Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 87 of 378
Found at i:23559122 original size:18 final size:18
Alignment explanation
Indices: 23559099--23559159 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
23559089 CCATCTCCTC
23559099 CATCGCCTTCACCCCGTG
1 CATCGCCTTCACCCCGTG
* * *
23559117 CATCGCAAC-CCATCTCC-TC
1 CATCGC--CTTCA-CCCCGTG
23559136 CATCGCCTTCACCCCGTG
1 CATCGCCTTCACCCCGTG
23559154 CATCGC
1 CATCGC
23559160 AATCCATCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 4 0.12
18 15 0.47
19 9 0.28
20 4 0.12
ACGTcount: A:0.15, C:0.51, G:0.13, T:0.21
Consensus pattern (18 bp):
CATCGCCTTCACCCCGTG
Found at i:23559543 original size:16 final size:16
Alignment explanation
Indices: 23559522--23559553 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23559512 AAATCTTCAA
23559522 AAAAAAATTAAAAATT
1 AAAAAAATTAAAAATT
*
23559538 AAAAAACTTAAAAATT
1 AAAAAAATTAAAAATT
23559554 TAATATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAAAATTAAAAATT
Found at i:23565492 original size:27 final size:27
Alignment explanation
Indices: 23565462--23565516 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
23565452 TATATTGATA
* *
23565462 ATGAATTTTA-AATTTTTTATATTTTTT
1 ATGAACTTTATAATATTTTAT-TTTTTT
*
23565489 ATGACCTTTATAATATTTTATTTTTTT
1 ATGAACTTTATAATATTTTATTTTTTT
23565516 A
1 A
23565517 AAATTTCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (27 bp):
ATGAACTTTATAATATTTTATTTTTTT
Found at i:23565625 original size:63 final size:63
Alignment explanation
Indices: 23565523--23565648 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
23565513 TTTAAAATTT
* ** *
23565523 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGACCTTTAGCGGGTTTG
1 CATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGTCATGACCTTTAGCGAGTTTG
23565586 CATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGTCATGACCTTTAGCGAGTTTG
1 CATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGTCATGACCTTTAGCGAGTTTG
23565649 TGGGCAAAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (63 bp):
CATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGTCATGACCTTTAGCGAGTTTG
Found at i:23565667 original size:42 final size:42
Alignment explanation
Indices: 23565586--23565690 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
23565576 AGCGGGTTTG
23565586 CATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCACTAAAGGT
1 CATGACCTTTAGCGG-ATTTGTGGGAAAAGCGCCACTAAAGGT
* * *
23565629 CATGACCTTTAGC-GAGTTTGTGGGCAAAGTGCCGCTAAAGGT
1 CATGACCTTTAGCGGA-TTTGTGGGAAAAGCGCCACTAAAGGT
23565671 CATGACCTTTAGCGGCATTT
1 CATGACCTTTAGCGG-ATTT
23565691 TTTGCAGTGC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
41 1 0.02
42 37 0.66
43 17 0.30
44 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (42 bp):
CATGACCTTTAGCGGATTTGTGGGAAAAGCGCCACTAAAGGT
Found at i:23568474 original size:8 final size:8
Alignment explanation
Indices: 23568461--23568485 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23568451 ATGGTTGTGA
23568461 GTTAGTGG
1 GTTAGTGG
23568469 GTTAGTGG
1 GTTAGTGG
23568477 GTTAGTGG
1 GTTAGTGG
23568485 G
1 G
23568486 AGAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.52, T:0.36
Consensus pattern (8 bp):
GTTAGTGG
Found at i:23578167 original size:278 final size:280
Alignment explanation
Indices: 23577622--23578167 Score: 981
Period size: 278 Copynumber: 2.0 Consensus size: 280
23577612 CAATTTGAGT
23577622 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
1 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
* * * * *
23577687 CAATCTTTACCACCAATGAGTTAGGTATTCTTTTTTACGTTCATACGGTTCGAACTTTATTATCT
66 CAACCTTGACCACCAATGACTTAGGTATTCTTTTTTACGTTCATACGGTTCAAACGTTATTATCT
23577752 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
131 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
* * *
23577817 ATGTATTTGGACAGTTTTTTTTTTTTGTTTAATGGATTAGGGACATGTAATGAAAATATAAAATA
196 ACGTATTTGGACAGTTTTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATA
23577882 TAAAAAAAAAAAAAGAAAGA
261 TAAAAAAAAAAAAAGAAAGA
*
23577902 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTA-TTAGTCG
1 AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
*
23577966 CAACCTTGACCACCAATGACTTAGGTATTC-TTTTTACGTTCATATGGTTCAAACGTTATTATCT
66 CAACCTTGACCACCAATGACTTAGGTATTCTTTTTTACGTTCATACGGTTCAAACGTTATTATCT
23578030 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
131 CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
23578095 ACGTATTTGGACAG-TTTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATA
196 ACGTATTTGGACAGTTTTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATA
23578159 TAAAAAAAA
261 TAAAAAAAA
23578168 TAAGAAAATG
Statistics
Matches: 256, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
277 57 0.22
278 109 0.43
279 33 0.13
280 57 0.22
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (280 bp):
AAATTCAAGCACAGAATCAACAAATTCATATGCAAATTTGAAGTCTCATGACTTTTATTTAGCCG
CAACCTTGACCACCAATGACTTAGGTATTCTTTTTTACGTTCATACGGTTCAAACGTTATTATCT
CGGTAGAATTTGAATTAAAACATGTAATGAATATGTATTTGAACATTAAGTATTTTACTAAGAAT
ACGTATTTGGACAGTTTTTTTTTTTTGTTTAATGGATTAGGAAAATGTAATGAAAATATAAAATA
TAAAAAAAAAAAAAGAAAGA
Found at i:23580796 original size:17 final size:17
Alignment explanation
Indices: 23580755--23580796 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
23580745 AAATATTAAA
*
23580755 TATT-AAAATTTTCATT
1 TATTGAAAATTTCCATT
*
23580771 TA-AGAAAATTTCCATT
1 TATTGAAAATTTCCATT
23580787 TATTGAAAAT
1 TATTGAAAAT
23580797 AGAAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (17 bp):
TATTGAAAATTTCCATT
Found at i:23580971 original size:28 final size:30
Alignment explanation
Indices: 23580940--23580996 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
23580930 TGAATTTAGT
* *
23580940 TATTATAC-TTT-AATTTGGTCAATTTTAA
1 TATTATACTTTTCAAATTAGTCAATTTTAA
23580968 TATTATACTTTTCAAATTAGTCAATTTTA
1 TATTATACTTTTCAAATTAGTCAATTTTA
23580997 GTCCTGTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 3 0.12
30 14 0.56
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (30 bp):
TATTATACTTTTCAAATTAGTCAATTTTAA
Found at i:23594034 original size:19 final size:20
Alignment explanation
Indices: 23594010--23594067 Score: 86
Period size: 19 Copynumber: 3.0 Consensus size: 20
23594000 AATCTTTAAC
*
23594010 TGAAAATGAATGACC-GATT
1 TGAAAATGAATGACCAAATT
23594029 TGAAAATGAATG-CCAAATT
1 TGAAAATGAATGACCAAATT
23594048 TGAAAATGAATGA-CAAATT
1 TGAAAATGAATGACCAAATT
23594067 T
1 T
23594068 TTCTAAGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 2 0.06
19 34 0.94
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (20 bp):
TGAAAATGAATGACCAAATT
Found at i:23594544 original size:134 final size:132
Alignment explanation
Indices: 23594406--23594654 Score: 306
Period size: 134 Copynumber: 1.9 Consensus size: 132
23594396 TTTGTAAAGA
* * * *
23594406 ATCGATAAATTTAGTT-GAGTATCGATAGAT-TCACAATTTTATTGATACCTTTTTTAGTATCGA
1 ATCGATAAATTT-GTTCAAGTATCAATAG-TGT-ACAATTTTATCGATACCTTTTTCAGTATCGA
* * *
23594469 TACCAAAATGGCATTCT-ATTTTTCAAAGTATTTATCAAGTATTGGTACGGTATCGATACCTTTT
63 TACCAAAATGGCATTCTGA-ATTTCAAAGT-TTTATCAAGTATCGATACGGTATCGATACCTTTT
23594533 GCTTGGT
126 GCTTGGT
* * *
23594540 ATCGATAAATTTTTTCAAGTATCAATAGTGGTACACTTTTATCGATACCTTTTTCGGTATCGATA
1 ATCGATAAATTTGTTCAAGTATCAATAGT-GTACAATTTTATCGATACCTTTTTCAGTATCGATA
* * *
23594605 CGAAATTGGCATTTTGAATTTCAAAGTTTTATCAAGTATCGATACGGTAT
65 CCAAAATGGCATTCTGAATTTCAAAGTTTTATCAAGTATCGATACGGTAT
23594655 TGTTACCTCT
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
133 24 0.24
134 72 0.73
135 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (132 bp):
ATCGATAAATTTGTTCAAGTATCAATAGTGTACAATTTTATCGATACCTTTTTCAGTATCGATAC
CAAAATGGCATTCTGAATTTCAAAGTTTTATCAAGTATCGATACGGTATCGATACCTTTTGCTTG
GT
Found at i:23594725 original size:51 final size:51
Alignment explanation
Indices: 23594665--23594767 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
23594655 TGTTACCTCT
*
23594665 TATTTAGCATTGATAACATTCCCTTGGTATTGATATTGATGGCTCCAACAA
1 TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
23594716 TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
1 TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
23594767 T
1 T
23594768 CACTAAATTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (51 bp):
TATTTAGCATTGATAAAATTCCCTTGGTATTGATATTGATGGCTCCAACAA
Found at i:23596301 original size:14 final size:14
Alignment explanation
Indices: 23596282--23596316 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
23596272 ATATGAATAC
23596282 AAAAATTATTTAAT
1 AAAAATTATTTAAT
*
23596296 AAAAA-TATTTATT
1 AAAAATTATTTAAT
23596309 AAAAATTA
1 AAAAATTA
23596317 ATATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAATTATTTAAT
Found at i:23598292 original size:22 final size:22
Alignment explanation
Indices: 23598264--23598307 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23598254 GTTTGACATG
23598264 TTAGTGAAAAACGCGTCTTGTA
1 TTAGTGAAAAACGCGTCTTGTA
23598286 TTAGTGAAAAACGCGTCTTGTA
1 TTAGTGAAAAACGCGTCTTGTA
23598308 GGGAGCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
TTAGTGAAAAACGCGTCTTGTA
Found at i:23601210 original size:3 final size:3
Alignment explanation
Indices: 23601172--23601245 Score: 91
Period size: 3 Copynumber: 25.0 Consensus size: 3
23601162 CTCTACTTGG
* *
23601172 CTT CTTT CTCT CTT C-T CTT CCT -TT C-T CTT TTT CTT CTT CTT CTT
1 CTT C-TT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
23601216 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
23601246 TTTTAAAACC
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 5 0.08
3 51 0.82
4 6 0.10
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:23608904 original size:2 final size:2
Alignment explanation
Indices: 23608897--23608925 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23608887 TTATCGTAAG
23608897 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 T
23608926 TTATTGATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23613559 original size:24 final size:24
Alignment explanation
Indices: 23613538--23613587 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23613528 TCAATTAATT
23613538 TATGTATTTGTTAAATGATTAAGA
1 TATGTATTTGTTAAATGATTAAGA
23613562 TATGTATTTGTTAAATGATTAAGA
1 TATGTATTTGTTAAATGATTAAGA
23613586 TA
1 TA
23613588 AGCAATTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (24 bp):
TATGTATTTGTTAAATGATTAAGA
Found at i:23615951 original size:2 final size:2
Alignment explanation
Indices: 23615944--23615969 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23615934 TAAGTGAAAT
23615944 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
23615970 AAGAAATTGA
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):
TA
Found at i:23617406 original size:24 final size:24
Alignment explanation
Indices: 23617339--23617409 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
23617329 CTGTCAGGAG
* *
23617339 AGGATTTATGAGTTGATAACGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
23617363 TGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
23617387 AGGATTTAGGAGTAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
23617410 GGAAATCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.34, C:0.01, G:0.35, T:0.30
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:23618868 original size:28 final size:27
Alignment explanation
Indices: 23618803--23618887 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
23618793 AGGAAGCGTC
*
23618803 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
23618830 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
23618858 CTGGTGACTCTGTCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
23618884 CTGG
1 CTGG
23618888 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.09
27 32 0.60
28 16 0.30
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:23619962 original size:11 final size:10
Alignment explanation
Indices: 23619934--23619967 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23619924 AGCCTATAAG
23619934 TATTCTGAAT
1 TATTCTGAAT
*
23619944 TTTTCTGAAT
1 TATTCTGAAT
23619954 ATATTCTGAAT
1 -TATTCTGAAT
23619965 TAT
1 TAT
23619968 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:23626576 original size:27 final size:26
Alignment explanation
Indices: 23626536--23626640 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 26
23626526 AGGAAGCATC
*
23626536 CTGGTGGCTATGCCACAATCATCTGAT
1 CTGGTGGCTCTGCCACAAT-ATCTGAT
* *
23626563 CTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
23626590 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-AATATCTG-AT
* * *
23626618 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACAATATCT
23626641 ATTCTGGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 49 0.73
28 18 0.27
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:23626646 original size:54 final size:54
Alignment explanation
Indices: 23626536--23626647 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
23626526 AGGAAGCATC
* * *
23626536 CTGGTGGCTATGCCACAATCATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
23626590 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATCATCTG-ATCTGGTGACTCTGCCACATATATCTATT
23626644 CTGG
1 CTGG
23626648 CATCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:23627824 original size:39 final size:39
Alignment explanation
Indices: 23627780--23627887 Score: 144
Period size: 39 Copynumber: 2.8 Consensus size: 39
23627770 TATGAGATTG
* * *
23627780 AAAATATCTGGACATGAGATCCGTAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
*
23627819 AAAATATCCGGACATGAGACCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
* * * *
23627858 AATATATCCGGACTTGAGGTCCGCAAGCTA
1 AAAATATCCGGACATGAGATCCGCAGGCTA
23627888 CGTGTTGGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
Found at i:23627924 original size:38 final size:38
Alignment explanation
Indices: 23627878--23627980 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 38
23627868 GACTTGAGGT
*
23627878 CCGCAAGCTACGTGTTGGAATTATATCCGGGTTAAATC
1 CCGCAAGCTACGTGTTGGAATTATATCCGGGTCAAATC
* * *
23627916 CCGCAAGCTTCGTGCTAGTAA-TATATCCGGGTCAAATC
1 CCGCAAGCTACGTG-TTGGAATTATATCCGGGTCAAATC
* * *
23627954 CCGCAGGCCTA-GTGCTGGTATTATATC
1 CCGCAAG-CTACGTGTTGGAATTATATC
23627981 TGAGTTTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
37 2 0.04
38 44 0.85
39 6 0.12
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (38 bp):
CCGCAAGCTACGTGTTGGAATTATATCCGGGTCAAATC
Found at i:23628146 original size:2 final size:2
Alignment explanation
Indices: 23628139--23628171 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23628129 CAGGTATGTG
23628139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23628172 GTGAGATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:23632767 original size:27 final size:26
Alignment explanation
Indices: 23632719--23632848 Score: 154
Period size: 27 Copynumber: 4.8 Consensus size: 26
23632709 GCGAGGCTGC
* *
23632719 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
23632745 ACAGATATTGTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
23632772 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* *
23632799 CAGATAATCGTGGCATAGCCACCAGAT
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
*
23632826 CAGATAATTGTGGCATAGCCACC
1 CAGAT-ATTGTGGCAGAGCCACC
23632849 TGGACGCTTC
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
26 7 0.08
27 83 0.89
28 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:23634504 original size:26 final size:26
Alignment explanation
Indices: 23634473--23634580 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
23634463 TGAAATGCCC
*
23634473 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
23634499 ATCATGGAACATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
23634525 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
23634551 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23634577 ATCA
1 ATCA
23634581 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:23639421 original size:27 final size:27
Alignment explanation
Indices: 23639383--23639722 Score: 407
Period size: 27 Copynumber: 12.6 Consensus size: 27
23639373 AAAGTACTCC
23639383 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
23639410 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
23639437 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
23639464 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
23639491 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
23639518 CAATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
23639545 CAATTTACATAATTACTGTTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
23639571 CCGATTTATATAATTATCGTTTTACCCT
1 -CGATTTACAGAATTACCGTTTTACCCT
*
23639599 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
23639626 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
23639653 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
23639680 TGATTTACAGAATTATTGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
*
23639707 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
23639723 TAAAATACCC
Statistics
Matches: 271, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.01
27 262 0.97
28 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:23639870 original size:27 final size:27
Alignment explanation
Indices: 23639793--23639870 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
23639783 AAATGACTAA
* *
23639793 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
23639820 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
23639847 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
23639871 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:23641104 original size:9 final size:9
Alignment explanation
Indices: 23641092--23641148 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
23641082 TTTGATAAAC
23641092 ATGATATGT
1 ATGATATGT
*
23641101 ATGATATGCAC
1 ATGATATG--T
*
23641112 ATGACATGT
1 ATGATATGT
*
23641121 ATGATATGCAC
1 ATGATATG--T
23641132 ATGATATGT
1 ATGATATGT
23641141 ATGATATG
1 ATGATATG
23641149 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:23641115 original size:20 final size:20
Alignment explanation
Indices: 23641090--23641152 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
23641080 ATTTTGATAA
23641090 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23641110 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23641130 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
23641150 ACA
1 ACA
23641153 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23641263 original size:24 final size:24
Alignment explanation
Indices: 23641207--23641429 Score: 344
Period size: 24 Copynumber: 9.4 Consensus size: 24
23641197 GAGGAAGTGA
23641207 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
23641230 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
23641254 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
23641277 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23641301 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23641325 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
23641349 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
23641372 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
23641396 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
23641420 AAAAGAGGCT
1 AAAAG-GGCT
23641430 AGGCCTCCAA
Statistics
Matches: 184, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
23 64 0.35
24 116 0.63
25 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:23641276 original size:47 final size:47
Alignment explanation
Indices: 23641207--23641422 Score: 378
Period size: 47 Copynumber: 4.6 Consensus size: 47
23641197 GAGGAAGTGA
23641207 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
23641254 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
23641301 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
23641349 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
23641396 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
23641423 AGAGGCTAGG
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 115 0.72
48 45 0.28
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:23641369 original size:95 final size:94
Alignment explanation
Indices: 23641206--23641429 Score: 394
Period size: 95 Copynumber: 2.4 Consensus size: 94
23641196 GGAGGAAGTG
*
23641206 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCC
23641271 AGTTATTAAAGGGCTTATGCCCCAGTTAT
66 AGTTATTAAAGGGCTTATGCCCCAGTTAT
*
23641300 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCC
23641365 CAGTTATTAAAGGGCTTATGCCCCAGTTAT
65 CAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
23641395 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
23641430 AGGCCTCCAA
Statistics
Matches: 123, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
94 23 0.19
95 95 0.77
96 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (94 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCC
AGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:23641672 original size:31 final size:31
Alignment explanation
Indices: 23641637--23641700 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
23641627 CATTTACCGT
*
23641637 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
23641668 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
23641699 AA
1 AA
23641701 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:23645867 original size:292 final size:293
Alignment explanation
Indices: 23645284--23646035 Score: 1271
Period size: 292 Copynumber: 2.6 Consensus size: 293
23645274 ATGATATAAT
23645284 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
1 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
* *
23645349 ACGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTACT
66 AAGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTGCT
23645414 TTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTGAA
131 TTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTGAA
23645479 ATTAAAAATAAAACAAGTGACCAAATTGAAATTTAGACAAGTCTTCATCAAATTTAGGTATGATA
196 ATTAAAAATAAAACAAGTGACCAAATTGAAATTTAGACAAGTCTTCATCAAATTTAGGTATGATA
23645544 TAATTTAAAAATAAAAATGGTAAATTAGTGAAA
261 TAATTTAAAAATAAAAATGGTAAATTAGTGAAA
* * * *
23645577 TTAAAAATAAAACAAGTGACCAAATTGAATTTTAGAAAATTCTTCATCAATTGTTTTAGTCCAAA
1 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAA--ATTTCAGTCCAAA
* *
23645642 AAAAGTCATAGAAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTG
64 AAAAGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTG
*
23645707 CTTTTTCCTT-AAATTTTTATGTTTTTAAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTG
129 CTTTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTG
* *
23645771 -AATTAAAAAT-AAACAAGTGACCAAATT-AAATTCTATACAATTCTTCATCAAATTTAGGTATG
194 AAATTAAAAATAAAACAAGTGACCAAATTGAAATT-TAGACAAGTCTTCATCAAATTTAGGTATG
23645833 ATATAATTTAAAAATAAAAATGGTAAATTAGTGAAA
258 ATATAATTTAAAAATAAAAATGGTAAATTAGTGAAA
23645869 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
1 TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
* **
23645934 ACA-CCATAGGAGGACCTTCAAGCTTTTTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTG
66 A-AGCCATAGGAGGACCTTGAAGC-TGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTG
* *
23645998 CTTTTTCCTTGAATTTTTTTTTGTTTTTGAGACTTTTA
129 CTTTTTCCTTGAA-ATTTTTATGTTTTTGAGACTTTTA
23646036 CAATTAGGTC
Statistics
Matches: 429, Mismatches: 23, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
290 31 0.07
291 54 0.13
292 130 0.30
293 79 0.18
294 53 0.12
295 82 0.19
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.37
Consensus pattern (293 bp):
TTAAAAATAAAACAAGTGACCAAATTGAATTCTAGACAATTCTTCATCAAATTTCAGTCCAAAAA
AAGCCATAGGAGGACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTGAATTCAATTCTTGCT
TTTTCCTTGAAATTTTTATGTTTTTGAGACTTTTAATTTAAAAATAAAAATGGTAAATTAGTGAA
ATTAAAAATAAAACAAGTGACCAAATTGAAATTTAGACAAGTCTTCATCAAATTTAGGTATGATA
TAATTTAAAAATAAAAATGGTAAATTAGTGAAA
Found at i:23645911 original size:97 final size:98
Alignment explanation
Indices: 23645447--23645922 Score: 373
Period size: 97 Copynumber: 4.9 Consensus size: 98
23645437 TTGAGACTTT
23645447 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAAATT
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTG-AATT
*
23645512 -TAGACAAGTCTTCATCAAATTTAGGTATGA-TA
65 CTAGACAATTCTTCATCAAATTTAGGTATGACTA
*
23645544 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTT
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
* * * * *
23645609 TAGAAAATTCTTCATC-AA-TT-GTTTTAGTCCA
66 TAGACAATTCTTCATCAAATTTAGGTAT-GACTA
* * ** *** *** ***
23645640 -AA---AAAAGTCATAGAA-GG-ACCTTGAAGCTGGTTTTTCATATTTTTACTTCAAGTG----A
1 TAATTTAAAAAT-A-AAAATGGTAAATT--AG-T-GAAATT-A-A-AAATAAAACAAGTGACCAA
* * * * * * * *
23645695 ATTCAATTCTTG-C--TTTTTCCTTAAATTTTTATGTTTTTAAGACTTT
57 ATTGAATTCTAGACAATTCTTCATCAAA--TTTA-G---GTATGAC-TA
*
23645741 TAATTTAAAAATAAAAATGGTAAATTAGTG-AATTAAAAAT-AAACAAGTGACCAAATTAAATTC
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
*
23645804 TATACAATTCTTCATCAAATTTAGGTATGA-TA
66 TAGACAATTCTTCATCAAATTTAGGTATGACTA
23645836 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
1 TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
23645901 TAGACAATTCTTCATCAAATTT
66 TAGACAATTCTTCATCAAATTT
23645923 CAGTCCAAAA
Statistics
Matches: 288, Mismatches: 54, Indels: 74
0.69 0.13 0.18
Matches are distributed among these distances:
92 14 0.05
93 5 0.02
94 8 0.03
95 47 0.16
96 28 0.10
97 123 0.43
98 3 0.01
99 9 0.03
100 15 0.05
101 8 0.03
102 3 0.01
103 14 0.05
104 3 0.01
105 8 0.03
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (98 bp):
TAATTTAAAAATAAAAATGGTAAATTAGTGAAATTAAAAATAAAACAAGTGACCAAATTGAATTC
TAGACAATTCTTCATCAAATTTAGGTATGACTA
Found at i:23646910 original size:105 final size:101
Alignment explanation
Indices: 23646729--23646945 Score: 276
Period size: 105 Copynumber: 2.1 Consensus size: 101
23646719 AATTGATGGA
* **
23646729 TAAGACCATGGTTGGACCATGGCAGTGTTTAAATGTAAGACCATAGCTGGGCTATGAAATTTTAA
1 TAAGACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGAAATTCAAA
*
23646794 TGAAAAAACCATAATTGGGTTATGACACCT-TGAACG
66 TGAAAAAACCATAATTGGGTTATGA-AACTATGAACG
* *
23646830 TAAGACCATGGTTGGACCATGGCAGTATATATACATGTGTAAGACCATAGTTGGGCTATGACAA-
1 TAAGACCATGGTTGGACCATGGCAGTAT-T-TA-A-ATGTAAGACCATAGCTGGGCTATGA-AAT
* * * *
23646894 TCAAATGATAAGACCATAATTGGGTTATGAAACTATGGATG
61 TCAAATGAAAAAACCATAATTGGGTTATGAAACTATGAACG
23646935 TAAGACCATGG
1 TAAGACCATGG
23646946 CAGGGCCATG
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
101 27 0.27
102 1 0.01
103 2 0.02
104 4 0.04
105 64 0.64
106 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGAAATTCAAA
TGAAAAAACCATAATTGGGTTATGAAACTATGAACG
Found at i:23646989 original size:32 final size:33
Alignment explanation
Indices: 23646933--23647008 Score: 127
Period size: 32 Copynumber: 2.3 Consensus size: 33
23646923 AAACTATGGA
23646933 TGTAAGACCATGGCAGGGCCATGGCAATGCATG
1 TGTAAGACCATGGCAGGGCCATGGCAATGCATG
* *
23646966 TGTGAGACCATGGTA-GGCCATGGCAATGCATG
1 TGTAAGACCATGGCAGGGCCATGGCAATGCATG
23646998 TGTAAGACCAT
1 TGTAAGACCAT
23647009 CGTTGGACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 27 0.68
33 13 0.32
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (33 bp):
TGTAAGACCATGGCAGGGCCATGGCAATGCATG
Found at i:23648201 original size:3 final size:3
Alignment explanation
Indices: 23648193--23648229 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23648183 AGGTTTAGTT
23648193 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
23648230 AGTTTATTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:23649584 original size:18 final size:17
Alignment explanation
Indices: 23649561--23649609 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
23649551 GTTTTTTTAC
23649561 TAAATTATTTATTTAAT
1 TAAATTATTTATTTAAT
*
23649578 ATAAATTAATTT-TATAAT
1 -TAAATT-ATTTATTTAAT
*
23649596 TAAATTAATTATTT
1 TAAATTATTTATTT
23649610 GGATTGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 11 0.42
19 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATTATTTATTTAAT
Found at i:23653785 original size:21 final size:19
Alignment explanation
Indices: 23653751--23653812 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
23653741 TAAATTATGC
23653751 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
23653773 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
23653795 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
23653813 GTATTTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:23654132 original size:16 final size:16
Alignment explanation
Indices: 23654093--23654125 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23654083 ATTTATAGAT
23654093 AAAATATAT-GATAATA
1 AAAATA-ATGGATAATA
23654109 AAAATAATGGATAATA
1 AAAATAATGGATAATA
23654125 A
1 A
23654126 TAGTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (16 bp):
AAAATAATGGATAATA
Found at i:23654191 original size:28 final size:28
Alignment explanation
Indices: 23654151--23654206 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23654141 AATATTTTTA
* *
23654151 AAAATATATAAAGCATTTAAAGTAAATT
1 AAAATATAAAAAGCATTAAAAGTAAATT
* *
23654179 AAAATATAAAAAGGATTAAAATTAAATT
1 AAAATATAAAAAGCATTAAAAGTAAATT
23654207 TAATTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (28 bp):
AAAATATAAAAAGCATTAAAAGTAAATT
Found at i:23656352 original size:206 final size:207
Alignment explanation
Indices: 23655738--23656500 Score: 1253
Period size: 206 Copynumber: 3.7 Consensus size: 207
23655728 AAATCTGCTT
* * *
23655738 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAT
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
23655803 GTGAAAGCTAAATGAGCTATGAT-TTCGA-TTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATC
* * * * * * ** *
23655866 TTGGATCTGCTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAATA
130 TTAGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCTGTCGAATA
*
23655931 TGAAGACGCCAAA
195 TGGAGACGCCAAA
*
23655944 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCTTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
23656009 GTGAAAGCCAAATCAGCTATGTCTACGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
* *
23656074 TAGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTTTACTCTCTGTCGAATAT
131 TAGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCTGTCGAATAT
23656139 GGAGACGCCAAA
196 GGAGACGCCAAA
** *
23656151 CTTTGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
23656216 GTGAAAGCCAAATCAGCTATGTCTTCGA-TTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
* * *
23656280 TGGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCAAATAT
131 TAGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCTGTCGAATAT
23656345 GGAGACGCCAAA
196 GGAGACGCCAAA
23656357 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
23656422 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
23656487 TAGATCTTGCTTCA
131 TAGATC-TGCTTCA
23656501 CCCAGATCTG
Statistics
Matches: 519, Mismatches: 34, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
205 1 0.00
206 282 0.54
207 229 0.44
208 7 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (207 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
TAGATCTGCTTCAATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCTGTCGAATAT
GGAGACGCCAAA
Found at i:23657961 original size:33 final size:33
Alignment explanation
Indices: 23657919--23657985 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
23657909 GTTCGATAGG
*
23657919 CCAGGAGTGCAAACGGTAACTTCTCATGCCAAT
1 CCAGGAGTGCAAACAGTAACTTCTCATGCCAAT
23657952 CCAGGAGTGCAAACAGTAACTTCTCATGCCAAT
1 CCAGGAGTGCAAACAGTAACTTCTCATGCCAAT
23657985 C
1 C
23657986 TCTATAGGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (33 bp):
CCAGGAGTGCAAACAGTAACTTCTCATGCCAAT
Found at i:23667986 original size:30 final size:29
Alignment explanation
Indices: 23667952--23668025 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
23667942 TTTATAAAAA
23667952 AATATAAAGAAATATATAAATAAAATATAT
1 AATATAAA-AAATATATAAATAAAATATAT
* * *
23667982 AATATAATATAATTTATAGATAAAATATAT
1 AATATAA-AAAATATATAAATAAAATATAT
*
23668012 GATAATAAAAAATA
1 AAT-ATAAAAAATA
23668026 ATGGATAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 31 0.86
31 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (29 bp):
AATATAAAAAATATATAAATAAAATATAT
Found at i:23668025 original size:17 final size:17
Alignment explanation
Indices: 23668003--23668036 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23667993 ATTTATAGAT
23668003 AAAATATAT-GATAATAA
1 AAAATA-ATGGATAATAA
23668020 AAAATAATGGATAATAA
1 AAAATAATGGATAATAA
23668037 TAGTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATAATGGATAATAA
Found at i:23672176 original size:21 final size:21
Alignment explanation
Indices: 23672144--23672185 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
23672134 GGTTAAATCA
23672144 TTGTTTTAAAAT-TCATTTTT
1 TTGTTTTAAAATATCATTTTT
23672164 TTGTTTATAAAATCATCATTTT
1 TTGTTT-TAAAAT-ATCATTTT
23672186 AAAAGTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
23 7 0.37
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
TTGTTTTAAAATATCATTTTT
Found at i:23672185 original size:20 final size:20
Alignment explanation
Indices: 23672144--23672185 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
23672134 GGTTAAATCA
**
23672144 TTGTTTTAAAATTCATTTTT
1 TTGTTTTAAAATTCATCATT
23672164 TTGTTTATAAAA-TCATCATT
1 TTGTTT-TAAAATTCATCATT
23672184 TT
1 TT
23672186 AAAAGTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (20 bp):
TTGTTTTAAAATTCATCATT
Found at i:23673197 original size:131 final size:131
Alignment explanation
Indices: 23672995--23673254 Score: 398
Period size: 131 Copynumber: 2.0 Consensus size: 131
23672985 AATTATTCAT
*
23672995 TTAAAAATTCTTTAAAACGAAGACAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATTG
1 TTAAAAATTCTTTAAAACGAAGACAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
* * * *
23673060 TTCTGGGTTGCAATTT-TTCGTTTGTCCAAAATAATCGAATATTCCTTCGGAATTTCACTCATGT
66 TGCTGGGTTGCAATTTCCT-GTTTGTCCAAAATAATCGAATATCCCTTCAGAATTTCACTCATGT
23673124 CA
130 CA
* * *
23673126 TTAAAAATTCTTTAAAATGAAGGA-AATGTTCGATGTTTGTCAATTCGGGGAATCGTGCCCTATC
1 TTAAAAATTCTTTAAAACGAA-GACAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* *
23673190 GTGCTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGT
65 GTGCTGGGTTGCAATTTCCTGTTTGTCCAAAATAATCGAATATCCCTTCAGAATTTCACTCATGT
23673255 TTTCTAAATT
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 114 0.97
132 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (131 bp):
TTAAAAATTCTTTAAAACGAAGACAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
TGCTGGGTTGCAATTTCCTGTTTGTCCAAAATAATCGAATATCCCTTCAGAATTTCACTCATGTC
A
Found at i:23676468 original size:64 final size:64
Alignment explanation
Indices: 23676400--23676605 Score: 141
Period size: 64 Copynumber: 3.1 Consensus size: 64
23676390 CCAGAGCCCT
23676400 TTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTA
1 TTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTA
* * * *** * ** *
23676464 TTTCAAAATACATACAACATCAAT-AAACATATGCAAGCCC--ATTTGGGTAACAGTGGTACTGG
1 TTTCAGATTACA-ATAA-AT---TGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA-TGG
* * *
23676526 GCCAGAGCCCT-
53 CCCATAGGCCTA
*
23676537 TTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCA
1 TTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTA
23676601 TTTCA
1 TTTCA
23676606 AAATACATGC
Statistics
Matches: 98, Mismatches: 27, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 10 0.10
64 18 0.18
65 6 0.06
66 2 0.02
67 9 0.09
68 6 0.06
69 6 0.06
70 9 0.09
71 2 0.02
72 6 0.06
73 13 0.13
74 11 0.11
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (64 bp):
TTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTA
Found at i:23676607 original size:137 final size:137
Alignment explanation
Indices: 23676361--23676647 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
23676351 TATTAGGCCT
**
23676361 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
*
23676426 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTATTTCAAAATACATACAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAATAAA
23676491 CATATGC
131 CATATGC
23676498 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
* *
23676563 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAATAAA
23676628 CATATGC
131 CATATGC
23676635 AAGCCCATTTGGG
1 AAGCCCATTTGGG
23676648 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAATAAA
CATATGC
Found at i:23678458 original size:26 final size:26
Alignment explanation
Indices: 23678422--23678505 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
23678412 CATGAAATTC
23678422 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23678448 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23678474 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23678500 TTATCA
1 TTATCA
23678506 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23683805 original size:134 final size:136
Alignment explanation
Indices: 23683578--23683849 Score: 512
Period size: 134 Copynumber: 2.0 Consensus size: 136
23683568 AGCCCATTCA
23683578 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA-CCCCTTATTC
23683643 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
65 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
23683708 CATTTGG
130 CATTTGG
*
23683715 GTAACAGTGGTACTGGGCC-GAGCCCTTTTCAGATTACAATAAACTGGGTCTTA-CCCTTATTCA
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTACCCCTTATTCA
23683778 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCC
66 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCC
23683843 ATTTGG
131 ATTTGG
23683849 G
1 G
23683850 GAGACTACTC
Statistics
Matches: 134, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
134 82 0.61
136 33 0.25
137 19 0.14
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTACCCCTTATTCA
GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCC
ATTTGG
Found at i:23692089 original size:89 final size:89
Alignment explanation
Indices: 23691912--23692307 Score: 503
Period size: 89 Copynumber: 4.5 Consensus size: 89
23691902 AACATCGGTG
* ** *
23691912 AATTCACAGATCTTGTCTCCCTAAAGTTATAGTGGAACAGATCAAAGA-AGCAAGCCTTAACCTC
1 AATT-ACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCC
23691976 CTAAGTAGTAGGGTAACAGGCTGAA
65 CTAAGTAGTAGGGTAACAGGCTGAA
* * * **
23692001 GATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAGCCTTAACCCCC
1 AATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCCC
*
23692066 TAAGTAGTAGGGTAACAAGCTG--
66 TAAGTAGTAGGGTAACAGGCTGAA
* * ** *
23692088 AATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAATGGATCAAAGAAAGCAAGCCTTAACCCCC
1 AATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCCC
*
23692153 TAAGTGGTAGGGTAACAGGCTGAA
66 TAAGTAGTAGGGTAACAGGCTGAA
* * * *
23692177 AATGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTGAA-CCTTAACCCC
1 AATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAG-CAAGCCTTAACCCC
* * *
23692241 CTAAGCAGTAGGGTAACAGGTTAAA
65 CTAAGTAGTAGGGTAACAGGCTGAA
* * * *
23692266 AATTACAGATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATC
1 AATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
23692308 GAAGTCACAA
Statistics
Matches: 262, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
87 75 0.29
88 39 0.15
89 146 0.56
90 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (89 bp):
AATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACAGCAAGCCTTAACCCCC
TAAGTAGTAGGGTAACAGGCTGAA
Found at i:23692211 original size:176 final size:176
Alignment explanation
Indices: 23691912--23692307 Score: 587
Period size: 176 Copynumber: 2.2 Consensus size: 176
23691902 AACATCGGTG
* * *
23691912 AATTCACAGATCTTGTCTCCCTAAAGTTATAGTGGAACAGATCAAAGAAGCAAGCCTTAACCTCC
1 AATT-ACAGATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCC
* *
23691977 TAAGTAGTAGGGTAACAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
65 TAAGTAGTAGGGTAACAGGCTGAAAATGACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
* * * *
23692042 CGAAGACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCT-G
130 CAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
* * * **
23692088 AATTGCAGATCTTATCTCCCTGAAGTTGCAGTGGAATGGATCAAAGAAAGCAAGCCTTAACCCCC
1 AATTACAGATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCAAAG-AAGCAAGCCTTAACCCCC
* *
23692153 TAAGTGGTAGGGTAACAGGCTGAAAATGATAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
65 TAAGTAGTAGGGTAACAGGCTGAAAATGACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGAT
* *
23692218 CAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
130 CAAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCT-AA
*
23692266 AATTACAGATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATC
1 AATTACAGATCTTATCTCCCTAAAGTTGTAGTGGAACAGATC
23692308 GAAGTCACAA
Statistics
Matches: 193, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
175 35 0.18
176 122 0.63
178 36 0.19
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (176 bp):
AATTACAGATCTTATCTCCCTAAAGTTGTAGTGGAACAGATCAAAGAAGCAAGCCTTAACCCCCT
AAGTAGTAGGGTAACAGGCTGAAAATGACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
AAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
Found at i:23694026 original size:21 final size:21
Alignment explanation
Indices: 23693994--23694035 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
23693984 GGTTAACTCA
23693994 TTGTTTTAAAAT-TCATTTTT
1 TTGTTTTAAAATATCATTTTT
23694014 TTGTTTATAAAATCATCATTTT
1 TTGTTT-TAAAAT-ATCATTTT
23694036 GAAAGTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
23 7 0.37
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
TTGTTTTAAAATATCATTTTT
Found at i:23694035 original size:20 final size:20
Alignment explanation
Indices: 23693994--23694036 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23693984 GGTTAACTCA
**
23693994 TTGTTTTAAAATTCATTTTT
1 TTGTTTTAAAATTCATCATT
23694014 TTGTTTATAAAA-TCATCATT
1 TTGTTT-TAAAATTCATCATT
23694034 TTG
1 TTG
23694037 AAAGTCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (20 bp):
TTGTTTTAAAATTCATCATT
Found at i:23697202 original size:25 final size:25
Alignment explanation
Indices: 23697168--23697345 Score: 253
Period size: 25 Copynumber: 7.2 Consensus size: 25
23697158 ACATGAATTC
*
23697168 TTATCATGAAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCA
*
23697193 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCA
23697219 TTATCATGGAA-ATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCA
23697243 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCA
23697268 TTATCATGGAACATTTACCTAACC-
1 TTATCATGGAACATTTACCTAACCA
23697292 --AT-AT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCA
23697314 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACC-A
23697340 TTATCA
1 TTATCA
23697346 ATTTGTATCA
Statistics
Matches: 141, Mismatches: 1, Indels: 21
0.87 0.01 0.13
Matches are distributed among these distances:
20 14 0.10
21 4 0.03
22 2 0.01
23 3 0.02
24 22 0.16
25 48 0.34
26 48 0.34
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (25 bp):
TTATCATGGAACATTTACCTAACCA
Found at i:23697226 original size:26 final size:26
Alignment explanation
Indices: 23697168--23697345 Score: 259
Period size: 26 Copynumber: 7.2 Consensus size: 26
23697158 ACATGAATTC
*
23697168 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCCA
*
23697193 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
23697219 TTATCATGGAA-ATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCCA
23697243 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
23697268 TTATCATGGAACATTTACCTAA-CC-
1 TTATCATGGAACATTTACCTAACCCA
23697292 --AT-AT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
23697314 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
23697340 TTATCA
1 TTATCA
23697346 ATTTGTATCA
Statistics
Matches: 141, Mismatches: 2, Indels: 19
0.87 0.01 0.12
Matches are distributed among these distances:
20 14 0.10
21 4 0.03
22 2 0.01
23 3 0.02
24 22 0.16
25 46 0.33
26 50 0.35
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:23697315 original size:46 final size:48
Alignment explanation
Indices: 23697168--23697340 Score: 271
Period size: 46 Copynumber: 3.6 Consensus size: 48
23697158 ACATGAATTC
*
23697168 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACC--TATCATG-AACATTTACCTAACCCA
23697219 TTATCATGGAA-ATTTACCTAACCATTATCATGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACC--TATCATGAACATTTACCTAACCCA
23697268 TTATCATGGAACATTTACCTAACC-AT-ATGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATCATGAACATTTACCTAACCCA
23697314 TTATCATGGAACATTTACCTAACCTAT
1 TTATCATGGAACATTTACCTAACCTAT
23697341 TATCAATTTG
Statistics
Matches: 119, Mismatches: 1, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
46 44 0.37
47 4 0.03
49 28 0.24
50 33 0.28
51 10 0.08
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (48 bp):
TTATCATGGAACATTTACCTAACCTATCATGAACATTTACCTAACCCA
Found at i:23701518 original size:25 final size:26
Alignment explanation
Indices: 23701481--23701532 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
23701471 TCAAACATGC
23701481 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
23701507 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
23701532 A
1 A
23701533 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:23703043 original size:26 final size:26
Alignment explanation
Indices: 23703007--23703131 Score: 211
Period size: 26 Copynumber: 4.9 Consensus size: 26
23702997 CATGAAATTC
23703007 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23703033 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
23703059 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
23703084 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
23703108 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
23703132 TATTCATTAT
Statistics
Matches: 96, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
24 24 0.25
25 24 0.25
26 48 0.50
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23703119 original size:49 final size:51
Alignment explanation
Indices: 23703007--23703131 Score: 218
Period size: 49 Copynumber: 2.5 Consensus size: 51
23702997 CATGAAATTC
*
23703007 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCA
23703059 TTATCATGGAACATTTACCTAACCATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
23703108 TTATCATGGAACATTTACCTAACC
1 TTATCATGGAACATTTACCTAACC
23703132 TATTCATTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
49 27 0.38
50 13 0.18
51 11 0.15
52 21 0.29
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:23709168 original size:80 final size:80
Alignment explanation
Indices: 23709084--23709232 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
23709074 TATGGTAACC
* * * *
23709084 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
23709148 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
23709164 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
23709229 CCGG
66 CCGG
23709233 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:23709174 original size:40 final size:38
Alignment explanation
Indices: 23709125--23709232 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
23709115 ATCACGATTT
*
23709125 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
23709165 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
23709205 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
23709233 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:23711280 original size:40 final size:40
Alignment explanation
Indices: 23711175--23711391 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
23711165 CGGATGATAA
* *
23711175 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
23711215 CCGGGCTAAG-CCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23711254 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
23711294 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
23711334 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
23711374 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
23711392 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
39 50 0.31
40 112 0.69
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23718929 original size:15 final size:15
Alignment explanation
Indices: 23718911--23719037 Score: 52
Period size: 14 Copynumber: 8.9 Consensus size: 15
23718901 ATCTAAACTA
23718911 TAAACCCCT-AACCCC
1 TAAA-CCCTAAACCCC
* *
23718926 TAAACCTTAAA-CCA
1 TAAACCCTAAACCCC
* *
23718940 TAAAACATAAA-CCC
1 TAAACCCTAAACCCC
* *
23718954 TTAACCCTTAA-CCC
1 TAAACCCTAAACCCC
* *
23718968 TAAACCCCAACCCCC
1 TAAACCCTAAACCCC
* * *
23718983 TAAAACTTAAA-CAC
1 TAAACCCTAAACCCC
* *
23718997 T-AACCCTTAACCCA
1 TAAACCCTAAACCCC
* *
23719011 TAAACCATAAA-CCA
1 TAAACCCTAAACCCC
*
23719025 TAATCCCTAAACC
1 TAAACCCTAAACC
23719038 TATAATCCAT
Statistics
Matches: 80, Mismatches: 27, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
13 6 0.08
14 50 0.62
15 24 0.30
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAACCCTAAACCCC
Found at i:23719023 original size:22 final size:22
Alignment explanation
Indices: 23718904--23719023 Score: 59
Period size: 21 Copynumber: 5.6 Consensus size: 22
23718894 CTAATTAATC
* *
23718904 TAAACTATAAACCCCTAACCCC
1 TAAACCATAAACCCCTAACCCA
* * **
23718926 TAAACCTTAAA-CCATAAAACA
1 TAAACCATAAACCCCTAACCCA
* * *
23718947 TAAACCCTTAACCCTTAACCC-
1 TAAACCATAAACCCCTAACCCA
** * ** *
23718968 TAAACCCCAACCCCCTAAAACT
1 TAAACCATAAACCCCTAACCCA
*
23718990 TAAA-CACT-AACCCTTAACCCA
1 TAAACCA-TAAACCCCTAACCCA
23719011 TAAACCATAAACC
1 TAAACCATAAACC
23719024 ATAATCCCTA
Statistics
Matches: 69, Mismatches: 24, Indels: 10
0.67 0.23 0.10
Matches are distributed among these distances:
21 44 0.64
22 25 0.36
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAACCATAAACCCCTAACCCA
Found at i:23719025 original size:14 final size:14
Alignment explanation
Indices: 23719008--23719052 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
23718998 AACCCTTAAC
*
23719008 CCATAAACCATAAA
1 CCATAATCCATAAA
*
23719022 CCATAATCCCTAAA
1 CCATAATCCATAAA
23719036 CCTATAATCCATAAA
1 CC-ATAATCCATAAA
23719051 CC
1 CC
23719053 TTACAATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
CCATAATCCATAAA
Found at i:23719042 original size:15 final size:15
Alignment explanation
Indices: 23719005--23719053 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
23718995 ACTAACCCTT
* *
23719005 AACCCATAAACCATA
1 AACCTATAATCCATA
*
23719020 AACC-ATAATCCCTA
1 AACCTATAATCCATA
23719034 AACCTATAATCCATA
1 AACCTATAATCCATA
23719049 AACCT
1 AACCT
23719054 TACAATAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
AACCTATAATCCATA
Found at i:23719675 original size:40 final size:38
Alignment explanation
Indices: 23719630--23719757 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 38
23719620 TTTTTGGAAA
* *
23719630 CACCGCTAAAGATCAAGCATTAACAGCGTTTTCTAAAAAG
1 CACCGCTAAAGATCAA-CATTAGCGGCGTTTT-TAAAAAG
* **
23719670 CACCGCTAAAGGTGTACATATAGCGGCGTTTTTAAAAAAG
1 CACCGCTAAAGATCAACAT-TAGCGGCGTTTTT-AAAAAG
* * *
23719710 CGCCGCTAATA-CTCAATCTTTAGCGGCGTTTTTAAAAAG
1 CACCGCTAA-AGATCAA-CATTAGCGGCGTTTTTAAAAAG
23719749 CACCGCTAA
1 CACCGCTAA
23719758 TGCTCGTTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
39 18 0.25
40 52 0.71
41 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (38 bp):
CACCGCTAAAGATCAACATTAGCGGCGTTTTTAAAAAG
Found at i:23719758 original size:39 final size:40
Alignment explanation
Indices: 23719690--23719781 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 40
23719680 GGTGTACATA
*
23719690 TAGCGGCGTTTTTAAAAAAGCGCCGCTAATACTCAATCTT
1 TAGCGGCGTTTTTAAAAAAGCACCGCTAATACTCAATCTT
* **
23719730 TAGCGGCGTTTTT-AAAAAGCACCGCTAATGCTCGTTCTT
1 TAGCGGCGTTTTTAAAAAAGCACCGCTAATACTCAATCTT
*
23719769 TAGTGGCGTTTTT
1 TAGCGGCGTTTTT
23719782 CATTCAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.72
40 13 0.28
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (40 bp):
TAGCGGCGTTTTTAAAAAAGCACCGCTAATACTCAATCTT
Found at i:23719849 original size:39 final size:38
Alignment explanation
Indices: 23719796--23719873 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
23719786 CAAACGCCAC
*
23719796 TAAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTT
1 TAAAAACACCGCTAATACTCAATCTTTAGCGGCGTTTT
* ** *
23719834 TAAAAAGCACCGCTAATGCTCGTTCTTTAGTGGCGTTTT
1 TAAAAA-CACCGCTAATACTCAATCTTTAGCGGCGTTTT
23719873 T
1 T
23719874 CATTCAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 6 0.18
39 28 0.82
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (38 bp):
TAAAAACACCGCTAATACTCAATCTTTAGCGGCGTTTT
Found at i:23719867 original size:92 final size:92
Alignment explanation
Indices: 23719704--23719894 Score: 364
Period size: 92 Copynumber: 2.1 Consensus size: 92
23719694 GGCGTTTTTA
23719704 AAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTTTAAAAAGCACCGCTAATGCTCGTTCTT
1 AAAAA-CGCCGCTAATACTCAATCTTTAGCGGCGTTTTTAAAAAGCACCGCTAATGCTCGTTCTT
23719769 TAGTGGCGTTTTTCATTCAAACGCCACT
65 TAGTGGCGTTTTTCATTCAAACGCCACT
23719797 AAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTTAAAAAGCACCGCTAATGCTCGTTCTTT
1 AAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTTAAAAAGCACCGCTAATGCTCGTTCTTT
*
23719862 AGTGGCGTTTTTCATTCAAACGCCGCT
66 AGTGGCGTTTTTCATTCAAACGCCACT
23719889 AAAAAC
1 AAAAAC
23719895 CTGTTTTGCT
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 92 0.95
93 5 0.05
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (92 bp):
AAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTTAAAAAGCACCGCTAATGCTCGTTCTTT
AGTGGCGTTTTTCATTCAAACGCCACT
Found at i:23723045 original size:47 final size:46
Alignment explanation
Indices: 23722940--23723174 Score: 146
Period size: 47 Copynumber: 4.8 Consensus size: 46
23722930 CATATTACAA
* * ** * *
23722940 ACCGAAGCCATAGCCCAGCCATGGTCTTACACGGATCACATATCAC
1 ACCGATGCCATATCCCAGATATGGTCTTATACGGAGCACATATCAC
** * *
23722986 ACTAATGTCATATCCCAGATATGGTCTTATACAGTAGCACATATCAC
1 ACCGATGCCATATCCCAGATATGGTCTTATAC-GGAGCACATATCAC
* * *
23723033 ACCGATGCCATATCCTAGATATGGTATTATATGGAAGCACATAATTACATCTC
1 ACCGATGCCATATCCCAGATATGGTCTTATACGG-AGCACAT-A-T-CA---C
* * ** *
23723086 TCCGATGCCATAGCCCATTTATGGTCTTATACGGAAATCACATGATCACATCAC
1 ACCGATGCCATATCCCAGATATGGTCTTATACGG--AGCAC---AT---ATCAC
* *
23723140 ACCGATGCCATAACCCAGCTATGGTCTTATACGGA
1 ACCGATGCCATATCCCAGATATGGTCTTATACGGA
23723175 AATTACATGA
Statistics
Matches: 145, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
46 25 0.17
47 45 0.31
48 1 0.01
49 1 0.01
50 2 0.01
52 1 0.01
53 28 0.19
54 36 0.25
57 4 0.03
58 1 0.01
59 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (46 bp):
ACCGATGCCATATCCCAGATATGGTCTTATACGGAGCACATATCAC
Found at i:23723150 original size:54 final size:54
Alignment explanation
Indices: 23723028--23723297 Score: 364
Period size: 54 Copynumber: 5.0 Consensus size: 54
23723018 AGTAGCACAT
* * * * * * * *
23723028 ATCACACCGATGCCATATCCTAGATATGGTATTATATGG-AAGCACATAATTAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
* * **
23723081 ATCTCTCCGATGCCATAGCCCATTTATGGTCTTATACGGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
* *
23723135 ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAAATTACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
*
23723189 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
* * *
23723243 AGCACACCGATGCCATAGCCCAGCTATGGTATTATACGAAAATCACAT-ATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
23723296 AT
1 AT
23723298 GTTTCCATGG
Statistics
Matches: 193, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
53 37 0.19
54 156 0.81
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (54 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
Found at i:23726932 original size:40 final size:39
Alignment explanation
Indices: 23726873--23726973 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
23726863 AAATTGAATG
* * *
23726873 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGG-TAAGACCCGAAGACAATTATGCTAGAAACT
* * ***
23726913 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGG-TAAGACCCGAAGACAATTATGCTAGAAACT
23726953 ATATCCGGGTAAGACCCGAAG
1 ATATCCGGGTAAGACCCGAAG
23726974 GCATTCGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 12 0.23
40 40 0.77
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:23726997 original size:39 final size:39
Alignment explanation
Indices: 23726912--23727039 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
23726902 TGCTGGAAAT
* * *
23726912 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
23726952 TATATCCGGG-TAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
23726991 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
23727031 TATATCCGG
1 TATATCCGG
23727040 TTATATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 3 0.04
39 31 0.40
40 41 0.53
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:23730002 original size:40 final size:40
Alignment explanation
Indices: 23729957--23730126 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
23729947 CGGAATATAA
*
23729957 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23729997 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
23730037 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
23730077 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
23730117 CCGGATATAA
1 CCGGATATAA
23730127 TTCAATTTCT
Statistics
Matches: 105, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 104 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23730107 original size:80 final size:80
Alignment explanation
Indices: 23729973--23730122 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
23729963 ATAACCATGT
* *
23729973 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
23730038 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
23730053 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
23730116 CCCGGAT
64 CCCGGAT
23730123 ATAATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:23739673 original size:48 final size:46
Alignment explanation
Indices: 23739383--23739701 Score: 211
Period size: 47 Copynumber: 6.8 Consensus size: 46
23739373 GGATAAGTTA
*
23739383 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCATCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-ATCTAGG
** * * * ** *
23739432 TTGATGCCATGTCCTAGACATGGTCTTATACTAGCTTTCATATATACGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATATCTA-G-G
** * * *
23739482 TTGATGCATGTCCTAGACATGTCTTACACTAGCA--CA-ACTCTTA-C
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATA-TC-TAGG
* * * * *
23739526 CCGATGCATGTCTCAGACACGTCTTACACTGGCTA-TCGTCGTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCAT-ATCTAGG
* * * *
23739573 CCGATGCATGTCCCAGACATGTTTTACACTGACACTCATCTCTACG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATCTAGG
* * *
23739619 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTTATAATGT-GG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-ATCTAGG
*
23739667 CCGATGCATGTCCCAGACATGTGTTACACTGGCAC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCAC
23739702 ACAAGAAATC
Statistics
Matches: 216, Mismatches: 40, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
44 27 0.12
45 2 0.01
46 29 0.13
47 64 0.30
48 37 0.17
49 50 0.23
50 7 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATCTAGG
Found at i:23739676 original size:94 final size:93
Alignment explanation
Indices: 23739383--23739697 Score: 275
Period size: 94 Copynumber: 3.3 Consensus size: 93
23739373 GGATAAGTTA
* * * * *
23739383 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGTTGATGCCATGTCCTA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGAC-ATCATC-TCTACGTCGATGCCATGTCCCA
* * *
23739448 GACATGGTCTTATACTAGCTTTCATATATACGT-G
62 GACATGGTCTTACACTGGCATT-ATA-AT-CGTGG
** * * * *
23739482 TTGATGCATGTCCTAGACATGTCTTACACT-AGCA-CAACTCTTAC-CCGATG-CATGTCTCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTGA-CATCATCTC-TACGTCGATGCCATGTCCCAGA
* ** ** *
23739543 CA-CGTCTTACACTGGCTATCGTCGTCGAGG
64 CATGGTCTTACACTGGC-ATTATAATCGTGG
*
23739573 CCGATGCATGTCCCAGACATGTTTTACACTGACACTCATCTCTACGTCGATGCCATGTCCCAGAC
1 CCGATGCATGTCCCAGACATGTCTTACACTGACA-TCATCTCTACGTCGATGCCATGTCCCAGAC
23739638 ATGGTCTTACACTGGCACTTATAAT-GTGG
65 ATGGTCTTACACTGGCA-TTATAATCGTGG
*
23739667 CCGATGCATGTCCCAGACATGTGTTACACTG
1 CCGATGCATGTCCCAGACATGTCTTACACTG
23739698 GCACACAAGA
Statistics
Matches: 171, Mismatches: 34, Indels: 27
0.74 0.15 0.12
Matches are distributed among these distances:
90 2 0.01
91 30 0.18
92 16 0.09
93 22 0.13
94 52 0.30
95 20 0.12
96 1 0.01
97 11 0.06
98 13 0.08
99 4 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (93 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACATCATCTCTACGTCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCATTATAATCGTGG
Found at i:23740436 original size:12 final size:12
Alignment explanation
Indices: 23740419--23740443 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23740409 CAAAAATGTA
23740419 AAAATCATCAAG
1 AAAATCATCAAG
23740431 AAAATCATCAAG
1 AAAATCATCAAG
23740443 A
1 A
23740444 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:23742403 original size:49 final size:49
Alignment explanation
Indices: 23742332--23742462 Score: 183
Period size: 49 Copynumber: 2.7 Consensus size: 49
23742322 ACATTAAATT
* *
23742332 CGATGCCATGTCCTAGATAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * *
23742381 CGGTGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGC
23742430 CGATGCCATGTCCCAGATAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGAC
23742463 ACACAACAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 70 0.99
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:23742496 original size:44 final size:48
Alignment explanation
Indices: 23742331--23742503 Score: 151
Period size: 49 Copynumber: 3.6 Consensus size: 48
23742321 AACATTAAAT
* * ***
23742331 TCGATGCCATGTCCTAGATAGGTCTTACACTGACTTTCATA-TATCGAG-G
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGACACACA-ACTA-C-AGTG
* * * * * * *
23742380 CCGGTGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTG
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGACACACAACTA-CAGTG
*
23742429 TCGATGCCATGTCCCAGATAGGTCTTACACTGACACACAAC-A-AGT-
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGACACACAACTACAGTG
23742474 T-GATGCCATGTCCCAGACAGGTCTTACACT
1 TCGATGCCATGTCCCAGACAGGTCTTACACT
23742504 AGATTGTATA
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
44 28 0.27
45 1 0.01
46 2 0.02
48 2 0.02
49 72 0.69
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
TCGATGCCATGTCCCAGACAGGTCTTACACTGACACACAACTACAGTG
Found at i:23746794 original size:25 final size:23
Alignment explanation
Indices: 23746750--23746797 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
23746740 TGGCCTGAAT
*
23746750 CTTTAATGAATGTGGTTTTGATG
1 CTTTAATGAATGTGGCTTTGATG
23746773 CTTTGAATGAAGTGTGGCTTTGATG
1 CTTT-AATGAA-TGTGGCTTTGATG
23746798 GTTAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 6 0.27
25 12 0.55
ACGTcount: A:0.21, C:0.06, G:0.29, T:0.44
Consensus pattern (23 bp):
CTTTAATGAATGTGGCTTTGATG
Found at i:23747213 original size:2 final size:2
Alignment explanation
Indices: 23747208--23747237 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23747198 ATATGGTTTA
23747208 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
23747238 CAGTCAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23753677 original size:27 final size:27
Alignment explanation
Indices: 23753639--23753796 Score: 171
Period size: 27 Copynumber: 5.9 Consensus size: 27
23753629 GCGAGGCTGC
* * *
23753639 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
23753666 CAGATATTGTGACAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
23753692 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
23753719 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
23753746 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
23753773 CAGAGAATTGTGGCATAGCCACCA
1 CAGA-TATTGTGGCAGAGCCACCA
23753797 CGACGCTTCC
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.09
27 99 0.88
28 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:23753739 original size:54 final size:54
Alignment explanation
Indices: 23753639--23753796 Score: 221
Period size: 54 Copynumber: 2.9 Consensus size: 54
23753629 GCGAGGCTGC
* * * * *
23753639 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGACAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
23753692 CAGATATATGTGGTAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
23753746 CAGATATATGTGGCAGAGCCACCAGATCAGAGAATTGTGGCATAGCCACCA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
23753797 CGACGCTTCC
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 12 0.13
54 81 0.87
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:23755445 original size:26 final size:26
Alignment explanation
Indices: 23755414--23755495 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 26
23755404 TGAAATGCCC
23755414 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
23755440 ATCATGGAACATTTACCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
* * *
23755466 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAAACCATT
23755492 ATCA
1 ATCA
23755496 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 4 0.08
26 45 0.88
27 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:23759685 original size:17 final size:17
Alignment explanation
Indices: 23759652--23759683 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23759642 ATTTTTCGCA
23759652 AAAATTTTTTGTTTTTG
1 AAAATTTTTTGTTTTTG
23759669 AAAA-TTTTTGTTTTT
1 AAAATTTTTTGTTTTT
23759684 TGTAAACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (17 bp):
AAAATTTTTTGTTTTTG
Found at i:23760701 original size:27 final size:26
Alignment explanation
Indices: 23760653--23760811 Score: 112
Period size: 27 Copynumber: 5.9 Consensus size: 26
23760643 GCGAGGCTGC
*
23760653 CAGATATTGTG-ACGAAGTCACCAGATA
1 CAGATATTGTGCA-G-AGCCACCAGATA
*
23760680 TAGATATTGTGACAGAGCCACCAGA-A
1 CAGATATTGTG-CAGAGCCACCAGATA
23760706 CAGATATATGTTGCAGAGCCACCAGAT-
1 CAGATAT-TG-TGCAGAGCCACCAGATA
* * * *
23760733 CAGATAATCGTGGCATAACCGCCAGA-A
1 CAGAT-ATTGT-GCAGAGCCACCAGATA
23760760 CAGATATATGTCGCAGAGCCACCAGAT-
1 CAGATAT-TGT-GCAGAGCCACCAGATA
* *
23760787 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGT-GCAGAGCCACCAG
23760812 GACGCTTCCT
Statistics
Matches: 106, Mismatches: 15, Indels: 22
0.74 0.10 0.15
Matches are distributed among these distances:
26 10 0.09
27 88 0.83
28 7 0.07
29 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGCAGAGCCACCAGATA
Found at i:23760758 original size:54 final size:54
Alignment explanation
Indices: 23760700--23760803 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
23760690 GACAGAGCCA
*
23760700 CCAGAACAGATATATGTTGCAGAGCCACCAGATCAGATAATCGTGGCATAACCG
1 CCAGAACAGATATATGTCGCAGAGCCACCAGATCAGATAATCGTGGCATAACCG
* *
23760754 CCAGAACAGATATATGTCGCAGAGCCACCAGATTAGATAATTGTGGCATA
1 CCAGAACAGATATATGTCGCAGAGCCACCAGATCAGATAATCGTGGCATA
23760804 GCCACCAGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATATATGTCGCAGAGCCACCAGATCAGATAATCGTGGCATAACCG
Found at i:23762463 original size:26 final size:26
Alignment explanation
Indices: 23762432--23762509 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
23762422 TGAAATGCCC
23762432 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
23762458 ATCATGGAACATTTACCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
23762484 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
23762510 GTCAATTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.08
26 41 0.85
27 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:23763164 original size:14 final size:13
Alignment explanation
Indices: 23763140--23763170 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
23763130 AATACATGAT
23763140 CAAATGCAAATTG
1 CAAATGCAAATTG
23763153 CAAATAGCAAATTG
1 CAAAT-GCAAATTG
23763167 CAAA
1 CAAA
23763171 AAGAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.19
Consensus pattern (13 bp):
CAAATGCAAATTG
Found at i:23776670 original size:15 final size:15
Alignment explanation
Indices: 23776638--23776683 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
23776628 AGTTATCTAT
23776638 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
23776655 TTATATTTCTATTTA
1 TTATATTTCTATTTA
* *
23776670 TTAAATTTTTATTT
1 TTATATTTCTATTT
23776684 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:23776881 original size:25 final size:24
Alignment explanation
Indices: 23776820--23776941 Score: 88
Period size: 25 Copynumber: 4.9 Consensus size: 24
23776810 TATAACGCTC
* *
23776820 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTTATATATTATAT
23776844 ACTTT-AATATTTTTATATATTATAT
1 A-TTTCAA-ATTTTTATATATTATAT
* *
23776869 ATTTCAAACTTTTTTTACACATTATAT
1 ATTTCAAA---TTTTTATATATTATAT
**
23776896 ATTTTTAATTGTTTATATATTAT-T
1 ATTTCAAATT-TTTATATATTATAT
* *
23776920 -TTTAAAAAGTTTTATATATTAT
1 ATTT-CAAATTTTTATATATTAT
23776942 TTCATCTTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
23 15 0.19
24 13 0.16
25 31 0.39
27 20 0.25
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTCAAATTTTTATATATTATAT
Found at i:23777350 original size:176 final size:175
Alignment explanation
Indices: 23777051--23777389 Score: 615
Period size: 176 Copynumber: 1.9 Consensus size: 175
23777041 GGAAATATTT
23777051 CGTGTTTGGAGTTTGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
1 CGTGTTTGGAGTTTGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
* *
23777116 ACTGAATATCCTTTTGAAATTTCATTCATGTTTTCTTAAATTAAAATGAGGCAATATTTCATGTT
66 ACTGAATATCCTTTTGAAATTTCATTCATGTTTTCTTAAATTAAAATAAGGAAATATTTCATGTT
23777181 TAGAAATTCGAGAAATCGTGCCCTACCGTGTTGGGTTTCGATCCAC
131 T-GAAATTCGAGAAATCGTGCCCTACCGTGTTGGGTTTCGATCCAC
23777227 CGTGTTTGGAGTTTGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
1 CGTGTTTGGAGTTTGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
*
23777292 ACTGAATATCCTTTTGAAATTTCATTCATGTTTTCTTAAATTAAAATAAGGAAATATTTCGTGTT
66 ACTGAATATCCTTTTGAAATTTCATTCATGTTTTCTTAAATTAAAATAAGGAAATATTTCATGTT
* * *
23777357 TGGAGTTCGAGAAATCGTGCCCTACTGTGTTGG
131 TGAAATTCGAGAAATCGTGCCCTACCGTGTTGG
23777390 ATTTTGATTT
Statistics
Matches: 157, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
175 29 0.18
176 128 0.82
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (175 bp):
CGTGTTTGGAGTTTGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
ACTGAATATCCTTTTGAAATTTCATTCATGTTTTCTTAAATTAAAATAAGGAAATATTTCATGTT
TGAAATTCGAGAAATCGTGCCCTACCGTGTTGGGTTTCGATCCAC
Found at i:23777564 original size:125 final size:124
Alignment explanation
Indices: 23777227--23777522 Score: 448
Period size: 124 Copynumber: 2.4 Consensus size: 124
23777217 TTCGATCCAC
* *
23777227 CGTGTTTGGAGTTTGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
1 CGTGTTTGGAATTCGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
* *
23777292 ACTGAATATCCTTTTGAAATTTCATTCATGTTTTCTTAAATTAAAATAAGGAAATATTT
66 GCTGAATATCCTTTTGAAATTTCATCCATGTTTTCTTAAATTAAAATAAGGAAATATTT
* * * * * * *
23777351 CGTGTTTGGAGTTCGAGAAATCGTGCCCTACTGTGTTGGATTTTGATTTTTCGTTCAACTGAATA
1 CGTGTTTGGAATTCGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
* *
23777416 GCTGAATATCCTTTTGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTT
66 GCTGAATATCCTTTTGAAATTTCATCCATGTTTTCTTAAATTAAAATAAGGAAATATTT
* *
23777475 CTTGTTTGGAAATTCGAGAAATCGTGCCTTACCGTGCTGGGTTTCGAT
1 CGTGTTTGG-AATTCGAGAAATCGTGCCATACCGTGCTGGGTTTCGAT
23777523 CCACCATTTG
Statistics
Matches: 153, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
124 121 0.79
125 32 0.21
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (124 bp):
CGTGTTTGGAATTCGAGAAATCGTGCCATACCGTGCTGGGTTTCGATTTTTCGTTCAACCGAATA
GCTGAATATCCTTTTGAAATTTCATCCATGTTTTCTTAAATTAAAATAAGGAAATATTT
Found at i:23778003 original size:65 final size:65
Alignment explanation
Indices: 23777899--23778029 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
23777889 AAAATGATCG
23777899 ATCATGGAGTGACCCAATCACACCTAAACAAAAAGGATTGGTGGCGACTCCATACTTCATTTTAA
1 ATCATGGAGTGACCCAATCACACCTAAACAAAAAGGATTGGTGGCGACTCCATACTTCATTTTAA
*
23777964 ATCATGGGGTGACCCAATCACACCTAAACAAAAAGGATTGGTGGCGACTCCATACTTCATTTTAA
1 ATCATGGAGTGACCCAATCACACCTAAACAAAAAGGATTGGTGGCGACTCCATACTTCATTTTAA
23778029 A
1 A
23778030 GTCGATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (65 bp):
ATCATGGAGTGACCCAATCACACCTAAACAAAAAGGATTGGTGGCGACTCCATACTTCATTTTAA
Found at i:23779102 original size:19 final size:19
Alignment explanation
Indices: 23779078--23779123 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
23779068 CTTACTTTCT
*
23779078 TTTGCATT-CATTCCATGTA
1 TTTGCATTGCATTACAT-TA
23779097 TTTGCATTGCATTACATTA
1 TTTGCATTGCATTACATTA
*
23779116 TGTGCATT
1 TTTGCATT
23779124 AAACATCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTACATTA
Found at i:23783568 original size:45 final size:45
Alignment explanation
Indices: 23783518--23783612 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
23783508 GAAGTTGCAG
*
23783518 TGGAGCAGACTGAAAATTAC-AGATCTTATATCCATGTATCGGCTA
1 TGGAGCAGACTGAAAATGACGAG-TCTTATATCCATGTATCGGCTA
* * *
23783563 TGGAGCAGATTGAAAATGGCGAGTCTTATCTCCATGTATCGGCTA
1 TGGAGCAGACTGAAAATGACGAGTCTTATATCCATGTATCGGCTA
23783608 TGGAG
1 TGGAG
23783613 TAGATTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 43 0.96
46 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (45 bp):
TGGAGCAGACTGAAAATGACGAGTCTTATATCCATGTATCGGCTA
Found at i:23783798 original size:178 final size:178
Alignment explanation
Indices: 23783494--23784083 Score: 880
Period size: 178 Copynumber: 3.3 Consensus size: 178
23783484 AGAGGACAGT
* * * * ** *
23783494 AGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTGAAAATTACAGATCTTATATCCATGTATC
1 AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATC
* *
23783558 GGCTATGGAGCAGAT-TGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGTAGATTTTA
65 GGCTATGGAGCAGATCAG-AAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
** *
23783622 GCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACA
129 GCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* ** * *
23783672 AGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTATAGATCGTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCG
* * *
23783737 GCTATAGAGCAGATCAGAAGTGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
66 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
* *
23783802 CACCGGCCTTATCTATCTGAGGTAGCAAGAAAGCAGGTTGAAGATACA
131 CACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
23783850 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCA
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCG
* * * *
23783915 GCTATGGATCAGATCAAAAATGGTGAGTCTTATCTCCATGTATTGGCTATGGAGCAGATTTTAGC
66 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
*
23783980 CGCCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
131 CACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
23784028 AGTCTTATCTTCCT-AAGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCC
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCC
23784084 TTAAGCAGTA
Statistics
Matches: 375, Mismatches: 35, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
177 41 0.11
178 331 0.88
179 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (178 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCG
GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
CACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
Found at i:23784278 original size:88 final size:88
Alignment explanation
Indices: 23784062--23784806 Score: 906
Period size: 88 Copynumber: 8.5 Consensus size: 88
23784052 GAAGCAGACA
* ** * *
23784062 AAAAATTACAGATCTTATCTCCTTAAGCAGTAACGGAGCAGATCAAAGATAGTGAGCCTTAACCC
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
* *
23784127 CCTAAGCAGTAGGGTAATATGCT
66 CCTAAGCAGTAGGGTAACAGGCT
* * * * * * * *
23784150 -AAAATTATAGATCTTATCTCCCTAAACAGTAGAGGAGCAGATTGAAAACCGAGAGCCTTAATCC
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
23784214 CCTAAGCAGTAGGGTAACA-GCC
66 CCTAAGCAGTAGGGTAACAGGCT
* ** * *
23784236 AGGAAATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACACAGTGTGCCTTAACC
1 A-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACC
*
23784301 CCCTAAGGAGTAGGGTAACAGGCT
65 CCCTAAGCAGTAGGGTAACAGGCT
* *
23784325 AAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTA-TGAGCCTTAATC
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-AGTGAGCCTTAACC
* * *
23784389 CCCTAAGCGGTAGGGAAATAGGCT
65 CCCTAAGCAGTAGGGTAACAGGCT
* * * * * * * *
23784413 GAAGATTACAGATCTTACCTTCCTAAGTAGTAGTGGAGTAGATCGAAGACGGTGAGCCTTAACTC
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
23784478 CCTAAACAGTAGGGTAACAGGCT
66 CCTAAGCAGTAGGGTAACAGGCT
* * * * *
23784501 AGAAATTACAAATCTTATCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGTGAGCCTTAACCC
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
23784566 CCTAAGCAGTAGGGTAACAGGCT
66 CCTAAGCAGTAGGGTAACAGGCT
* * * *
23784589 GAAAATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATACGGTGAGCCTTAACCC
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
23784654 CCTAAGCGGTAGGGTAACAGGCT
66 CCTAAGCAGTAGGGTAACAGGCT
* * * *
23784677 AAAAATTACATATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTATCTC
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
* * *
23784742 CCTGAGCAGTAGTGG-AGCAAGCT
66 CCTAAGCAGTAG-GGTAACAGGCT
* * * * *
23784765 GAAGATTACAAATCATATCTCCCTAAGCAGTAG-GGAGTAGAT
1 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
23784807 TGAAATCAAA
Statistics
Matches: 565, Mismatches: 86, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
86 2 0.00
87 78 0.14
88 479 0.85
89 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (88 bp):
AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
CCTAAGCAGTAGGGTAACAGGCT
Found at i:23785300 original size:15 final size:15
Alignment explanation
Indices: 23785268--23785313 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
23785258 AGTTATCTAT
23785268 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
23785285 TTATATTTCTATTTA
1 TTATATTTCTATTTA
* *
23785300 TTAAATTTTTATTT
1 TTATATTTCTATTT
23785314 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:23785511 original size:25 final size:24
Alignment explanation
Indices: 23785450--23785548 Score: 74
Period size: 25 Copynumber: 3.9 Consensus size: 24
23785440 TATAACTCTC
*
23785450 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTTATACATTATGT
*
23785474 ACTTT-AATATTTTTATATATTATGT
1 A-TTTCAA-ATTTTTATACATTATGT
* *
23785499 ATTTCAAACTTTTTTTACGCATTATAT
1 ATTTCAAA-TTTTTATA--CATTATGT
** *
23785526 ATTTTGAATTGTTTATATATTAT
1 ATTTCAAATT-TTTATACATTAT
23785549 TTTTGAAGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
24 7 0.12
25 33 0.56
26 2 0.03
27 17 0.29
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTCAAATTTTTATACATTATGT
Found at i:23787365 original size:19 final size:19
Alignment explanation
Indices: 23787341--23787386 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
23787331 CTTACTTTCT
*
23787341 TTTGCATT-CATTCCATGTA
1 TTTGCATTGCATTACAT-TA
23787360 TTTGCATTGCATTACATTA
1 TTTGCATTGCATTACATTA
*
23787379 TGTGCATT
1 TTTGCATT
23787387 AAACATCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTACATTA
Found at i:23791829 original size:45 final size:45
Alignment explanation
Indices: 23791779--23791875 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
23791769 GAAGTTGCAG
*
23791779 TGGAGCAAACTAAAAATTAC-AGATCTTATATCCATGTATCGGCTA
1 TGGAGCAAACTAAAAATGACGAG-TCTTATATCCATGTATCGGCTA
* * * * *
23791824 TGGAGCAGATTGAAAATGGCGAGTCTTATCTCCATGTATCGGCTA
1 TGGAGCAAACTAAAAATGACGAGTCTTATATCCATGTATCGGCTA
23791869 TGGAGCA
1 TGGAGCA
23791876 GATTTTAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 43 0.96
46 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
TGGAGCAAACTAAAAATGACGAGTCTTATATCCATGTATCGGCTA
Found at i:23792054 original size:178 final size:178
Alignment explanation
Indices: 23791755--23792344 Score: 889
Period size: 178 Copynumber: 3.3 Consensus size: 178
23791745 AGAGGACAGT
* * * * * * *
23791755 AGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAAACTAAAAATTACAGATCTTATATCCATGTATC
1 AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATC
*
23791819 GGCTATGGAGCAGAT-TGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
65 GGCTATGGAGCAGATCAG-AAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
* *
23791883 GCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACA
129 GCCACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* ** * *
23791933 AGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTATAGATCGTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCG
* * *
23791998 GCTATAGAGCAGATCAGAAGTGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
66 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
* *
23792063 CACCGACCTTATCTATCTGAGGTAGCAAGAAAGCAGGTTGAAGATACA
131 CACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
23792111 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCA
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCG
* * * *
23792176 GCTATGGATCAGATCAAAAATGGTGAGTCTTATCTCCATGTATTGGCTATGGAGCAGATTTTAGC
66 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
* *
23792241 CGCCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
131 CACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
23792289 AGTCTTATCTTCCT-AAGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCC
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCC
23792345 TTAAGCAGTA
Statistics
Matches: 374, Mismatches: 36, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
177 41 0.11
178 330 0.88
179 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (178 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACAAAAAATTACAGATCTTATCTCCATGTATCG
GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
CACCGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
Found at i:23792424 original size:88 final size:87
Alignment explanation
Indices: 23792324--23793069 Score: 877
Period size: 88 Copynumber: 8.5 Consensus size: 87
23792314 AAGCAGACAA
* *** * * *
23792324 AAAATTACAGATCTTATCTCCTTAAGCAGTAACAGAGCAGATCAAAGATAGTGAGCCTTACCCCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
* * *
23792389 CTAAGCAATAGGGTAATATGCT
66 CTAAGCAGTAGGGTAACAGGCT
* * * * * * * *
23792411 AAAACTTATAGATCTTATCTCCCTAAACAGTAGAGGAGCAGATTGAAAACCGAGAGCCTTAATCC
1 AAAA-TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
23792476 CCTAAGCAGTAGGGTAACA-GCC
65 CCTAAGCAGTAGGGTAACAGGCT
** * *
23792498 AGGAAATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACACAGTGTGCCTTAACC
1 A--AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACC
*
23792563 CCCTAAGGAGTAGGGTAACAGGCT
64 CCCTAAGCAGTAGGGTAACAGGCT
* *
23792587 AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACTA-TGAGCCTTAATC
1 -AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-AGTGAGCCTTAACC
* * *
23792651 CCCTAAGCGGTAGGGAAATAGGCT
64 CCCTAAGCAGTAGGGTAACAGGCT
* * * * * *
23792675 GAAGATTACAGATCTTACCTTCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAGCCTTAACTC
1 -AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
23792740 CCTAAACAGTAGGGTAACAGGCT
65 CCTAAGCAGTAGGGTAACAGGCT
* * * *
23792763 AGAAATTACAAATCTTATCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGTGAGCCTTAACCC
1 A-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
23792828 CCTAAGCAGTAGGGTAACAGGCT
65 CCTAAGCAGTAGGGTAACAGGCT
* * *
23792851 GAAAATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATACGGTGAGCCTTAACCC
1 -AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
*
23792916 CCTAAGCGGTAGGGTAACAGGCT
65 CCTAAGCAGTAGGGTAACAGGCT
* * * *
23792939 AAAAATTACATATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTATCTC
1 -AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCC
* * *
23793004 CCTGAGCAGTAGTGG-AGCAAGCT
65 CCTAAGCAGTAG-GGTAACAGGCT
* * * *
23793027 GAAGATTACAAATCATATCTCCCTAAGCAGTAGTGGAGTAGAT
1 -AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
23793070 TGAAATCAAA
Statistics
Matches: 565, Mismatches: 84, Indels: 19
0.85 0.13 0.03
Matches are distributed among these distances:
87 8 0.01
88 547 0.97
89 9 0.02
90 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (87 bp):
AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
CTAAGCAGTAGGGTAACAGGCT
Found at i:23792744 original size:44 final size:43
Alignment explanation
Indices: 23792696--23793022 Score: 137
Period size: 44 Copynumber: 7.4 Consensus size: 43
23792686 ATCTTACCTT
*
23792696 CCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAGCCTTAACTC
1 CCTAAGCAGTAG-GGAGCAGATCGAAGACGGTGAGCCTTAACTC
* * * * ***** ** *
23792740 CCTAAACAGTAGGGTAACAGGCTAGAA-ATTACAAATCTTATCTC
1 CCTAAGCAGTAGGG-AGCA-GATCGAAGACGGTGAGCCTTAACTC
* *
23792784 CCTAAGCAATAGCGGAGCAGATCGAAGACGGTGAGCCTTAACCC
1 CCTAAGCAGTAG-GGAGCAGATCGAAGACGGTGAGCCTTAACTC
* * ** * ** *
23792828 CCTAAGCAGTAGGGTAACAG-GCTGAA-A-ATTACAGATTTTATCTC
1 CCTAAGCAGTAGGG-AGCAGATC-GAAGACGGT-GAG-CCTTAACTC
* *
23792872 CCTAAGCAGTAGTGGAGCAGATCGAATACGGTGAGCCTTAACCC
1 CCTAAGCAGTAG-GGAGCAGATCGAAGACGGTGAGCCTTAACTC
* * * ** * * * *
23792916 CCTAAGCGGTAGGGTAACAGGCTAAAAATTAC-AT-A-TCTTATCTC
1 CCTAAGCAGTAGGG-AGCA-GAT-CGAA-GACGGTGAGCCTTAACTC
* *
23792960 CCTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTATCTC
1 CCTAAGCAGTAG-GGAGCAGATCGAAGACGGTGAGCCTTAACTC
*
23793004 CCTGAGCAGTAGTGGAGCA
1 CCTAAGCAGTAG-GGAGCA
23793023 AGCTGAAGAT
Statistics
Matches: 198, Mismatches: 65, Indels: 40
0.65 0.21 0.13
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 18 0.09
44 149 0.75
45 18 0.09
46 4 0.02
47 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (43 bp):
CCTAAGCAGTAGGGAGCAGATCGAAGACGGTGAGCCTTAACTC
Found at i:23793564 original size:15 final size:15
Alignment explanation
Indices: 23793532--23793577 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
23793522 AGTTATCTAT
23793532 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
23793549 TTATATTTCTATTTA
1 TTATATTTCTATTTA
* *
23793564 TTAAATTTTTATTT
1 TTATATTTCTATTT
23793578 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:23793776 original size:25 final size:24
Alignment explanation
Indices: 23793715--23793836 Score: 88
Period size: 25 Copynumber: 4.9 Consensus size: 24
23793705 TATAACGCTC
* *
23793715 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTTATATATTATAT
23793739 ACTTT-AATATTTTTATATATTATAT
1 A-TTTCAA-ATTTTTATATATTATAT
* *
23793764 ATTTCAAACTTTTTTTACACATTATAT
1 ATTTCAAA---TTTTTATATATTATAT
**
23793791 ATTTTTAATTGTTTATATATTAT-T
1 ATTTCAAATT-TTTATATATTATAT
* *
23793815 -TTTAAAAAGTTTTATATATTAT
1 ATTT-CAAATTTTTATATATTAT
23793837 TTCATCTTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
23 15 0.19
24 13 0.16
25 31 0.39
27 20 0.25
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTCAAATTTTTATATATTATAT
Found at i:23794149 original size:125 final size:124
Alignment explanation
Indices: 23793928--23794158 Score: 282
Period size: 125 Copynumber: 1.9 Consensus size: 124
23793918 AAAACCTCTC
* * * * *
23793928 AAAATAAGGAAATATTTCGTGTTTGGAGTTTGAGAAATCGTGCCATACCGTGCTGGGTTTCGATT
1 AAAATAAGGAAATATTTCATGTTTGAAATTCGAGAAATCGTGCCATACCGTGCTGGGTTTCGATC
*** * ** *
23793993 TTTCGTTCAACCGAATAACTGAATATCCTTTTGAAATTTCATTCATGTTTTCTTAAATT
66 CACCGTTCAACCAAATAACCAAATATCCTTTTAAAATTTCATTCATGTTTTCTTAAATT
* * * *
23794052 AAAATGAGGCAATATTTCATGTTTAGAAATTCGAGAAATCGTGCCCTACCGTGTTGGGTTTCGAT
1 AAAATAAGGAAATATTTCATGTTT-GAAATTCGAGAAATCGTGCCATACCGTGCTGGGTTTCGAT
** *
23794117 CCACCGTTTGACCAAATAGCCAAATATCCTTTTAAAATTTCA
65 CCACCGTTCAACCAAATAACCAAATATCCTTTTAAAATTTCA
23794159 AATGCATGAG
Statistics
Matches: 87, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
124 21 0.24
125 66 0.76
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (124 bp):
AAAATAAGGAAATATTTCATGTTTGAAATTCGAGAAATCGTGCCATACCGTGCTGGGTTTCGATC
CACCGTTCAACCAAATAACCAAATATCCTTTTAAAATTTCATTCATGTTTTCTTAAATT
Found at i:23794946 original size:21 final size:21
Alignment explanation
Indices: 23794920--23795000 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
23794910 AGCAAAGGTT
*
23794920 CCCCAAGAACATGTGAATATG
1 CCCCAAGAACACGTGAATATG
23794941 CCCCAAGAACACGTGAATATG
1 CCCCAAGAACACGTGAATATG
****
23794962 ---GTTTAACACGTGAATATG
1 CCCCAAGAACACGTGAATATG
*
23794980 CCCTAAGAACACGTGAATATG
1 CCCCAAGAACACGTGAATATG
23795001 TTTTCTCTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 14 0.29
21 34 0.71
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (21 bp):
CCCCAAGAACACGTGAATATG
Found at i:23809603 original size:19 final size:19
Alignment explanation
Indices: 23809579--23809617 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23809569 TGTTGAGATG
23809579 TTAGGCATGTAACACCCTT
1 TTAGGCATGTAACACCCTT
23809598 TTAGGCATGTAACACCCTT
1 TTAGGCATGTAACACCCTT
23809617 T
1 T
23809618 ACCCGTGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (19 bp):
TTAGGCATGTAACACCCTT
Found at i:23815041 original size:27 final size:26
Alignment explanation
Indices: 23815003--23815070 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
23814993 GGGTATGGTG
* *
23815003 CCTATCTGATAGGTGGCACCAGTGATC
1 CCTATCTGATAGGCGACACCAGTGA-C
23815030 CCTATCTGATAGGCGACACCAGTGAC
1 CCTATCTGATAGGCGACACCAGTGAC
*
23815056 CTCTAACTGATAGGC
1 C-CTATCTGATAGGC
23815071 AGCACACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (26 bp):
CCTATCTGATAGGCGACACCAGTGAC
Done.