Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 357 of 410
Found at i:110169376 original size:9 final size:9
Alignment explanation
Indices: 110169347--110169376 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
110169337 TGAATTTTAC
110169347 AATTTGAAT
1 AATTTGAAT
*
110169356 AACTTGAAT
1 AATTTGAAT
110169365 AATTTGAAT
1 AATTTGAAT
110169374 AAT
1 AAT
110169377 AGATTGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (9 bp):
AATTTGAAT
Found at i:110181743 original size:20 final size:20
Alignment explanation
Indices: 110181711--110181837 Score: 80
Period size: 20 Copynumber: 6.1 Consensus size: 20
110181701 CATCATAGAT
110181711 GTGTAAA-AGAGGCACCAAA
1 GTGTAAATAGAGGCACCAAA
*
110181730 GTGTAGATAGAGGCA-CAAA
1 GTGTAAATAGAGGCACCAAA
*
110181749 -TGTACAATCAGAGGCACCATA
1 GTGTA-AAT-AGAGGCACCAAA
*
110181770 GTGCAAATAGAGGTAGAGGCACCAAA
1 GTG----TA-A-ATAGAGGCACCAAA
* * *
110181796 GTGAAAAAAGAGACACCAAA
1 GTGTAAATAGAGGCACCAAA
* * *
110181816 GTGTATACAGAGGCACCGAA
1 GTGTAAATAGAGGCACCAAA
110181836 GT
1 GT
110181838 ACAATCCCGT
Statistics
Matches: 83, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
18 4 0.05
19 12 0.14
20 42 0.51
21 4 0.05
22 3 0.04
26 17 0.20
27 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.13
Consensus pattern (20 bp):
GTGTAAATAGAGGCACCAAA
Found at i:110181788 original size:26 final size:26
Alignment explanation
Indices: 110181758--110181807 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
110181748 ATGTACAATC
* * *
110181758 AGAGGCACCATAGTGCAAATAGAGGT
1 AGAGGCACCAAAGTGAAAAAAGAGGT
110181784 AGAGGCACCAAAGTGAAAAAAGAG
1 AGAGGCACCAAAGTGAAAAAAGAG
110181808 ACACCAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.30, T:0.10
Consensus pattern (26 bp):
AGAGGCACCAAAGTGAAAAAAGAGGT
Found at i:110184480 original size:31 final size:31
Alignment explanation
Indices: 110184445--110184505 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
110184435 AACCATTACA
110184445 TGTTCATTTAACATTTAACATCTTTATTTCT
1 TGTTCATTTAACATTTAACATCTTTATTTCT
*
110184476 TGTTCATTTAATATTTAACATCTTTATTTC
1 TGTTCATTTAACATTTAACATCTTTATTTC
110184506 AAGTATTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (31 bp):
TGTTCATTTAACATTTAACATCTTTATTTCT
Found at i:110184560 original size:13 final size:13
Alignment explanation
Indices: 110184542--110184614 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
110184532 CACATGTTTA
110184542 TCATATAAATATT
1 TCATATAAATATT
* *
110184555 TCATATAAACACT
1 TCATATAAATATT
*
110184568 TCATAT-AATCGTT
1 TCATATAAAT-ATT
**
110184581 TCATATATCTATT
1 TCATATAAATATT
* *
110184594 AACATATAAACATT
1 -TCATATAAATATT
110184608 TCATATA
1 TCATATA
110184615 TCCATTTCAG
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
12 2 0.05
13 32 0.73
14 10 0.23
ACGTcount: A:0.42, C:0.15, G:0.01, T:0.41
Consensus pattern (13 bp):
TCATATAAATATT
Found at i:110184620 original size:13 final size:13
Alignment explanation
Indices: 110184542--110184623 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 13
110184532 CACATGTTTA
* *
110184542 TCATATAAATATT
1 TCATATATACATT
* *
110184555 TCATATAAACACT
1 TCATATATACATT
*
110184568 TCATATA-ATCGTT
1 TCATATATA-CATT
110184581 TCATATAT-CTATT
1 TCATATATAC-ATT
* *
110184594 AACATATAAACATT
1 -TCATATATACATT
*
110184608 TCATATATCCATT
1 TCATATATACATT
110184621 TCA
1 TCA
110184624 GATTACCATT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
12 2 0.04
13 42 0.78
14 9 0.17
15 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.41
Consensus pattern (13 bp):
TCATATATACATT
Found at i:110184721 original size:25 final size:25
Alignment explanation
Indices: 110184693--110184752 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
110184683 ACGCGAGAAC
* *
110184693 AATGCTCACACAAGTTGTG-GTGATA
1 AATGCTCACACAAGCTGTGACTG-TA
* *
110184718 AATGCTCAAACGAGCTGTGACTGTA
1 AATGCTCACACAAGCTGTGACTGTA
110184743 AATGCTCACA
1 AATGCTCACA
110184753 TGAACTGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTGACTGTA
Found at i:110190263 original size:18 final size:19
Alignment explanation
Indices: 110190231--110190275 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
110190221 TAAAAACTTG
*
110190231 AAAAGAAGAAA-AGAAATTC
1 AAAAAAAGAAAGA-AAATTC
110190250 AAAAAAAGAAAGAAAATTC
1 AAAAAAAGAAAGAAAATTC
110190269 AAAAAAA
1 AAAAAAA
110190276 ATCTTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.76, C:0.04, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAAAAAGAAAGAAAATTC
Found at i:110190841 original size:17 final size:16
Alignment explanation
Indices: 110190816--110190865 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
110190806 AACCAAAATG
*
110190816 ATTTCATTTAGTTTTAT
1 ATTTTATTTA-TTTTAT
110190833 ATTTTATTTATTTTTAT
1 ATTTTATTTA-TTTTAT
*
110190850 GTTTTATTTATTTTAT
1 ATTTTATTTATTTTAT
110190866 TATGCATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.20
17 24 0.80
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (16 bp):
ATTTTATTTATTTTAT
Found at i:110194259 original size:27 final size:27
Alignment explanation
Indices: 110194229--110194283 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
110194219 GGAAGTACTA
*
110194229 TACTAGTGACTATGTCACATTCACTGT
1 TACTAGTGACTATGCCACATTCACTGT
* * * *
110194256 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTAGTGACTATGCCACATTCACTGT
110194283 T
1 T
110194284 TCTGGCAACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (27 bp):
TACTAGTGACTATGCCACATTCACTGT
Found at i:110196091 original size:20 final size:20
Alignment explanation
Indices: 110196012--110196151 Score: 108
Period size: 20 Copynumber: 7.0 Consensus size: 20
110196002 CGTATAAACT
*
110196012 GTAATTCATTCATAT-AACCA
1 GTAATTCATCCATATCAA-CA
* *
110196032 GTAGTTCATCCGTAT-AACCA
1 GTAATTCATCCATATCAA-CA
* *
110196052 ATAATTC-TTCAGTAAT-AACA
1 GTAATTCATCCA-T-ATCAACA
*
110196072 GTAATTTATCCATATCAACA
1 GTAATTCATCCATATCAACA
* * *
110196092 GTAATTCATCCTTATCGATA
1 GTAATTCATCCATATCAACA
* *
110196112 GTAATTCATTCATTTCAACA
1 GTAATTCATCCATATCAACA
*
110196132 GTAATTCATCCATTTCAACA
1 GTAATTCATCCATATCAACA
110196152 TAGCTCATTC
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
19 4 0.04
20 85 0.89
21 7 0.07
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (20 bp):
GTAATTCATCCATATCAACA
Found at i:110196350 original size:23 final size:23
Alignment explanation
Indices: 110196320--110196445 Score: 105
Period size: 23 Copynumber: 5.3 Consensus size: 23
110196310 CTGATAAATA
110196320 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
* *
110196343 GTAAGCTCTATCGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACG
* *
110196365 GTAAGCTC-ATACGAGCTGAATCG
1 GTAAGCTCTAT-TGAGCTGAAACG
* * * *
110196388 GTAAGCTCCAATGAGCTAAAAACA
1 GTAAGCTCTATTGAGCT-GAAACG
110196412 GTAAGCTCTTATT-AGCTGATATATCG
1 GTAAGCTC-TATTGAGCTGA-A-A-CG
110196438 GTAAGCTC
1 GTAAGCTC
110196446 ATACGAGCTG
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.02
22 18 0.22
23 33 0.40
24 17 0.21
25 3 0.04
26 9 0.11
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACG
Found at i:110196404 original size:45 final size:46
Alignment explanation
Indices: 110196319--110196454 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 46
110196309 TCTGATAAAT
* * *
110196319 AGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATCGAGCT-GAAC
1 AGTAAGCTCTATCGAGCTGAAACGGTAAGCTCAATCGAGCTAAAAC
*
110196364 AGTAAGCTC-ATACGAGCTGAATCGGTAAGCTCCAAT-GAGCTAAAAAC
1 AGTAAGCTCTAT-CGAGCTGAAACGGTAAGCT-CAATCGAGCT-AAAAC
*
110196411 AGTAAGCTCTTAT-TAGCTGATATATCGGTAAGCTC-ATACGAGCT
1 AGTAAGCTC-TATCGAGCTGA-A-A-CGGTAAGCTCAAT-CGAGCT
110196455 GTGGTGAGTC
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
44 2 0.03
45 31 0.42
46 3 0.04
47 18 0.24
48 3 0.04
49 3 0.04
50 14 0.19
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (46 bp):
AGTAAGCTCTATCGAGCTGAAACGGTAAGCTCAATCGAGCTAAAAC
Found at i:110203320 original size:16 final size:16
Alignment explanation
Indices: 110203290--110203319 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
110203280 AAGAAAACAA
110203290 AAAGAAAGAATAAAAG
1 AAAGAAAGAATAAAAG
110203306 AAAGAAA-AATAAAA
1 AAAGAAAGAATAAAA
110203320 ATAAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAGAAAGAATAAAAG
Found at i:110208951 original size:18 final size:17
Alignment explanation
Indices: 110208930--110208963 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
110208920 TCCAAAACTA
110208930 AAACAACTCCAAAAATTC
1 AAAC-ACTCCAAAAATTC
*
110208948 AAACAGTCCAAAAATT
1 AAACACTCCAAAAATT
110208964 TACAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.24, G:0.03, T:0.18
Consensus pattern (17 bp):
AAACACTCCAAAAATTC
Found at i:110212437 original size:15 final size:15
Alignment explanation
Indices: 110212406--110212445 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
110212396 CGAAGAAAAC
110212406 AAAAAGAAAAA-ATAA
1 AAAAAGAAAAACA-AA
110212421 AAGAAAGAAAAACAAA
1 AA-AAAGAAAAACAAA
110212437 AAAAAGAAA
1 AAAAAGAAA
110212446 CTGATAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 13 0.57
17 1 0.04
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAACAAA
Found at i:110215482 original size:85 final size:85
Alignment explanation
Indices: 110215385--110215557 Score: 328
Period size: 85 Copynumber: 2.0 Consensus size: 85
110215375 TAATAGAATA
110215385 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
1 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
*
110215450 ATAGTAAAAGGTATGTATAT
66 ATAATAAAAGGTATGTATAT
*
110215470 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTATATGAATA
1 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
110215535 ATAATAAAAGGTATGTATAT
66 ATAATAAAAGGTATGTATAT
110215555 ATA
1 ATA
110215558 TAATAGTAAT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (85 bp):
ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
ATAATAAAAGGTATGTATAT
Found at i:110215542 original size:25 final size:25
Alignment explanation
Indices: 110215504--110215562 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
110215494 ATAATAATGG
* *
110215504 TAATAATATTTAAAATATATGTATA
1 TAATAATATATAAAAGATATGTATA
*
110215529 TGAATAATA-ATAAAAGGTATGTATA
1 T-AATAATATATAAAAGATATGTATA
110215554 TATATAATA
1 TA-ATAATA
110215563 GTAATAATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 21 0.72
26 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (25 bp):
TAATAATATATAAAAGATATGTATA
Found at i:110215586 original size:3 final size:3
Alignment explanation
Indices: 110215557--110215686 Score: 84
Period size: 3 Copynumber: 44.0 Consensus size: 3
110215547 ATGTATATAT
* * * * * * * * *
110215557 ATA ATA GTA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
110215604 A-A ATA ATA GTA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** * *
110215651 ATA ACA ACA ATG AGG ATA AAA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
110215687 TATTAAGCAA
Statistics
Matches: 94, Mismatches: 31, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
2 2 0.02
3 92 0.98
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:110217258 original size:44 final size:44
Alignment explanation
Indices: 110217203--110217345 Score: 141
Period size: 44 Copynumber: 3.3 Consensus size: 44
110217193 ACCTGTTACC
*
110217203 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGGTCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
* * * * ** * * *
110217247 CTACTGTTTAGGGAG-ATAA-GATCTGC-AATTCAACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCTTCGTCTTCGATCTGCT-CCA
110217289 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
*
110217333 CTACTGTTTAGGG
1 CTACTGCTTAGGG
110217346 AGATAAGATC
Statistics
Matches: 73, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
41 1 0.01
42 22 0.30
43 14 0.19
44 35 0.48
45 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
Found at i:110217258 original size:86 final size:86
Alignment explanation
Indices: 110217108--110217390 Score: 338
Period size: 86 Copynumber: 3.3 Consensus size: 86
110217098 TAATTTTCAG
* * * * * * *
110217108 CCTGTTACCCTACTGCTTAGGGGATCAAGGCTT-GTCATCTTTGATCTGTTTCC-CTACTGCTTA
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGG-TTCTTCGTCTTCGATCTG-CTCCACTACTGTTTA
** *
110217171 GGG-TTTTAGATCTGTAAACTCAA
64 GGGAGATAAGATCTG-AAACTCAA
*
110217194 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGGTCTGCTCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGTTTAGG
* *
110217259 GAGATAAGATCTGCAATTCAA
66 GAGATAAGATCTGAAACTCAA
110217280 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGTTTAGG
* * ***
110217345 GAGATAAGATCTGTAATTTGG
66 GAGATAAGATCTGAAACTCAA
* *
110217366 CTTGTCACCCTACTGCTTAGGGGTT
1 CCTGTTACCCTACTGCTTAGGGGTT
110217391 AAAGCCTTCA
Statistics
Matches: 174, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
85 5 0.03
86 161 0.93
87 8 0.05
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGTTTAGG
GAGATAAGATCTGAAACTCAA
Found at i:110217551 original size:87 final size:86
Alignment explanation
Indices: 110217403--110217615 Score: 309
Period size: 87 Copynumber: 2.5 Consensus size: 86
110217393 AGCCTTCAAC
* * * * * *
110217403 CTGTTACCCTACTGCTTAGGGGTTAAGGTCTGTGAATTTAGCTTGTTACCCTACTGTTTAGGGGG
1 CTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGA
* *
110217468 TTAAAGCTCATTATCTTCGAT
66 TTAAAGCTCATCACCTTCGAT
* *
110217489 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTATCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
*
110217554 ATTAAGGCTCATCACCTTCGAT
65 ATTAAAGCTCATCACCTTCGAT
110217576 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATTT
1 CTGTTTCCCTACTGCTT-AGGGGTTAAGATCTGTAAATTT
110217616 TCAATCTACT
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
86 20 0.18
87 89 0.79
88 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (86 bp):
CTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGA
TTAAAGCTCATCACCTTCGAT
Found at i:110217603 original size:44 final size:43
Alignment explanation
Indices: 110217403--110217603 Score: 162
Period size: 44 Copynumber: 4.6 Consensus size: 43
110217393 AGCCTTCAAC
* * *
110217403 CTGTTACCCTACTGCTTAGGGGTTAAGG-TC-TGTGAATTTAGCT
1 CTGTTACCCTACTGCTTAGGGGTTAAGGCTCAT-T-AACTTCGAT
* * *
110217446 -TGTTACCCTACTGTTTAGGGGGTTAAAGCTCATTATCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAGGCTCATTAACTTCGAT
* * * * *
110217489 CTGTTTCCCTACTGCTTAGGGTGATAA-GATC-TGTAAATT-TAT
1 CTGTTACCCTACTGCTTAGGG-GTTAAGGCTCAT-TAACTTCGAT
* *
110217531 CCTGTTACCCTACTGCTTAGGGGATTAAGGCTCATCACCTTCGAT
1 -CTGTTACCCTACTGCTTAGGGG-TTAAGGCTCATTAACTTCGAT
*
110217576 CTGTTTCCCTACTGCTTAAGGGGTTAAG
1 CTGTTACCCTACTGCTT-AGGGGTTAAG
110217604 ATCTGTAAAT
Statistics
Matches: 125, Mismatches: 21, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
42 20 0.16
43 47 0.38
44 49 0.39
45 9 0.07
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGGCTCATTAACTTCGAT
Found at i:110229926 original size:87 final size:87
Alignment explanation
Indices: 110229828--110230003 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
110229818 AGAATAACAG
*
110229828 TAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATAATAG
1 TAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATAATAA
110229893 TAAAAGGTATGTATATATATAA
66 TAAAAGGTATGTATATATATAA
*
110229915 TAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTGAAATATATGTACATGAATAATAA
1 TAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATAATAA
110229980 TAAAAGGTATGTATATATATAA
66 TAAAAGGTATGTATATATATAA
110230002 TA
1 TA
110230004 GTAATAATGG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (87 bp):
TAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATAATAA
TAAAAGGTATGTATATATATAA
Found at i:110230027 original size:3 final size:3
Alignment explanation
Indices: 110229998--110230156 Score: 90
Period size: 3 Copynumber: 53.3 Consensus size: 3
110229988 ATGTATATAT
* * * * * * * * *
110229998 ATA ATA GTA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
110230045 A-A ATA ATA GTA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * * *
110230092 ATG AGG ATA AAA ATA ATA ACA ATA AT- ATA TTA AGCA ACAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA
* *
110230138 ATG ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
110230157 AGAAATGGGA
Statistics
Matches: 113, Mismatches: 39, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
2 4 0.04
3 105 0.93
4 4 0.04
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:110233936 original size:19 final size:19
Alignment explanation
Indices: 110233897--110233935 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
110233887 CATTTTAGAG
110233897 TTAAAATAAAATTACTTTT
1 TTAAAATAAAATTACTTTT
110233916 TTAAAA-AAATATTA-TTTT
1 TTAAAATAAA-ATTACTTTT
110233934 TT
1 TT
110233936 TTACTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAATAAAATTACTTTT
Found at i:110234524 original size:19 final size:19
Alignment explanation
Indices: 110234482--110234524 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
110234472 AAGTTTTAGG
**
110234482 GTTTAGGGTGGTTTATTTT
1 GTTTAGGGTGGTTTAAATT
110234501 GTTTAGGGTGGTTTTAAATT
1 GTTTAGGGTGG-TTTAAATT
110234521 -TTTA
1 GTTTA
110234525 TGTGTTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (19 bp):
GTTTAGGGTGGTTTAAATT
Found at i:110235046 original size:13 final size:12
Alignment explanation
Indices: 110235024--110235067 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
110235014 TCGTTATATA
*
110235024 AAAAAGTAAAAT
1 AAAAATTAAAAT
110235036 ACAAAATTAAAACT
1 A-AAAATTAAAA-T
110235050 AAAAATCTAAAAT
1 AAAAAT-TAAAAT
110235063 AAAAA
1 AAAAA
110235068 ATAGTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.04
13 20 0.71
14 7 0.25
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (12 bp):
AAAAATTAAAAT
Found at i:110249613 original size:6 final size:6
Alignment explanation
Indices: 110249595--110249624 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
110249585 ATTATTGTCA
*
110249595 CCCTCC CCGTCC CCCTCC CCCTCC CCCTCC
1 CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC
110249625 TACTCTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.80, G:0.03, T:0.17
Consensus pattern (6 bp):
CCCTCC
Found at i:110255845 original size:2 final size:2
Alignment explanation
Indices: 110255838--110255863 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110255828 CAATTGTTGC
110255838 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
110255864 TCAATTGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110263732 original size:38 final size:37
Alignment explanation
Indices: 110263676--110263754 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
110263666 GTAAAAGAAG
*
110263676 AAATCCGGACTTAGAGTCCGCAGGCTATA-TGCTGGAA
1 AAATCCGGACTTAAAGTCCGCAGGCTA-AGTGCTGGAA
*
110263713 TAAATCTGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
1 -AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
110263751 AAAT
1 AAAT
110263755 ATCCGGGTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 5 0.13
38 33 0.87
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (37 bp):
AAATCCGGACTTAAAGTCCGCAGGCTAAGTGCTGGAA
Found at i:110267605 original size:18 final size:18
Alignment explanation
Indices: 110267582--110267641 Score: 111
Period size: 18 Copynumber: 3.3 Consensus size: 18
110267572 ACCGAGTTTC
110267582 CTTAAGGATAAGCAAATG
1 CTTAAGGATAAGCAAATG
110267600 CTTAAGGATAAGCAAATG
1 CTTAAGGATAAGCAAATG
*
110267618 CTTAAGGATAATCAAATG
1 CTTAAGGATAAGCAAATG
110267636 CTTAAG
1 CTTAAG
110267642 TGTGGGGGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (18 bp):
CTTAAGGATAAGCAAATG
Found at i:110267858 original size:300 final size:300
Alignment explanation
Indices: 110267316--110267874 Score: 1010
Period size: 300 Copynumber: 1.9 Consensus size: 300
110267306 TTGAGGATTT
110267316 TGCTTAAGGATAAGCAAATACTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
1 TGCTTAAGGATAAGCAAATACTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
*
110267381 TACCTCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
66 TACCCCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
* *
110267446 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAGGAGAGTAAAAAGAGCGAGAAACGGGCCGA
131 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAGGCCGA
** *
110267511 AAATGGAGAAAATGGGCCAACGTGGGAAATCAACACTGCTTGGACTTCCTCAAACAGGTAGACCG
196 AAACAGAGAAAATGGGCCAACGTGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACCG
110267576 AGTTTCCTTAAGGATAAGCAAATGCTTAAGGATAAGCAAA
261 AGTTTCCTTAAGGATAAGCAAATGCTTAAGGATAAGCAAA
* * *
110267616 TGCTTAAGGATAATCAAATGCTTAAGTGTGGGGGTATTTGATAAGTCGTAATTTATACATATTTT
1 TGCTTAAGGATAAGCAAATACTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
* * *
110267681 TACCCCATGCTTAGCACATTTTTGGATGATTTATCTTTAGATTTGGTGAATTCGATGTTCTTAAT
66 TACCCCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
110267746 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAGGCCGA
131 CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAGGCCGA
110267811 AAACAGAGAAAATGGGCCAACGTGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACC
196 AAACAGAGAAAATGGGCCAACGTGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACC
110267875 ACACTATCGT
Statistics
Matches: 247, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
300 247 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (300 bp):
TGCTTAAGGATAAGCAAATACTTAAGTGTGGGGCTATTTGATAAGTCGTAATTTATACATATTTT
TACCCCAAGCTTAGCACATTTTTGGATGATTTATCCTTAGATTTGGTGAATTCGATGTTCCTAAT
CCTTTAATTTCATGTTTTATACTTAGATGAGCATAAGAGAGTAAAAAGAGCGAGAAACAGGCCGA
AAACAGAGAAAATGGGCCAACGTGGGAAATCAACACTGCCTGGACTTCCTCAAACAGGTAGACCG
AGTTTCCTTAAGGATAAGCAAATGCTTAAGGATAAGCAAA
Found at i:110269049 original size:48 final size:49
Alignment explanation
Indices: 110268993--110269102 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 49
110268983 TGCTCAATCA
* * **
110268993 GTCTTACACTGGCTTATA-TGTCGAGGCCGATGTCATGTCCCAAAAATG
1 GTCTTACACTGGCTTATAGTCTCAAGGCCGATACCATGTCCCAAAAATG
* * * *
110269041 GTCTTACACTAGC-TATAGTCTCAATGCCGATACCATGTCCCAGACATG
1 GTCTTACACTGGCTTATAGTCTCAAGGCCGATACCATGTCCCAAAAATG
110269089 GTCTTACACTGGCT
1 GTCTTACACTGGCT
110269103 CTCATAACAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
47 4 0.08
48 47 0.92
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
GTCTTACACTGGCTTATAGTCTCAAGGCCGATACCATGTCCCAAAAATG
Found at i:110269125 original size:48 final size:48
Alignment explanation
Indices: 110269073--110269194 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
110269063 AATGCCGATA
* * ** *
110269073 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCTCATAACATGGCCGACG
* * * *
110269121 CCATGTTCCAAACATGGTCTTACACTGACTCTCATATCGTGGCCGACG
1 CCATGTCCCAGACATGGTCTTACACTGACTCTCATAACATGGCCGACG
*
110269169 CCATGTCCTAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
110269195 AGCACACATA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCTCATAACATGGCCGACG
Found at i:110280117 original size:16 final size:16
Alignment explanation
Indices: 110280059--110280125 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 16
110280049 TTAATAATGT
110280059 TATTAAAATATATATTA
1 TATTAAAATATA-ATTA
* *
110280076 T-TT-TATTA-AATTA
1 TATTAAAATATAATTA
*
110280089 TATT-TAATAATAATTA
1 TATTAAAAT-ATAATTA
110280105 TATTAAAATATAATTA
1 TATTAAAATATAATTA
*
110280121 AATTA
1 TATTA
110280126 TTTATTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 5 0.12
14 6 0.15
15 4 0.10
16 22 0.54
17 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAAATATAATTA
Found at i:110280330 original size:44 final size:46
Alignment explanation
Indices: 110280260--110280349 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 46
110280250 ATTACAACAT
110280260 CATTCCATTCAACCAAACATAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
*
110280304 CATTCCATTCAACCAAACAGT-TGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAATTACTGATTACAGCTCTATTC
110280350 TATTACAGCT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 24 0.57
45 3 0.07
46 15 0.36
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (46 bp):
CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
Found at i:110280356 original size:16 final size:16
Alignment explanation
Indices: 110280335--110280404 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
110280325 TGAATTACTG
*
110280335 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
110280351 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
110280367 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
110280383 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
110280399 ATTACA
1 ATTACA
110280405 ATGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:110287909 original size:20 final size:20
Alignment explanation
Indices: 110287872--110287909 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
110287862 TGATGTGGAA
*
110287872 AGTTAACTGCTACAGTGGCC
1 AGTTAACTGCCACAGTGGCC
110287892 AGTTAACTTGCCAC-GTGG
1 AGTTAAC-TGCCACAGTGG
110287910 GATGTCCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (20 bp):
AGTTAACTGCCACAGTGGCC
Found at i:110288341 original size:20 final size:21
Alignment explanation
Indices: 110288312--110288350 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
110288302 TTTTCTCTTT
*
110288312 TCCTCGTTCTTCTTCTTCTCC
1 TCCTCGTTCTCCTTCTTCTCC
110288333 TCCTC-TTCTCCTTCTTCT
1 TCCTCGTTCTCCTTCTTCT
110288351 TTTTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.54
Consensus pattern (21 bp):
TCCTCGTTCTCCTTCTTCTCC
Found at i:110292434 original size:24 final size:24
Alignment explanation
Indices: 110292402--110292451 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
110292392 CACACTGAAA
*
110292402 TATAGGTGGGGGTGAATAGAACCT
1 TATAGGTGGGGGCGAATAGAACCT
110292426 TATAGGTGGGGGCGAATAGAACCT
1 TATAGGTGGGGGCGAATAGAACCT
110292450 TA
1 TA
110292452 AAGAAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.10, G:0.36, T:0.24
Consensus pattern (24 bp):
TATAGGTGGGGGCGAATAGAACCT
Found at i:110297355 original size:5 final size:5
Alignment explanation
Indices: 110297345--110297387 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
110297335 ATCCTTATTT
110297345 AAATA AAATA AAGTGATA AAATA AAATA AAATA AAAGTA AAAT
1 AAATA AAATA AA---ATA AAATA AAATA AAATA AAA-TA AAAT
110297388 CCATATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 24 0.71
6 5 0.15
8 5 0.15
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:110304233 original size:17 final size:17
Alignment explanation
Indices: 110304211--110304245 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
110304201 AAGGATTATC
110304211 CCCTCTTTATTGTAATA
1 CCCTCTTTATTGTAATA
110304228 CCCTCTTTATTGTAATA
1 CCCTCTTTATTGTAATA
110304245 C
1 C
110304246 AACCAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.46
Consensus pattern (17 bp):
CCCTCTTTATTGTAATA
Found at i:110308945 original size:21 final size:22
Alignment explanation
Indices: 110308910--110308950 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
110308900 GCTATATTAT
*
110308910 ATGATGAAATGATGATTTGAGA
1 ATGATGAAATGATGAATTGAGA
*
110308932 ATGAT-AAATTATGAATTGA
1 ATGATGAAATGATGAATTGA
110308951 ATCATATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (22 bp):
ATGATGAAATGATGAATTGAGA
Found at i:110315102 original size:15 final size:15
Alignment explanation
Indices: 110315082--110315132 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
110315072 TCATATTTAA
110315082 AAAAATAAAAATTTT
1 AAAAATAAAAATTTT
* *
110315097 AAAAATTATAATTGTT
1 AAAAATAAAAATT-TT
110315113 -AAAATAAAAACTATTT
1 AAAAATAAAAA-T-TTT
110315129 AAAA
1 AAAA
110315133 TTCAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 19 0.68
16 5 0.18
17 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAAATAAAAATTTT
Found at i:110315157 original size:17 final size:17
Alignment explanation
Indices: 110315136--110315174 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
110315126 TTTAAAATTC
*
110315136 AAAAATAAAAAATATTTT
1 AAAAATAAAAAAT-TTCT
*
110315154 AAAAATAGAAAATTTCT
1 AAAAATAAAAAATTTCT
110315171 AAAA
1 AAAA
110315175 TTTAGTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAATAAAAAATTTCT
Found at i:110315166 original size:25 final size:24
Alignment explanation
Indices: 110315113--110315159 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
110315103 TATAATTGTT
* *
110315113 AAAATAAAAACTATTTAAAATTCA
1 AAAATAAAAAATATTTAAAAATCA
110315137 AAAATAAAAAATATTTTAAAAAT
1 AAAATAAAAAATA-TTTAAAAAT
110315160 AGAAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAAAAATATTTAAAAATCA
Found at i:110316798 original size:3 final size:3
Alignment explanation
Indices: 110316790--110316834 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
110316780 TACTATTTCA
110316790 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
110316835 TAGGTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:110317230 original size:7 final size:6
Alignment explanation
Indices: 110317189--110317229 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
110317179 ATAATTTAAT
*
110317189 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
110317230 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:110317230 original size:20 final size:20
Alignment explanation
Indices: 110317192--110317231 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
110317182 ATTTAATAAA
**
110317192 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
110317212 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
110317232 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:110317263 original size:9 final size:9
Alignment explanation
Indices: 110317258--110317298 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
110317248 ATAATTCAGT
110317258 TAATTCGGG
1 TAATTCGGG
110317267 TAATTCGGG
1 TAATTCGGG
* *
110317276 TAATTCAGA
1 TAATTCGGG
*
110317285 TAATTCGGT
1 TAATTCGGG
110317294 TAATT
1 TAATT
110317299 TGATTAATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (9 bp):
TAATTCGGG
Found at i:110317272 original size:18 final size:18
Alignment explanation
Indices: 110317248--110317316 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
110317238 TTTTATACAA
* *
110317248 ATAATTCAGTTAATTCGG
1 ATAATTCGGTTAATTCAG
* *
110317266 GTAATTCGGGTAATTCAG
1 ATAATTCGGTTAATTCAG
*
110317284 ATAATTCGGTTAATT-TG
1 ATAATTCGGTTAATTCAG
*
110317301 ATTAATCCGGTTAATT
1 A-TAATTCGGTTAATT
110317317 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 40 0.95
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (18 bp):
ATAATTCGGTTAATTCAG
Found at i:110319701 original size:14 final size:14
Alignment explanation
Indices: 110319667--110319693 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110319657 GCTACTATTT
110319667 TACTATTATGTTGA
1 TACTATTATGTTGA
110319681 TACTATTATGTTG
1 TACTATTATGTTG
110319694 TTATTATTTA
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:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGA
Found at i:110321350 original size:21 final size:18
Alignment explanation
Indices: 110321317--110321359 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
110321307 TGAAATAATA
110321317 ATAAAACAATAATTGCAAT
1 ATAAAACAATAATTG-AAT
110321336 ATAAAATCAAATAATTGAAT
1 ATAAAA-C-AATAATTGAAT
110321356 -TAAA
1 ATAAA
110321360 TTGGTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.45
20 4 0.18
21 8 0.36
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAAAACAATAATTGAAT
Found at i:110329575 original size:23 final size:23
Alignment explanation
Indices: 110329534--110329584 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 23
110329524 TTCCTCTTTT
110329534 TTTTTCATTTTTATTAATTTG-A
1 TTTTTCATTTTTATTAATTTGAA
110329556 TTTTT-ATTTTTAGTTCAATTTGAA
1 TTTTTCATTTTTA-TT-AATTTGAA
110329580 TTTTT
1 TTTTT
110329585 TTTAAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.27
22 7 0.27
23 6 0.23
24 6 0.23
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (23 bp):
TTTTTCATTTTTATTAATTTGAA
Found at i:110331685 original size:38 final size:38
Alignment explanation
Indices: 110331642--110331722 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
110331632 AGAGTGACTC
110331642 AATTTTGATGTATGTTATAAAACAGTTATTTTGATTTT
1 AATTTTGATGTATGTTATAAAACAGTTATTTTGATTTT
110331680 AATTTTGATGTATGTTATAAAACAGTTATTTTGATTTT
1 AATTTTGATGTATGTTATAAAACAGTTATTTTGATTTT
110331718 AATTT
1 AATTT
110331723 AATTATTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.53
Consensus pattern (38 bp):
AATTTTGATGTATGTTATAAAACAGTTATTTTGATTTT
Found at i:110332586 original size:15 final size:17
Alignment explanation
Indices: 110332546--110332591 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
110332536 TTTATGTTAA
*
110332546 ATATATTTAATAATTTT
1 ATATAATTAATAATTTT
*
110332563 ATGTAATTAA-AATTTT
1 ATATAATTAATAATTTT
110332579 A-ATAATTAATAAT
1 ATATAATTAATAAT
110332592 GTAATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATAATTAATAATTTT
Found at i:110332593 original size:27 final size:26
Alignment explanation
Indices: 110332542--110332608 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
110332532 ATCTTTTATG
*
110332542 TTAAATATATTTAATAATTTTATGTAA
1 TTAAATAT-TTTAATAATTTAATGTAA
110332569 TTAAA-ATTTTAATAATTAATAATGTAA
1 TTAAATATTTTAATAATT--TAATGTAA
*
110332596 TAAAATATTTTAA
1 TTAAATATTTTAA
110332609 AGAAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 10 0.29
26 2 0.06
27 16 0.46
28 7 0.20
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
TTAAATATTTTAATAATTTAATGTAA
Found at i:110335313 original size:21 final size:21
Alignment explanation
Indices: 110335293--110335338 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
110335283 TATTCAAATA
110335293 ATTATC-GAACATATTATAAT
1 ATTATCAGAACATATTATAAT
* * *
110335313 ATAATCATAATATATTATAAT
1 ATTATCAGAACATATTATAAT
110335334 ATTAT
1 ATTAT
110335339 AATATTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTATCAGAACATATTATAAT
Found at i:110335337 original size:8 final size:8
Alignment explanation
Indices: 110335303--110335348 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
110335293 ATTATCGAAC
110335303 ATATTATA
1 ATATTATA
* *
110335311 ATATAATC
1 ATATTATA
110335319 ATA--AT-
1 ATATTATA
110335324 ATATTATA
1 ATATTATA
110335332 ATATTATA
1 ATATTATA
110335340 ATATTATA
1 ATATTATA
110335348 A
1 A
110335349 CTGAAGCAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 2 0.06
8 26 0.79
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (8 bp):
ATATTATA
Found at i:110335347 original size:21 final size:21
Alignment explanation
Indices: 110335303--110335347 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
110335293 ATTATCGAAC
*
110335303 ATATTATAATATAATCATAAT
1 ATATTATAATATAATAATAAT
* *
110335324 ATATTATAATATTATAATATT
1 ATATTATAATATAATAATAAT
110335345 ATA
1 ATA
110335348 ACTGAAGCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTATAATATAATAATAAT
Found at i:110340243 original size:143 final size:143
Alignment explanation
Indices: 110339956--110340245 Score: 315
Period size: 143 Copynumber: 2.0 Consensus size: 143
110339946 GAAAATTAAG
* * * *
110339956 TAAAATATAATTACTAATTAAATAATTATATTAGGAGATTTTTTTATTAGTAAATAAATTGAAAG
1 TAAAATATAATTACTAATTAAATAATTATATTAGAAGATTTTTGTATGAGTAAATAAATTAAAAG
* * * * * * * *
110340021 TATGACAATTGTATGGTATTGATATTGTACAAATGTACAAAAATATATGTGTACAGTTATAGTAT
66 AAAGACAAATGGATGGTATTGATAATATACAAATGTACAAAAATATAAGTGTACAGTTATAATAT
*
110340086 TTGTACTTGTTAT
131 ATGTACTTGTTAT
* *
110340099 TAAAATA-AATTA-TAATTTATATTAATTATATTATAAGATTTTTGTATGA-TAAATAAA-TAAA
1 TAAAATATAATTACTAA-TTA-AATAATTATATTAGAAGATTTTTGTATGAGTAAATAAATTAAA
*
110340160 AGAAAGACAAATGGATGGT-TATGATAATATACAAATGTA-AAAATATTTATAAGTGTACA-TTG
64 AGAAAGACAAATGGATGGTAT-TGATAATATACAAATGTACAAAA-A--TATAAGTGTACAGTTA
*
110340222 TAATATATGTATTTGTGTAT
125 TAATATATGTACTTGT-TAT
110340242 TAAA
1 TAAA
110340246 TAGATATTTA
Statistics
Matches: 123, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
140 5 0.04
141 38 0.31
142 31 0.25
143 49 0.40
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (143 bp):
TAAAATATAATTACTAATTAAATAATTATATTAGAAGATTTTTGTATGAGTAAATAAATTAAAAG
AAAGACAAATGGATGGTATTGATAATATACAAATGTACAAAAATATAAGTGTACAGTTATAATAT
ATGTACTTGTTAT
Found at i:110340923 original size:17 final size:18
Alignment explanation
Indices: 110340901--110340936 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
110340891 TAAATGAGTT
110340901 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
110340918 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
110340936 A
1 A
110340937 TAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:110341650 original size:38 final size:39
Alignment explanation
Indices: 110341548--110341650 Score: 102
Period size: 38 Copynumber: 2.6 Consensus size: 39
110341538 ACTTCAACCT
**
110341548 CAATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATT
1 CAATGAGACACTGGGTGTCA-ACT-TTACTTCGGATAGAGC
* ** * *
110341589 CGATGAGGTACTGGGTG-CCACTTTACTTCGGCTAG-GC
1 CAATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
110341626 CAATGAGACACTGTGTGTCAACTTT
1 CAATGAGACACTGGGTGTCAACTTT
110341651 GTTTCGAACT
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
37 13 0.27
38 18 0.37
39 3 0.06
40 1 0.02
41 14 0.29
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (39 bp):
CAATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:110343833 original size:43 final size:43
Alignment explanation
Indices: 110343721--110343843 Score: 203
Period size: 42 Copynumber: 2.9 Consensus size: 43
110343711 CCAGATAACG
*
110343721 ATGCCAATGTCCCAGACATGGTCTTACACGTATTTACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACAATACA
*
110343764 ATGCCAAT-TCCCAGACATAGTCTTACACGTATTCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACAATACA
* *
110343806 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACA
110343844 TCTCGGTAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
42 40 0.54
43 34 0.46
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTATTCACAATACA
Found at i:110351353 original size:31 final size:31
Alignment explanation
Indices: 110351318--110351381 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
110351308 TAATCCTTAA
* *
110351318 AACATGTTTTTCCCTGATCTTGAATTAAATT
1 AACATGTTTTTCCCCGATCTTGAACTAAATT
110351349 AACATGTTTTTCCCCGATCTTGAACTAAATT
1 AACATGTTTTTCCCCGATCTTGAACTAAATT
110351380 AA
1 AA
110351382 TAATTTCATT
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:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (31 bp):
AACATGTTTTTCCCCGATCTTGAACTAAATT
Found at i:110353025 original size:31 final size:30
Alignment explanation
Indices: 110352987--110353045 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
110352977 CACCCTTAAA
* * *
110352987 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCCTCAAATTTTTC
110353018 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
110353046 GAGTATTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:110363554 original size:27 final size:27
Alignment explanation
Indices: 110363534--110363586 Score: 97
Period size: 27 Copynumber: 1.9 Consensus size: 27
110363524 TAAACAAATT
110363534 TAAATAAATAAATAAAATAAAAATATG
1 TAAATAAATAAATAAAATAAAAATATG
110363561 TAAATAAATAAATAAAATTAAAAATA
1 TAAATAAATAAATAAAA-TAAAAATA
110363587 CAACTTCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (27 bp):
TAAATAAATAAATAAAATAAAAATATG
Found at i:110363941 original size:14 final size:15
Alignment explanation
Indices: 110363899--110363941 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
110363889 AAATATTATT
*
110363899 AAAT-ATCAAATAATA
1 AAATAATCAAA-ATTA
110363914 AAATAATCAAAATTA
1 AAATAATCAAAATTA
110363929 AAATAAT-AAAATT
1 AAATAATCAAAATT
110363942 GGATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.23
15 14 0.54
16 6 0.23
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAATCAAAATTA
Found at i:110364378 original size:2 final size:2
Alignment explanation
Indices: 110364371--110364395 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
110364361 AATAAAAACT
110364371 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 T
110364396 GTAAATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:110365224 original size:30 final size:31
Alignment explanation
Indices: 110365184--110365255 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 31
110365174 AGTTTATATA
*
110365184 TTTATAATTTTTGAA-AGATTAAAATA-AATT
1 TTTATTATTTTTGAAGAG-TTAAAATATAATT
110365214 TTTATTATTTTTGAAGAGTTAAAATATAATT
1 TTTATTATTTTTGAAGAGTTAAAATATAATT
110365245 TTATAATTATT
1 TT-T-ATTATT
110365256 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 22 0.59
31 8 0.22
32 1 0.03
33 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTATTATTTTTGAAGAGTTAAAATATAATT
Found at i:110365764 original size:20 final size:20
Alignment explanation
Indices: 110365732--110365770 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
110365722 CATTTGAAAT
110365732 TTCTATAAATATATTTATAA
1 TTCTATAAATATATTTATAA
110365752 TTCTA-AAATTATATTTATA
1 TTCTATAAA-TATATTTATA
110365771 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCTATAAATATATTTATAA
Found at i:110375692 original size:2 final size:2
Alignment explanation
Indices: 110375685--110375724 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
110375675 CCTGATTTTA
110375685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110375725 GTGTGTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110378269 original size:44 final size:44
Alignment explanation
Indices: 110378213--110378304 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
110378203 GAATTAAACT
* *
110378213 GAAGTAACAGTACGGCACATATGGTGCCTCATCAACTCGAA-GTC
1 GAAGTAACAGTACGACACATATAGTGCCTCATCAACTC-AAGGTC
* * *
110378257 GAAGTAATAGTACGACACTTATAGTGCCTCATCGACTCAAGGTC
1 GAAGTAACAGTACGACACATATAGTGCCTCATCAACTCAAGGTC
110378301 GAAG
1 GAAG
110378305 CATCCCTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (44 bp):
GAAGTAACAGTACGACACATATAGTGCCTCATCAACTCAAGGTC
Found at i:110378451 original size:13 final size:13
Alignment explanation
Indices: 110378433--110378464 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
110378423 TTCACAATAA
110378433 TAAAACCCTAATT
1 TAAAACCCTAATT
110378446 TAAAACCCTAATT
1 TAAAACCCTAATT
110378459 TAAAAC
1 TAAAAC
110378465 TTCTTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAACCCTAATT
Found at i:110378756 original size:13 final size:14
Alignment explanation
Indices: 110378734--110378763 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
110378724 CTAATTTCTC
110378734 CTTTTATTTTCTTT
1 CTTTTATTTTCTTT
110378748 CTTTT-TTTTCTTT
1 CTTTTATTTTCTTT
110378761 CTT
1 CTT
110378764 CTGTTTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (14 bp):
CTTTTATTTTCTTT
Found at i:110378853 original size:3 final size:3
Alignment explanation
Indices: 110378845--110378895 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
110378835 TTTATTAACT
* *
110378845 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110378893 TAA
1 TAA
110378896 ATATCTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:110379163 original size:20 final size:20
Alignment explanation
Indices: 110379140--110379196 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
110379130 TTAATTTATT
110379140 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
110379160 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
*
110379180 TTTGATAGAATAATAAT
1 TTT-A-ATAATAATAAT
110379197 AATGATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 1 0.03
22 7 0.23
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:110379214 original size:17 final size:17
Alignment explanation
Indices: 110379162--110379211 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
110379152 AATCATAATT
*
110379162 TAATAAT-ATA-AATTA
1 TAATAATGATAGAATAA
*
110379177 TAAT-TTGATAGAATAA
1 TAATAATGATAGAATAA
110379193 TAATAATGATA-AATAA
1 TAATAATGATAGAATAA
110379209 TAA
1 TAA
110379212 ATATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATGATAGAATAA
Found at i:110386363 original size:13 final size:14
Alignment explanation
Indices: 110386330--110386366 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
110386320 GCTTCTGTTG
110386330 TTCTTTCTTTCATT
1 TTCTTTCTTTCATT
110386344 TTCTTTCTTT-A-T
1 TTCTTTCTTTCATT
110386356 TTCATTTCTTT
1 TTC-TTTCTTT
110386367 TATTCTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 8 0.36
14 10 0.45
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTTCTTTCATT
Found at i:110386375 original size:17 final size:18
Alignment explanation
Indices: 110386330--110386376 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
110386320 GCTTCTGTTG
110386330 TTCTTTCTTTCATTTTCT
1 TTCTTTCTTTCATTTTCT
*
110386348 TTCTTTATTTCA-TTTCT
1 TTCTTTCTTTCATTTTCT
110386365 TT-TATTCTTTCA
1 TTCT-TTCTTTCA
110386377 CTTTATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 1 0.04
17 14 0.54
18 11 0.42
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (18 bp):
TTCTTTCTTTCATTTTCT
Found at i:110386396 original size:3 final size:3
Alignment explanation
Indices: 110386388--110386423 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
110386378 TTTATTAACT
110386388 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110386424 ATATCTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:110386717 original size:16 final size:16
Alignment explanation
Indices: 110386672--110386721 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
110386662 AGTCCTAATT
*
110386672 TAATAAT-ATAAATTA
1 TAATAATGATAAATAA
*
110386687 TAAT-TTGATAGAATAA
1 TAATAATGATA-AATAA
110386703 TAATAATGATAAATAA
1 TAATAATGATAAATAA
110386719 TAA
1 TAA
110386722 ATATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TAATAATGATAAATAA
Found at i:110391450 original size:20 final size:20
Alignment explanation
Indices: 110391425--110391470 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
110391415 GTTGGGCCTT
110391425 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
110391445 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
110391464 GCCCATA
1 GCCCATA
110391471 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:110391479 original size:19 final size:20
Alignment explanation
Indices: 110391437--110391480 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
110391427 CCATATTAAC
** *
110391437 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
110391457 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
110391476 ACAGT
1 ACAGT
110391481 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:110395165 original size:12 final size:12
Alignment explanation
Indices: 110395144--110395173 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
110395134 GCTACAGTAA
110395144 AACTAACAAACT
1 AACTAACAAACT
*
110395156 AACTATCAAACT
1 AACTAACAAACT
110395168 AACTAA
1 AACTAA
110395174 AAATAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (12 bp):
AACTAACAAACT
Found at i:110398581 original size:24 final size:23
Alignment explanation
Indices: 110398529--110398581 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
110398519 TAGTAAAGTA
* * *
110398529 AAATTTTATCATTTTAATAGTTT
1 AAATTTTATAATTTTAAAAGATT
110398552 ATAATTTTATAATTTTTAAAAGATT
1 A-AATTTTATAA-TTTTAAAAGATT
110398577 AAATT
1 AAATT
110398582 AATTTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 13 0.52
25 11 0.44
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
AAATTTTATAATTTTAAAAGATT
Found at i:110400284 original size:20 final size:20
Alignment explanation
Indices: 110400256--110400305 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
110400246 TAATTGAGGT
*
110400256 AAATGTGATATGGAATTATG
1 AAATATGATATGGAATTATG
* *
110400276 AAATATGATATTGAATTGTG
1 AAATATGATATGGAATTATG
*
110400296 -TATATGATAT
1 AAATATGATAT
110400306 TATAGATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (20 bp):
AAATATGATATGGAATTATG
Found at i:110404116 original size:13 final size:13
Alignment explanation
Indices: 110404098--110404123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110404088 AAAAAAGTTC
110404098 AAAATAATAGGTT
1 AAAATAATAGGTT
110404111 AAAATAATAGGTT
1 AAAATAATAGGTT
110404124 TTTTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AAAATAATAGGTT
Found at i:110406892 original size:12 final size:11
Alignment explanation
Indices: 110406875--110406908 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
110406865 TTAGTACTTA
110406875 TTTTTTTCTTCT
1 TTTTTTTCTT-T
110406887 TTTTTTTCTTT
1 TTTTTTTCTTT
110406898 TTTTTTT-TTT
1 TTTTTTTCTTT
110406908 T
1 T
110406909 GATTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 8 0.36
12 10 0.45
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:110406895 original size:9 final size:9
Alignment explanation
Indices: 110406876--110406908 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
110406866 TAGTACTTAT
110406876 TTTTTTCTTC
1 TTTTTT-TTC
110406886 TTTTTTTTC
1 TTTTTTTTC
110406895 TTTTTTTT-
1 TTTTTTTTC
110406903 TTTTTT
1 TTTTTT
110406909 GATTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.26
9 11 0.48
10 6 0.26
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:110407203 original size:118 final size:117
Alignment explanation
Indices: 110407043--110407272 Score: 388
Period size: 118 Copynumber: 2.0 Consensus size: 117
110407033 TATTTCCGGT
110407043 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
*
110407108 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGA-TTAAGCCATACTCATAACCTCGGC
****
110407161 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
110407226 CCTACCCCGGTTACTCAGTCAGTCACGATTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATTAAGCCATACTCATAACC
110407273 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
117 16 0.15
118 89 0.85
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (117 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATTAAGCCATACTCATAACCTCGGC
Found at i:110408122 original size:42 final size:42
Alignment explanation
Indices: 110408063--110408167 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
110408053 GGGATTCTAA
* *
110408063 GGCTGGAATAGGACTGTTTGGCTGCAGAGATATGACATTCTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
* * *
110408105 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
110408147 GGCTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
110408168 TACCATGGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
Found at i:110408288 original size:6 final size:5
Alignment explanation
Indices: 110408274--110408342 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
110408264 AATATTTAAC
* * *
110408274 TAAAA TAAAA TTAAA TAATAA -ATAA TAAAA GAAAA TAAAAA TAAAA TAATAAA
1 TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA T-AAAA TAAAA T-A-AAA
110408327 TAATAA TAAAAA TAAA
1 TAA-AA T-AAAA TAAA
110408343 GATTGGGTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
4 2 0.04
5 28 0.55
6 15 0.29
7 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:110408289 original size:10 final size:10
Alignment explanation
Indices: 110408276--110408342 Score: 57
Period size: 10 Copynumber: 6.3 Consensus size: 10
110408266 TATTTAACTA
*
110408276 AAATAAAATT
1 AAATAAAAAT
110408286 AAATAATAAAT
1 AAATAA-AAAT
110408297 -AATAAAAGA-
1 AAATAAAA-AT
110408306 AAATAAAAAT
1 AAATAAAAAT
110408316 AAAATAATAAAT
1 -AAATAA-AAAT
110408328 AATAATAAAAAT
1 -A-AATAAAAAT
110408340 AAA
1 AAA
110408343 GATTGGGTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
9 3 0.06
10 21 0.43
11 10 0.20
12 10 0.20
13 5 0.10
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:110408297 original size:7 final size:7
Alignment explanation
Indices: 110408285--110408341 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 7
110408275 AAAATAAAAT
110408285 TAAATAA
1 TAAATAA
110408292 TAAATAA
1 TAAATAA
110408299 TAAA-AGA
1 TAAATA-A
110408306 -AAATAA
1 TAAATAA
110408312 -AAAT-A
1 TAAATAA
110408317 -AAATAA
1 TAAATAA
110408323 TAAATAA
1 TAAATAA
110408330 T-AATAA
1 TAAATAA
110408336 -AAATAA
1 TAAATAA
110408342 AGATTGGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.11
6 20 0.44
7 20 0.44
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (7 bp):
TAAATAA
Found at i:110408320 original size:24 final size:23
Alignment explanation
Indices: 110408274--110408342 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 23
110408264 AATATTTAAC
110408274 TAAAATAAAATTAAATAAT-AAATAA
1 TAAAA-AAAA-TAAA-AATAAAATAA
110408299 TAAAAGAAAATAAAAATAAAATAA
1 TAAAA-AAAATAAAAATAAAATAA
*
110408323 TAAATAATAATAAAAATAAA
1 TAAA-AAAAATAAAAATAAA
110408343 GATTGGGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 3 0.08
24 27 0.68
25 10 0.25
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (23 bp):
TAAAAAAAATAAAAATAAAATAA
Found at i:110408321 original size:31 final size:30
Alignment explanation
Indices: 110408275--110408342 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
110408265 ATATTTAACT
*
110408275 AAAAT-AAAATTAAATAATAAATAATAAAA
1 AAAATAAAAATAAAATAATAAATAATAAAA
*
110408304 GAAAATAAAAATAAAATAATAAATAATAATA
1 -AAAATAAAAATAAAATAATAAATAATAAAA
110408335 AAAATAAA
1 AAAATAAA
110408343 GATTGGGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (30 bp):
AAAATAAAAATAAAATAATAAATAATAAAA
Found at i:110412593 original size:19 final size:21
Alignment explanation
Indices: 110412559--110412600 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
110412549 TTTTGGTTTA
*
110412559 TTATTATTTATTTTTTTGTGT
1 TTATTATTTATTTTTTTGGGT
110412580 TTATT-TTT-TTTTTTTGGGT
1 TTATTATTTATTTTTTTGGGT
110412599 TT
1 TT
110412601 TTGTGTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 3 0.15
21 5 0.25
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.79
Consensus pattern (21 bp):
TTATTATTTATTTTTTTGGGT
Found at i:110416223 original size:23 final size:23
Alignment explanation
Indices: 110416193--110416236 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
110416183 ACAAAAGTAT
110416193 AATAGTGATGACACCACGTTTTA
1 AATAGTGATGACACCACGTTTTA
110416216 AATAGTGATGACACCACGTTT
1 AATAGTGATGACACCACGTTT
110416237 CTCATCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (23 bp):
AATAGTGATGACACCACGTTTTA
Found at i:110417996 original size:3 final size:3
Alignment explanation
Indices: 110417988--110418042 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
110417978 AAAAATGATA
110417988 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
110418036 TAT TAT T
1 TAT TAT T
110418043 CTTGGATCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:110419086 original size:100 final size:100
Alignment explanation
Indices: 110418913--110419108 Score: 383
Period size: 100 Copynumber: 2.0 Consensus size: 100
110418903 TATCCTCATG
*
110418913 CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAGT
1 CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAAT
110418978 TAATTGCTGCTTATCTATTTGACCCTTTTATATGT
66 TAATTGCTGCTTATCTATTTGACCCTTTTATATGT
110419013 CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAAT
1 CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAAT
110419078 TAATTGCTGCTTATCTATTTGACCCTTTTAT
66 TAATTGCTGCTTATCTATTTGACCCTTTTAT
110419109 GTGTTTTCTT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (100 bp):
CAATACACCAATGATGATGAAGCTCTTCAACATTGGCCTCAAGAAATCAAGTGAGATACATAAAT
TAATTGCTGCTTATCTATTTGACCCTTTTATATGT
Found at i:110420297 original size:22 final size:19
Alignment explanation
Indices: 110420272--110420311 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
110420262 TGTTTTTTTC
110420272 TTTCATTTATTATTATTTTAAT
1 TTTCA-TTATT-TT-TTTTAAT
110420294 TTTCATTATTTTTTTTAA
1 TTTCATTATTTTTTTTAA
110420312 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 5 0.28
22 5 0.28
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTCATTATTTTTTTTAAT
Found at i:110420578 original size:31 final size:29
Alignment explanation
Indices: 110420541--110420632 Score: 100
Period size: 31 Copynumber: 3.2 Consensus size: 29
110420531 ACTTTTTAAA
110420541 ATATATAATTAAATTAAAATTAAAATTTT
1 ATATATAATTAAATTAAAATTAAAATTTT
* * * *
110420570 ATGTATATATTTAAGTCACAATTAAAATTTT
1 A--TATATAATTAAATTAAAATTAAAATTTT
*
110420601 ATATATAATTACATT-AAATT-AAA-TTT
1 ATATATAATTAAATTAAAATTAAAATTTT
110420627 ATATAT
1 ATATAT
110420633 CAGATTATAC
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
26 9 0.17
27 3 0.06
28 4 0.08
29 11 0.21
31 25 0.48
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (29 bp):
ATATATAATTAAATTAAAATTAAAATTTT
Found at i:110422976 original size:18 final size:18
Alignment explanation
Indices: 110422953--110422987 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
110422943 GCAATGATAA
110422953 TAATAATA-ATATTAATAG
1 TAATAATACA-ATTAATAG
110422971 TAATAATACAATTAATA
1 TAATAATACAATTAATA
110422988 AATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
TAATAATACAATTAATAG
Found at i:110423126 original size:3 final size:3
Alignment explanation
Indices: 110423118--110423203 Score: 59
Period size: 3 Copynumber: 28.0 Consensus size: 3
110423108 TGGGTAAAAT
* * *
110423118 ATA ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATA ATGA GGTA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA AT-A
* * * *
110423165 ATA ATA ATG GTA ATA GTA ATA ATA CT- ATA AGTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
110423204 TAAATGGATA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
2 3 0.05
3 53 0.82
4 8 0.12
5 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:110423185 original size:18 final size:19
Alignment explanation
Indices: 110423119--110423188 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
110423109 GGGTAAAATA
* **
110423119 TAATAATAATAATAATATAA
1 TAATAGTAATAATAATA-GG
*
110423139 TAGTAGTAATAATAATGAGG
1 TAATAGTAATAATAAT-AGG
110423159 TAATA--AATAATAAT-GG
1 TAATAGTAATAATAATAGG
110423175 TAATAGTAATAATA
1 TAATAGTAATAATA
110423189 CTATAAGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 7 0.17
18 16 0.38
20 18 0.43
21 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (19 bp):
TAATAGTAATAATAATAGG
Found at i:110423467 original size:14 final size:14
Alignment explanation
Indices: 110423443--110423491 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
110423433 TAAAAAAAAC
110423443 AATATTATATATAAA
1 AATA-TATATATAAA
*
110423458 AATATATATATACA
1 AATATATATATAAA
* * *
110423472 TATATGTACATAAA
1 AATATATATATAAA
110423486 AATATA
1 AATATA
110423492 CACTAATATA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 23 0.85
15 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (14 bp):
AATATATATATAAA
Found at i:110424879 original size:20 final size:20
Alignment explanation
Indices: 110424854--110424897 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
110424844 CACGTAAACA
110424854 CATCGCTTCAATGTGGACAT
1 CATCGCTTCAATGTGGACAT
110424874 CATCGCTTCAATGTGGACAT
1 CATCGCTTCAATGTGGACAT
110424894 CATC
1 CATC
110424898 CAATTCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (20 bp):
CATCGCTTCAATGTGGACAT
Found at i:110426466 original size:43 final size:42
Alignment explanation
Indices: 110426405--110426520 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
110426395 GGAAAAATGT
* * * *
110426405 CGCTATAGAACATAACCTTTAGTGACGCTTAACCTACAGACGC
1 CGCTAAAGAACATGACCTTTAGTG-CGCTTAACCCACAAACGC
* *
110426448 CGCTAAAGAACATGACCTTTAGCTGCGCTTATCCCACAAATGC
1 CGCTAAAGAACATGACCTTTAG-TGCGCTTAACCCACAAACGC
* *
110426491 TGCTAAAGAACATGACTTTTAGTGGCGCTT
1 CGCTAAAGAACATGACCTTTAGT-GCGCTT
110426521 TTCCTAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 60 0.95
44 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
CGCTAAAGAACATGACCTTTAGTGCGCTTAACCCACAAACGC
Found at i:110426540 original size:43 final size:43
Alignment explanation
Indices: 110426449--110426541 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 43
110426439 TACAGACGCC
* **
110426449 GCTAAAGAACATGACCTTTAGCTGCGCTTATCCCACAAATGCT
1 GCTAAAGAACATGACCTTTAGCTGCGCTTATCCCAAAAAACCT
* * *
110426492 GCTAAAGAACATGACTTTTAG-TGGCGCTTTTCCTAAAAACACCT
1 GCTAAAGAACATGACCTTTAGCT-GCGCTTATCCCAAAAA-ACCT
110426536 -CTAAAG
1 GCTAAAG
110426542 GTCATGTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
42 1 0.02
43 39 0.93
44 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCTGCGCTTATCCCAAAAAACCT
Found at i:110431106 original size:20 final size:20
Alignment explanation
Indices: 110431069--110431106 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
110431059 ATATTTTTTG
* *
110431069 AAAAATTAAGTAATATTTAA
1 AAAAATTAAATAAAATTTAA
110431089 AAAAATTAAATAAAATTT
1 AAAAATTAAATAAAATTT
110431107 GAATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAATTAAATAAAATTTAA
Found at i:110431326 original size:17 final size:18
Alignment explanation
Indices: 110431293--110431326 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110431283 TATCTCTTAA
110431293 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
110431311 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
110431327 AAAATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:110432474 original size:16 final size:15
Alignment explanation
Indices: 110432444--110432473 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
110432434 ATTTTAAGTA
110432444 ACTTTAGTTTTTTTT
1 ACTTTAGTTTTTTTT
110432459 ACTTTAGTTTTTTTT
1 ACTTTAGTTTTTTTT
110432474 TGTTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
ACTTTAGTTTTTTTT
Found at i:110432539 original size:12 final size:12
Alignment explanation
Indices: 110432522--110432560 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
110432512 GTTATTAATA
110432522 TAATTTAGTTCT
1 TAATTTAGTTCT
110432534 TAATTTAGTTC-
1 TAATTTAGTTCT
110432545 TAATTT-GTT-T
1 TAATTTAGTTCT
110432555 TAATTT
1 TAATTT
110432561 TTTAATTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:110432949 original size:41 final size:39
Alignment explanation
Indices: 110432904--110433045 Score: 176
Period size: 41 Copynumber: 3.5 Consensus size: 39
110432894 GCTATTGTTA
110432904 GACCTTTTGTGGCGTTTTTCTCATAAACGCTACTACTGCTT
1 GACCTTTTGTGGCGTTTTTCTCATAAACGC-ACTA-TGCTT
* *
110432945 GACCTTTTGTGACGTTTTTCTCATAAACGCCACTATTACTT
1 GACCTTTTGTGGCGTTTTTCTCATAAACG-CACTA-TGCTT
*
110432986 GACCTTTTGCGGCGTTTTTCTCATAAACGCAGCTATAGCTCT
1 GACCTTTTGTGGCGTTTTTCTCATAAACGCA-CTAT-GCT-T
* *
110433028 AACCTTTTGTGGCATTTT
1 GACCTTTTGTGGCGTTTT
110433046 CTGATTAACA
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
40 3 0.03
41 68 0.77
42 17 0.19
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (39 bp):
GACCTTTTGTGGCGTTTTTCTCATAAACGCACTATGCTT
Found at i:110433046 original size:41 final size:41
Alignment explanation
Indices: 110432905--110433082 Score: 174
Period size: 41 Copynumber: 4.4 Consensus size: 41
110432895 CTATTGTTAG
*
110432905 ACCTTTTGTGGCGTTTTTCTCATAAACGCTACTACT-GCTTG
1 ACCTTTTGTGGCGTTTTTCTCATAAACGC-ACTACTAGCTTA
* * *
110432946 ACCTTTTGTGACGTTTTTCTCATAAACGCCACTATTA-CTTG
1 ACCTTTTGTGGCGTTTTTCTCATAAACG-CACTACTAGCTTA
*
110432987 ACCTTTTGCGGCGTTTTTCTCATAAACGCAGCTA-TAGCTCTA
1 ACCTTTTGTGGCGTTTTTCTCATAAACGCA-CTACTAGCT-TA
* * *
110433029 ACCTTTTGTGGC-ATTTTCTGATTAA--CAC-A-TAGCTCTA
1 ACCTTTTGTGGCGTTTTTCTCATAAACGCACTACTAGCT-TA
*
110433066 ACCTTTTGTGGCATTTT
1 ACCTTTTGTGGCGTTTT
110433083 CTGATTAACA
Statistics
Matches: 121, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
37 21 0.17
38 4 0.03
39 2 0.02
40 4 0.03
41 77 0.64
42 13 0.11
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (41 bp):
ACCTTTTGTGGCGTTTTTCTCATAAACGCACTACTAGCTTA
Found at i:110433046 original size:82 final size:82
Alignment explanation
Indices: 110432886--110433047 Score: 206
Period size: 82 Copynumber: 2.0 Consensus size: 82
110432876 TGCACACCTC
* * * *
110432886 TAAACGCCGCTATTGTTAGACCTTTTGTGGCGTTTTTCTCATAAACGCTACTACTGCTTGACCTT
1 TAAACGCCACTATTCTTAGACCTTTTGCGGCGTTTTTCTCATAAACGCTACTACTGCTTAACCTT
*
110432951 TTGTGACGTTTTTCTCA
66 TTGTGACGATTTTCTCA
110432968 TAAACGCCACTATTACTT-GACCTTTTGCGGCGTTTTTCTCATAAACGC-AGCTA-TAGCTCTAA
1 TAAACGCCACTATT-CTTAGACCTTTTGCGGCGTTTTTCTCATAAACGCTA-CTACT-GCT-TAA
*
110433030 CCTTTTGTGGC-ATTTTCT
62 CCTTTTGTGACGATTTTCT
110433048 GATTAACACA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
81 2 0.03
82 54 0.77
83 14 0.20
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (82 bp):
TAAACGCCACTATTCTTAGACCTTTTGCGGCGTTTTTCTCATAAACGCTACTACTGCTTAACCTT
TTGTGACGATTTTCTCA
Found at i:110433062 original size:37 final size:37
Alignment explanation
Indices: 110433020--110433093 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
110433010 AAACGCAGCT
110433020 ATAGCTCTAACCTTTTGTGGCATTTTCTGATTAACAC
1 ATAGCTCTAACCTTTTGTGGCATTTTCTGATTAACAC
110433057 ATAGCTCTAACCTTTTGTGGCATTTTCTGATTAACAC
1 ATAGCTCTAACCTTTTGTGGCATTTTCTGATTAACAC
110433094 CACTAATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (37 bp):
ATAGCTCTAACCTTTTGTGGCATTTTCTGATTAACAC
Found at i:110437143 original size:43 final size:43
Alignment explanation
Indices: 110437073--110437155 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
110437063 ATATTCTAGA
* * *
110437073 AAGGAAAGAAATCAACTAAAGTGAAATCGCAATAGAGAAACCT
1 AAGGAAAGAAATCAACTAAAATAAAATCACAATAGAGAAACCT
* *
110437116 AAGGAAAGAAATCAATTAAAATAAAATCACAATCGAGAAA
1 AAGGAAAGAAATCAACTAAAATAAAATCACAATAGAGAAA
110437156 TCTACTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (43 bp):
AAGGAAAGAAATCAACTAAAATAAAATCACAATAGAGAAACCT
Done.