:0.09, G:0.54, T:0.23
Consensus pattern (24 bp):
GCTGGGGTAGGTGGTGGATTAGGA
Found at i:142665 original size:30 final size:30
Alignment explanation
Indices: 142631--142696 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
142621 TGGTGGAAGT
* *
142631 GGAGGTAGTGTAGGGGTTGGTGGTGATGTA
1 GGAGGTAGTGTAGGAGTTGGTGGCGATGTA
** * *
142661 GGAGGGGGTGTTGGAGTTGGTGGCGGTGTA
1 GGAGGTAGTGTAGGAGTTGGTGGCGATGTA
142691 GGAGGT
1 GGAGGT
142697 GGCAGCGGAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.14, C:0.02, G:0.58, T:0.27
Consensus pattern (30 bp):
GGAGGTAGTGTAGGAGTTGGTGGCGATGTA
Found at i:142989 original size:36 final size:36
Alignment explanation
Indices: 142949--143041 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
142939 GTAGTGAAGA
* *
142949 AGGACAAGGTAGAGGTGGTGG-AGGGAGTAATGGAGG
1 AGGACATGGTAGAGGTGGTGGCA-AGAGTAATGGAGG
*
142985 AGGACATGGTAGAGGTGGTGGCAAGAGTAGTGGAGG
1 AGGACATGGTAGAGGTGGTGGCAAGAGTAATGGAGG
* * *
143021 AGGTCATGGTGGAGTTGGTGG
1 AGGACATGGTAGAGGTGGTGG
143042 TGGTGCAGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
36 49 0.98
37 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.52, T:0.18
Consensus pattern (36 bp):
AGGACATGGTAGAGGTGGTGGCAAGAGTAATGGAGG
Found at i:143188 original size:84 final size:86
Alignment explanation
Indices: 142973--143179 Score: 276
Period size: 84 Copynumber: 2.4 Consensus size: 86
142963 GTGGTGGAGG
* *
142973 GAGTAATGGAGGAGGACATGGTAGAGGTGGTGGCAAGAGTAGTGGAGGAGGTCATGGTGGAGTTG
1 GAGTAGTGGAGGAGGACATGGTAGAGGTGGTGGCAAGAGTAG-GGAGGAGGACATGGTGGAGTTG
* * *
143038 GTGGTGGTGCAGGAGGTGGTGG
65 GTGGCGGTGCAGGAAGTGGTGC
* *
143060 GAGTAGTGGA-GA--ACATGGTAGAGGTGGTGGTAAGGGTAGTGGAGGAGGACATGGTGGAGTTG
1 GAGTAGTGGAGGAGGACATGGTAGAGGTGGTGGCAAGAGTAG-GGAGGAGGACATGGTGGAGTTG
*
143122 GTGGCGGTGCAGTAAGTGGTGC
65 GTGGCGGTGCAGGAAGTGGTGC
* * *
143144 GAGTAGTGGAGGAGGACATGGTGGCGGCGGTGGCAA
1 GAGTAGTGGAGGAGGACATGGTAGAGGTGGTGGCAA
143180 TGTAGGAGGT
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
84 75 0.71
85 2 0.02
86 2 0.02
87 26 0.25
ACGTcount: A:0.22, C:0.06, G:0.52, T:0.20
Consensus pattern (86 bp):
GAGTAGTGGAGGAGGACATGGTAGAGGTGGTGGCAAGAGTAGGGAGGAGGACATGGTGGAGTTGG
TGGCGGTGCAGGAAGTGGTGC
Found at i:143192 original size:51 final size:51
Alignment explanation
Indices: 143095--143193 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
143085 GGTGGTAAGG
** ** *
143095 GTAGTGGAGGAGGACATGGTGGAGTTGGTGGCGGTGCAGTAAGTGGTGCGA
1 GTAGTGGAGGAGGACATGGTGGAGGCGGTGGCAATGCAGGAAGTGGTGCGA
* * *
143146 GTAGTGGAGGAGGACATGGTGGCGGCGGTGGCAATGTAGGAGGTGGTG
1 GTAGTGGAGGAGGACATGGTGGAGGCGGTGGCAATGCAGGAAGTGGTG
143194 TATGTGGTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.19, C:0.08, G:0.53, T:0.20
Consensus pattern (51 bp):
GTAGTGGAGGAGGACATGGTGGAGGCGGTGGCAATGCAGGAAGTGGTGCGA
Found at i:145956 original size:31 final size:31
Alignment explanation
Indices: 145918--146016 Score: 171
Period size: 31 Copynumber: 3.2 Consensus size: 31
145908 TATATAATAT
*
145918 CTGGGGAGGAACTTGAGGTTATTAAGGAGGA
1 CTGGGGAGGAACTTGAGGATATTAAGGAGGA
145949 CTGGGGAGGAACTTGAGGATATTAAGGAGGA
1 CTGGGGAGGAACTTGAGGATATTAAGGAGGA
*
145980 CTGGGGAGGAACTTGAGGCTATTAAGGAGGA
1 CTGGGGAGGAACTTGAGGATATTAAGGAGGA
146011 CATGGG
1 C-TGGG
146017 ATTCATAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 61 0.94
32 4 0.06
ACGTcount: A:0.29, C:0.08, G:0.42, T:0.20
Consensus pattern (31 bp):
CTGGGGAGGAACTTGAGGATATTAAGGAGGA
Found at i:152805 original size:19 final size:18
Alignment explanation
Indices: 152771--152811 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 18
152761 AATCAATAAT
152771 AATTTTATAATATTTA-A
1 AATTTTATAATATTTATA
152788 AATTTTAATAATTATTTATA
1 AATTTT-ATAA-TATTTATA
152808 AATT
1 AATT
152812 GATCAGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 6 0.29
20 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTTATAATATTTATA
Found at i:164177 original size:13 final size:13
Alignment explanation
Indices: 164159--164183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
164149 TGAGCACCAC
164159 TTATATAAAGATG
1 TTATATAAAGATG
164172 TTATATAAAGAT
1 TTATATAAAGAT
164184 ATTTAAGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
TTATATAAAGATG
Found at i:166109 original size:20 final size:21
Alignment explanation
Indices: 166074--166112 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
166064 TCTTTCTTTC
166074 TTTATTTTAAACCTTTTTGCT
1 TTTATTTTAAACCTTTTTGCT
*
166095 TTTATTTTGAA-CTTTTTG
1 TTTATTTTAAACCTTTTTG
166113 AAGATTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTATTTTAAACCTTTTTGCT
Found at i:167710 original size:20 final size:18
Alignment explanation
Indices: 167669--167710 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
167659 TTTGTAAAAA
*
167669 ATTATTTATAAATGTATT
1 ATTATTTATAAATATATT
167687 -TTATTATATAAATATATAT
1 ATTATT-TATAAATATAT-T
167706 ATTAT
1 ATTAT
167711 GAGGTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 1 0.05
20 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTATTTATAAATATATT
Found at i:172347 original size:30 final size:30
Alignment explanation
Indices: 172289--172347 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
172279 ATATGAAAAT
* * *
172289 AAAATAAATATTATAATTGTTTTCATTGAA
1 AAAATAAACATTATAAATGTTTTAATTGAA
172319 AAAATAAACATT-TAAATGTTTTTAATTGA
1 AAAATAAACATTATAAATG-TTTTAATTGA
172348 GTTGTTGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (30 bp):
AAAATAAACATTATAAATGTTTTAATTGAA
Found at i:175451 original size:14 final size:14
Alignment explanation
Indices: 175428--175483 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
175418 CGTTCGTGAA
*
175428 CGTTCAGTTATGTT
1 CGTTCGGTTATGTT
175442 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
175456 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
175466 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
175480 CGTT
1 CGTT
175484 TATGTTCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:175456 original size:24 final size:24
Alignment explanation
Indices: 175435--175503 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
175425 GAACGTTCAG
*
175435 TTATGTTCGTTCGGTTATGTTCGT
1 TTATGTTCGTTCGATTATGTTCGT
175459 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTCGT
*
175483 TTATGTTCATTC-ATTTATGTT
1 TTATGTTCGTTCGA-TTATGTT
175504 TAACCCAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.13, C:0.12, G:0.19, T:0.57
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTCGT
Found at i:176262 original size:16 final size:16
Alignment explanation
Indices: 176237--176301 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
176227 CCAACGTTTA
176237 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
176253 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
176269 TATTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
176285 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
176301 T
1 T
176302 TTATTTATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.09, C:0.11, G:0.22, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:176392 original size:16 final size:16
Alignment explanation
Indices: 176371--176403 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
176361 AAAATTTTTT
176371 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
176387 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
176403 T
1 T
176404 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:184362 original size:17 final size:17
Alignment explanation
Indices: 184340--184380 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
184330 CAAGTCTTAG
184340 GGCATCTATGCTCAGTT
1 GGCATCTATGCTCAGTT
184357 GGCATCTATGCTCAGTT
1 GGCATCTATGCTCAGTT
184374 GGCATCT
1 GGCATCT
184381 GAAGTGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (17 bp):
GGCATCTATGCTCAGTT
Found at i:188831 original size:22 final size:23
Alignment explanation
Indices: 188779--188831 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
188769 AAATCAAATC
*
188779 TATATTTCAACATTAATTAATAAA
1 TATATTTCAAAATT-ATTAATAAA
*
188803 TACATTTCAAAATT-TTAA-AAA
1 TATATTTCAAAATTATTAATAAA
188824 GTATATTT
1 -TATATTT
188832 AAATCAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 10 0.40
24 12 0.48
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (23 bp):
TATATTTCAAAATTATTAATAAA
Found at i:189326 original size:28 final size:28
Alignment explanation
Indices: 189295--189357 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
189285 TTTTACGTCG
* *
189295 ATATCTTGAGAATATT-TTAAAATAATA
1 ATATCTTGAAAATATTCGTAAAATAATA
*
189322 TATATC-TAAAAATATTCGTAAAATAATA
1 -ATATCTTGAAAATATTCGTAAAATAATA
189350 ATAT-TTGA
1 ATATCTTGA
189358 TATTGCATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (28 bp):
ATATCTTGAAAATATTCGTAAAATAATA
Done.