Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 67 of 297
Found at i:23757611 original size:19 final size:19
Alignment explanation
Indices: 23757587--23757625 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23757577 GTTCGATACC
23757587 TATGTGGTAGATGATTCTA
1 TATGTGGTAGATGATTCTA
**
23757606 TATGTGGTATTTGATTCTA
1 TATGTGGTAGATGATTCTA
23757625 T
1 T
23757626 GTGTATGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (19 bp):
TATGTGGTAGATGATTCTA
Found at i:23760181 original size:10 final size:10
Alignment explanation
Indices: 23760166--23760201 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
23760156 CACCGGTCAG
*
23760166 ACAGAACATT
1 ACAGAACAAT
23760176 ACAGAACAAT
1 ACAGAACAAT
*
23760186 ACAAAACAAT
1 ACAGAACAAT
23760196 ACAGAA
1 ACAGAA
23760202 TCACTGGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.61, C:0.19, G:0.08, T:0.11
Consensus pattern (10 bp):
ACAGAACAAT
Found at i:23775025 original size:40 final size:40
Alignment explanation
Indices: 23774968--23775125 Score: 199
Period size: 40 Copynumber: 4.0 Consensus size: 40
23774958 CGAATACATG
* * ** * *
23774968 TCACCAGCATGATTGCTCTTCGGGACCGAGCCCGAATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
23775008 ACACCAGCACGAATGCTCTTCGGAATTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
23775048 TCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
23775088 TCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
23775126 NNNNNNNNNN
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:23784486 original size:40 final size:40
Alignment explanation
Indices: 23784405--23784628 Score: 251
Period size: 40 Copynumber: 5.5 Consensus size: 40
23784395 ACCCAAGTAT
* * *
23784405 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAGAAATGC
*
23784444 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAAA-GC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCA-GAAATGC
*
23784484 CTTCGGGACTTAGCCCGAATATAGTCACTAGCATG-AATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCA-GAAATGC
* *
23784524 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCAGACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA-GCAG--AAATGC
* * *
23784567 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAGAAATGC
*
23784607 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
23784629 CATCCGAATA
Statistics
Matches: 160, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.09
40 107 0.67
41 6 0.04
42 2 0.01
43 31 0.19
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCAGAAATGC
Found at i:23784606 original size:83 final size:80
Alignment explanation
Indices: 23784405--23784628 Score: 274
Period size: 83 Copynumber: 2.8 Consensus size: 80
23784395 ACCCAAGTAT
* * * *
23784405 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
23784469 CACTAGCATGAAAGC
66 CACTAGCATGAAAGC
* * ** *
23784484 CTTCGGGACTTAGCCCGAATATAGTCACTAGCATGAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
23784548 CAACTACTCA-GACAAATGC
66 C-ACTA-GCATG--AAA-GC
* *
23784567 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
23784629 CATCCGAATA
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
79 13 0.11
80 47 0.39
81 2 0.02
82 3 0.02
83 57 0.47
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCATGAAAGC
Found at i:23786658 original size:21 final size:21
Alignment explanation
Indices: 23786634--23786696 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
23786624 AGTTATACTC
23786634 ATTCACATAATCAAACATACA
1 ATTCACATAATCAAACATACA
* *
23786655 ATTCATCGT--T-ATAC-T-C-
1 ATTCA-CATAATCAAACATACA
23786671 ATTCACATAATCAAACATACA
1 ATTCACATAATCAAACATACA
23786692 ATTCA
1 ATTCA
23786697 TGCAACAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
15 2 0.06
16 5 0.16
17 2 0.06
18 4 0.13
19 4 0.13
20 2 0.06
21 10 0.32
22 2 0.06
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (21 bp):
ATTCACATAATCAAACATACA
Found at i:23786666 original size:37 final size:37
Alignment explanation
Indices: 23786625--23786697 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
23786615 CGTTCGTAAA
23786625 GTTATACTCATTCACATAATCAAACATACAATTCATC
1 GTTATACTCATTCACATAATCAAACATACAATTCATC
23786662 GTTATACTCATTCACATAATCAAACATACAATTCAT
1 GTTATACTCATTCACATAATCAAACATACAATTCAT
23786698 GCAACAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (37 bp):
GTTATACTCATTCACATAATCAAACATACAATTCATC
Found at i:23790471 original size:20 final size:20
Alignment explanation
Indices: 23790442--23790486 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23790432 AGCACATGTA
* *
23790442 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
23790462 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
23790482 TTCAT
1 TTCAT
23790487 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:23795818 original size:17 final size:18
Alignment explanation
Indices: 23795796--23795837 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23795786 CCTAAGCCCA
*
23795796 TTTCAGTAT-TGGTTCAG
1 TTTCAGTATAGGGTTCAG
23795813 TTTCAGT-TAGGGTTCAG
1 TTTCAGTATAGGGTTCAG
23795830 TTTCAGTA
1 TTTCAGTA
23795838 ATAGTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.45
Consensus pattern (18 bp):
TTTCAGTATAGGGTTCAG
Found at i:23807940 original size:15 final size:15
Alignment explanation
Indices: 23807922--23807955 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23807912 TATTCCGGGC
23807922 TTCTCCATCTTGGAT
1 TTCTCCATCTTGGAT
* *
23807937 TTCTCTATCTTGGTT
1 TTCTCCATCTTGGAT
23807952 TTCT
1 TTCT
23807956 GTTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.12, T:0.56
Consensus pattern (15 bp):
TTCTCCATCTTGGAT
Found at i:23809823 original size:40 final size:40
Alignment explanation
Indices: 23809744--23809920 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
23809734 CGGATGATAA
* * * * *
23809744 CCGGACTAAGATCAGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
23809784 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
23809824 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23809864 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
23809904 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
23809921 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 101 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:23810188 original size:22 final size:22
Alignment explanation
Indices: 23810148--23810189 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23810138 GAATGTGCAT
*
23810148 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
23810170 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
23810190 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:23814686 original size:226 final size:226
Alignment explanation
Indices: 23814292--23814742 Score: 839
Period size: 226 Copynumber: 2.0 Consensus size: 226
23814282 GGCTTAAACT
*
23814292 AAGCCTGCATTGTGCCACACGGTCAGTGAACACGGGCGTGCCTTGTAGCTATGTATGCAAAGCAG
1 AAGCCTGCATTGTGCCACACGGTCAGTGAACACGGGCGTGCCTTGTAGCCATGTATGCAAAGCAG
23814357 TAACCTCTTAAGGCCATACGATTAAGACACATGGGCGTGTCATATGGCTGTGGGCTTAATTCAAT
66 TAACCTCTTAAGGCCATACGATTAAGACACATGGGCGTGTCATATGGCTGTGGGCTTAATTCAAT
* *
23814422 AGCTAGCTAAGTATCACATGGCCGTGTCTGTTGGCCGTGTGTAAAATTCAGTATGTATACTCTAT
131 AGCTAGCTAAGTATCACATGGCCGTGTCTGTTGGCCGTGTGTAAAAGTCAGTATGTATACTCTAC
23814487 TTTGGCATGGCTGGACCTCATGGGCGTGTCC
196 TTTGGCATGGCTGGACCTCATGGGCGTGTCC
* *
23814518 AAGCCTGCATTGTGCCACACGGTCAGTGAACACGGGCGTGCCTTGTAGCCGTGTATGCAAAGTAG
1 AAGCCTGCATTGTGCCACACGGTCAGTGAACACGGGCGTGCCTTGTAGCCATGTATGCAAAGCAG
* *
23814583 TAACCTCTTAAGGCCATACGGTTAAGACACATGGGCGTGTCATATGGTTGTGGGCTTAATTCAAT
66 TAACCTCTTAAGGCCATACGATTAAGACACATGGGCGTGTCATATGGCTGTGGGCTTAATTCAAT
23814648 AGCTAGCTAAGTATCACATGGCCGTGTCTGTTGGCCGTGTGTAAAAGTCAGTATGTATACTCTAC
131 AGCTAGCTAAGTATCACATGGCCGTGTCTGTTGGCCGTGTGTAAAAGTCAGTATGTATACTCTAC
23814713 TTTGGCATGGCTGGACCTCATGGGCGTGTC
196 TTTGGCATGGCTGGACCTCATGGGCGTGTC
23814743 TGGTGCCCGT
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
226 218 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (226 bp):
AAGCCTGCATTGTGCCACACGGTCAGTGAACACGGGCGTGCCTTGTAGCCATGTATGCAAAGCAG
TAACCTCTTAAGGCCATACGATTAAGACACATGGGCGTGTCATATGGCTGTGGGCTTAATTCAAT
AGCTAGCTAAGTATCACATGGCCGTGTCTGTTGGCCGTGTGTAAAAGTCAGTATGTATACTCTAC
TTTGGCATGGCTGGACCTCATGGGCGTGTCC
Found at i:23820973 original size:14 final size:15
Alignment explanation
Indices: 23820949--23820977 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23820939 ATTTAGGGGT
23820949 AAAATAAATTAAAAG
1 AAAATAAATTAAAAG
23820964 AAAA-AAATTAAAAG
1 AAAATAAATTAAAAG
23820978 CCAAATGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
AAAATAAATTAAAAG
Found at i:23824238 original size:21 final size:21
Alignment explanation
Indices: 23824214--23824278 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
23824204 TCTCGTAACA
23824214 TCTTCAGGCTCCCACGTGGCC
1 TCTTCAGGCTCCCACGTGGCC
* * ** *
23824235 TCTTCA-AC-ACCA--TAACA
1 TCTTCAGGCTCCCACGTGGCC
23824252 TCTTCAGGCTCCCACGTGGCC
1 TCTTCAGGCTCCCACGTGGCC
23824273 TCTTCA
1 TCTTCA
23824279 ACACCATATC
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
17 8 0.27
18 1 0.03
19 6 0.20
20 1 0.03
21 14 0.47
ACGTcount: A:0.18, C:0.40, G:0.15, T:0.26
Consensus pattern (21 bp):
TCTTCAGGCTCCCACGTGGCC
Found at i:23824251 original size:38 final size:38
Alignment explanation
Indices: 23824209--23824286 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
23824199 TGTTGTCTCG
23824209 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
1 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
23824247 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
1 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
23824285 TA
1 TA
23824287 TCGATGCCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.38, G:0.13, T:0.24
Consensus pattern (38 bp):
TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
Found at i:23827326 original size:21 final size:21
Alignment explanation
Indices: 23827302--23827366 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
23827292 TCTCGTAACA
23827302 TCTTCAGGCTCCCACGTGGCC
1 TCTTCAGGCTCCCACGTGGCC
* * ** *
23827323 TCTTCA-AC-ACCA--TAACA
1 TCTTCAGGCTCCCACGTGGCC
23827340 TCTTCAGGCTCCCACGTGGCC
1 TCTTCAGGCTCCCACGTGGCC
23827361 TCTTCA
1 TCTTCA
23827367 ACACCATATC
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
17 8 0.27
18 1 0.03
19 6 0.20
20 1 0.03
21 14 0.47
ACGTcount: A:0.18, C:0.40, G:0.15, T:0.26
Consensus pattern (21 bp):
TCTTCAGGCTCCCACGTGGCC
Found at i:23827339 original size:38 final size:38
Alignment explanation
Indices: 23827297--23827374 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
23827287 TGTTGTCTCG
23827297 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
1 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
23827335 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
1 TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
23827373 TA
1 TA
23827375 TCGATGCCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.38, G:0.13, T:0.24
Consensus pattern (38 bp):
TAACATCTTCAGGCTCCCACGTGGCCTCTTCAACACCA
Found at i:23832098 original size:27 final size:26
Alignment explanation
Indices: 23832042--23832152 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
23832032 AGCATGGCTG
* * *
23832042 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
23832068 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
23832095 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
23832122 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
23832149 CCAG
1 CCAG
23832153 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 14 0.18
27 61 0.79
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:23832329 original size:21 final size:21
Alignment explanation
Indices: 23832305--23832345 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
23832295 CAGTAATTTC
23832305 CATAGGATAGCCATTTTCATG
1 CATAGGATAGCCATTTTCATG
23832326 CATAGGATAGCCATTTTCAT
1 CATAGGATAGCCATTTTCAT
23832346 ACGACCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (21 bp):
CATAGGATAGCCATTTTCATG
Found at i:23833592 original size:24 final size:24
Alignment explanation
Indices: 23833557--23833633 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
23833547 CCAACACCGT
* *
23833557 TCTCCCTAATCAGCTCCTAAATGC
1 TCTCCCTTATCAGCTCCTAAATCC
23833581 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
23833605 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
23833629 TCTCC
1 TCTCC
23833634 TGATAGCCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.21, C:0.40, G:0.05, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:23843473 original size:47 final size:47
Alignment explanation
Indices: 23843399--23843646 Score: 424
Period size: 47 Copynumber: 5.3 Consensus size: 47
23843389 TCCTTCGGGA
* * *
23843399 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
23843446 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
23843493 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
23843540 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** *
23843587 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
23843634 CTTATCACATATA
1 CTTATCACATATA
23843647 CATATCTTGT
Statistics
Matches: 193, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 193 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:23843502 original size:22 final size:22
Alignment explanation
Indices: 23843474--23843596 Score: 79
Period size: 22 Copynumber: 5.3 Consensus size: 22
23843464 TTTCACATTC
23843474 ATCACATTTGCCATTCGGCCTT
1 ATCACATTTGCCATTCGGCCTT
* * * *
23843496 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-TGC-CATTCGGCCTT
23843520 CATCACATTTGCCATTCGGCCTT
1 -ATCACATTTGCCATTCGGCCTT
* * * *
23843543 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-TGC-CATTCGGCCTT
*
23843567 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTTGCCATTCGGCCTT
23843590 ATCACAT
1 ATCACAT
23843597 ATATACACTT
Statistics
Matches: 74, Mismatches: 17, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
22 29 0.39
23 11 0.15
24 12 0.16
25 22 0.30
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.35
Consensus pattern (22 bp):
ATCACATTTGCCATTCGGCCTT
Found at i:23845513 original size:13 final size:13
Alignment explanation
Indices: 23845495--23845519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23845485 TACTAAATTT
23845495 TCATGGATTCAAA
1 TCATGGATTCAAA
23845508 TCATGGATTCAA
1 TCATGGATTCAA
23845520 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:23858602 original size:30 final size:30
Alignment explanation
Indices: 23858566--23858625 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23858556 TTCCTGAGCC
*
23858566 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
23858596 TAGGGGCAAAAATGTAATTATTCTAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
23858626 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:23863168 original size:43 final size:42
Alignment explanation
Indices: 23863021--23863177 Score: 106
Period size: 43 Copynumber: 3.6 Consensus size: 42
23863011 TGTGTTATCG
* * *
23863021 TGTAAGACCACGTGTGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCAAGTATGGGACG-TGGCATCGA-TATTTGA-TTACA
* * * * *
23863065 TGTAAGACCGCA-TATGGGATGGTGACATC-ATATTTGATTTCG
1 TGTAAGACC-AAGTATGGGA-CGTGGCATCGATATTTGATTACA
* *
23863107 TGTAAGAACC-TGTTTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAG-ACCAAGTATGGGAC-GTGGCATCGATATTTGATTACA
* *
23863150 TGTAAGACCAAGTCTGGGATGTTGGCAT
1 TGTAAGACCAAGTATGGGACG-TGGCAT
23863178 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
42 27 0.31
43 38 0.44
44 21 0.24
45 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCAAGTATGGGACGTGGCATCGATATTTGATTACA
Found at i:23863768 original size:26 final size:26
Alignment explanation
Indices: 23863739--23863793 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
23863729 GATTTTGATA
23863739 TATGATATGTGATGCAAATGTGCCAT
1 TATGATATGTGATGCAAATGTGCCAT
*
23863765 TATGTTATGTGATGCAAATGTGCCAT
1 TATGATATGTGATGCAAATGTGCCAT
23863791 TAT
1 TAT
23863794 CTTGTGCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (26 bp):
TATGATATGTGATGCAAATGTGCCAT
Found at i:23867658 original size:40 final size:40
Alignment explanation
Indices: 23867614--23867881 Score: 477
Period size: 40 Copynumber: 6.7 Consensus size: 40
23867604 GCTACTTGCT
23867614 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
23867654 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
23867694 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
23867734 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
23867774 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
23867814 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
23867853 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
23867882 CATCCGAATA
Statistics
Matches: 220, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
38 1 0.00
39 34 0.15
40 184 0.84
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:23877736 original size:42 final size:43
Alignment explanation
Indices: 23877690--23877775 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 43
23877680 TCCCAGATAG
23877690 GGTCTTACATG-AAATC-AAGTACGATGCCAACATCCCAGACGT
1 GGTCTTACATGTAAATCAAAGT-CGATGCCAACATCCCAGACGT
*
23877732 GGTCTTACATGTAAATCATAAGTCGATGCCAACGTCCCAGACGT
1 GGTCTTACATGTAAATCA-AAGTCGATGCCAACATCCCAGACGT
23877776 AGTGTAACAC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
42 11 0.28
43 5 0.12
44 20 0.50
45 4 0.10
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAAAGTCGATGCCAACATCCCAGACGT
Found at i:23878159 original size:19 final size:20
Alignment explanation
Indices: 23878109--23878156 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
23878099 AAATCGAAGC
*
23878109 AAATAAAAACCCCAAATTAA
1 AAATAAAAATCCCAAATTAA
23878129 AAATAAAAATCCCAAATTAA
1 AAATAAAAATCCCAAATTAA
23878149 AAATAAAA
1 AAATAAAA
23878157 TCCAAAGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATCCCAAATTAA
Found at i:23878809 original size:27 final size:26
Alignment explanation
Indices: 23878770--23878826 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
23878760 ACAATCATAC
* * *
23878770 ATCATATAGGGGCATAACAGTTATTTT
1 ATCACATAAGGGCATAA-AGTCATTTT
23878797 ATCACATAAGGGCATAAAGTCATTTT
1 ATCACATAAGGGCATAAAGTCATTTT
23878823 ATCA
1 ATCA
23878827 ATTAGGGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (26 bp):
ATCACATAAGGGCATAAAGTCATTTT
Found at i:23878835 original size:26 final size:27
Alignment explanation
Indices: 23878770--23878835 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
23878760 ACAATCATAC
* *
23878770 ATCATATAGGGGCATAACAGTTATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
*
23878797 ATCACATAAGGGCATAA-AGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
23878823 ATCA-ATTAGGGGC
1 ATCACA-TAGGGGC
23878836 TCTAGGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.03
26 18 0.53
27 15 0.44
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAGTCATTTT
Found at i:23879284 original size:23 final size:23
Alignment explanation
Indices: 23879258--23879303 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23879248 ACCTTGTTTG
23879258 CGAAAGTGTGCAAATAGCCCAAT
1 CGAAAGTGTGCAAATAGCCCAAT
23879281 CGAAAGTGTGCAAATAGCCCAAT
1 CGAAAGTGTGCAAATAGCCCAAT
23879304 AGCACTCCAA
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:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (23 bp):
CGAAAGTGTGCAAATAGCCCAAT
Found at i:23884078 original size:42 final size:43
Alignment explanation
Indices: 23884021--23884142 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
23884011 CATCGACTTA
23884021 TGATTTACATGTAAGACCATGTCTAGGACATTGGCATC-ATATT
1 TGATTT-CATGTAAGACCATGTCTAGGACATTGGCATCAATATT
* * * * * *
23884064 TGATTTCGTGTAAGACCCTATTTGGGACAATGGCATCAATATT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCAATATT
** * *
23884107 TGATCACATGTAAGAACATGTCTAGGACGTTGGCAT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCAT
23884143 TGTATGAGCT
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 25 0.40
43 37 0.60
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCAATATT
Found at i:23884120 original size:43 final size:42
Alignment explanation
Indices: 23884027--23884134 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
23884017 CTTATGATTT
* * *
23884027 ACATGTAAGACCATGTCTAGGACATTGGCATCATATTTGATT
1 ACATGTAAGACCATATCTAGGACAATGGCATCATATTTGATC
* * * * *
23884069 TCGTGTAAGACCCTATTTGGGACAATGGCATCAATATTTGATC
1 ACATGTAAGACCATATCTAGGACAATGGCATC-ATATTTGATC
* *
23884112 ACATGTAAGAACATGTCTAGGAC
1 ACATGTAAGACCATATCTAGGAC
23884135 GTTGGCATTG
Statistics
Matches: 50, Mismatches: 15, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (42 bp):
ACATGTAAGACCATATCTAGGACAATGGCATCATATTTGATC
Found at i:23884957 original size:26 final size:28
Alignment explanation
Indices: 23884928--23884993 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 28
23884918 ATGGTTATAA
23884928 GCATGAAT-TTG-GTTTTTTATGATATG
1 GCATGAATGTTGTGTTTTTTATGATATG
23884954 GCATGAATGTTGTATGTTTTTTATGATATG
1 GCATGAATGTTG--TGTTTTTTATGATATG
23884984 GCATGAATGT
1 GCATGAATGT
23884994 GCTTTGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.22
27 3 0.08
30 25 0.69
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (28 bp):
GCATGAATGTTGTGTTTTTTATGATATG
Found at i:23884973 original size:28 final size:29
Alignment explanation
Indices: 23884941--23885003 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 29
23884931 TGAATTTGGT
23884941 TTTTTATGATATGGCATGAATGTTG-TATG
1 TTTTTATGATATGGCATGAATG-TGCTATG
*
23884970 TTTTTTATGATATGGCATGAATGTGCTTTG
1 -TTTTTATGATATGGCATGAATGTGCTATG
23885000 TTTT
1 TTTT
23885004 ATGCTTGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.21, C:0.05, G:0.22, T:0.52
Consensus pattern (29 bp):
TTTTTATGATATGGCATGAATGTGCTATG
Found at i:23891888 original size:306 final size:307
Alignment explanation
Indices: 23891310--23891922 Score: 1183
Period size: 306 Copynumber: 2.0 Consensus size: 307
23891300 TCTTTGAAAA
*
23891310 CATAGTAGCACCTTTCAGCTGATCAAATAAATCATCAATCCGGGGTAACGGGTACTTATTCTTTA
1 CATAGTAGCACCTTTCAACTGATCAAATAAATCATCAATCCGGGGTAACGGGTACTTATTCTTTA
23891375 TGGTTACTTTATTAAGCTGCCGGTAGTCGATACACAATCTCAAAGACCCATCTTTCTTTTTCACA
66 TGGTTACTTTATTAAGCTGCCGGTAGTCGATACACAATCTCAAAGACCCATCTTTCTTTTTCACA
23891440 AACAGAACCGGAGCACCCCAAGGTGAATGACTCGGTCGAACAAAACCCCTGTCAACAAGCTCTTA
131 AACAGAACCGGAGCACCCCAAGGTGAATGACTCGGTCGAACAAAACCCCTGTCAACAAGCTCTTA
* *
23891505 CAATTGTGTCTTTAACTCTTTTAATTCTATAGGAGCCATCCGGTACGGAGCTATGGAGGTCGGAG
196 CAACTGTGTCTTTAACTCTTTTAATTCTATAGGAGCCATCCGGTACGGAGCTATGGAGATCGGAG
23891570 TAGTTCCCGGAATCAAATCTATAGAAAATTCCACTTCTCTTTCTGGT
261 TAGTTCCCGGAATCAAATCTATAGAAAATTCCACTTCTCTTTCTGGT
23891617 CATAGTAGCACCTTTCAACTGATC-AATAAATCATCAATCCGGGGTAACGGGTACTTATTCTTTA
1 CATAGTAGCACCTTTCAACTGATCAAATAAATCATCAATCCGGGGTAACGGGTACTTATTCTTTA
23891681 TGGTTACTTTATTAAGCTGCCGGTAGTCGATACACAATCTCAAAGACCCATCTTTCTTTTTCACA
66 TGGTTACTTTATTAAGCTGCCGGTAGTCGATACACAATCTCAAAGACCCATCTTTCTTTTTCACA
*
23891746 AACAGAACCGGAGCACCCCAAGGTGAATGACTCGGTCGAACAAAACCCCTGTCAACAAGCTCTTG
131 AACAGAACCGGAGCACCCCAAGGTGAATGACTCGGTCGAACAAAACCCCTGTCAACAAGCTCTTA
23891811 CAACTGTGTCTTTAACTCTTTTAATTCTATAGGAGCCATCCGGTACGGAGCTATGGAGATCGGAG
196 CAACTGTGTCTTTAACTCTTTTAATTCTATAGGAGCCATCCGGTACGGAGCTATGGAGATCGGAG
23891876 TAGTTCCCGGAATCAAATCTATAGAAAATTCCACTTCTCTTTCTGGT
261 TAGTTCCCGGAATCAAATCTATAGAAAATTCCACTTCTCTTTCTGGT
23891923 GGCAATCCTG
Statistics
Matches: 302, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
306 279 0.92
307 23 0.08
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (307 bp):
CATAGTAGCACCTTTCAACTGATCAAATAAATCATCAATCCGGGGTAACGGGTACTTATTCTTTA
TGGTTACTTTATTAAGCTGCCGGTAGTCGATACACAATCTCAAAGACCCATCTTTCTTTTTCACA
AACAGAACCGGAGCACCCCAAGGTGAATGACTCGGTCGAACAAAACCCCTGTCAACAAGCTCTTA
CAACTGTGTCTTTAACTCTTTTAATTCTATAGGAGCCATCCGGTACGGAGCTATGGAGATCGGAG
TAGTTCCCGGAATCAAATCTATAGAAAATTCCACTTCTCTTTCTGGT
Found at i:23897388 original size:13 final size:14
Alignment explanation
Indices: 23897327--23897396 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 14
23897317 AGTTAAAATA
23897327 TATATTA-ATATAT
1 TATATTATATATAT
*
23897340 TAAATTA-ATAT-T
1 TATATTATATATAT
*
23897352 TAGGTATTAATATTATAA
1 TA--TATT-ATA-TATAT
23897370 TATATTATAT-TAT
1 TATATTATATATAT
23897383 TATATTATATATAT
1 TATATTATATATAT
23897397 ATAACATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
12 3 0.07
13 22 0.48
14 7 0.15
15 4 0.09
16 5 0.11
17 3 0.07
18 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TATATTATATATAT
Found at i:23899848 original size:20 final size:20
Alignment explanation
Indices: 23899809--23899849 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23899799 CGATACCTGG
*
23899809 TAAAAAGTATCGATTCTTTT
1 TAAAAAGTATCGATTATTTT
23899829 TAAAAAGGTATCGA-TATTTT
1 TAAAAA-GTATCGATTATTTT
23899849 T
1 T
23899850 TTGTAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (20 bp):
TAAAAAGTATCGATTATTTT
Found at i:23902668 original size:48 final size:49
Alignment explanation
Indices: 23902598--23902753 Score: 169
Period size: 48 Copynumber: 3.2 Consensus size: 49
23902588 AGATGCCGAC
*
23902598 GCCATGTCCCAGATAGGTCTTACACTGACTTTTATATATCGAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTTATATATCGAGGCTGAT
* * * * * *
23902647 GTCGTGT-CCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTG-TCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTTATATATCGAG-GCT-GAT
* *
23902695 GCCATGTCCCAGACAGGTCTTACACT-AGCTTGTATATCTCGAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTTTTATATATCGAGGCTGAT
23902744 G-CATGTCCCA
1 GCCATGTCCCA
23902754 TACATGTCCC
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
47 2 0.02
48 46 0.53
49 36 0.42
50 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTTATATATCGAGGCTGAT
Found at i:23902761 original size:11 final size:11
Alignment explanation
Indices: 23902745--23902772 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23902735 GAGGCTGATG
23902745 CATGTCCCATA
1 CATGTCCCATA
23902756 CATGTCCCATA
1 CATGTCCCATA
23902767 CATGTC
1 CATGTC
23902773 TTACACTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.29
Consensus pattern (11 bp):
CATGTCCCATA
Found at i:23902823 original size:46 final size:45
Alignment explanation
Indices: 23902756--23902874 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 45
23902746 ATGTCCCATA
*
23902756 CATGTCCCATACATGTCTTACACTAGCTCTTGTC-TCAA-T-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AAGTGGCCGATG
*
23902802 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGGCCGATG
*
23902848 CATGTCCCAGACATTTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
23902875 ACACATATCA
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
43 4 0.06
44 1 0.02
45 1 0.02
46 59 0.91
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCCGATG
Found at i:23903560 original size:20 final size:18
Alignment explanation
Indices: 23903523--23903573 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
23903513 CTATAGAAAC
23903523 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
23903540 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
23903560 TTACAACTTTACAA
1 TCACAA-TTTACAA
23903574 AATAGCCCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:23932440 original size:24 final size:23
Alignment explanation
Indices: 23932370--23932441 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
23932360 TCATGATCAT
*
23932370 CATCTTCATCTTTACCTCGACTCC
1 CATCTTCATCTTCACCTCGAC-CC
* * *
23932394 CATATTCATCTTCATCTTGACCC
1 CATCTTCATCTTCACCTCGACCC
* *
23932417 TCGTCTTCATCTTCACCTCCACCC
1 -CATCTTCATCTTCACCTCGACCC
23932441 C
1 C
23932442 TGTTTTCGTC
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.08
24 35 0.92
ACGTcount: A:0.17, C:0.43, G:0.04, T:0.36
Consensus pattern (23 bp):
CATCTTCATCTTCACCTCGACCC
Found at i:23944444 original size:40 final size:40
Alignment explanation
Indices: 23944389--23944599 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
23944379 ATTTGAATGA
*
23944389 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
23944429 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
23944469 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
23944509 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
23944549 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
23944589 TATCC-GGCTAA
1 TATCCGGGCTAA
23944600 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:23946753 original size:51 final size:52
Alignment explanation
Indices: 23946676--23946796 Score: 183
Period size: 52 Copynumber: 2.3 Consensus size: 52
23946666 CGGTGGGCTG
* *
23946676 CACATAGTACCACCCTTGTAGTCAAAGCTA-CCTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTAGCCAAAGCTATCCTTCTTCACAAAGTGGCCTT
* *
23946727 CACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTTACAAAGTGGCCTT
1 CACATAGTACCACACTTGTAG-CCAAAGCTATCCTTCTTCACAAAGTGGCCTT
23946779 CACATAGTACCACACTTG
1 CACATAGTACCACACTTG
23946797 AGTCACTAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 26 0.41
52 37 0.58
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (52 bp):
CACATAGTACCACACTTGTAGCCAAAGCTATCCTTCTTCACAAAGTGGCCTT
Found at i:23949808 original size:11 final size:12
Alignment explanation
Indices: 23949781--23949808 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23949771 TTGATATCTC
23949781 TTTTTTAAAATA
1 TTTTTTAAAATA
23949793 TTTTTTAAAATA
1 TTTTTTAAAATA
23949805 TTTT
1 TTTT
23949809 ACTACACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:23961609 original size:16 final size:16
Alignment explanation
Indices: 23961566--23961610 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
23961556 ACTTAGTAAT
*
23961566 TTTATATATTTATAAA
1 TTTATATATATATAAA
*
23961582 TTTGTATATATA-AAA
1 TTTATATATATATAAA
23961597 TTTATATACTATAT
1 TTTATATA-TATAT
23961611 GTAAGAGCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTATATATATATAAA
Found at i:23964767 original size:24 final size:23
Alignment explanation
Indices: 23964714--23964767 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
23964704 AACCCTGATA
* **
23964714 AGCTTCCCGATAGGCTCTTTGTG
1 AGCTTCCCGAAAGGCTCTAAGTG
**
23964737 AATTTCCCGAAATGGCTCTAAGTG
1 AGCTTCCCGAAA-GGCTCTAAGTG
23964761 AGCTTCC
1 AGCTTCC
23964768 TGTGATAAGG
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (23 bp):
AGCTTCCCGAAAGGCTCTAAGTG
Found at i:23965719 original size:17 final size:17
Alignment explanation
Indices: 23965694--23965729 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23965684 GCCATATGTA
*
23965694 CGGGAGTATAGTTTGGC
1 CGGGAGTATAGTTTCGC
*
23965711 CGGGGGTATAGTTTCGC
1 CGGGAGTATAGTTTCGC
23965728 CG
1 CG
23965730 TGTGTCCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.42, T:0.28
Consensus pattern (17 bp):
CGGGAGTATAGTTTCGC
Found at i:23968640 original size:49 final size:49
Alignment explanation
Indices: 23968565--23969145 Score: 843
Period size: 49 Copynumber: 12.1 Consensus size: 49
23968555 TATTTGAATA
23968565 AATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
23968612 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
23968661 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
23968710 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
23968759 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
23968808 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
23968855 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
23968902 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
23968949 AATGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
23968996 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
23969043 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
23969092 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
23969141 AATGT
1 AATGT
23969146 ATCTTATGGC
Statistics
Matches: 514, Mismatches: 14, Indels: 10
0.96 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 231 0.45
49 281 0.55
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:23985337 original size:43 final size:43
Alignment explanation
Indices: 23985243--23985413 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
23985233 CATAAAGCTC
* * * * *
23985243 ATACAATGCC-ATATCCTAGATATGGTCTTACATGTTATCAC-
1 ATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACA
* * * * *
23985284 ATATCGATGCCACTGTCCCAGATAGGGTCTTACACGTAATC-GA
1 ATA-CAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACA
* * * *
23985327 TTAACAATGCCAATTTCCTAGAAATAGTCTTACACGTAATCACA
1 AT-ACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACA
* * *
23985371 ATACAATGCCAATGTCCCAGACATGGTCTTAGATGTAATCACA
1 ATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACA
23985414 TCTCAATAAT
Statistics
Matches: 101, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 89 0.88
44 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACA
Found at i:23985401 original size:86 final size:85
Alignment explanation
Indices: 23985245--23985410 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 85
23985235 TAAAGCTCAT
* * * * * * *
23985245 ACAATGCCATATCCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGATAGG
1 ACAATGCCATATCCTAGAAATAGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGG
23985310 GTCTTACACGTAATCGATTA
66 GTCTTACACGTAATCGATTA
*
23985330 ACAATGCCAATTTCCTAGAAATAGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGACA
1 ACAATGCC-ATATCCTAGAAATAGTCTTACACGTAATCACATAT-CAATGCCAATGTCCCAGACA
* * *
23985394 TGGTCTTAGATGTAATC
64 GGGTCTTACACGTAATC
23985411 ACATCTCAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
85 10 0.15
86 58 0.85
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (85 bp):
ACAATGCCATATCCTAGAAATAGTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGG
GTCTTACACGTAATCGATTA
Found at i:23997925 original size:40 final size:40
Alignment explanation
Indices: 23997842--23998104 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
23997832 TTGAATGCTG
* * * * * *
23997842 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
23997882 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
23997922 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
23997962 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23998002 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23998042 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23998081 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23998105 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:23998124 original size:79 final size:80
Alignment explanation
Indices: 23997881--23998139 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
23997871 AAGTGAATAT
* * * * * *
23997881 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
23997945 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
23997961 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
23998026 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
23998041 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
23998105 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
23998120 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
23998140 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:24003051 original size:49 final size:50
Alignment explanation
Indices: 24002979--24003105 Score: 184
Period size: 50 Copynumber: 2.6 Consensus size: 50
24002969 ATCTGATACG
* *
24002979 CATAGTAGCCTACACTTAGTACTACACATGCGAC-CAACAATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAATACGGTACA
* * * *
24003028 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAATAGTATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAATACGGTACA
*
24003078 CGTAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
24003106 CGTGTATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 33 0.47
50 37 0.53
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAATACGGTACA
Found at i:24010405 original size:50 final size:48
Alignment explanation
Indices: 24010348--24010530 Score: 195
Period size: 50 Copynumber: 3.7 Consensus size: 48
24010338 AACAATCCGG
* * *
24010348 TACACGTAGTAGCCTGCACTTTGTACTACACATGTGACCTCACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CTAAACAT-TGA
* * * *
24010398 TACACGTAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTCATTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CTAA-ACATTGA
* * * *
24010448 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAGTATGG
1 -TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTAAACA-T-TGA
*
24010499 TACACGTAGTAGCCTACACTTAGTACTACACA
1 TACACGTAGTAGCCTGCACTTAGTACTACACA
24010531 CGTGTATTCA
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 71 0.64
51 38 0.34
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTAAACATTGA
Found at i:24011598 original size:49 final size:49
Alignment explanation
Indices: 24011523--24011623 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 49
24011513 CCTAATTAAT
**
24011523 ATTCCAAAGCAATTTCATACTAAAAACTTCTAGAATGCAAGTTTTGCAA
1 ATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAAGTTTTGCAA
*
24011572 ATTCCAAAGCAATTTCATACTCAAAACTTCTAGAACACAAGTTTTGCAA
1 ATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAAGTTTTGCAA
24011621 ATT
1 ATT
24011624 ATTCGATTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (49 bp):
ATTCCAAAGCAATTTCATACTAAAAACTTCTAGAACACAAGTTTTGCAA
Found at i:24012057 original size:47 final size:46
Alignment explanation
Indices: 24011989--24012251 Score: 205
Period size: 47 Copynumber: 5.6 Consensus size: 46
24011979 TTTTTGAACT
* *
24011989 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACA-GATGAGAGCC
** *
24012035 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAGAT--GAGAGCC
* * * *
24012083 AGTGTAAGACATTTCTAGGACAT-GCATTGGCCTCAAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-AGATG-AGAGCC
* * ** * **
24012129 AGTGTAGGACAGGTCTGGGACAT-GCATCGGATACGAGATGATAGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-AGATGAGAGCC
* *** *
24012175 AGTGTAAGACCATGTCTGGGACATGGCATCGACTGGAGA-AATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAGATGA-GAGCC
24012222 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
24012252 AGCTGTGACA
Statistics
Matches: 173, Mismatches: 33, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 63 0.36
47 78 0.45
48 31 0.18
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACAGATGAGAGCC
Found at i:24014103 original size:40 final size:40
Alignment explanation
Indices: 24013996--24014212 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
24013986 CGGATGATAA
* * *
24013996 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* * *
24014036 CCGGGCTAAG-CCCGAAGGAAATT-GTGCGAGTTATTATAC
1 CCGGGCTAAGTCCCGAAGG-CATTCGTGCGAGTTACTATAT
* * *
24014075 CCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
24014115 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
24014155 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
24014195 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24014213 TACTCGGCTT
Statistics
Matches: 153, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 45 0.29
40 108 0.71
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:24014198 original size:80 final size:80
Alignment explanation
Indices: 24013996--24014212 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 80
24013986 CGGATGATAA
* * *
24013996 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCCGAAGGAAAT
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGGAAAT
*
24014058 TGTGCGAGTTATTATAC
64 TGTGCGAGTTACTATAC
* * *
24014075 CCGGGCTAAT-TCCCGAAGGCATTCGTGCGAGTTA-TTATGTCCGGGCTAAGTCCCGAAGG-CAT
1 CCGGGCT-ATGTCCCGAAGGCATTCGTGCGAG-TAGCTATATCCGGGCTAAGTCCCGAAGGAAAT
*
24014137 TGGTGCGAGTTACTATAT
64 T-GTGCGAGTTACTATAC
* * *
24014155 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGG
24014213 TACTCGGCTT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
79 60 0.51
80 57 0.49
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTAGCTATATCCGGGCTAAGTCCCGAAGGAAATTG
TGCGAGTTACTATAC
Found at i:24014208 original size:119 final size:119
Alignment explanation
Indices: 24013996--24014212 Score: 280
Period size: 119 Copynumber: 1.8 Consensus size: 119
24013986 CGGATGATAA
* * *
24013996 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGAAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGAAATTGA
* *
24014061 GCGAGTTATTATACCCGGGCTAATTCCCGAAGGCATTCGTGCGAGTTATTATGT
66 GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
* * *
24014115 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAGG-CATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGAAATT
* *
24014178 CGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
64 -GAGCGAGTTA-CTATACCCGGGCTAAATCCCGAAGG
24014213 TACTCGGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 62 0.74
120 20 0.24
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGAAATTGA
GCGAGTTACTATACCCGGGCTAAATCCCGAAGGCATTCGTGCGAGTTATTATGT
Found at i:24023515 original size:39 final size:40
Alignment explanation
Indices: 24023445--24023704 Score: 287
Period size: 40 Copynumber: 6.6 Consensus size: 40
24023435 TATTCGAATG
* *
24023445 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
24023485 ATATCCGGGGTAAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
24023524 A-ATTCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * * * *
24023563 ATACCCAGCCTAATTCCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
24023603 ATGTCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
24023643 ATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
24023683 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
24023705 TACTTGGCTT
Statistics
Matches: 189, Mismatches: 26, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 78 0.41
40 110 0.58
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:24031165 original size:27 final size:27
Alignment explanation
Indices: 24031125--24031297 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
24031115 TGGATAAGTT
* *
24031125 GTAGAATTATCGAAATACCCCTCTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
24031152 ATAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
24031179 GTAAGAA-TACCGAAATACCCCTGTAGG
1 GT-AGAATTACCGAAATACCCCTGTAGG
* * * *
24031206 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
24031233 GTAAGAA-TACCGAAATACCCCTGTAGG
1 GT-AGAATTACCGAAATACCCCTGTAGG
* * * *
24031260 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24031287 GTAAAATTACC
1 GTAGAATTACC
24031298 ATTTTGCCCC
Statistics
Matches: 120, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 8 0.07
27 104 0.87
28 8 0.07
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:24031308 original size:54 final size:54
Alignment explanation
Indices: 24031135--24031290 Score: 258
Period size: 54 Copynumber: 2.9 Consensus size: 54
24031125 GTAGAATTAT
* * * * **
24031135 CGAAATACCCCTCTAGGATAGAATTACCGAAATACCCTTGTAAGGTAAGAATAC
1 CGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAAGAATAC
24031189 CGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAAGAATAC
1 CGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAAGAATAC
24031243 CGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAA
1 CGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAA
24031291 AATTACCATT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (54 bp):
CGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGGGTAAGAATAC
Found at i:24031684 original size:8 final size:8
Alignment explanation
Indices: 24031671--24031698 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
24031661 ATGGGCCAAA
24031671 AACGGGCC
1 AACGGGCC
24031679 AACGGGCC
1 AACGGGCC
24031687 AACGGGCC
1 AACGGGCC
24031695 AACG
1 AACG
24031699 AGCCCACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.36, G:0.36, T:0.00
Consensus pattern (8 bp):
AACGGGCC
Found at i:24032000 original size:27 final size:26
Alignment explanation
Indices: 24031956--24032007 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
24031946 CTCGCTGCAA
*
24031956 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
24031983 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
24032008 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:24039389 original size:79 final size:79
Alignment explanation
Indices: 24039272--24039495 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 79
24039262 GCTACTCGTT
* * *
24039272 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
24039337 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
24039352 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
24039415 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
24039430 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
24039494 GA
64 GA
24039496 CATCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
78 36 0.28
79 59 0.46
80 34 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:24039495 original size:40 final size:40
Alignment explanation
Indices: 24039253--24039495 Score: 293
Period size: 40 Copynumber: 6.1 Consensus size: 40
24039243 TGAAATTTAA
** *
24039253 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24039293 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
24039333 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24039372 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24039411 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
24039451 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
24039491 CCGGA
1 CCGGA
24039496 CATCATTCAA
Statistics
Matches: 180, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.40
40 94 0.52
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24049079 original size:30 final size:29
Alignment explanation
Indices: 24049037--24049099 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
24049027 AAGTAGCCGT
*
24049037 AGCTAGTTAAATCGCACAATTAGTGCCAA
1 AGCTAGTTAAATCACACAATTAGTGCCAA
*
24049066 AGCTAGTTTAAATCACACACTTAGTGCCAA
1 AGCTAG-TTAAATCACACAATTAGTGCCAA
24049096 AGCT
1 AGCT
24049100 TCCGATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (29 bp):
AGCTAGTTAAATCACACAATTAGTGCCAA
Found at i:24053642 original size:27 final size:27
Alignment explanation
Indices: 24053608--24053807 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
24053598 TGGATAAGTT
*
24053608 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24053635 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** * *
24053662 GTAGAATTATTGAAATACCTCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24053689 GTAGAACTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
24053716 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24053743 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * ** *
24053770 GTAGAATTACTGAGATACCTTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24053797 GTAAAATTACC
1 GTAGAATTACC
24053808 ATTTTGCCCC
Statistics
Matches: 149, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:24054485 original size:27 final size:27
Alignment explanation
Indices: 24054455--24054507 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
24054445 CCTTACTGCA
*
24054455 ATCTGGTGGCTTAGCCACAATATCTGT
1 ATCTGGTGACTTAGCCACAATATCTGT
* *
24054482 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACTTAGCCACAATATCTG
24054508 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
ATCTGGTGACTTAGCCACAATATCTGT
Found at i:24063911 original size:27 final size:27
Alignment explanation
Indices: 24063870--24064038 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
24063860 TGGATAAGTT
*
24063870 GTAGAATTCCCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
24063897 GTAGAATTATTGAAATATCCC----GG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24063920 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
24063947 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24063974 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
24064001 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
24064028 GTAAAATTACC
1 GTAGAATTACC
24064039 ATTTTGACCC
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
23 21 0.17
27 100 0.83
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:24065849 original size:18 final size:18
Alignment explanation
Indices: 24065826--24065867 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
24065816 AATGAATTGT
24065826 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
24065844 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
24065862 ATTAAA
1 ATTAAA
24065868 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:24073183 original size:42 final size:43
Alignment explanation
Indices: 24073104--24073215 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
24073094 CAATGCCATA
** * *
24073104 TCCCAGACATGGTCTTACGTGTTATCAAATATCGATGCCACCG
1 TCCCAGACATGGTCTTACACGATATCAAATATCGATGCCAACG
* * * *
24073147 TCCCAGACAGGGTCTTACACGAAATCATATAT-GATGCCAATG
1 TCCCAGACATGGTCTTACACGATATCAAATATCGATGCCAACG
**
24073189 TCCCAGACATTTTCTTACACGATATCA
1 TCCCAGACATGGTCTTACACGATATCA
24073216 CATCTCAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 31 0.54
43 26 0.46
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGATATCAAATATCGATGCCAACG
Found at i:24075620 original size:36 final size:36
Alignment explanation
Indices: 24075573--24075643 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
24075563 GTGTGTGTCG
* *
24075573 CAGTCGTGTGTGACACATGGTCAGGTGACACGGCCT
1 CAGTCATGTGTGACACACGGTCAGGTGACACGGCCT
*
24075609 CAGTCATGTGTGACACACGGTTAGGTGACACGGCC
1 CAGTCATGTGTGACACACGGTCAGGTGACACGGCC
24075644 ATGTGTCCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.21
Consensus pattern (36 bp):
CAGTCATGTGTGACACACGGTCAGGTGACACGGCCT
Found at i:24078673 original size:96 final size:96
Alignment explanation
Indices: 24078509--24078702 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
24078499 GTCGGTATAT
24078509 ATATGGTAAATCAATTATGGTTGTAATGGCATGTATAGGATATGTTGACCATATTGGCATGTAAA
1 ATATGGTAAATCAATTATGGTTGTAATGGCATGTATAGGATATGTTGACCATATTGGCATGTAAA
24078574 CGTCCACGACACTTGTAATCTAGCCATTGGA
66 CGTCCACGACACTTGTAATCTAGCCATTGGA
24078605 ATATGGTAAATCAATTATGGTTGTAATGGCATGTATAGGATATGTTGACCATATTGGCATGTAAA
1 ATATGGTAAATCAATTATGGTTGTAATGGCATGTATAGGATATGTTGACCATATTGGCATGTAAA
24078670 CGTCCACGACACTTGTAATCTAGCCATTGGA
66 CGTCCACGACACTTGTAATCTAGCCATTGGA
24078701 AT
1 AT
24078703 GGCTAGTAAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (96 bp):
ATATGGTAAATCAATTATGGTTGTAATGGCATGTATAGGATATGTTGACCATATTGGCATGTAAA
CGTCCACGACACTTGTAATCTAGCCATTGGA
Found at i:24083068 original size:8 final size:8
Alignment explanation
Indices: 24083055--24083080 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24083045 GCTATAACAC
24083055 ATAAAATA
1 ATAAAATA
24083063 ATAAAATA
1 ATAAAATA
24083071 ATAAAATA
1 ATAAAATA
24083079 AT
1 AT
24083081 TTCTCCGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
ATAAAATA
Found at i:24089381 original size:13 final size:13
Alignment explanation
Indices: 24089363--24089387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24089353 TCTTGGTGTG
24089363 CACACAGCCATGC
1 CACACAGCCATGC
24089376 CACACAGCCATG
1 CACACAGCCATG
24089388 TTCTAAGCCG
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:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (13 bp):
CACACAGCCATGC
Found at i:24095119 original size:42 final size:42
Alignment explanation
Indices: 24095036--24095187 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
24095026 CTGAGACTAT
* * * * *
24095036 GTGTAAGACCATATATGAGATATGGAATCAATGTGAAATTTC
1 GTGTAAGACCATATCTGGGATATGGAATCGATATGAGATTTC
* *
24095078 GTGTAAGACCATATCTGGGATACGGGATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGAATCGATATGAGATTTC
* * * * **
24095120 GTGTAAGGCCATACCTGGGCTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGAATCGATATGAGATTTC
* *
24095163 ATGTAAGACCATATTTGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
24095188 CATTGGTATG
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 57 0.63
43 33 0.37
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGAATCGATATGAGATTTC
Found at i:24108849 original size:25 final size:25
Alignment explanation
Indices: 24108798--24108856 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
24108788 CAACTCGAGA
*
24108798 GAGCTTACTGATATTAAGCTCTCAT
1 GAGCTTACCGATATTAAGCTCTCAT
*
24108823 GAGCTTACCGATATTCAGCTCAT-AT
1 GAGCTTACCGATATTAAGCTC-TCAT
*
24108848 GAGGTTACC
1 GAGCTTACC
24108857 ATTTACAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (25 bp):
GAGCTTACCGATATTAAGCTCTCAT
Found at i:24110595 original size:41 final size:42
Alignment explanation
Indices: 24110547--24110684 Score: 162
Period size: 40 Copynumber: 3.4 Consensus size: 42
24110537 ACTCGATATC
* * *
24110547 TCGCACACTAAGTGTCATACATAGTCGAAGCTATA-CTC-AGA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATAGCTCGA-A
*
24110588 TCGCACACTAAGTGCCATATATAGCCGAAG-T-TAGGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATAGCTCGAA
* *
24110628 TCGCACACTAAGTGCCATATATAGCCGAAGCTAT-G-TTGTA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATAGCTCGAA
*
24110668 TTGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
24110685 CAAATAACTG
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.02
40 53 0.62
41 30 0.35
42 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATAGCTCGAA
Found at i:24115790 original size:43 final size:43
Alignment explanation
Indices: 24115723--24115841 Score: 175
Period size: 43 Copynumber: 2.8 Consensus size: 43
24115713 TGTGATTCTA
* *
24115723 ATATGTGATTACGTGTAAGCCCACATCTGGGATGTTGGTATCG
1 ATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCATCG
* * *
24115766 ATATGTGATTACGTGCAAGACCACATATGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCATCG
* *
24115809 ATATGTGATTACGTGTAAGACCACGTCTAGGAT
1 ATATGTGATTACGTGTAAGACCACATCTGGGAT
24115842 TGTAACACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCATCG
Found at i:24116268 original size:27 final size:27
Alignment explanation
Indices: 24116250--24116326 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 27
24116240 ATACGCTTAG
*
24116250 TTTGTAAAAATACTAAAATACCCTCGA
1 TTTGTAAAAATACTAAAATACCCTAGA
* * * *
24116277 TTTGTAAAATTACTAAAGTACCTTCGA
1 TTTGTAAAAATACTAAAATACCCTAGA
* * * *
24116304 CTTGTAAAATTACCAAAGTACCC
1 TTTGTAAAAATACTAAAATACCC
24116327 CCGATTTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTGTAAAAATACTAAAATACCCTAGA
Found at i:24116341 original size:27 final size:27
Alignment explanation
Indices: 24116311--24116372 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
24116301 CGACTTGTAA
24116311 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
24116338 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
24116365 AATTACCA
1 AATTACCA
24116373 TTTTACCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:24116373 original size:27 final size:27
Alignment explanation
Indices: 24116322--24116515 Score: 156
Period size: 27 Copynumber: 6.8 Consensus size: 27
24116312 ATTACCAAAG
*
24116322 TACCCCCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
24116349 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
24116376 TACCC-CCATTTTACCTCAACTTACAGAATTACCATTT
1 TACCCTCGA--TT---T--AC--AG--AATTACCATTT
* *
24116413 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
24116440 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
24116467 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
24116494 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
24116516 TAGAATACCC
Statistics
Matches: 140, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
26 2 0.01
27 108 0.77
28 2 0.01
29 1 0.01
31 3 0.02
33 3 0.02
35 1 0.01
36 2 0.01
37 16 0.11
38 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:24116380 original size:54 final size:54
Alignment explanation
Indices: 24116322--24116515 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 54
24116312 ATTACCAAAG
* *
24116322 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * *
24116376 TACCCCCATTTTACCTCAACTTACAGAATTACCATTTTACCCTCGATTTACAGAAGTACCGTTT
1 TACCCCC----GA--T----TTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
** * ** * *
24116440 TACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* *
24116494 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
24116516 TAGAATACCC
Statistics
Matches: 112, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
54 63 0.56
58 2 0.02
60 2 0.02
64 45 0.40
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:24116516 original size:27 final size:27
Alignment explanation
Indices: 24116383--24116517 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
24116373 TTTTACCCCC
* * *
24116383 ATTTTA-CCTCAACTTACAGAATTACC
1 ATTTTACCCTCGATTTACAGAATTACT
* *
24116409 ATTTTACCCTCGATTTACAGAAGTACC
1 ATTTTACCCTCGATTTACAGAATTACT
* * *
24116436 GTTTTACCCTTGATTTATAGAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
* *
24116463 GTTTTACCCTTGATTTACAGAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
*
24116490 ATTTTACCCTCGATTTACAAAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
24116517 A
1 A
24116518 GAATACCCTA
Statistics
Matches: 96, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 6 0.06
27 90 0.94
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTCGATTTACAGAATTACT
Found at i:24116524 original size:27 final size:27
Alignment explanation
Indices: 24116494--24116797 Score: 165
Period size: 27 Copynumber: 11.2 Consensus size: 27
24116484 ATTACTATTT
** *
24116494 TACCCTCGATTTACAAAATTACTAGAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * *
24116521 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
24116547 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTA-AAA
* *
24116574 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
24116601 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACTAAAA
* * **
24116628 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACTAAAA
*
24116655 TACCCTC-ATTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACTAAAA
** *
24116682 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTGTAAAATTACTA-AAA
* *
24116709 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTGT-AAAATTACTA-AAA
* * * ** *
24116738 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * * * *
24116765 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
*
24116792 CACCCT
1 TACCCT
24116798 TGTAGGATGA
Statistics
Matches: 221, Mismatches: 40, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
26 27 0.12
27 166 0.75
28 10 0.05
29 18 0.08
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:24116605 original size:54 final size:53
Alignment explanation
Indices: 24116508--24116779 Score: 201
Period size: 54 Copynumber: 5.0 Consensus size: 53
24116498 CTCGATTTAC
* * * *
24116508 AAAATTACTAG-AATACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTAC-AGAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
** * *
24116561 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACAGAAATACCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* * ***
24116615 AAAATTACCA-AAATACCACTGGTTTGTGAAATTACCGAAATACCCTCATTTTGT
1 AAAATTA-CAGAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* ** * * *
24116669 AAAATTACCA-AAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTA-CAGAAATA-CCCTGGTTTGTAAAATTACCA-AAATACCCTTG-GTTTGT
* * ** **
24116724 AAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACAGAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
24116779 A
1 A
24116780 GATTTACCAA
Statistics
Matches: 177, Mismatches: 31, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.01
53 17 0.10
54 105 0.59
55 17 0.10
56 36 0.20
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
Found at i:24116638 original size:81 final size:81
Alignment explanation
Indices: 24116494--24116688 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
24116484 ATTACTATTT
* ** * * * *
24116494 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
24116558 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
*
24116574 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
* *
24116638 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
*
24116655 TACCCTCATTTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
24116689 GATTTACAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 24 0.24
81 77 0.75
82 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:24116710 original size:81 final size:81
Alignment explanation
Indices: 24116494--24116741 Score: 265
Period size: 81 Copynumber: 3.0 Consensus size: 81
24116484 ATTACTATTT
* ** * * * *
24116494 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGAT-TGTAAAATTACCAAAATACCCTTGGT
24116557 TTGTAAAATTACAGAAA
65 TTGTAAAATTACAGAAA
*
24116574 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACC-CTTGGT
* *
24116638 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
*
24116655 TACCCTCATTTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA-AAATACCCTTG
* * *
24116717 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTACAGAAA
24116738 TACC
1 TACC
24116742 ATTGGTTTAC
Statistics
Matches: 143, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
79 2 0.01
80 33 0.23
81 88 0.62
82 6 0.04
83 14 0.10
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:24116894 original size:27 final size:27
Alignment explanation
Indices: 24116817--24116894 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
24116807 AAATGACTAA
* *
24116817 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
24116844 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
24116871 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
24116895 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:24118199 original size:20 final size:20
Alignment explanation
Indices: 24118136--24118206 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
24118126 ATTTTGATAA
24118136 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
24118156 ACACGACATGTATGATATGC
1 ACATGATATGTATGATATGC
24118176 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24118196 ACATGAGATGT
1 ACATGATATGT
24118207 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:24118355 original size:25 final size:24
Alignment explanation
Indices: 24118253--24118469 Score: 291
Period size: 25 Copynumber: 9.0 Consensus size: 24
24118243 AGGAAGTGCA
24118253 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
24118276 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
24118299 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
24118322 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
24118347 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
24118372 GAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
24118397 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
* *
24118421 AAAGGGCTTTTTCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
24118445 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
24118470 GATAAAGCAG
Statistics
Matches: 178, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
23 68 0.38
24 29 0.16
25 81 0.46
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:24118698 original size:31 final size:31
Alignment explanation
Indices: 24118663--24118726 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
24118653 CATTTACAGT
*
24118663 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
24118694 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24118725 AA
1 AA
24118727 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:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24124824 original size:43 final size:43
Alignment explanation
Indices: 24124757--24125018 Score: 348
Period size: 43 Copynumber: 6.0 Consensus size: 43
24124747 TATGTGATTC
24124757 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
24124800 CGATATGTGATTACGTGCAGGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
24124843 CGATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGTAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
24124886 CGATATGTGATTACATGTAAGACCACGTCTAGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
*
24124929 CGATATGTGATTACGTGTAAGTCC-CTGTCTGGGCCAGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCT-GG---GAC-GTTGGCAT
* *
24124976 CGATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
24125019 TGTATGATAT
Statistics
Matches: 193, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
42 2 0.01
43 153 0.79
44 1 0.01
46 2 0.01
47 33 0.17
48 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:24125243 original size:28 final size:28
Alignment explanation
Indices: 24125206--24125262 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24125196 TGAGAACTAT
*
24125206 GTGTATGCATATGTGAATGTACACAGTC
1 GTGTATGCATATGGGAATGTACACAGTC
24125234 GTGTATGCATATGGGAATGTACACAGTC
1 GTGTATGCATATGGGAATGTACACAGTC
24125262 G
1 G
24125263 ACTAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GTGTATGCATATGGGAATGTACACAGTC
Found at i:24128750 original size:48 final size:48
Alignment explanation
Indices: 24128691--24128905 Score: 161
Period size: 46 Copynumber: 4.6 Consensus size: 48
24128681 AAGCTGACGC
* *
24128691 CATGTCCCAGACAGGTCTTACACTAGCTTTTATATCTCGAGGTTAATG
1 CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
* * * ** ** * *
24128739 CATGTCTCAGACAAGTCTTACACTAGC-TCT-CGTCTTAATGCCAATG
1 CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
* * * *
24128785 CATGTCACAGA-TGTGTCTTACACTAGCTTATATATCTCGAAGCTGATG
1 CATGTCACAGACAG-GTCTTACACTAGCTTTTATATCTCGAGGCTAATG
* * * * * * * * *
24128833 CATGTCCCAGACATGTCTTGCACTGGCTCTCATA-AT-GTGGCTGATG
1 CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
*
24128879 CATGTCACAGACATGTCTTACACTAGC
1 CATGTCACAGACAGGTCTTACACTAGC
24128906 ACACATATCA
Statistics
Matches: 128, Mismatches: 35, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
46 64 0.50
47 5 0.04
48 59 0.46
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
Found at i:24128880 original size:94 final size:94
Alignment explanation
Indices: 24128691--24128905 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 94
24128681 AAGCTGACGC
* * * * * *
24128691 CATGTCCCAGACAGGTCTTACACTAGCTTTTATATCTCGAGGTTAATGCATGTCTCAGACAAGTC
1 CATGTCACAGACATGTCTTACACTAGCTTATATATCTCGAAGCTAATGCATGTCCCAGACAAGTC
* **
24128756 TTACACTAGCTCTCGTCTTAATGCCAATG
66 TTACACTAGCTCTCATAATAATGCCAATG
** * *
24128785 CATGTCACAGATGTGTCTTACACTAGCTTATATATCTCGAAGCTGATGCATGTCCCAGACATGTC
1 CATGTCACAGACATGTCTTACACTAGCTTATATATCTCGAAGCTAATGCATGTCCCAGACAAGTC
* * * **
24128850 TTGCACTGGCTCTCATAAT-GTGGCTGATG
66 TTACACTAGCTCTCATAATAAT-GCCAATG
24128879 CATGTCACAGACATGTCTTACACTAGC
1 CATGTCACAGACATGTCTTACACTAGC
24128906 ACACATATCA
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
93 1 0.01
94 99 0.99
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (94 bp):
CATGTCACAGACATGTCTTACACTAGCTTATATATCTCGAAGCTAATGCATGTCCCAGACAAGTC
TTACACTAGCTCTCATAATAATGCCAATG
Found at i:24135730 original size:49 final size:49
Alignment explanation
Indices: 24135676--24135844 Score: 311
Period size: 49 Copynumber: 3.4 Consensus size: 49
24135666 CTGGTACGCA
* * *
24135676 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
24135725 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
24135774 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
24135823 TAGTAGCCTGCACTTAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
24135845 ACCATTTCGT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
49 117 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:24136893 original size:16 final size:16
Alignment explanation
Indices: 24136872--24136910 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
24136862 ACCTTCATAT
24136872 ACCTCATTGCATGTAA
1 ACCTCATTGCATGTAA
24136888 ACCTCATTGCATGTAA
1 ACCTCATTGCATGTAA
24136904 ACCTCAT
1 ACCTCAT
24136911 CTCTCGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (16 bp):
ACCTCATTGCATGTAA
Found at i:24152506 original size:28 final size:28
Alignment explanation
Indices: 24152446--24152506 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
24152436 AATGACAAAA
*
24152446 ATACCCCTAAGGGGTAAAAATTACTATT
1 ATACCCCTAAGGGGTAAAAATGACTATT
* * ** *
24152474 CTACCCCTAATGGGTGGAAATGACTGTT
1 ATACCCCTAAGGGGTAAAAATGACTATT
24152502 ATACC
1 ATACC
24152507 TTAGAGGTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (28 bp):
ATACCCCTAAGGGGTAAAAATGACTATT
Found at i:24153810 original size:56 final size:57
Alignment explanation
Indices: 24153739--24153849 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 57
24153729 TATATATATA
* * * *
24153739 TGGCCCACTAAGCCC-AATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCACTAAGCCCAAATCACATTCATATGG-CCACTAGGCCCAAATCACATTTATG
* *
24153795 TGGCCCATTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
1 TGGCCCACTAAGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
24153850 CAGTCATACT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 23 0.49
57 24 0.51
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (57 bp):
TGGCCCACTAAGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTATG
Found at i:24153845 original size:28 final size:28
Alignment explanation
Indices: 24153736--24153847 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
24153726 ACCTATATAT
* * *
24153736 ATATGGCCCACTAAGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
24153764 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* *
24153792 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
24153821 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
24153848 TACAGTCATA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 59 0.82
29 13 0.18
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:24154088 original size:16 final size:16
Alignment explanation
Indices: 24154063--24154121 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
24154053 GTAGCCAAAC
24154063 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* * *
24154079 TTTCAACTTTTTGACA
1 TTTCAGCTTTTCGGCA
*
24154095 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
24154111 TTTCTGCTTTT
1 TTTCAGCTTTT
24154122 TGGGATTTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.12, C:0.22, G:0.15, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:24154109 original size:32 final size:32
Alignment explanation
Indices: 24154063--24154123 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
24154053 GTAGCCAAAC
24154063 TTTCAGCTTTTCGGCATTTCAACTTTTTGACA
1 TTTCAGCTTTTCGGCATTTCAACTTTTTGACA
* **
24154095 TTTCGGCTTTTCGGCATTTCTGCTTTTTG
1 TTTCAGCTTTTCGGCATTTCAACTTTTTG
24154124 GGATTTGTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.11, C:0.21, G:0.16, T:0.51
Consensus pattern (32 bp):
TTTCAGCTTTTCGGCATTTCAACTTTTTGACA
Found at i:24162834 original size:13 final size:13
Alignment explanation
Indices: 24162816--24162840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24162806 CTAAGCACAC
24162816 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
24162829 GCCCGTGTCCTT
1 GCCCGTGTCCTT
24162841 CACACGGCCT
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:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:24168398 original size:47 final size:45
Alignment explanation
Indices: 24168331--24168479 Score: 124
Period size: 49 Copynumber: 3.2 Consensus size: 45
24168321 CCCAGACATT
*
24168331 GTCTTACACTGGCTAGCATATCAAAGTCGATGCCATGTCCCAGTCAG
1 GTCTTACACTGACTA-CATATC-AAGTCGATGCCATGTCCCAGTCAG
* * * * * *
24168378 GTCTTACACTGACTTTCATATATCGAGGTCGATGTCGTGTCCTAGACAG
1 GTCTTACACTGAC--T-ACATATC-AAGTCGATGCCATGTCCCAGTCAG
* * *
24168427 GTCTTACACTGAC-ACACAACAAG-CTGACGCCATGTCCCAGT-AG
1 GTCTTACACTGACTACATATCAAGTC-GATGCCATGTCCCAGTCAG
24168470 GTCTTACACT
1 GTCTTACACT
24168480 AGCTCGTATA
Statistics
Matches: 81, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
43 13 0.16
44 13 0.16
45 4 0.05
47 12 0.15
49 38 0.47
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (45 bp):
GTCTTACACTGACTACATATCAAGTCGATGCCATGTCCCAGTCAG
Found at i:24168522 original size:48 final size:48
Alignment explanation
Indices: 24168457--24168670 Score: 208
Period size: 46 Copynumber: 4.6 Consensus size: 48
24168447 AAGCTGACGC
* * *
24168457 CATGTCCCAG-TAGGTCTTACACTAGCTCGTATATCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
* ** * **
24168504 CATGTCACAGACATGTCTTACACTAGCTC-T-CGTCTCAATGAGGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
* * *
24168550 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
* * * *
24168598 TATGTCCCAGACATGTCTTACACTGGCT-ATCATAAT-T--TGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGT-AT-ATCTCAAGGCCGATG
*
24168644 CATGTCCCAGACTTGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
24168671 ACACATATCA
Statistics
Matches: 137, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
46 69 0.50
47 12 0.09
48 54 0.39
49 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
Found at i:24168644 original size:94 final size:93
Alignment explanation
Indices: 24168457--24168670 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 93
24168447 AAGCTGACGC
* * * *
24168457 CATGTCCCAG-TAGGTCTTACACTAGCTCGTATATCTCAAGGCTGATGCATGTCACAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGACCGATGCATGTCACAGACATGTC
* *
24168521 TTACACTAGCTCTCGTCTCAATGAGGATG
66 TTACACTAGCTATCG-ATCAATGAGGATG
* * * *
24168550 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGACCGATGTATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGACCGATGCATGTCACAGACATGTC
*
24168615 TTACACTGGCTATC-AT-AATTTG-GCCGATG
66 TTACACTAGCTATCGATCAA--TGAG--GATG
*
24168644 CATGTCCCAGACTTGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
24168671 ACACATATCA
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.02
92 2 0.02
93 12 0.12
94 88 0.85
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGACCGATGCATGTCACAGACATGTC
TTACACTAGCTATCGATCAATGAGGATG
Found at i:24171710 original size:66 final size:65
Alignment explanation
Indices: 24171572--24171710 Score: 151
Period size: 65 Copynumber: 2.1 Consensus size: 65
24171562 GCTATGGGTC
* *
24171572 ATTTTCTTTTTTGATCACCCAACTATGATTTTTTTTAAAAATTGATCACTCAATTATGGATTTGT
1 ATTTTTTTTTTTGATCACCCAACTATGATTTTTTTTAAAAATTGATCACTCAATTATGGATTTAT
* * *
24171637 TTCTTTTTTTTTTGA-CACCCAACTAT-ATATTTTTTTTAAAATTGGTCAC-CTAATTAATCGAG
1 AT-TTTTTTTTTTGATCACCCAACTATGAT-TTTTTTTAAAAATTGATCACTC-AATT-AT-G-G
24171699 A-TTAT
60 ATTTAT
24171704 ATTTTTT
1 ATTTTTT
24171711 GGTCCATTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
64 3 0.05
65 34 0.55
66 18 0.29
67 5 0.08
68 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (65 bp):
ATTTTTTTTTTTGATCACCCAACTATGATTTTTTTTAAAAATTGATCACTCAATTATGGATTTAT
Found at i:24174112 original size:30 final size:30
Alignment explanation
Indices: 24174062--24174121 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
24174052 GCGAGAAGTA
24174062 GCCATGGTTGCCAAAGAGCAAG-TGCATGGC
1 GCCATGGTTGCCAAAGAGCAAGCT-CATGGC
*
24174092 GCCATGGTTGCTGAAA-AGCAAGCTCATGGC
1 GCCATGGTTGC-CAAAGAGCAAGCTCATGGC
24174122 AAGGCTCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.18
Consensus pattern (30 bp):
GCCATGGTTGCCAAAGAGCAAGCTCATGGC
Found at i:24174512 original size:20 final size:19
Alignment explanation
Indices: 24174487--24174536 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
24174477 ATTCTTTAGA
24174487 ATTTTGGAATTTTTATAAA-T
1 ATTTTGG-ATTTTTA-AAATT
24174507 ATTTT-GATTTTTAAAATT
1 ATTTTGGATTTTTAAAATT
24174525 ATTTT-GATTTTT
1 ATTTTGGATTTTT
24174537 TTTGTAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 1 0.03
20 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTTTGGATTTTTAAAATT
Found at i:24174518 original size:18 final size:18
Alignment explanation
Indices: 24174495--24174536 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
24174485 GAATTTTGGA
24174495 ATTTTTATAAA-TATTTTG
1 ATTTTTA-AAATTATTTTG
24174513 ATTTTTAAAATTATTTTG
1 ATTTTTAAAATTATTTTG
24174531 ATTTTT
1 ATTTTT
24174537 TTTGTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTAAAATTATTTTG
Found at i:24178428 original size:21 final size:21
Alignment explanation
Indices: 24178390--24178429 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24178380 ATACACGTTT
*
24178390 ATATTTTTATTATTTAATACA
1 ATATTTTTATTATGTAATACA
24178411 ATATTTTTATT-TCGTAATA
1 ATATTTTTATTAT-GTAATA
24178430 TATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
ATATTTTTATTATGTAATACA
Found at i:24179145 original size:36 final size:37
Alignment explanation
Indices: 24179098--24179169 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
24179088 ATGATTAAAC
* *
24179098 AATTCAATAATATAAATAGTACA-AAATATGAAATTT
1 AATTCAATAATATAAATAATACATAAAAATGAAATTT
* *
24179134 AATTTAATAATATAAATAATAGATAAAAATGAAATT
1 AATTCAATAATATAAATAATACATAAAAATGAAATT
24179170 ATTATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (37 bp):
AATTCAATAATATAAATAATACATAAAAATGAAATTT
Found at i:24179153 original size:17 final size:17
Alignment explanation
Indices: 24179093--24179153 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
24179083 TTAATATGAT
*
24179093 TAAACAATTCAATAATA
1 TAAATAATTCAATAATA
* *
24179110 TAAATAGTACAA-AATA
1 TAAATAATTCAATAATA
*
24179126 TGAAATTTAATTTAATAATA
1 T-AAA--TAATTCAATAATA
24179146 TAAATAAT
1 TAAATAAT
24179154 AGATAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.15
17 16 0.47
19 8 0.24
20 5 0.15
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:24179761 original size:26 final size:26
Alignment explanation
Indices: 24179722--24179774 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24179712 TTAGATTTAT
24179722 TTAAAATAAAAAA-TATTAAATTTAAA
1 TTAAAATAAAAAATTA-TAAATTTAAA
** *
24179748 TTAAAATAGCAAATTATAATTTTAAA
1 TTAAAATAAAAAATTATAAATTTAAA
24179774 T
1 T
24179775 ATTTCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAAAATAAAAAATTATAAATTTAAA
Done.