Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 69 of 332
Found at i:20933618 original size:29 final size:30
Alignment explanation
Indices: 20933585--20933645 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
20933575 TAAAAATTGA
* *
20933585 TTTTCAGA-CCTAGGGGTAAAATGGTCATT
1 TTTTCAAAGCCTAGGGGCAAAATGGTCATT
**
20933614 TTTTCAAAGTTTAGGGGCAAAATGGTCATT
1 TTTTCAAAGCCTAGGGGCAAAATGGTCATT
20933644 TT
1 TT
20933646 ACCAAAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (30 bp):
TTTTCAAAGCCTAGGGGCAAAATGGTCATT
Found at i:20933652 original size:30 final size:30
Alignment explanation
Indices: 20933595--20933652 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20933585 TTTTCAGACC
* **
20933595 TAGGGGTAAAATGGTCATTTTTTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
20933625 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
20933653 ATATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:20934129 original size:46 final size:46
Alignment explanation
Indices: 20934045--20934161 Score: 164
Period size: 46 Copynumber: 2.5 Consensus size: 46
20934035 GAGAGCTAGC
* *
20934045 GTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACG-AGCGCCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATTGGCATCGAGACGTA-AGCCAGT
* *
20934093 GTAAGACATGTCTAGGACATGCATTGGCCTCGAGACGTAAGCCAGT
1 GTAAGACATGTCTGGGACATGCATTGGCATCGAGACGTAAGCCAGT
20934139 GTAAGACATGTCTGGGACATGCA
1 GTAAGACATGTCTGGGACATGCA
20934162 ACGACTATGA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
46 43 0.68
47 14 0.22
48 6 0.10
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATTGGCATCGAGACGTAAGCCAGT
Found at i:20937492 original size:13 final size:13
Alignment explanation
Indices: 20937474--20937502 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20937464 GGTTGTTTAT
20937474 TAAACTAATTAAC
1 TAAACTAATTAAC
20937487 TAAACTAATTAAC
1 TAAACTAATTAAC
20937500 TAA
1 TAA
20937503 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:20942800 original size:30 final size:30
Alignment explanation
Indices: 20942743--20942800 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20942733 TTTTTGAGCC
* * **
20942743 TAGGGGTAGAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
20942773 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
20942801 ATATGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:20943194 original size:46 final size:48
Alignment explanation
Indices: 20943142--20943309 Score: 133
Period size: 46 Copynumber: 3.6 Consensus size: 48
20943132 CTTGTGTGAG
*
20943142 CTAGTGTAAGATATGTCTGGGACATGCATTGGCCACATT-ATGA-GAG-T
1 CTAGTGTAAGACATGTCTGGGACATGCATTGGCC-CATTGA-GACGAGTT
* *
20943189 C-AGTGTAAGACCATGTCTGGGGCATATCATTGG--CATTGAGACGAGTT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCCATTGAGACGAGTT
* *
20943236 CTAGTGT-AGACATGTCTGGGACATGCATCGG-CC-TCGAGACGTAAG--
1 CTAGTGTAAGACATGTCTGGGACATGCATTGGCCCATTGAGACG--AGTT
* * *
20943281 CCAGTTTAAGACATGTTTGGGACATGCAT
1 CTAGTGTAAGACATGTCTGGGACATGCAT
20943310 CAGCTACAAG
Statistics
Matches: 101, Mismatches: 10, Indels: 21
0.77 0.08 0.16
Matches are distributed among these distances:
45 23 0.23
46 47 0.47
47 20 0.20
48 11 0.11
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
CTAGTGTAAGACATGTCTGGGACATGCATTGGCCCATTGAGACGAGTT
Found at i:20945561 original size:15 final size:16
Alignment explanation
Indices: 20945543--20945572 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20945533 CTGTAAAGAT
20945543 TATACATT-TCATATA
1 TATACATTCTCATATA
20945558 TATACATTCTCATAT
1 TATACATTCTCATAT
20945573 CTCGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:20953689 original size:26 final size:26
Alignment explanation
Indices: 20953660--20953709 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
20953650 ATGTCCCCAC
*
20953660 AGGGCATCTTGAGCATGCTAAGTAAT
1 AGGGCATCTCGAGCATGCTAAGTAAT
20953686 AGGGCATCTCGAGCATGCTAAGTA
1 AGGGCATCTCGAGCATGCTAAGTA
20953710 TGAGGATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (26 bp):
AGGGCATCTCGAGCATGCTAAGTAAT
Found at i:20956948 original size:14 final size:14
Alignment explanation
Indices: 20956929--20956955 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20956919 TTAATCAATC
20956929 GTATTTTCCCAAAA
1 GTATTTTCCCAAAA
20956943 GTATTTTCCCAAA
1 GTATTTTCCCAAA
20956956 TTTTCTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (14 bp):
GTATTTTCCCAAAA
Found at i:20960663 original size:14 final size:14
Alignment explanation
Indices: 20960644--20960673 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20960634 TAAATTATGT
20960644 TAGACAACTTGTGC
1 TAGACAACTTGTGC
20960658 TAGACAACTTGTGC
1 TAGACAACTTGTGC
20960672 TA
1 TA
20960674 CTCGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (14 bp):
TAGACAACTTGTGC
Found at i:20961439 original size:108 final size:110
Alignment explanation
Indices: 20961240--20961440 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
20961230 TTCAAGGATT
* * *
20961240 CCATGTAAGACCATGCCAAGGAATTGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGAATGGCAATTGGTAAGGTTTCTAAGACAAGGAAACCATGTAAGA
*
20961305 CCATGTCAAGACATAGCATTGATAAGTTACTATAAGGCAATGGTC
66 CCATGTCAAGACATAGCAATGATAAGTTACTATAAGGCAATGGTC
* * **
20961350 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGACAAGGCTACCATGTAAG
1 CCATGTAAGACCATGCCAAGGAATGGCAATTGGTAAGGTTTC-TAAGACAAGGAAACCATGTAAG
* *
20961412 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATAGCAATGATAAGTT
20961441 TTAAAAAGGA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 7 0.09
110 25 0.31
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGAATGGCAATTGGTAAGGTTTCTAAGACAAGGAAACCATGTAAGA
CCATGTCAAGACATAGCAATGATAAGTTACTATAAGGCAATGGTC
Found at i:20961478 original size:50 final size:53
Alignment explanation
Indices: 20961232--20961488 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 53
20961222 CATTAGGGTT
* * * *
20961232 CAAGGATTCCATGTAAGACCATGCCAAGGA-ATTGCAATTGGTAAGGTTTC-TAAGG
1 CAAGGATACCATGTAAGACCATGACAA-GACATGGCAA-TGGTAA-G-TTCATAAGA
* * * * * * *
20961287 CAAGGAAATCATGTAAGACCATGTCAAGACATAGCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTT-C-ATAAGA
* * * * *
20961342 CAATGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGA
1 CAA-GGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTCATAAGA
* * *
20961395 CAAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TTAA-A
1 CAAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTCATAAGA
* *
20961446 -AAGGATACCATGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 CAAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAG
20961489 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
50 39 0.23
51 1 0.01
52 7 0.04
53 45 0.26
54 8 0.05
55 68 0.40
56 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
CAAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTCATAAGA
Found at i:20961701 original size:16 final size:16
Alignment explanation
Indices: 20961680--20961710 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20961670 ATAAATTTGA
20961680 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
20961696 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
20961711 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:20968447 original size:108 final size:110
Alignment explanation
Indices: 20968248--20968498 Score: 281
Period size: 108 Copynumber: 2.4 Consensus size: 110
20968238 TTCAAGGATA
* *
20968248 CCATTTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAGGAATTCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAGGAATCCATGTAAGA
* *
20968313 CCATGTCAATACATGGCATTGATAAGTTACTATAAGCCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGCCAAAGGTC
* * * *
20968358 CCATGTAAGACCATGCCAGGGCAT-GACATTGGTGA-G-TTCATAAGGCAAGG-ATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGAAAGGAAT-CCATGTAA
* *
20968419 GACCATGTCAAGACATGGCAATGGTAAGTT--T-TAA---AAAGGATA
64 GACCATGTCAAGACATGGCAATGATAAGTTACTATAAGCCAAAGG-TC
* * *
20968461 CCATGTAAGACCATGACAAGTCATGGAAA-TCGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGT
20968499 ACCCGTGTAT
Statistics
Matches: 119, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
102 5 0.04
103 26 0.22
104 4 0.03
105 3 0.03
106 1 0.01
107 5 0.04
108 44 0.37
109 9 0.08
110 22 0.18
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAGGAATCCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGCCAAAGGTC
Found at i:20968468 original size:50 final size:53
Alignment explanation
Indices: 20968241--20968496 Score: 202
Period size: 55 Copynumber: 4.8 Consensus size: 53
20968231 ATTAGGGTTC
* * * *
20968241 AAGGATACCATTTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTA-AGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAA-G-TTCTATAAGA
* * * * *
20968296 AAGGA-ATTCATGTAAGACCATGTCAATACATGGCATTGATAAGTTACTATAAGCCA
1 AAGGATA-CCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT-CTATAAG--A
* * * * * * *
20968352 AAGG-TCCCATGTAAGACCATGCCAGGGCATGACATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAA-GA
*
20968404 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-TAA-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGA
* * * *
20968454 AAGGATACCATGTAAGACCATGACAAGTCATGGAAATCGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG
20968497 GTACCCGTGT
Statistics
Matches: 161, Mismatches: 31, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
50 39 0.24
52 9 0.06
53 41 0.25
54 10 0.06
55 57 0.35
56 5 0.03
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGA
Found at i:20968709 original size:16 final size:16
Alignment explanation
Indices: 20968688--20968718 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20968678 ATAAATTTTA
20968688 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
20968704 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
20968719 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:20978305 original size:50 final size:50
Alignment explanation
Indices: 20978194--20978606 Score: 195
Period size: 46 Copynumber: 8.7 Consensus size: 50
20978184 GGGTAAAGTA
* * * *
20978194 CCGATGCCATGTCCCAAACATGGTCTTACACT-GACTATCATC-T--TCGAGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAG-CTATCA-CATAACCG-TG
* * *
20978243 CTGATGCCATGTCCTAGACATGGTCTTGCACTAGCTCTCACATAACCGTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAACCGTG
*
20978293 CCGATGCCATGTCCTAGACATGGTCTTACACT-G--A-CACAT--CTTGTAG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAAC-CGT-G
* * * *
20978339 CTGATG-CATG-CATCATACATGGTCTTACACTTGCTATCACATAACCGTG
1 CCGATGCCATGTCCT-AGACATGGTCTTACACTAGCTATCACATAACCGTG
** ** ***
20978388 CCGATGCCATGTCCCGGACATGGTCTTACACT---TA-CACATCTCAAAG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAACCGTG
* * * * *
20978434 CCGATG-GATGTCCTAGACAT-GTCTTATACTAGCT-T-ACGT-CCCGAGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAACCG-TG
* * * ** **
20978480 CTGATG-CATGTCCTAGACAT-GTCTTACACTAGC-A-CTCGTCTCATTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAACCGTG
* * * * * *
20978526 CCGATGCCATGTCC-ATACATGGTCGTACA-TTG-GATCTCATAA-TGTGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAACCGT-G
*
20978573 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCT
20978607 CACACAAATG
Statistics
Matches: 278, Mismatches: 55, Indels: 63
0.70 0.14 0.16
Matches are distributed among these distances:
44 12 0.04
45 34 0.12
46 91 0.33
47 36 0.13
48 2 0.01
49 46 0.17
50 53 0.19
51 4 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAACCGTG
Found at i:20978396 original size:95 final size:97
Alignment explanation
Indices: 20978194--20978467 Score: 328
Period size: 95 Copynumber: 2.9 Consensus size: 97
20978184 GGGTAAAGTA
* *
20978194 CCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTTCGAGGCTGATGCCATGTCCTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CATCTTCGAGGCTGATGCCATGTCATA
* *
20978259 GACATGGTCTTGCACTAGCTCTCACATAACCGTG
64 GACATGGTCTTACACTAGCTATCACATAACCGTG
*
20978293 CCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTT-GTA-GCTGATG-CATG-CATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTCG-AGGCTGATGCCATGTCAT-A
* *
20978354 TACATGGTCTTACACTTGCTATCACATAACCGTG
64 GACATGGTCTTACACTAGCTATCACATAACCGTG
* * * * * * *
20978388 CCGATGCCATGTCCCGGACATGGTCTTACACTTACACATC-TCAAAGCCGATG-GATGTCCTAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTCGAGGCTGATGCCATGTCATAGA
*
20978451 CAT-GTCTTATACTAGCT
66 CATGGTCTTACACTAGCT
20978468 TACGTCCCGA
Statistics
Matches: 153, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
94 16 0.10
95 86 0.56
96 10 0.07
97 7 0.05
98 1 0.01
99 33 0.22
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (97 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTCGAGGCTGATGCCATGTCATAGA
CATGGTCTTACACTAGCTATCACATAACCGTG
Found at i:20986231 original size:138 final size:142
Alignment explanation
Indices: 20985988--20986243 Score: 319
Period size: 138 Copynumber: 1.8 Consensus size: 142
20985978 TGCCATGTTT
*
20985988 TAGACATTGTCTTATATTGGCTATCATCTTCGAGGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TAGACATTGTCTTATATTGGCTATCATCTCCGAGGCCAATGCCATGTCCCAGACATGGTCTTACA
* * *
20986053 CTAGCTCTCACATAACCGTGCCGACGCCATGTCCTAGACATGGCCTTACACTGACACATCTCGTA
66 CTAGCACTCACATAA-C-TGCCAACGCCATGTCCCAGACATGGCCTTACACTGACACATCTCGTA
20986118 GCCGATGCATGTCC
129 GCCGATGCATGTCC
* ** *
20986132 TAGACA-TGTCTTATATTGGCT-TACGTC-CCGAGGCTGATG-CATGTCCTAGACAT-GTCTTAC
1 TAGACATTGTCTTATATTGGCTAT-CATCTCCGAGGCCAATGCCATGTCCCAGACATGGTCTTAC
* **
20986192 ACTAGCACTCATC-TCAA-TGCCAATGCCATGTCCCAGACATGGTTTTACACTG
65 ACTAGCACTCA-CAT-AACTGCCAACGCCATGTCCCAGACATGGCCTTACACTG
20986244 GCTCTTATAA
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
138 30 0.31
140 18 0.18
141 16 0.16
142 10 0.10
143 18 0.18
144 6 0.06
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (142 bp):
TAGACATTGTCTTATATTGGCTATCATCTCCGAGGCCAATGCCATGTCCCAGACATGGTCTTACA
CTAGCACTCACATAACTGCCAACGCCATGTCCCAGACATGGCCTTACACTGACACATCTCGTAGC
CGATGCATGTCC
Found at i:20987709 original size:43 final size:42
Alignment explanation
Indices: 20987577--20987863 Score: 328
Period size: 42 Copynumber: 6.8 Consensus size: 42
20987567 TTAGGGTTAC
* * * * *
20987577 TGAGATTTCGTGCAAGACCATATTTGAGATATGGCATCTATA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
*
20987619 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
20987661 TGAGATTTTATGTAATACCACAGT-TGGGTTATTGGCATCGATA
1 TGAGATTTCATGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* * * * *
20987704 CGAGATTACATGTAAGACTATATCTGGGATATGACATCTA-A
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
20987745 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * *
20987787 TGAGATTTCATGTAAGACCATAGT-TGGGCTATTGGCATTGATG
1 TGAGATTTCATGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* * *
20987830 CGAGATTACATGTAAGACCATATCTAGGATATGG
1 TGAGATTTCATGTAAGACCATATCTGGGATATGG
20987864 AATTGGTACG
Statistics
Matches: 208, Mismatches: 30, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
41 36 0.17
42 103 0.50
43 69 0.33
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:20987812 original size:126 final size:127
Alignment explanation
Indices: 20987590--20987862 Score: 431
Period size: 126 Copynumber: 2.2 Consensus size: 127
20987580 GATTTCGTGC
* * * *
20987590 AAGACCATATTTGAGATATGGCATCTATATGAGATTTCGTGTAAGACCATATCTGGGATATGGCA
1 AAGACCATATCTGGGATATGACATCTATATGAGATTTCATGTAAGACCATATCTGGGATATGGCA
* * *
20987655 TCGATATGAGATTTTATGTAATACCACAGTTGGGTTATTGGCATCGATACGAGATTACATGT
66 TCGATATGAGATTTCATGTAAGACCACAGTTGGGCTATTGGCATCGATACGAGATTACATGT
*
20987717 AAGACTATATCTGGGATATGACATCTA-ATGAGATTTCATGTAAGACCATATCTGGGATATGGCA
1 AAGACCATATCTGGGATATGACATCTATATGAGATTTCATGTAAGACCATATCTGGGATATGGCA
* * *
20987781 TCGATATGAGATTTCATGTAAGACCATAGTTGGGCTATTGGCATTGATGCGAGATTACATGT
66 TCGATATGAGATTTCATGTAAGACCACAGTTGGGCTATTGGCATCGATACGAGATTACATGT
*
20987843 AAGACCATATCTAGGATATG
1 AAGACCATATCTGGGATATG
20987863 GAATTGGTAC
Statistics
Matches: 133, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
126 110 0.83
127 23 0.17
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (127 bp):
AAGACCATATCTGGGATATGACATCTATATGAGATTTCATGTAAGACCATATCTGGGATATGGCA
TCGATATGAGATTTCATGTAAGACCACAGTTGGGCTATTGGCATCGATACGAGATTACATGT
Found at i:20987860 original size:85 final size:81
Alignment explanation
Indices: 20987577--20987863 Score: 297
Period size: 85 Copynumber: 3.4 Consensus size: 81
20987567 TTAGGGTTAC
* * * * *
20987577 TGAGATTTCGTGCAAGACCATATTTGAGATATGGCATCTATATGAGATTTCGTGTAAGACCATAT
1 TGAGATTTCATGTAAGACCATA-TTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATAT
*
20987642 CTGGGATATGGCATCGATA
65 CTGGGATATGGCATTG--A
* * * * * * *
20987661 TGAGATTTTATGTAATACCACAGTTGGGTTATTGGCATCGATACGAGATTACATGTAAGACTATA
1 TGAGATTTCATGTAAGACCATA-TTGGGATA-TGGCATCGATATGAGATTTCATGTAAGACCATA
* *
20987726 TCTGGGATATGACATCTAA
64 TCTGGGATATGGCAT-TGA
20987745 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATAG
1 TGAGATTTCATGTAAGACCATAT-TGGGATATGGCATCGATATGAGATTTCATGTAAGACCATA-
*
20987810 T-TGGGCTATTGGCATTGA
64 TCTGGGATA-TGGCATTGA
* *
20987828 TGCGAGATTACATGTAAGACCATATCTAGGATATGG
1 T--GAGATTTCATGTAAGACCATAT-TGGGATATGG
20987864 AATTGGTACG
Statistics
Matches: 168, Mismatches: 28, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
83 40 0.24
84 55 0.33
85 73 0.43
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (81 bp):
TGAGATTTCATGTAAGACCATATTGGGATATGGCATCGATATGAGATTTCATGTAAGACCATATC
TGGGATATGGCATTGA
Found at i:20993710 original size:40 final size:40
Alignment explanation
Indices: 20993614--20993761 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
20993604 TGAATTCTCA
* *
20993614 CACACTAAGTGCCAATACATAGCCAAAGCTATTTC-AATCTTG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA--TTG
* *
20993656 CACACTTAGTGCCATACATAACCGAAGCTATCTCGAATTG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATTG
* * * * *
20993696 CACACTAAGAGCCATACTTAGCCGAAGGTATCTTGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATTG
* * * *
20993736 CACAGTAAGTGACATACTTAGTCGAA
1 CACACTAAGTGCCATACATAGCCGAA
20993762 TTGTTGTCAA
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
40 58 0.64
41 18 0.20
42 14 0.16
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATTG
Found at i:20995857 original size:66 final size:67
Alignment explanation
Indices: 20995728--20995857 Score: 167
Period size: 66 Copynumber: 1.9 Consensus size: 67
20995718 GGGATGTATC
* *
20995728 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTACAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGACAAATG-AGCTAGGTCGCATGAGTGATTACAAGTGA
20995793 AGGACA
62 AGGACA
20995799 CCATGTAGACAAGAGAGCTAC-GAGACAAATCG-GCTAGGTCGCATGAGTGA-TACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGACAAAT-GAGCTAGGTCGCATGAGTGATTAC-AAGTG
20995858 TTCACCATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
65 3 0.05
66 22 0.40
67 8 0.15
68 1 0.02
71 21 0.38
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGACAAATGAGCTAGGTCGCATGAGTGATTACAAGTGAAGGA
CA
Found at i:21002487 original size:37 final size:37
Alignment explanation
Indices: 21002387--21002489 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
21002377 CGAATAGTCC
* *
21002387 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
21002424 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
21002461 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
21002490 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:21002688 original size:48 final size:48
Alignment explanation
Indices: 21002630--21002978 Score: 635
Period size: 48 Copynumber: 7.3 Consensus size: 48
21002620 ATATACACAC
*
21002630 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21002678 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21002726 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21002774 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21002822 ATCACATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21002870 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21002918 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21002966 ATCACATACATAT
1 ATCTCATACATAT
21002979 ATATTTATCT
Statistics
Matches: 292, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 292 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:21025438 original size:40 final size:39
Alignment explanation
Indices: 21025390--21025497 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 39
21025380 CATTTCAATC
*
21025390 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
1 TCGCACACTAAGTGCCATACTTAGCCGAAGCTAT-TCGAA
* * *
21025430 TTGCACACTAAGTGCCATACTTAGCCAAAGCTATTTGAA
1 TCGCACACTAAGTGCCATACTTAGCCGAAGCTATTCGAA
*
21025469 TCACACACTAAGTGCCATACTTAGCCGAA
1 TCGCACACTAAGTGCCATACTTAGCCGAA
21025498 TTGTTGTCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 30 0.49
40 31 0.51
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATACTTAGCCGAAGCTATTCGAA
Found at i:21027780 original size:52 final size:51
Alignment explanation
Indices: 21027687--21027931 Score: 194
Period size: 52 Copynumber: 4.9 Consensus size: 51
21027677 ATTGTGAGAA
* * ** *
21027687 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTCAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTTAGGT
* *
21027739 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTTAGGT
** * * * * * * * * *
21027789 TGCATTTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGAAAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTTTAGGT
** * *
21027840 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGCGCCGGATTG-TT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTTAGGT
** * **
21027889 TGCAT-TGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
21027932 CTTCGATTAC
Statistics
Matches: 147, Mismatches: 43, Indels: 10
0.74 0.22 0.05
Matches are distributed among these distances:
48 31 0.21
49 5 0.03
50 38 0.26
51 34 0.23
52 39 0.27
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTTAGGT
Found at i:21027869 original size:101 final size:99
Alignment explanation
Indices: 21027738--21027925 Score: 286
Period size: 101 Copynumber: 1.9 Consensus size: 99
21027728 TGGTTTTAGG
* *
21027738 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAGTTAGGTTGCATTTGTAGTAC
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGCACCAGATAGTT-GGTTGCA-TTGTAGTAC
*
21027803 TAAGTGCAAGCTACTATGCGTACCCGAAAACTTCAA
64 TAAGTGCAAGCTACTATGCATACCCGAAAACTTCAA
* * * *
21027839 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCGCCGGATTGTTGGTTGCATTGTAGTACTA
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGCACCAGATAGTTGGTTGCATTGTAGTACTA
*
21027904 AGTGCAGGCTACTATGCATACC
66 AGTGCAAGCTACTATGCATACC
21027926 AGATAGCTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 31 0.39
100 7 0.09
101 41 0.52
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTACAGGCTACTACGTGCACCAGATAGTTGGTTGCATTGTAGTACTA
AGTGCAAGCTACTATGCATACCCGAAAACTTCAA
Found at i:21027960 original size:99 final size:101
Alignment explanation
Indices: 21027746--21027963 Score: 260
Period size: 99 Copynumber: 2.2 Consensus size: 101
21027736 GGTCACGTGT
* * *
21027746 GTAGTACTAAGTACAGGCTACTACGTGTACCAGATAGTTAGGTTGCATTTGTAGTACTAAGTGCA
1 GTAGTAATAAGTGCAGGCTACTACGTGCACCAGATAGTTAGGTTGCATTTGTAGTACTAAGTGCA
* * * *
21027811 AGCTACTATGCGTACCCGAAAACTTCAATCACATGT
66 AGCTACTATGCATACCAGAAAACTTCAATCACAAGG
* * * *
21027847 GTAGTACTAAGTGCAGGCTACTACGTGCGCCGGATTGTT-GGTTGCA-TTGTAGTACTAAGTGCA
1 GTAGTAATAAGTGCAGGCTACTACGTGCACCAGATAGTTAGGTTGCATTTGTAGTACTAAGTGCA
* * * * *
21027910 GGCTACTATGCATACCAGATAGCTTCGATTACAAGG
66 AGCTACTATGCATACCAGAAAACTTCAATCACAAGG
* *
21027946 GTGGTAATATGTGCAGGC
1 GTAGTAATAAGTGCAGGC
21027964 AACTGTGTAT
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 59 0.59
100 7 0.07
101 34 0.34
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (101 bp):
GTAGTAATAAGTGCAGGCTACTACGTGCACCAGATAGTTAGGTTGCATTTGTAGTACTAAGTGCA
AGCTACTATGCATACCAGAAAACTTCAATCACAAGG
Found at i:21032562 original size:29 final size:29
Alignment explanation
Indices: 21032520--21032576 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
21032510 CACACACAAA
21032520 GTAAGCTTTCAAAAGCTTAGTAAGCCATT
1 GTAAGCTTTCAAAAGCTTAGTAAGCCATT
21032549 GTAAGCTTTCAAAAGCTTAGTAAGCCAT
1 GTAAGCTTTCAAAAGCTTAGTAAGCCAT
21032577 ATACAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (29 bp):
GTAAGCTTTCAAAAGCTTAGTAAGCCATT
Found at i:21032979 original size:42 final size:42
Alignment explanation
Indices: 21032892--21033003 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
21032882 AACTAGTACA
* * **
21032892 ATGCCATATCCTAGATATGGTCTTACATGTTATCAAATATCG
1 ATGCCATGTCCTAGACATGGTCTTACATGAAATCAAATATCG
* * *
21032934 ATGCCACTGTCCTAGACAGGGTCTTATATGAAATCATATAT-G
1 ATGCCA-TGTCCTAGACATGGTCTTACATGAAATCAAATATCG
*
21032976 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCC-ATGTCCTAGACATGGTCTTACA
21033004 CGTAATCTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATGTCCTAGACATGGTCTTACATGAAATCAAATATCG
Found at i:21035639 original size:19 final size:19
Alignment explanation
Indices: 21035615--21035652 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21035605 TGGACATAGG
*
21035615 GCCTTTGGCACGCCCGTGT
1 GCCTTTGGCACACCCGTGT
21035634 GCCTTTGGCACACCCGTGT
1 GCCTTTGGCACACCCGTGT
21035653 CCTCAGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.37, G:0.29, T:0.26
Consensus pattern (19 bp):
GCCTTTGGCACACCCGTGT
Found at i:21038892 original size:64 final size:64
Alignment explanation
Indices: 21038787--21038994 Score: 179
Period size: 67 Copynumber: 3.2 Consensus size: 64
21038777 CATCATGTGT
* *
21038787 ACAAGAGAGCTACAAGACATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATC
1 ACAAGAGAGCTAC--GAGA-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
21038852 TAG
62 TAG
* ** * * * * * *
21038855 ACAAGAGAGCTACGGGATTTATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
21038920 AG
63 AG
* * * *
21038922 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
21038984 TACAAGAGAGC
1 -ACAAGAGAGC
21038995 CGAACTATAT
Statistics
Matches: 112, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 21 0.19
65 9 0.08
66 18 0.16
67 29 0.26
68 15 0.13
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:21044281 original size:13 final size:13
Alignment explanation
Indices: 21044263--21044288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21044253 ATATTATAAT
21044263 TATTTTATGTTAA
1 TATTTTATGTTAA
21044276 TATTTTATGTTAA
1 TATTTTATGTTAA
21044289 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:21045699 original size:40 final size:40
Alignment explanation
Indices: 21045651--21045856 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
21045641 GGACTAAGAT
*
21045651 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
21045691 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
21045731 CCGAAGGCATCTGTGCTAGTTACTAAATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
21045771 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
21045811 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
21045850 CCGAAGG
1 CCGAAGG
21045857 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 15 0.10
40 141 0.90
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:21048437 original size:46 final size:47
Alignment explanation
Indices: 21048387--21048524 Score: 156
Period size: 46 Copynumber: 2.9 Consensus size: 47
21048377 TTACACTAAC
*
21048387 ACATCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 ACATCTCG-AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
* * *
21048433 ACATCTCGAGGCTGATGCATGTCCTAGACATGTCTTACTCTAGCTCT
1 ACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
* * * *
21048480 -CATTTCAATGCCAATGTCATGTCCCAGACATGGTCTTACACTAGC
1 ACATCTCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
21048525 GCACAAATGA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 50 0.65
47 14 0.18
48 12 0.16
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
ACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
Found at i:21052837 original size:21 final size:21
Alignment explanation
Indices: 21052811--21052850 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21052801 GGACTAAACT
*
21052811 GAAAACTTTGAAAAGTTTCAG
1 GAAAACTTAGAAAAGTTTCAG
*
21052832 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
21052851 CCACGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAG
Found at i:21070284 original size:20 final size:20
Alignment explanation
Indices: 21070241--21070286 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
21070231 AAAATAATCT
* *
21070241 TCATTTTTCTCATTTTACTT
1 TCATTTTGCTCATTTTACTA
21070261 TCATTTTGCTCATTATT-CTA
1 TCATTTTGCTCATT-TTACTA
21070281 TCATTT
1 TCATTT
21070287 AAATTGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (20 bp):
TCATTTTGCTCATTTTACTA
Found at i:21070387 original size:23 final size:23
Alignment explanation
Indices: 21070361--21070407 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21070351 CATTCGATTT
*
21070361 TCATACTCATGCCATTACTATGC
1 TCATACTCATGCCATTACCATGC
* *
21070384 TCATTCTCATGCTATTACCATGC
1 TCATACTCATGCCATTACCATGC
21070407 T
1 T
21070408 AATGTCACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (23 bp):
TCATACTCATGCCATTACCATGC
Found at i:21078546 original size:20 final size:20
Alignment explanation
Indices: 21078505--21078548 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21078495 AATAATCTTT
* *
21078505 ATTTTTCTCATTTTACTTTC
1 ATTTTGCTCATTTTACTATC
21078525 ATTTTGCTCATTATT-CTATC
1 ATTTTGCTCATT-TTACTATC
21078545 ATTT
1 ATTT
21078549 AAATTGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.18, C:0.18, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTGCTCATTTTACTATC
Found at i:21079941 original size:29 final size:28
Alignment explanation
Indices: 21079886--21080000 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 28
21079876 GTGAGCATGA
* *
21079886 ATATAAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
21079914 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
21079943 ATATACAGGTGATTTAGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
21079972 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
21080000 A
1 A
21080001 GATACAGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
28 27 0.36
29 48 0.64
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:21079997 original size:57 final size:58
Alignment explanation
Indices: 21079901--21080009 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
21079891 AATGTGACTG
* *
21079901 GGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTTA
1 GGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTTA
* * *
21079959 GGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
21080010 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (58 bp):
GGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTTA
Found at i:21082582 original size:19 final size:18
Alignment explanation
Indices: 21082558--21082603 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
21082548 GTTTAAAAAC
*
21082558 TTTTATTTATTATTTATTA
1 TTTTATTTATTACTT-TTA
*
21082577 TTTTATGTTTTTACTTTTA
1 TTTTAT-TTATTACTTTTA
21082596 TTTTATTT
1 TTTTATTT
21082604 TAAGACTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTATTACTTTTA
Found at i:21088972 original size:26 final size:26
Alignment explanation
Indices: 21088943--21088995 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21088933 AAAACGCCAT
21088943 AGGAGGGTTCTCTAAGCTGGTATTTC
1 AGGAGGGTTCTCTAAGCTGGTATTTC
21088969 AGGAGGGTTCTCTAAGCTGGTATTTC
1 AGGAGGGTTCTCTAAGCTGGTATTTC
21088995 A
1 A
21088996 TAATTTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (26 bp):
AGGAGGGTTCTCTAAGCTGGTATTTC
Found at i:21091951 original size:8 final size:8
Alignment explanation
Indices: 21091940--21091964 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21091930 AGTTTTCTTC
21091940 CTTAACAT
1 CTTAACAT
21091948 CTTAACAT
1 CTTAACAT
21091956 CTTAACAT
1 CTTAACAT
21091964 C
1 C
21091965 AGAATCCAAA
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:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (8 bp):
CTTAACAT
Found at i:21108315 original size:20 final size:20
Alignment explanation
Indices: 21108259--21108320 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
21108249 TTTAGTCATA
*
21108259 TAATAAATTA-TTAATATAAT
1 TAATAAATTATTTAATAT-TT
* *
21108279 AAATAAA--ATTTATTATTT
1 TAATAAATTATTTAATATTT
21108297 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
21108317 TAAT
1 TAAT
21108321 TTTATTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 20 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:21108931 original size:14 final size:14
Alignment explanation
Indices: 21108909--21108960 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
21108899 CCAGGAATAT
*
21108909 AAATTATTTTTCAA
1 AAATCATTTTTCAA
21108923 AAATCA-TTTTCAAA
1 AAATCATTTTTC-AA
* *
21108937 AAATTATTTTTCGA
1 AAATCATTTTTCAA
21108951 AAATCATTTT
1 AAATCATTTT
21108961 CAGTTTAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.16
14 22 0.69
15 5 0.16
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (14 bp):
AAATCATTTTTCAA
Found at i:21108953 original size:28 final size:28
Alignment explanation
Indices: 21108909--21108962 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
21108899 CCAGGAATAT
21108909 AAATTATTTTTCAAAAATCATTTTCAAA
1 AAATTATTTTTCAAAAATCATTTTCAAA
*
21108937 AAATTATTTTTCGAAAATCATTTTCA
1 AAATTATTTTTCAAAAATCATTTTCA
21108963 GTTTAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATTATTTTTCAAAAATCATTTTCAAA
Found at i:21109652 original size:13 final size:13
Alignment explanation
Indices: 21109633--21109694 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
21109623 TAAATCAAAA
21109633 TTTTTAAAAATAC
1 TTTTTAAAAATAC
* *
21109646 TTCTT-AAATTCAC
1 TTTTTAAAAAT-AC
*
21109659 TTTTTAAAAATAT
1 TTTTTAAAAATAC
*
21109672 TTTTTAAAAGTAC
1 TTTTTAAAAATAC
*
21109685 TTTCTAAAAA
1 TTTTTAAAAA
21109695 CAATGCTTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
12 4 0.11
13 30 0.79
14 4 0.11
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (13 bp):
TTTTTAAAAATAC
Found at i:21109686 original size:26 final size:26
Alignment explanation
Indices: 21109633--21109694 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
21109623 TAAATCAAAA
*
21109633 TTTTTAAAAATACTTCTTAAATTCAC
1 TTTTTAAAAATACTTCTTAAAGTCAC
* *
21109659 TTTTTAAAAATATTTTTTAAAAGT-AC
1 TTTTTAAAAATACTTCTT-AAAGTCAC
*
21109685 TTTCTAAAAA
1 TTTTTAAAAA
21109695 CAATGCTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTTAAAAATACTTCTTAAAGTCAC
Found at i:21110910 original size:8 final size:8
Alignment explanation
Indices: 21110897--21110930 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
21110887 AAAGGTAAAG
21110897 AAAACAAA
1 AAAACAAA
21110905 AAAACAAA
1 AAAACAAA
21110913 AAAACAAA
1 AAAACAAA
21110921 AAAA-AAA
1 AAAACAAA
21110928 AAA
1 AAA
21110931 GAAAGTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:21112089 original size:3 final size:3
Alignment explanation
Indices: 21112081--21112110 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21112071 CTGTTGACCT
21112081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21112111 CTTCAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21116453 original size:22 final size:24
Alignment explanation
Indices: 21116425--21116480 Score: 80
Period size: 22 Copynumber: 2.4 Consensus size: 24
21116415 AATAATTAAA
21116425 TTAGGGTTTTGAATT-TTTTA-GG
1 TTAGGGTTTTGAATTGTTTTAGGG
*
21116447 TTAGGGTTTTTAATTGTTTTAGGG
1 TTAGGGTTTTGAATTGTTTTAGGG
*
21116471 TTAGAGTTTT
1 TTAGGGTTTT
21116481 AGTGATTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 14 0.47
23 5 0.17
24 11 0.37
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (24 bp):
TTAGGGTTTTGAATTGTTTTAGGG
Found at i:21116481 original size:23 final size:21
Alignment explanation
Indices: 21116425--21116481 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 21
21116415 AATAATTAAA
21116425 TTAGGGTTTTGAATTTTTTAGG
1 TTAGGGTTTT-AATTTTTTAGG
21116447 TTAGGGTTTTTAATTGTTTTAGGG
1 TTAGGG-TTTTAATT-TTTTA-GG
*
21116471 TTAGAGTTTTA
1 TTAGGGTTTTA
21116482 GTGATTTGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 10 0.32
23 14 0.45
24 7 0.23
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.54
Consensus pattern (21 bp):
TTAGGGTTTTAATTTTTTAGG
Found at i:21116610 original size:23 final size:23
Alignment explanation
Indices: 21116584--21116641 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
21116574 ATCAATTAAA
21116584 TTAGGGTTTTAAGTT-TTTTAAGG
1 TTAGGGTTTTAA-TTATTTTAAGG
* *
21116607 TTAGGGTTTCTGATTATTTTAGGG
1 TTAGGGTTT-TAATTATTTTAAGG
*
21116631 TTAGAGTTTTA
1 TTAGGGTTTTA
21116642 GTGGTTTAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.52
Consensus pattern (23 bp):
TTAGGGTTTTAATTATTTTAAGG
Found at i:21116655 original size:16 final size:16
Alignment explanation
Indices: 21116623--21116664 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
21116613 TTTCTGATTA
21116623 TTTTAG-GG-TTAGAG
1 TTTTAGTGGTTTAGAG
*
21116637 TTTTAGTGGTTTAGGG
1 TTTTAGTGGTTTAGAG
*
21116653 TTTTAATGGTTT
1 TTTTAGTGGTTT
21116665 TTAAGGGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.25
15 2 0.08
16 16 0.67
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (16 bp):
TTTTAGTGGTTTAGAG
Found at i:21116656 original size:160 final size:159
Alignment explanation
Indices: 21116317--21116692 Score: 557
Period size: 159 Copynumber: 2.4 Consensus size: 159
21116307 TTTTTGGTGG
* *
21116317 GTTTTAG-GGTTTAGAGTTATTTAAT-ATTTTTAAAGGGA-AAATTTAATGAACACTTAGAGTTG
1 GTTTTAGTGGTTTAGGGTT-TTTAATGGTTTTT-AAGGGAGAAA-TTAATGAACACTTAGAGTTG
*
21116379 ATGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATAATTAAATTAGGGTTTTGAATTTTTT
63 AGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATAATTAAATTAGGGTTTTGAATTTTTT
* *
21116444 AGGTTAGGGTTTTTAATTGTTTTAGGGTTAGA
128 AGGTTAGGGTTTCTAATTATTTTAGGGTTAGA
* * *
21116476 GTTTTAGTGATTTGGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTT-AGG
1 GTTTTAGTGGTTTAGGGTTTTTAATGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGG
*
21116540 GTTAATTAATTAAATTAACTATGAGAATAAAAAAATCAATTAAATTAGGGTTTT-AAGTTTTTTA
66 GTTAATTAATTAAATTAACTATGAAAATAAAAAAAT-AATTAAATTAGGGTTTTGAA-TTTTTT-
*
21116604 AGGTTAGGGTTTCTGATTATTTTAGGGTTAGA
128 AGGTTAGGGTTTCTAATTATTTTAGGGTTAGA
*
21116636 GTTTTAGTGGTTTAGGG-TTTTAATGGTTTTTAAGGGAGAAATTAATGAACGCTTAGA
1 GTTTTAGTGGTTTAGGGTTTTTAATGGTTTTTAAGGGAGAAATTAATGAACACTTAGA
21116693 AATTAATGAA
Statistics
Matches: 197, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
158 39 0.20
159 98 0.50
160 60 0.30
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.42
Consensus pattern (159 bp):
GTTTTAGTGGTTTAGGGTTTTTAATGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGG
GTTAATTAATTAAATTAACTATGAAAATAAAAAAATAATTAAATTAGGGTTTTGAATTTTTTAGG
TTAGGGTTTCTAATTATTTTAGGGTTAGA
Found at i:21116943 original size:125 final size:126
Alignment explanation
Indices: 21116707--21117162 Score: 681
Period size: 125 Copynumber: 3.7 Consensus size: 126
21116697 AATGAACACA
* * * * * *
21116707 TTCAAGAATGATGCATTTTTAGCAAATTTTC-GAAAAAAAGCTTCCACGTGGACGCTCTTTTGCT
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCAG-AAAAAAGCTCCCACGTGAACGCTCTTTTGCT
*
21116771 ATAGTGGTATCTGATAAAATAATTTTGAAAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
65 ATAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
* *
21116833 TTCAAGAAGGATGCACTTTCAGCAAAATTTCAGAAAAAAGCTTCCACGTGAAAGCTCTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCAGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTA
* *
21116898 -CGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTC-AAAACAC
66 TAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
** *
21116957 TTCAAGAAGGATGCACTTTCAGCAAAATTTTGGAAAAAAGCTCCCACGTGAACGTTCTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCAGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTA
* * *
21117022 CAGTGGTCTCTGATAAAATAATTTTAAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
66 TAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
* * *
21117083 TTTAAGAAGGATGCACTTTCAGCAAAATTTCAG-AAAAAGCTCCCACGTGGACGCTATTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCAGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTA
21117147 TAGTGGT-TCTGA-AAAA
66 TAGTGGTATCTGATAAAA
21117163 GCCTTAGACT
Statistics
Matches: 302, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
123 4 0.01
124 71 0.24
125 133 0.44
126 93 0.31
127 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTCAAGAAGGATGCACTTTCAGCAAAATTTCAGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTA
TAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
Found at i:21120766 original size:18 final size:18
Alignment explanation
Indices: 21120739--21120777 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21120729 GGAAAAGAAA
*
21120739 ACATAAAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
*
21120757 ACATATAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
21120775 ACA
1 ACA
21120778 CACCTGGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:21121405 original size:7 final size:7
Alignment explanation
Indices: 21121393--21121431 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
21121383 TTATATAGGT
21121393 AATACTA
1 AATACTA
21121400 AATACTA
1 AATACTA
21121407 AATACTA
1 AATACTA
21121414 AATACTA
1 AATACTA
21121421 AATACTA
1 AATACTA
21121428 AATA
1 AATA
21121432 TGAAATGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:21122615 original size:22 final size:21
Alignment explanation
Indices: 21122583--21122629 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
21122573 ACACAGCTTT
21122583 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
21122603 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
21122625 TTTGA
1 TTTGA
21122630 GAGAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:21132930 original size:15 final size:15
Alignment explanation
Indices: 21132910--21132941 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21132900 GCAACTAGAT
21132910 GAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAA
*
21132925 GAAAAAAGAAAAAAA
1 GAAAAAAAAAAAAAA
21132940 GA
1 GA
21132942 GAGTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAAAAA
Found at i:21132940 original size:8 final size:8
Alignment explanation
Indices: 21132910--21132941 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
21132900 GCAACTAGAT
21132910 GAAAAAAA
1 GAAAAAAA
21132918 -AAAAAAA
1 GAAAAAAA
21132925 G-AAAAAA
1 GAAAAAAA
21132932 GAAAAAAA
1 GAAAAAAA
21132940 GA
1 GA
21132942 GAGTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.64
8 8 0.36
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:21133684 original size:20 final size:20
Alignment explanation
Indices: 21133659--21133702 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
21133649 AAAAACGTTT
21133659 ACTTAATGTCTGGCATTGAA
1 ACTTAATGTCTGGCATTGAA
21133679 ACTTAATGTCTGGCATTGAA
1 ACTTAATGTCTGGCATTGAA
21133699 ACTT
1 ACTT
21133703 TAAGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
ACTTAATGTCTGGCATTGAA
Found at i:21134140 original size:28 final size:27
Alignment explanation
Indices: 21134100--21134161 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
21134090 CATCACAGAC
* * * *
21134100 ACAGTATCAGGTGGGCTTTAGCCCATT
1 ACAGAATCAGGTGGGCCTAAGCCCAAT
21134127 AACAGAATCAGGTGGGCCTAAGCCCAAT
1 -ACAGAATCAGGTGGGCCTAAGCCCAAT
21134155 ACAGAAT
1 ACAGAAT
21134162 TAGTATCAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (27 bp):
ACAGAATCAGGTGGGCCTAAGCCCAAT
Found at i:21134433 original size:22 final size:22
Alignment explanation
Indices: 21134372--21134437 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
21134362 GTTGCCAGTT
*
21134372 AACAGAACGGCTAAAAGTCATA
1 AACAGAACGGCTAAAAGCCATA
* * * *
21134394 AGCAGAAAGGC-AGTAAGCCTTA
1 AACAGAACGGCTA-AAAGCCATA
*
21134416 AACAGAACGGCTACAAGCCATA
1 AACAGAACGGCTAAAAGCCATA
21134438 CACTTCCTCT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (22 bp):
AACAGAACGGCTAAAAGCCATA
Found at i:21158849 original size:138 final size:139
Alignment explanation
Indices: 21158599--21158870 Score: 492
Period size: 138 Copynumber: 2.0 Consensus size: 139
21158589 TACAAGGATG
21158599 TTTCATGAAAATCACCTAGGAAAAGATGTTTAACACATATTCATCTTTCATTGTTCCTCCATAAT
1 TTTCATGAAAATCACCTAGGAAAAGATGTTTAACACA-ATTCATCTTTCATTGTTCCTCCATAAT
* *
21158664 CCATCAAAATACAAGTTACTCATGCATGGATAAATTTTTAAACATGAACCTTAGCATGAAATATG
65 CCATCAAAATACAAATGACTCATGCATGGATAAATTTTTAAACATGAACCTTAGCATGAAATATG
21158729 GGTAAGGGTT
130 GGTAAGGGTT
*
21158739 TTTCATGAAAATCACCTAGGAAAAGATGTTTAACAC-ATTCATCTTTCATTGTTCCTCTATAATC
1 TTTCATGAAAATCACCTAGGAAAAGATGTTTAACACAATTCATCTTTCATTGTTCCTCCATAATC
*
21158803 CATCAAAATACAAATGACTCATGCATGGGTAAATTTTTAAACATGAACCTTAGCATGAAATATGG
66 CATCAAAATACAAATGACTCATGCATGGATAAATTTTTAAACATGAACCTTAGCATGAAATATGG
21158868 GTA
131 GTA
21158871 CAAATGGAGA
Statistics
Matches: 128, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
138 92 0.72
140 36 0.28
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (139 bp):
TTTCATGAAAATCACCTAGGAAAAGATGTTTAACACAATTCATCTTTCATTGTTCCTCCATAATC
CATCAAAATACAAATGACTCATGCATGGATAAATTTTTAAACATGAACCTTAGCATGAAATATGG
GTAAGGGTT
Found at i:21168131 original size:24 final size:24
Alignment explanation
Indices: 21168103--21168157 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
21168093 CACTACCGGG
*
21168103 GAGCCCACTCAAACTACTGTTGAA
1 GAGCCCACTCAAACTACTGCTGAA
* ** *
21168127 GAGCCTACTCAATTTTCTGCTGAA
1 GAGCCCACTCAAACTACTGCTGAA
21168151 GAGCCCA
1 GAGCCCA
21168158 AAAAGACGAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (24 bp):
GAGCCCACTCAAACTACTGCTGAA
Found at i:21172906 original size:40 final size:40
Alignment explanation
Indices: 21172674--21172899 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
21172664 TTGAATGATG
* * * *
21172674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
*
21172714 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21172754 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21172794 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21172834 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21172875 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21172900 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.93
41 11 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21172906 original size:120 final size:120
Alignment explanation
Indices: 21172674--21172932 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 120
21172664 TTGAATGATG
* * *
21172674 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
21172739 GTGCGAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTA-CTAAA
66 GTGCGAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTGAACGAG-TAGCTAAA
* * **
21172794 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
21172857 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCAAAGGCATTTGAACGAGTAGCTAAA
* *
21172914 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21172933 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
119 18 0.15
120 91 0.76
121 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTGAACGAGTAGCTAAA
Found at i:21187207 original size:55 final size:53
Alignment explanation
Indices: 21187118--21187373 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 53
21187108 CATTAGGGTT
**
21187118 CAAGGATACCATGTAAGACCATG-CTAAGGTATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-GTTTCTAAGG
* * * * *
21187173 CAAGGAAATCATGTAAGACCTTGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGG
* * * *
21187228 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGG
*
21187281 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGG
* ** * *
21187331 -AAGGATACCACGTAAGACCATAACAAGTCATGGCAATGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
21187374 GTAACTGTGT
Statistics
Matches: 169, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 42 0.25
54 11 0.07
55 65 0.38
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGG
Found at i:21187325 original size:108 final size:110
Alignment explanation
Indices: 21187126--21187326 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
21187116 TTCAAGGATA
* * *
21187126 CCATGTAAGACCATGCTAAGGTATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
21187191 CCTTGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
21187236 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
21187298 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
21187327 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:21189085 original size:3 final size:3
Alignment explanation
Indices: 21189077--21189108 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21189067 CCATAAAACT
21189077 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
21189109 CTAACTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21192324 original size:47 final size:46
Alignment explanation
Indices: 21192249--21192515 Score: 158
Period size: 47 Copynumber: 5.7 Consensus size: 46
21192239 GTGGGTAAGG
21192249 TGTCGATGCCATGTCCCAAACATGGTCTTACACT-AGCTCAT-ATCTCA
1 TGTCGATGCCATGTCCCAAACAT-GTCTTACACTGA-CT-ATCATCTCA
* * *
21192296 TGTCGATGCCATGTCCTAGACATAGTCTTATACTGACTATCATCTCA
1 TGTCGATGCCATGTCCCAAACAT-GTCTTACACTGACTATCATCTCA
* * * *
21192343 TAGCCGATG-CATGTCCCAAACATGTCTTACATTGGCT-TACGTCTCGA
1 T-GTCGATGCCATGTCCCAAACATGTCTTACACTGACTAT-CATCTC-A
* * * * *
21192390 GGCCGATG-TATGTCCCAGACATGTCTTACACT-AGC-ACTCGTCTCGA
1 TGTCGATGCCATGTCCCAAACATGTCTTACACTGA-CTA-TCATCTC-A
* * ** * * *
21192436 TGCCGATACCATGTATCAAACATGGTCTTACACTGGCTCTCA--TAA
1 TGTCGATGCCATGTCCCAAACAT-GTCTTACACTGACTATCATCTCA
*
21192481 TGTGGCTGATG-CATGTCCCAGACATGTCTTACACT
1 TGT--C-GATGCCATGTCCCAAACATGTCTTACACT
21192516 AGCCCATAAT
Statistics
Matches: 174, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
45 4 0.02
46 72 0.41
47 75 0.43
48 23 0.13
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
TGTCGATGCCATGTCCCAAACATGTCTTACACTGACTATCATCTCA
Found at i:21192395 original size:46 final size:45
Alignment explanation
Indices: 21192252--21192515 Score: 158
Period size: 46 Copynumber: 5.6 Consensus size: 45
21192242 GGTAAGGTGT
* * * *
21192252 CGATGCCATGTCCCAAACATGGTCTTACACTAGC-TCATATCTC-ATGT
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTC--GTCTCGAGGC
* * * * * *
21192299 CGATGCCATGTCCTAGACATAGTCTTATACTGACTATCATCTC-ATAGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCGTCTCGA-GGC
*
21192347 CGATGCATGTCCCAAACATGTCTTACATTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTT-CGTCTCGAGGC
* * * * *
21192393 CGATGTATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGATGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGC-TTCGTCTCGAGGC
* ** * * *
21192439 CGATACCATGTATCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGAT-GCATGTCCCAAACAT-GTCTTACACTGGCT-TCGT-CTCGAGGC
* *
21192487 TGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAAACATGTCTTACACT
21192516 AGCCCATAAT
Statistics
Matches: 170, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
45 1 0.01
46 70 0.41
47 69 0.41
48 27 0.16
49 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTCGTCTCGAGGC
Found at i:21194415 original size:41 final size:41
Alignment explanation
Indices: 21194342--21194519 Score: 304
Period size: 41 Copynumber: 4.4 Consensus size: 41
21194332 CGTTTTACCA
* *
21194342 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
21194382 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
21194423 AAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
21194464 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGC
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
21194505 AAAACGCCACTAAAA
1 AAAACGCCACTAAAA
21194520 GTCATATAAT
Statistics
Matches: 130, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 15 0.12
41 115 0.88
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (41 bp):
AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:21194470 original size:82 final size:81
Alignment explanation
Indices: 21194320--21194519 Score: 312
Period size: 82 Copynumber: 2.5 Consensus size: 81
21194310 ATAAAACACG
* ** *
21194320 GAGCAATAGCGGCG-TTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAA
1 GAGCATTAGCGGCGCTTTTGGC-AAAACGCCGCTAAAAACAGAGCAATAGCAGCGCTTTTGGTAA
21194384 AACGCCACTAAAAACCA
65 AACGCCACTAAAAACCA
* *
21194401 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGGTAA
1 GAGCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAA-CAGAGCAATAGCAGCGCTTTTGGTAA
21194466 AACGCCACTAAAAACCA
65 AACGCCACTAAAAACCA
*
21194483 GAGCATTAGCGGCGCTTTTGGCAAAACGCCACTAAAA
1 GAGCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAA
21194520 GTCATATAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
81 29 0.27
82 80 0.73
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (81 bp):
GAGCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACAGAGCAATAGCAGCGCTTTTGGTAAA
ACGCCACTAAAAACCA
Found at i:21194591 original size:47 final size:48
Alignment explanation
Indices: 21194524--21194655 Score: 122
Period size: 54 Copynumber: 2.6 Consensus size: 48
21194514 CTAAAAGTCA
* * * * *
21194524 TATAATCCTTAAAACCCTAAACCCCAAAAAAATA-ATAAACACTAATC
1 TATAACCCCTAAAACACTAAACCCCAAAAAAACACATAAACACTAAAC
* *
21194571 TATAACCCCTAGAACACTAAACCCCTAAATACTAAAAACACATGAACACTAAAC
1 TATAACCCCTAAAACACTAAACCCC---A-A--AAAAACACATAAACACTAAAC
* *
21194625 TATAACCCCTAAAACCCTAAACTCCAAAAAA
1 TATAACCCCTAAAACACTAAACCCCAAAAAA
21194656 CATCATATGG
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
47 21 0.31
48 4 0.06
50 2 0.03
51 2 0.03
53 6 0.09
54 33 0.49
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.18
Consensus pattern (48 bp):
TATAACCCCTAAAACACTAAACCCCAAAAAAACACATAAACACTAAAC
Found at i:21194594 original size:54 final size:53
Alignment explanation
Indices: 21194535--21194646 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 53
21194525 ATAATCCTTA
* * *
21194535 AAACCCTAAACCCCAAAAAAATAATAAACACTAATCTATAACCCCTAGAACACT
1 AAACCCTAAACACCAAAAAAA-AATAAACACTAAACTATAACCCCTAAAACACT
* * * * * *
21194589 AAACCCCTAAATACTAAAAACACATGAACACTAAACTATAACCCCTAAAACCCT
1 AAA-CCCTAAACACCAAAAAAAAATAAACACTAAACTATAACCCCTAAAACACT
21194643 AAAC
1 AAAC
21194647 TCCAAAAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.02
54 33 0.69
55 14 0.29
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.16
Consensus pattern (53 bp):
AAACCCTAAACACCAAAAAAAAATAAACACTAAACTATAACCCCTAAAACACT
Found at i:21194606 original size:15 final size:16
Alignment explanation
Indices: 21194574--21194606 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21194564 ACTAATCTAT
21194574 AACCCCTAGAACACTA
1 AACCCCTAGAACACTA
*
21194590 AACCCCTA-AATACTA
1 AACCCCTAGAACACTA
21194605 AA
1 AA
21194607 AACACATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.33, G:0.03, T:0.15
Consensus pattern (16 bp):
AACCCCTAGAACACTA
Found at i:21195703 original size:14 final size:14
Alignment explanation
Indices: 21195684--21195713 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21195674 CTAATTTTTC
*
21195684 CCCCAAATCGAAAT
1 CCCCAAATCAAAAT
21195698 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
21195712 CC
1 CC
21195714 TTCCACCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:21195798 original size:14 final size:14
Alignment explanation
Indices: 21195779--21195806 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21195769 GCATTTCTTA
21195779 CTTCTCTAAATCTC
1 CTTCTCTAAATCTC
21195793 CTTCTCTAAATCTC
1 CTTCTCTAAATCTC
21195807 TATCCCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (14 bp):
CTTCTCTAAATCTC
Found at i:21196219 original size:6 final size:6
Alignment explanation
Indices: 21196208--21196233 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21196198 GTGAATTTTT
21196208 TTTTGC TTTTGC TTTTGC TTTTGC TT
1 TTTTGC TTTTGC TTTTGC TTTTGC TT
21196234 CTGGTTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTTGC
Found at i:21200127 original size:43 final size:43
Alignment explanation
Indices: 21200079--21200163 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
21200069 GTTATATTTT
* * *
21200079 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTCTA
1 TAGCGGCATTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
21200122 TAGCGGCATTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTCT
1 TAGCGGCATTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTCT
21200164 TTAGTGGTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.24
Consensus pattern (43 bp):
TAGCGGCATTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:21205899 original size:29 final size:30
Alignment explanation
Indices: 21205865--21205925 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
21205855 AATTGCGATG
21205865 ATTTAAAAT-TAAATTAAATTAT-ATTTTTT
1 ATTTAAAATAT-AATTAAATTATAATTTTTT
* * *
21205894 ATTTAACATATAATTAATTTTTAATTTTTT
1 ATTTAAAATATAATTAAATTATAATTTTTT
21205924 AT
1 AT
21205926 GATTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTAAAATATAATTAAATTATAATTTTTT
Found at i:21208046 original size:26 final size:26
Alignment explanation
Indices: 21207979--21208060 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
21207969 TAGTTTAAAT
* * *
21207979 TTATTTATATCATAATATTTATTTTTTA
1 TTATTTATAT-ATAATA-ATATATATTA
* *
21208007 TTTTTTTATATATAGTAATATATATTA
1 -TTATTTATATATAATAATATATATTA
* *
21208034 TTATTTATATATAATAGTTTATATTA
1 TTATTTATATATAATAATATATATTA
21208060 T
1 T
21208061 ATGAAAGAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.52
27 7 0.16
28 5 0.11
29 9 0.20
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTTATATATAATAATATATATTA
Found at i:21208208 original size:30 final size:32
Alignment explanation
Indices: 21208174--21208239 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
21208164 TAGATTAAAG
21208174 TTATTTAT-A-TTATATATATAATAATATATA
1 TTATTTATGATTTATATATATAATAATATATA
* * *
21208204 TTATTTATGATTTTTTTATATCATAATATATA
1 TTATTTATGATTTATATATATAATAATATATA
21208236 TTAT
1 TTAT
21208240 ATTAAAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 8 0.26
31 1 0.03
32 22 0.71
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (32 bp):
TTATTTATGATTTATATATATAATAATATATA
Found at i:21210686 original size:46 final size:46
Alignment explanation
Indices: 21210635--21210807 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
21210625 TTGAGCATCC
*
21210635 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCT
* * * *
21210681 GAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGT-AACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G--TCT
* * * *
21210728 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCT
* *
21210774 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21210808 GCGAGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 3 0.03
46 58 0.56
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCT
Found at i:21210788 original size:93 final size:93
Alignment explanation
Indices: 21210629--21210800 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
21210619 GGATATTTGA
* *
21210629 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
*
21210694 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
21210722 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
21210787 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21210801 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21216287 original size:44 final size:45
Alignment explanation
Indices: 21216203--21216289 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
21216193 TTAAATTAAA
* *
21216203 TACAATAAACACGTGCATATATATACACATAAGCATTACTTTACAT
1 TACAACAAACACGTGCATATATATA-ACATAAGCACTACTTTACAT
* ** *
21216249 TACAACAAACCCGTGCATATATAT-TTATAAGTACTACTTTA
1 TACAACAAACACGTGCATATATATAACATAAGCACTACTTTA
21216290 TTTTTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 13 0.37
46 22 0.63
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (45 bp):
TACAACAAACACGTGCATATATATAACATAAGCACTACTTTACAT
Found at i:21217295 original size:23 final size:24
Alignment explanation
Indices: 21217256--21217301 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
21217246 TTTTTTAACA
* *
21217256 TTATTTCTTATTTTATATTTTTTG
1 TTATTTCTTACTTTATATCTTTTG
21217280 TTATTT-TTACTTTATATCTTTT
1 TTATTTCTTACTTTATATCTTTT
21217302 AATCTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (24 bp):
TTATTTCTTACTTTATATCTTTTG
Found at i:21220959 original size:40 final size:40
Alignment explanation
Indices: 21220904--21221084 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
21220894 TATTCGGATG
21220904 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* *
21220944 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
21220984 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * *
21221024 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACT
* *
21221064 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
21221085 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 114 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:21226271 original size:11 final size:11
Alignment explanation
Indices: 21226255--21226280 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21226245 TACCAATAAT
21226255 ATAACATATTG
1 ATAACATATTG
21226266 ATAACATATTG
1 ATAACATATTG
21226277 ATAA
1 ATAA
21226281 ACCGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (11 bp):
ATAACATATTG
Found at i:21234407 original size:5 final size:5
Alignment explanation
Indices: 21234397--21234436 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
21234387 GAAAAAAATC
21234397 TTATT TTATTT TTATT TTATT TTATT TTGATT TTATT TTA
1 TTATT TTA-TT TTATT TTATT TTATT TT-ATT TTATT TTA
21234437 AATTAGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:21234411 original size:11 final size:10
Alignment explanation
Indices: 21234397--21234436 Score: 62
Period size: 11 Copynumber: 3.8 Consensus size: 10
21234387 GAAAAAAATC
21234397 TTATTTTATTT
1 TTATTTTA-TT
21234408 TTATTTTATT
1 TTATTTTATT
21234418 TTATTTTGATT
1 TTATTTT-ATT
21234429 TTATTTTA
1 TTATTTTA
21234437 AATTAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (10 bp):
TTATTTTATT
Found at i:21234418 original size:16 final size:16
Alignment explanation
Indices: 21234397--21234436 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
21234387 GAAAAAAATC
*
21234397 TTATTTTATTTTTATT
1 TTATTTTATTTTGATT
21234413 TTATTTTATTTTGATT
1 TTATTTTATTTTGATT
21234429 TTATTTTA
1 TTATTTTA
21234437 AATTAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTATTTTATTTTGATT
Found at i:21247184 original size:36 final size:37
Alignment explanation
Indices: 21247137--21247214 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21247127 TTATTACGAA
* * *
21247137 GTCTTACCCGGACATAA-TCTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
*
21247173 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
21247210 GTCTT
1 GTCTT
21247215 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:21247411 original size:47 final size:47
Alignment explanation
Indices: 21247333--21247868 Score: 919
Period size: 47 Copynumber: 11.4 Consensus size: 47
21247323 CCCTTCGGGA
* * * * * * *
21247333 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21247380 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21247427 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21247474 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21247521 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21247568 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21247615 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21247662 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21247709 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21247756 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21247803 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21247850 CTTATCACATATATACACT
1 CTTATCACATATATACACT
21247869 GTCTTGGCTG
Statistics
Matches: 469, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 469 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21258232 original size:41 final size:40
Alignment explanation
Indices: 21258152--21258236 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
21258142 AGTTAAACTC
* ***
21258152 TATTTTTTAGTTTCCCACTTAAAATCTGATTATGGTAGGT
1 TATTTTTTAGTTTCCCACTTAAAATCTAATTAAAATAGGT
* * *
21258192 TATTTTATTATTTTCTCACTTAAACTCTAATTAAAATAGGT
1 TATTTT-TTAGTTTCCCACTTAAAATCTAATTAAAATAGGT
21258233 TATT
1 TATT
21258237 ATAATATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 6 0.16
41 31 0.84
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.49
Consensus pattern (40 bp):
TATTTTTTAGTTTCCCACTTAAAATCTAATTAAAATAGGT
Found at i:21261428 original size:18 final size:18
Alignment explanation
Indices: 21261405--21261442 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
21261395 AATATATATT
21261405 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
21261423 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
21261441 AA
1 AA
21261443 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:21261435 original size:13 final size:13
Alignment explanation
Indices: 21261419--21261443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21261409 CAAGTACCCA
21261419 ACCCAACCCAATT
1 ACCCAACCCAATT
21261432 ACCCAACCCAAT
1 ACCCAACCCAAT
21261444 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:21261535 original size:9 final size:9
Alignment explanation
Indices: 21261521--21261606 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
21261511 TTCATACAAA
21261521 TAATTCGGT
1 TAATTCGGT
*
21261530 TAATTCAGT
1 TAATTCGGT
*
21261539 TAATTTGGT
1 TAATTCGGT
*
21261548 TAATTCGTT
1 TAATTCGGT
**
21261557 TAATTTAAG-
1 TAA-TTCGGT
21261566 TAATTCGGT
1 TAATTCGGT
21261575 TAATTCGGT
1 TAATTCGGT
*
21261584 TAATTCGAT
1 TAATTCGGT
*
21261593 TAATTCAGT
1 TAATTCGGT
21261602 TAATT
1 TAATT
21261607 TGATTACTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
8 3 0.05
9 57 0.92
10 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (9 bp):
TAATTCGGT
Found at i:21261559 original size:27 final size:27
Alignment explanation
Indices: 21261521--21261606 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
21261511 TTCATACAAA
*
21261521 TAATTCGGTTAATTCAGTTAATTTGGT
1 TAATTCGGTTAATTCAGTTAATTCGGT
* *
21261548 TAATTCGTTTAATTTAAG-TAATTCGGT
1 TAATTCGGTTAA-TTCAGTTAATTCGGT
*
21261575 TAATTCGGTTAATTC-GATTAATTCAGT
1 TAATTCGGTTAATTCAG-TTAATTCGGT
21261602 TAATT
1 TAATT
21261607 TGATTACTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 43 0.86
28 4 0.08
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGTTAATTCGGT
Found at i:21261948 original size:18 final size:18
Alignment explanation
Indices: 21261925--21261963 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
21261915 AAAATTTTCA
21261925 TTTAAATTACTAAATTAT
1 TTTAAATTACTAAATTAT
*
21261943 TTTAAATTATTAAATTAT
1 TTTAAATTACTAAATTAT
21261961 TTT
1 TTT
21261964 TTTAAGTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAATTACTAAATTAT
Found at i:21268854 original size:46 final size:46
Alignment explanation
Indices: 21268774--21269134 Score: 405
Period size: 46 Copynumber: 8.2 Consensus size: 46
21268764 TCCCATCCAC
* * * * * *
21268774 GGTCTTATTTATCTT-TGACATGATGCCATAGTATCTTTCAACTAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
21268819 GGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
21268865 GGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
21268911 GG------TC---TTGTG-CA--TTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* *
21268945 GGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * *
21268990 GGTCTTGTTC-TTTTCATGTCACGTTACCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
* *
21269036 GGTCTTATTC-TTTTCATGTCACGTTGCCATGGTATTTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
** *
21269082 GGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
21269128 GGTCTTA
1 GGTCTTA
21269135 CATATTTCCT
Statistics
Matches: 274, Mismatches: 27, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
34 25 0.09
36 2 0.01
37 3 0.01
40 4 0.01
42 2 0.01
43 2 0.01
45 47 0.17
46 189 0.69
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:21268912 original size:16 final size:16
Alignment explanation
Indices: 21268891--21268947 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
21268881 TGTCATGTTG
21268891 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
21268907 CCATGG--TCTTGTGCATTG
1 CCATGGTATCTT-T-CA--A
21268925 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
21268941 CCATGGT
1 CCATGGT
21268948 CTTATTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 15 0.45
18 8 0.24
19 1 0.03
20 4 0.12
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:21268996 original size:79 final size:80
Alignment explanation
Indices: 21268842--21268997 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 80
21268832 TTCTGTCATG
*
21268842 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAA
21268907 CCATGGTCTTGTGCA
66 CCATGGTCTTGTGCA
21268922 TTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAA
21268986 CCATGGTCTTGT
66 CCATGGTCTTGT
21268998 TCTTTTCATG
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
79 41 0.55
80 34 0.45
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (80 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAA
CCATGGTCTTGTGCA
Found at i:21271203 original size:11 final size:11
Alignment explanation
Indices: 21271187--21271238 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
21271177 CTTTCTTTAT
21271187 ATAATAATAAA
1 ATAATAATAAA
21271198 ATAATAATAAA
1 ATAATAATAAA
* *
21271209 ATATCTTATTAAA
1 ATA--ATAATAAA
*
21271222 ATATTAATAAA
1 ATAATAATAAA
21271233 ATAATA
1 ATAATA
21271239 TTTATCTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 26 0.74
13 9 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:21276342 original size:23 final size:23
Alignment explanation
Indices: 21276312--21276357 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21276302 AAATTCGTTG
21276312 CAACATTCTAATTATTGTAGGTC
1 CAACATTCTAATTATTGTAGGTC
21276335 CAACATTCTAATTATTGTAGGTC
1 CAACATTCTAATTATTGTAGGTC
21276358 AAATCAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (23 bp):
CAACATTCTAATTATTGTAGGTC
Found at i:21278560 original size:29 final size:30
Alignment explanation
Indices: 21278500--21278561 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
21278490 TTTTATTTTA
*
21278500 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
21278530 TTGTTAATTTT-TTATTATTTTAGAA-GCAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
21278559 TTG
1 TTG
21278562 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:21279615 original size:8 final size:8
Alignment explanation
Indices: 21279604--21279661 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
21279594 GATTAGAATA
21279604 TTAAAATT
1 TTAAAATT
21279612 TTAAAATT
1 TTAAAATT
* *
21279620 ATAAGAA-C
1 TTAA-AATT
* *
21279628 TAAAAATAA
1 TTAAAAT-T
21279637 TTAAAATT
1 TTAAAATT
21279645 TTAAAATT
1 TTAAAATT
21279653 TTAAAATT
1 TTAAAATT
21279661 T
1 T
21279662 CATTAATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
7 2 0.05
8 30 0.75
9 8 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (8 bp):
TTAAAATT
Found at i:21280134 original size:18 final size:19
Alignment explanation
Indices: 21280102--21280142 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
21280092 TATAATATAA
* *
21280102 TATATTATATTATATTATT
1 TATATTATATCATATAATT
21280121 TATA-TATATCATATAATT
1 TATATTATATCATATAATT
21280139 TATA
1 TATA
21280143 ACATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATCATATAATT
Found at i:21282974 original size:20 final size:20
Alignment explanation
Indices: 21282905--21283018 Score: 111
Period size: 20 Copynumber: 5.4 Consensus size: 20
21282895 TCATGGGGTG
21282905 CTTTGGTGGTATTCTGTTTAGC
1 CTTT-GTGGTATTCTG-TTAGC
*
21282927 CTTTGTAGCGTATTCTGGTTTGGC
1 CTTTGT-G-GTATTCT-G-TTAGC
*
21282951 CTTCGTGGTATTCTGTTAGC
1 CTTTGTGGTATTCTGTTAGC
* * *
21282971 CTTCGAGGTACTCTGTTAGC
1 CTTTGTGGTATTCTGTTAGC
* *
21282991 CTTTGCGGTACTCTGTTAGC
1 CTTTGTGGTATTCTGTTAGC
21283011 CTTTGTGG
1 CTTTGTGG
21283019 CATATTCCAT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
20 47 0.58
21 3 0.04
22 12 0.15
23 8 0.10
24 11 0.14
ACGTcount: A:0.10, C:0.19, G:0.27, T:0.44
Consensus pattern (20 bp):
CTTTGTGGTATTCTGTTAGC
Found at i:21284485 original size:44 final size:44
Alignment explanation
Indices: 21284420--21284503 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
21284410 TTGATATCTC
* *
21284420 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGATGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATGGA
* * *
21284464 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGA
21284504 CAGTTAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATGGA
Found at i:21284691 original size:47 final size:47
Alignment explanation
Indices: 21284633--21284742 Score: 193
Period size: 47 Copynumber: 2.3 Consensus size: 47
21284623 TCAAGATGTG
*
21284633 ACCATGTAAGACCATGTTTGGAACATGGTATTTCGTAAGATAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTCGTAAGATAAGGAT
*
21284680 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGGCATTTCGTAAGATAAGGAT
*
21284727 ATCATGTAAGACCATG
1 ACCATGTAAGACCATG
21284743 CCAAGGCATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (47 bp):
ACCATGTAAGACCATGTTTGGAACATGGCATTTCGTAAGATAAGGAT
Found at i:21284850 original size:55 final size:54
Alignment explanation
Indices: 21284715--21284917 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 54
21284705 TGGCATTTGG
* * * *
21284715 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * *
21284769 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * * * *
21284824 TAAGGTAAAGG-TCCCATGTAATACCATGCCAGGGCATGGCATTGGTGAGTTC-A
1 TAAGGT-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * *
21284877 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCA
21284918 ATGGTAAGTT
Statistics
Matches: 126, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.24
54 47 0.37
55 41 0.33
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:21284943 original size:108 final size:109
Alignment explanation
Indices: 21284729--21284939 Score: 273
Period size: 108 Copynumber: 2.0 Consensus size: 109
21284719 ATAAGGATAT
* * *
21284729 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * * **
21284794 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGTAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
* * * * *
21284838 CATGTAATACCATGCCAGGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
21284902 ATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGAAAAA
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGAAAAA
21284940 AGGTTCCCGA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 8 0.09
108 45 0.52
109 34 0.39
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
Found at i:21288284 original size:3 final size:3
Alignment explanation
Indices: 21288271--21288374 Score: 62
Period size: 3 Copynumber: 35.0 Consensus size: 3
21288261 ATATTTAAAT
*
21288271 ATA AAA ATA ATA AT- ATAA ATA ATA AT- ATA TATA A-A ATA ATA CATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA -ATA
* *
21288316 ATAA ATA ATA TGTA ATA ATA AT- ATAA ATA TATA AT- AGA AT- ATA A-A
1 AT-A ATA ATA -ATA ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA
21288361 ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA
21288375 TAGTAAAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 30
0.69 0.05 0.26
Matches are distributed among these distances:
2 15 0.19
3 47 0.59
4 18 0.22
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21288292 original size:12 final size:12
Alignment explanation
Indices: 21288275--21288376 Score: 82
Period size: 14 Copynumber: 8.1 Consensus size: 12
21288265 TTAAATATAA
21288275 AAATAATAATAT
1 AAATAATAATAT
21288287 AAATAATAATAT
1 AAATAATAATAT
* *
21288299 ATATAAAATAATAC
1 A-A-ATAATAATAT
21288313 ATAATAAATAATAT
1 A-AAT-AATAATAT
*
21288327 GTAATAATAATAT
1 -AAATAATAATAT
*
21288340 AAATATATAATAG
1 AAATA-ATAATAT
21288353 AATATAA-AATA-
1 AA-ATAATAATAT
*
21288364 ATATAATAATAT
1 AAATAATAATAT
21288376 A
1 A
21288377 GTAAAAAACA
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.05
11 5 0.07
12 22 0.30
13 19 0.26
14 24 0.32
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (12 bp):
AAATAATAATAT
Done.