Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 162 of 313
Found at i:50917288 original size:44 final size:45
Alignment explanation
Indices: 50917204--50917294 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
50917194 GGATTAGAGG
* * *
50917204 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
50917249 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
50917293 TG
1 TG
50917295 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:50917479 original size:16 final size:16
Alignment explanation
Indices: 50917439--50917480 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50917429 TTAATCATAT
50917439 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATTA
*
50917455 TT-AAATATATTTTTA
1 TTAAAATATATTATTA
50917470 TTAAAATATAT
1 TTAAAATATAT
50917481 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATATATTATTA
Found at i:50917600 original size:18 final size:17
Alignment explanation
Indices: 50917579--50917613 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50917569 TTATTATTAA
*
50917579 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50917597 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50917614 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50918517 original size:66 final size:66
Alignment explanation
Indices: 50918411--50918541 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
50918401 NGCAAATGTG
* *
50918411 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
50918476 C
66 C
* * *
50918477 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTGATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
50918542 AAACCTTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:50936435 original size:12 final size:12
Alignment explanation
Indices: 50936394--50936456 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
50936384 ATGTAGGGTG
*
50936394 AATTTTGATT-T
1 AATTTTAATTGT
*
50936405 AATTTGTAATTAT
1 AATTT-TAATTGT
* *
50936418 ATTTTTAATTTT
1 AATTTTAATTGT
*
50936430 AATTTT--TTGA
1 AATTTTAATTGT
50936440 AATTTTAATTGT
1 AATTTTAATTGT
50936452 AATTT
1 AATTT
50936457 AAATGTACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
10 8 0.20
11 5 0.12
12 23 0.56
13 5 0.12
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
AATTTTAATTGT
Found at i:50938376 original size:22 final size:23
Alignment explanation
Indices: 50938351--50938393 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
50938341 TATTTTCTTA
50938351 AATTTATTTTT-TTTCATTTTTG
1 AATTTATTTTTATTTCATTTTTG
* *
50938373 AATTTGTTTTTATTTTATTTT
1 AATTTATTTTTATTTCATTTT
50938394 ATTACACTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (23 bp):
AATTTATTTTTATTTCATTTTTG
Found at i:50942780 original size:23 final size:23
Alignment explanation
Indices: 50942754--50942822 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
50942744 TTAAATTTTT
50942754 AATTATTTAGTGATAATAATTAG
1 AATTATTTAGTGATAATAATTAG
50942777 AATTATTTAGTGATAAT-ATCTAG
1 AATTATTTAGTGATAATAAT-TAG
* *
50942800 AATTATTTAGTAATAATATTTAG
1 AATTATTTAGTGATAATAATTAG
50942823 GAAAAATCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.05
23 39 0.93
24 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (23 bp):
AATTATTTAGTGATAATAATTAG
Found at i:50942821 original size:13 final size:13
Alignment explanation
Indices: 50942757--50942822 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
50942747 AATTTTTAAT
*
50942757 TATTTAGTGATAA
1 TATTTAGTAATAA
*
50942770 TAATTAG-AAT--
1 TATTTAGTAATAA
*
50942780 TATTTAGTGATAA
1 TATTTAGTAATAA
*
50942793 TATCTAG-AAT--
1 TATTTAGTAATAA
50942803 TATTTAGTAATAA
1 TATTTAGTAATAA
50942816 TATTTAG
1 TATTTAG
50942823 GAAAAATCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
10 12 0.30
11 5 0.12
12 4 0.10
13 19 0.47
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:50943694 original size:19 final size:17
Alignment explanation
Indices: 50943655--50943720 Score: 51
Period size: 20 Copynumber: 3.5 Consensus size: 17
50943645 CTTAAAAATA
* * *
50943655 TTTTATTTACCAATTTA
1 TTTTATTTTCAAATTTT
50943672 TTTTATTTTCTTAAATTTTT
1 TTTTATTTTC--AAA-TTTT
50943692 TTTTGCATTTTCAAATTTGT
1 TTTT--ATTTTCAAATTT-T
50943712 TTTTATTTT
1 TTTTATTTT
50943721 ATTTTATTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
17 9 0.22
18 5 0.12
19 5 0.12
20 15 0.38
22 6 0.15
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATTTTCAAATTTT
Found at i:50948451 original size:17 final size:16
Alignment explanation
Indices: 50948429--50948460 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
50948419 ATTAGAAGAG
50948429 AAACTCATTTGAAAAAA
1 AAACTCATTT-AAAAAA
50948446 AAACTCATTTAAAAA
1 AAACTCATTTAAAAA
50948461 GAGTACACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
AAACTCATTTAAAAAA
Found at i:50950924 original size:17 final size:17
Alignment explanation
Indices: 50950902--50950938 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
50950892 GTTTGGCGCC
50950902 GCACGCCCCACGTCGCA
1 GCACGCCCCACGTCGCA
*
50950919 GCACGCTCCACGTCGCA
1 GCACGCCCCACGTCGCA
50950936 GCA
1 GCA
50950939 ACCGCCCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.49, G:0.24, T:0.08
Consensus pattern (17 bp):
GCACGCCCCACGTCGCA
Found at i:50951942 original size:26 final size:27
Alignment explanation
Indices: 50951898--50951957 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
50951888 CATATGTATC
**
50951898 TTATTATATATATGTATATA-TATATTT
1 TTATTATATATATACATATATTATA-TT
*
50951925 TTATTA-ATATATACATATCTTATATT
1 TTATTATATATATACATATATTATATT
50951951 TTATTAT
1 TTATTAT
50951958 TATTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (27 bp):
TTATTATATATATACATATATTATATT
Found at i:50952020 original size:10 final size:10
Alignment explanation
Indices: 50952005--50952046 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
50951995 TACTATATTT
50952005 ATATTTTATA
1 ATATTTTATA
50952015 ATATTTATATA
1 ATATTT-TATA
* *
50952026 GTTTTTTAT-
1 ATATTTTATA
50952035 ATATTTTATA
1 ATATTTTATA
50952045 AT
1 AT
50952047 TCAAATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.27
10 11 0.42
11 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
ATATTTTATA
Found at i:50952198 original size:15 final size:14
Alignment explanation
Indices: 50952170--50952207 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
50952160 ATTAACATAA
50952170 TTTATTTA--TATT
1 TTTATTTATTTATT
50952182 TTTATTTTATTTATT
1 TTTA-TTTATTTATT
50952197 TTTATTTATTT
1 TTTATTTATTT
50952208 CTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.17
13 4 0.17
14 7 0.30
15 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:50952199 original size:10 final size:10
Alignment explanation
Indices: 50952169--50952207 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
50952159 TATTAACATA
*
50952169 ATTTATTTAT
1 ATTTATTTTT
*
50952179 ATTTTTATTTT
1 ATTTAT-TTTT
50952190 ATTTATTTTT
1 ATTTATTTTT
50952200 ATTTATTT
1 ATTTATTT
50952208 CTATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:50953620 original size:16 final size:17
Alignment explanation
Indices: 50953590--50953627 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
50953580 TTAAATTTAA
50953590 TATTAGTTTGCTATTAT
1 TATTAGTTTGCTATTAT
*
50953607 TATTA-TTTGTTATTAT
1 TATTAGTTTGCTATTAT
50953623 TATTA
1 TATTA
50953628 ATCTTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (17 bp):
TATTAGTTTGCTATTAT
Found at i:50957828 original size:16 final size:16
Alignment explanation
Indices: 50957807--50957837 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50957797 ATCGAGTTGA
*
50957807 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
50957823 GAAAATTAATTAATT
1 GAAAATTAATTAATT
50957838 ATTTAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:50957842 original size:24 final size:22
Alignment explanation
Indices: 50957810--50957861 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
50957800 GAGTTGAGAA
50957810 AATTATTTAATTGGAAAATTAATT
1 AATTATTTAATT--AAAATTAATT
*
50957834 AATTATTTAATTTAAATTAATT
1 AATTATTTAATTAAAATTAATT
*
50957856 TATTAT
1 AATTAT
50957862 ATTTATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 14 0.54
24 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
AATTATTTAATTAAAATTAATT
Found at i:50960684 original size:25 final size:25
Alignment explanation
Indices: 50960650--50960698 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
50960640 ACAGAAGAGT
50960650 ATGGTGTTCAATCTACTATACGATC
1 ATGGTGTTCAATCTACTATACGATC
50960675 ATGGTGTTCAATCTACTATACGAT
1 ATGGTGTTCAATCTACTATACGAT
50960699 TACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (25 bp):
ATGGTGTTCAATCTACTATACGATC
Found at i:50961504 original size:15 final size:14
Alignment explanation
Indices: 50961484--50961513 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
50961474 TCTCCCTATT
50961484 TCTTTCTTTGTCTTC
1 TCTTTCTTT-TCTTC
50961499 TCTTTCTTTTCTTC
1 TCTTTCTTTTCTTC
50961513 T
1 T
50961514 GTTATTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (14 bp):
TCTTTCTTTTCTTC
Found at i:50961513 original size:23 final size:24
Alignment explanation
Indices: 50961482--50961562 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
50961472 TTTCTCCCTA
*
50961482 TTTCTTTCTTTGTCTTCTCTTTCT
1 TTTCTTTCTTTATCTTCTCTTTCT
50961506 TTTC-TTCTGTTAT-TTCTCTTCTCCCT
1 TTTCTTTCT-TTATCTTCTCTT-T--CT
* * *
50961532 ATTTCTTTCTTTCTCTTTTCCTTCT
1 -TTTCTTTCTTTATCTTCTCTTTCT
50961557 TTTCTT
1 TTTCTT
50961563 CTGTTATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
23 11 0.24
24 14 0.30
25 2 0.04
26 2 0.04
27 8 0.17
28 9 0.20
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTCTTTCTTTATCTTCTCTTTCT
Found at i:50961543 original size:51 final size:51
Alignment explanation
Indices: 50961473--50961571 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
50961463 AAACATTTTT
* *
50961473 TTCTCCCTATTTCTTTCTTTGTCTTCTCTTTCTTTTCTTCTGTTATTTCTC
1 TTCTCCCTATTTCTTTCTTTCTCTTCTCCTTCTTTTCTTCTGTTATTTCTC
*
50961524 TTCTCCCTATTTCTTTCTTTCTCTTTTCCTTCTTTTCTTCTGTTATTT
1 TTCTCCCTATTTCTTTCTTTCTCTTCTCCTTCTTTTCTTCTGTTATTT
50961572 TTTTTTCTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.04, C:0.27, G:0.03, T:0.66
Consensus pattern (51 bp):
TTCTCCCTATTTCTTTCTTTCTCTTCTCCTTCTTTTCTTCTGTTATTTCTC
Found at i:50961573 original size:23 final size:23
Alignment explanation
Indices: 50961502--50961573 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 23
50961492 TGTCTTCTCT
*
50961502 TTCTTTTCTTCTGTTATTTCTCTTC
1 TTCTTTTCTTCTGTTATTT-T-TCC
* *
50961527 TCCCTATTTCTTTCT-TTCTCTTTTCC
1 T-TCT-TTTC-TTCTGTTAT-TTTTCC
50961553 TTCTTTTCTTCTGTTATTTTT
1 TTCTTTTCTTCTGTTATTTTT
50961574 TTTTCTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
23 8 0.22
24 7 0.19
25 3 0.08
26 5 0.14
27 8 0.22
28 6 0.16
ACGTcount: A:0.04, C:0.25, G:0.03, T:0.68
Consensus pattern (23 bp):
TTCTTTTCTTCTGTTATTTTTCC
Found at i:50981075 original size:9 final size:9
Alignment explanation
Indices: 50981061--50981104 Score: 88
Period size: 9 Copynumber: 4.9 Consensus size: 9
50981051 AAAAATTGTC
50981061 ATTTTTGAA
1 ATTTTTGAA
50981070 ATTTTTGAA
1 ATTTTTGAA
50981079 ATTTTTGAA
1 ATTTTTGAA
50981088 ATTTTTGAA
1 ATTTTTGAA
50981097 ATTTTTGA
1 ATTTTTGA
50981105 GATATATTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
ATTTTTGAA
Found at i:50981860 original size:22 final size:21
Alignment explanation
Indices: 50981822--50981862 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
50981812 TATATTTTAT
50981822 TTTATATATAATATTTGTTTG
1 TTTATATATAATATTTGTTTG
*
50981843 TTTATATTTATATATTTGTT
1 TTTATATATA-ATATTTGTT
50981863 CACTAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTATATATAATATTTGTTTG
Found at i:50982056 original size:86 final size:86
Alignment explanation
Indices: 50981948--50982500 Score: 768
Period size: 86 Copynumber: 6.4 Consensus size: 86
50981938 GACACCAATG
* ** ** *
50981948 TTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCTTGACGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
* *
50982013 TAACAGATTTTATTCCATTTT
66 CAAAAGATTTTATTCCATTTT
* * * *** **
50982034 TTATTTTGTTTCGAAACAAGTATTAAAATTAAATAAAATTTA-TTTCGGGATTTATTTTTGTTGT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAA-TCAGTTTCGGGATTTATTCCCGCCGT
* * *
50982098 TCAACAGGTTTTATTCTATTTTT
65 TCAAAAGATTTTATTCCA-TTTT
* * * *
50982121 TTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTTGGGATCTATTCTCGCCGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
*
50982186 CAACAGATTTTATTCCATTTT
66 CAAAAGATTTTATTCCATTTT
* * *
50982207 TTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTCAGAATTTATTCCCGCCGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
50982272 CAAAAGATTTTATTCCATTTTTT
66 CAAAAGATTTTATTCCA--TTTT
50982295 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
* *
50982360 CAAAATATTTTATTCTATTTT
66 CAAAAGATTTTATTCCATTTT
50982381 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
* **
50982446 CAAAATATTTTATTCTTTTTT
66 CAAAAGATTTTATTCCATTTT
50982467 TTATTTTATTTCCAAACAAGTATTAAAA-TAAATA
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATA
50982501 TGGTCGTTCA
Statistics
Matches: 428, Mismatches: 34, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
85 6 0.01
86 268 0.63
87 73 0.17
88 81 0.19
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (86 bp):
TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
CAAAAGATTTTATTCCATTTT
Found at i:50982237 original size:173 final size:173
Alignment explanation
Indices: 50981948--50982500 Score: 815
Period size: 174 Copynumber: 3.2 Consensus size: 173
50981938 GACACCAATG
* ** * *
50981948 TTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCTTGACGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCTCGCCGTT
* * * *
50982013 TAACAGATTTTATTCCATTTTTTATTTTGTTTCGAAACAAGTATTAAAATTAAATAAAATTTA-T
66 CAACAGATTTTATTCCATTTTTTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAA-TCAGT
*** ** * *
50982077 TTCGGGATTTATTTTTGTTGTTCAACAGGTTTTATTCTATTTTT
130 TTCGGGATTTATTCCCGCCGTTCAAAAGATTTTATTCTATTTTT
* * *
50982121 TTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTTTTGGGATCTATTCTCGCCGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCTCGCCGTT
*
50982186 CAACAGATTTTATTCCATTTTTTATTTTATTTCCAAACGAGTATTAAAATTAAATAAAATCAGTT
66 CAACAGATTTTATTCCATTTTTTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTT
* * *
50982251 TCAGAATTTATTCCCGCCGTTCAAAAGATTTTATTCCATTTTTT
131 TCGGGATTTATTCCCGCCGTTCAAAAGATTTTATTCTA-TTTTT
*
50982295 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCCCGCCGTT
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCTCGCCGTT
* * *
50982360 CAAAATATTTTATTCTATTTTTTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTT
66 CAACAGATTTTATTCCATTTTTTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTT
*
50982425 TCGGGATTTATTCCCGCCGTTCAAAATATTTTATTCT-TTTTT
131 TCGGGATTTATTCCCGCCGTTCAAAAGATTTTATTCTATTTTT
50982467 TTATTTTATTTCCAAACAAGTATTAAAA-TAAATA
1 TTATTTTATTTCCAAACAAGTATTAAAATTAAATA
50982501 TGGTCGTTCA
Statistics
Matches: 345, Mismatches: 33, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
171 6 0.02
172 35 0.10
173 144 0.42
174 160 0.46
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (173 bp):
TTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTTTCGGGATTTATTCTCGCCGTT
CAACAGATTTTATTCCATTTTTTATTTTATTTCCAAACAAGTATTAAAATTAAATAAAATCAGTT
TCGGGATTTATTCCCGCCGTTCAAAAGATTTTATTCTATTTTT
Found at i:50982634 original size:22 final size:23
Alignment explanation
Indices: 50982608--50982652 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
50982598 CGTTAACGAG
50982608 CAAATATATAAATAT-AAATAAA
1 CAAATATATAAATATAAAATAAA
* *
50982630 CAAATATTTATATATAAAATAAA
1 CAAATATATAAATATAAAATAAA
50982653 ATATAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
CAAATATATAAATATAAAATAAA
Found at i:50984322 original size:11 final size:10
Alignment explanation
Indices: 50984261--50984347 Score: 111
Period size: 11 Copynumber: 8.2 Consensus size: 10
50984251 ACTTAATCAT
*
50984261 TTCTTTCAAA
1 TTCTCTCAAA
*
50984271 TTTTCTCAAA
1 TTCTCTCAAA
50984281 TTCTCTCAAA
1 TTCTCTCAAA
50984291 TTCTCTCTAATA
1 TTCTCTC-AA-A
50984303 TTCTCTCAAA
1 TTCTCTCAAA
50984313 TTCTTCTCAAA
1 TTC-TCTCAAA
50984324 TTCCTCTCAAA
1 TT-CTCTCAAA
50984335 TTCCTCTCAAA
1 TT-CTCTCAAA
50984346 TT
1 TT
50984348 ATTTTTAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
10 28 0.40
11 33 0.47
12 9 0.13
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:50984399 original size:30 final size:29
Alignment explanation
Indices: 50984344--50984400 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
50984334 ATTCCTCTCA
**
50984344 AATTATTTTTAAAAAAGCTTTAATTTTTT
1 AATTATTTTTAAAAAAAATTTAATTTTTT
*
50984373 AATTATTTTTAAAAAAAATTTAAATTTT
1 AATTATTTTTAAAAAAAATTTAATTTTT
50984401 ATTTTTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
AATTATTTTTAAAAAAAATTTAATTTTTT
Found at i:50986208 original size:18 final size:18
Alignment explanation
Indices: 50986185--50986227 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
50986175 TGCCAGGTGC
*
50986185 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
50986203 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
50986221 GTTTCCT
1 GTATCCT
50986228 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:50986514 original size:21 final size:22
Alignment explanation
Indices: 50986468--50986532 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
50986458 CCAACACCGA
* *
50986468 CAACCAGATTCCCTACCGGAAG
1 CAACCAGAATCCCCACCGGAAG
50986490 -AACCAGAATCCCCACCGG-AG
1 CAACCAGAATCCCCACCGGAAG
* *
50986510 CAACCACAA-CCCTCACCGAAAG
1 CAACCAGAATCCC-CACCGGAAG
50986532 C
1 C
50986533 TAGACAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 5 0.14
21 28 0.78
22 3 0.08
ACGTcount: A:0.35, C:0.42, G:0.15, T:0.08
Consensus pattern (22 bp):
CAACCAGAATCCCCACCGGAAG
Found at i:50986895 original size:61 final size:61
Alignment explanation
Indices: 50986778--50986898 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
50986768 AATAGATTAG
* * *
50986778 ATTTTCTATGTAGCAATTGTAATTTACTTTTACATTTTTAATATAATAGAAATTCTTTTAC
1 ATTTTCTATGTACCAATTGTAATTTACTTTAACATTTTTAATAGAATAGAAATTCTTTTAC
* * **
50986839 ATTTTCTATGTACCAATTGTAATTTACTTTAATATTTTTAATAGATTAGATTTTCTTTTA
1 ATTTTCTATGTACCAATTGTAATTTACTTTAACATTTTTAATAGAATAGAAATTCTTTTA
50986899 AATAAGTCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (61 bp):
ATTTTCTATGTACCAATTGTAATTTACTTTAACATTTTTAATAGAATAGAAATTCTTTTAC
Found at i:50987550 original size:7 final size:7
Alignment explanation
Indices: 50987538--50987588 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
50987528 TGGCCTGTAT
50987538 AACCCTA
1 AACCCTA
50987545 AACCCTA
1 AACCCTA
*
50987552 AACCTTA
1 AACCCTA
50987559 AACCCTA
1 AACCCTA
**
50987566 AACTATA
1 AACCCTA
*
50987573 AATCCTA
1 AACCCTA
50987580 AACCCTA
1 AACCCTA
50987587 AA
1 AA
50987589 TACCCATGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:50989853 original size:125 final size:126
Alignment explanation
Indices: 50989604--50989897 Score: 448
Period size: 125 Copynumber: 2.3 Consensus size: 126
50989594 CCAGGCCTAA
* * *
50989604 CAGGAGCTACTGTAGCAAAAATGCGTCCACGTGGGAGCTTCTTTTAGTAATTCTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATAATTCTGCTGACAAAGC
* *
50989669 ATCTTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAAGGTCAGCTCGAAATTATTTTTT
66 ATCTTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTT
* *
50989730 CAGGAGCTA-TGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATAATTCTGCTGACAAAGC
50989794 ATCTTGCTTAAAGCG-TTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTT
66 ATCTTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTT
* * * * ** *
50989854 CAAGAGCTACTGTGGAAAAAACACGTCCATATGAGAGCTTCTTT
1 CAGGAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTT
50989898 AAATTAACAA
Statistics
Matches: 153, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
124 51 0.33
125 93 0.61
126 9 0.06
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (126 bp):
CAGGAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATAATTCTGCTGACAAAGC
ATCTTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTT
Found at i:50989935 original size:7 final size:7
Alignment explanation
Indices: 50989923--50989958 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
50989913 TTAATTAAGT
50989923 AACCCTA
1 AACCCTA
50989930 AACCCTA
1 AACCCTA
50989937 AACCCTA
1 AACCCTA
*
50989944 AACCCCA
1 AACCCTA
50989951 AACCCTA
1 AACCCTA
50989958 A
1 A
50989959 TTTAATTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (7 bp):
AACCCTA
Found at i:50990078 original size:96 final size:95
Alignment explanation
Indices: 50989950--50990127 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 95
50989940 CCTAAACCCC
* * * *
50989950 AAACCCTAATTTAATTAAGTTTTTACATAAAACCCTAAACACTAAACCTTAATCCAATTTTTTAA
1 AAACCCTAATTTAATTAAGTTTTTACATAAAACCATAAACACGAAACC-TAATACAA-TTTTGAA
50990015 AAAAATT-TAATTAATTTACTCAAGAAACCGT
64 AAAAATTATAATTAATTTACTCAAGAAACCGT
* *
50990046 AAACCCTAATTTAATTTA-TTTTT-CTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAA
1 AAACCCTAATTTAATTAAGTTTTTAC-AT-AAAACCATAAACACGAAACCTAATACAATTTTGAA
50990109 AAAAATTATAATTAATTTA
64 AAAAATTATAATTAATTTA
50990128 ATTGACAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
94 14 0.19
95 24 0.33
96 35 0.48
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (95 bp):
AAACCCTAATTTAATTAAGTTTTTACATAAAACCATAAACACGAAACCTAATACAATTTTGAAAA
AAATTATAATTAATTTACTCAAGAAACCGT
Found at i:50990150 original size:95 final size:96
Alignment explanation
Indices: 50989978--50990150 Score: 226
Period size: 95 Copynumber: 1.8 Consensus size: 96
50989968 GTTTTTACAT
* * * * * *
50989978 AAAACCCTAAACACTAAACCTTAATCCAATTTTTTAAAAAAATTTAATTAATTTACTCAAGAAAC
1 AAAACCATAAACACGAAACCTTAATACAATTTTTGAAAAAAATTTAATTAATTTAATCAACAAAC
*
50990043 CGTAAACCCTAATTTAATTTATTTTTCTTTA
66 CGTAAACACTAATTTAATTTATTTTTCTTTA
**
50990074 AAAACCATAAACACGAAACC-TAATACAA-TTTTGAAAAAAATTATAATTAATTTAATTGACAAA
1 AAAACCATAAACACGAAACCTTAATACAATTTTTGAAAAAAATT-TAATTAATTTAATCAACAAA
50990137 TCC-TAAACACTAAT
65 -CCGTAAACACTAAT
50990151 CCATTAATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
94 13 0.20
95 33 0.50
96 20 0.30
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (96 bp):
AAAACCATAAACACGAAACCTTAATACAATTTTTGAAAAAAATTTAATTAATTTAATCAACAAAC
CGTAAACACTAATTTAATTTATTTTTCTTTA
Found at i:50990193 original size:7 final size:7
Alignment explanation
Indices: 50990181--50990231 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
50990171 TCTTTAAAAT
50990181 CCTAAAC
1 CCTAAAC
*
50990188 CCTAAAAA
1 CCT-AAAC
50990196 CCTAAAAAC
1 CCT--AAAC
50990205 CCT-AAC
1 CCTAAAC
*
50990211 CATAAAC
1 CCTAAAC
50990218 CCTAAAC
1 CCTAAAC
50990225 CCTAAAC
1 CCTAAAC
50990232 TATTCACCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 5 0.14
7 19 0.51
8 6 0.16
9 7 0.19
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:50991628 original size:28 final size:29
Alignment explanation
Indices: 50991587--50991693 Score: 112
Period size: 29 Copynumber: 3.6 Consensus size: 29
50991577 ATTTTAAAAT
*
50991587 ATTTTGAAAATACTTTTTTA-TTATTTTTA
1 ATTTT-AAAATACTTTTTAATTTATTTTTA
*
50991616 ATTTTAAAATACTTTTTAATTTTTTTTTA
1 ATTTTAAAATACTTTTTAATTTATTTTTA
50991645 ATTTTAAAATA-TTTTTAAAATACTT-TTTTTA
1 ATTTTAAAATACTTTTT--AAT--TTATTTTTA
*
50991676 ATTTTTAAAATAATTTTT
1 A-TTTTAAAATACTTTTT
50991694 TGGTATTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
28 18 0.26
29 24 0.35
30 3 0.04
31 7 0.10
32 12 0.17
33 5 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTTTAAAATACTTTTTAATTTATTTTTA
Found at i:50991679 original size:21 final size:21
Alignment explanation
Indices: 50991655--50991694 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50991645 ATTTTAAAAT
*
50991655 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAATTTTTTTA
50991676 ATTTTTAAAATAATTTTTT
1 ATTTTTAAAATAATTTTTT
50991695 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAAAATAATTTTTTTA
Found at i:50991689 original size:12 final size:12
Alignment explanation
Indices: 50991646--50991693 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
50991636 TTTTTTTTAA
50991646 TTTTAAAAT-AT
1 TTTTAAAATAAT
*
50991657 TTTTAAAATACT
1 TTTTAAAATAAT
*
50991669 TTTT---TTAAT
1 TTTTAAAATAAT
50991678 TTTTAAAATAAT
1 TTTTAAAATAAT
50991690 TTTT
1 TTTT
50991694 TGGTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
9 7 0.24
11 9 0.31
12 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:50998427 original size:21 final size:21
Alignment explanation
Indices: 50998380--50998421 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
50998370 GCCCTTATAG
50998380 AATACTAGTCAACCCCCTAAC
1 AATACTAGTCAACCCCCTAAC
50998401 AATACTAGTCAACCCCCTAAC
1 AATACTAGTCAACCCCCTAAC
50998422 TTTACTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.05, T:0.19
Consensus pattern (21 bp):
AATACTAGTCAACCCCCTAAC
Found at i:50998549 original size:23 final size:22
Alignment explanation
Indices: 50998499--50998549 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
50998489 TACATTTGTG
50998499 TATTTAAATTAATTTTTACAAA
1 TATTTAAATTAATTTTTACAAA
*
50998521 TAATTTATATTAATTGTCTTA-AAA
1 T-ATTTAAATTAATT-T-TTACAAA
50998545 TATTT
1 TATTT
50998550 TTAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 16 0.64
24 5 0.20
25 3 0.12
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTTAAATTAATTTTTACAAA
Found at i:50998781 original size:18 final size:17
Alignment explanation
Indices: 50998749--50998801 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
50998739 TGAGGCATTG
50998749 AAATT-AAAAAT-ATAT
1 AAATTCAAAAATAATAT
50998764 AAATTCAAAAAATAATAT
1 AAATTC-AAAAATAATAT
* *
50998782 ATATTCAAAAATAATTT
1 AAATTCAAAAATAATAT
50998799 AAA
1 AAA
50998802 AAAATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 5 0.16
17 18 0.56
18 9 0.28
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTCAAAAATAATAT
Found at i:51002286 original size:50 final size:50
Alignment explanation
Indices: 51002200--51002296 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
51002190 TGCCTGTCGA
* *
51002200 ATCATGGCTAATTGTGTTAATAATTATGGATCATTTTAGTAAGAGATTCG
1 ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAGATTCG
* * * *
51002250 ATCATAGCTTATTGTGTTAATAATTCTTGATTATTTTAGAAAGAGAT
1 ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAGAT
51002297 GTTTCTTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (50 bp):
ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAGATTCG
Found at i:51005922 original size:26 final size:26
Alignment explanation
Indices: 51005860--51005911 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
51005850 GTATGCTCAT
51005860 ACGAGCTATAAACGGTAAGCTCTTCC
1 ACGAGCTATAAACGGTAAGCTCTTCC
*
51005886 ACGAGCTATAAACGGTAATCTCTTCC
1 ACGAGCTATAAACGGTAAGCTCTTCC
51005912 GAGTTGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (26 bp):
ACGAGCTATAAACGGTAAGCTCTTCC
Found at i:51005964 original size:25 final size:25
Alignment explanation
Indices: 51005917--51005990 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
51005907 CTTCCGAGTT
* * *
51005917 GAATAACGGTAAGTTCCTTCGAGCC
1 GAATAACGGTAAGCTCATACGAGCC
*
51005942 GAATAACGGTAAGCTCATACGAGCT
1 GAATAACGGTAAGCTCATACGAGCC
* * *
51005967 GAGTATCGGTAAGCTCATAAGAGC
1 GAATAACGGTAAGCTCATACGAGC
51005991 TGAAATCGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (25 bp):
GAATAACGGTAAGCTCATACGAGCC
Found at i:51005991 original size:25 final size:24
Alignment explanation
Indices: 51005948--51006002 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
51005938 AGCCGAATAA
* *
51005948 CGGTAAGCTCATACGAGCTGAGTAT
1 CGGTAAGCTCATAAGAGCTGA-AAT
51005973 CGGTAAGCTCATAAGAGCTGAAAT
1 CGGTAAGCTCATAAGAGCTGAAAT
51005997 CGGTAA
1 CGGTAA
51006003 CCCTAATGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (24 bp):
CGGTAAGCTCATAAGAGCTGAAAT
Found at i:51009765 original size:17 final size:16
Alignment explanation
Indices: 51009731--51009761 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51009721 TTAATTAATT
*
51009731 TTTTTTCAAATATTTA
1 TTTTTTAAAATATTTA
51009747 TTTTTTAAAATATTT
1 TTTTTTAAAATATTT
51009762 TATTATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:51015416 original size:24 final size:24
Alignment explanation
Indices: 51015347--51015429 Score: 125
Period size: 23 Copynumber: 3.5 Consensus size: 24
51015337 CTACCCTGTT
51015347 TTGGACAGC-TTTTATACATCAAA
1 TTGGACAGCATTTTATACATCAAA
*
51015370 TTGGACAGCA-TTTATACACCAAA
1 TTGGACAGCATTTTATACATCAAA
* *
51015393 CTGGACAGCATTTTATGCATCAAA
1 TTGGACAGCATTTTATACATCAAA
51015417 TTGGACAGCATTT
1 TTGGACAGCATTT
51015430 ATCATGTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 30 0.57
24 23 0.43
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (24 bp):
TTGGACAGCATTTTATACATCAAA
Found at i:51016305 original size:40 final size:40
Alignment explanation
Indices: 51016177--51016309 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
51016167 TATAATCTCG
* * **
51016177 CACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTTTCA
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTC-GAATCA
* * * *
51016218 CACACTAAGTGTCATATATAGCCGAAGCTAT-TCCCAATCG
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCT-CGAATCA
*
51016258 CACACTAAGTGCCATAAATAGCTGAAGCTATCTCGAATCA
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAATCA
*
51016298 CATACTAAGTGC
1 CACACTAAGTGC
51016310 TAAACATAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
40 47 0.61
41 30 0.39
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAATCA
Found at i:51042725 original size:2 final size:2
Alignment explanation
Indices: 51042718--51042743 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51042708 ACTTCCTTTT
51042718 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
51042744 CGCGCGCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:51055223 original size:34 final size:34
Alignment explanation
Indices: 51055180--51055248 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
51055170 TGCCCTTACG
*
51055180 TCCAAACCTCAGCATTTTCTTCCAATGAGACACC
1 TCCAAACCTCAGAATTTTCTTCCAATGAGACACC
51055214 TCCAAACCTCAGAATTTTCTTCCAATGAGACACC
1 TCCAAACCTCAGAATTTTCTTCCAATGAGACACC
51055248 T
1 T
51055249 TTAGAAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (34 bp):
TCCAAACCTCAGAATTTTCTTCCAATGAGACACC
Found at i:51058694 original size:39 final size:39
Alignment explanation
Indices: 51058651--51058725 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
51058641 TATTTTAGTT
*
51058651 TTTAGTTAAAGTAGCGTATTCTTAATTCTACAGTTTCAG
1 TTTAGTTAAAGTAGAGTATTCTTAATTCTACAGTTTCAG
51058690 TTTAGTTAAAGTAGAGTATTCTTAATTCTACAGTTT
1 TTTAGTTAAAGTAGAGTATTCTTAATTCTACAGTTT
51058726 TAGTAGTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (39 bp):
TTTAGTTAAAGTAGAGTATTCTTAATTCTACAGTTTCAG
Found at i:51067280 original size:4 final size:4
Alignment explanation
Indices: 51067271--51067295 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
51067261 GTTTTATATC
51067271 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
51067296 TACTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:51075009 original size:14 final size:15
Alignment explanation
Indices: 51074992--51075027 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
51074982 AAATAACAGA
51074992 AAAGAAAGAGA-AAG
1 AAAGAAAGAGATAAG
51075006 AAAGAAAG-GATAAG
1 AAAGAAAGAGATAAG
51075020 AAA-AAAGA
1 AAAGAAAGA
51075028 AGTATAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAGATAAG
Found at i:51075246 original size:106 final size:103
Alignment explanation
Indices: 51075128--51075390 Score: 348
Period size: 106 Copynumber: 2.5 Consensus size: 103
51075118 TTATGTTGTT
* * *
51075128 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTAATTTTTTAGTTTA-ATGT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATTGTTT-GTTTAGGT-T
* *
51075192 TTATTGTGATTTTGTTAGGTTATGAATGTAATTTTTTATTAA
64 TTATTGTGA-TTTGTTAGGTTATGAATGTAATCTTTTAAT-A
* * **
51075234 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAATTTTGCAATTAGGTTAATTGTTTGTTTAGG
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATT---A-TAAATTAATTGTTTGTTTAGG
51075299 TTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTAATA
62 TTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTAATA
* *
51075341 TTTTTAATTTATTTGAAAGTTATTTTTTTAGTAACTATTATAAATTAATT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATT
51075391 ATTAGTTAGT
Statistics
Matches: 137, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
103 8 0.06
104 1 0.01
106 36 0.26
107 36 0.26
108 28 0.20
109 16 0.12
110 12 0.09
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.58
Consensus pattern (103 bp):
TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATTGTTTGTTTAGGTTTT
ATTGTGATTTGTTAGGTTATGAATGTAATCTTTTAATA
Found at i:51079193 original size:21 final size:22
Alignment explanation
Indices: 51079168--51079226 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
51079158 CAAAACACAT
* *
51079168 TAATATTATACATACAGTA-AA
1 TAATAATATAAATACAGTACAA
** *
51079189 TAATACGATAAATATAGTACAA
1 TAATAATATAAATACAGTACAA
*
51079211 TAATAATATAATTACA
1 TAATAATATAAATACA
51079227 AAAAAATATC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (22 bp):
TAATAATATAAATACAGTACAA
Found at i:51079875 original size:321 final size:316
Alignment explanation
Indices: 51079459--51080081 Score: 1149
Period size: 321 Copynumber: 2.0 Consensus size: 316
51079449 CAAATAAATC
* * *
51079459 AAAAACAAATAAAATTACATTATAACAAATCACAATACACATTAAACTAAACAAATAATTTATAA
1 AAAAACAAATAAAATTACATTATAACAAATCACAATAAACACTAAACTAAACAAACAATTTATAA
51079524 CCTAATCATAAATTACTAACAAAATAACTTTAAATTAATTAAAAAAACAAAAGAAAATTTACATT
66 CCTAATCATAAATTACTAACAAAATAACTTTAAATTAATTAAAAAAACAAAAGAAAATTTACATT
51079589 CATAAAAAATCACAATAAACACAAACAATTTATAATCTAATCATAAATTACTAACAAAATAACTT
131 CATAAAAAATCACAATAAACACAAACAATTTATAATCTAATCATAAATTACTAACAAAATAACTT
51079654 CAAATAATTAAAAAAGGGTAAACTATCAAAATAGTCATTTTTGTTTGACTCAGATTACATTTTAG
196 CAAATAATTAAAAAAGGGTAAACTATCAAAATAGTCATTTTTGTTTGACTCAGATTACATTTTAG
51079719 TCACTTATGTTTGAAATGTTACGTTTTAGTCACTTACGTTATTTTAAAATAATTTA
261 TCACTTATGTTTGAAATGTTACGTTTTAGTCACTTACGTTATTTTAAAATAATTTA
*
51079775 AAAAACACAA-AAATATATACATTTATAACAAGTCACAATAAACACTAAACTAAACACAAACAAT
1 AAAAACA-AATAAA-AT-TACA-TTATAACAAATCACAATAAACACTAAACT-AA-ACAAACAAT
51079839 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAATTAATTAAAAAAACAAAAGAAAATT
60 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAATTAATTAAAAAAACAAAAGAAAATT
51079904 TACATTCATAAAAAATCACAATAAACACAAACAATTTATAATCTAATCATAAATTACTAACAAAA
125 TACATTCATAAAAAATCACAATAAACACAAACAATTTATAATCTAATCATAAATTACTAACAAAA
51079969 TAACTTCAAATAATTAAAAAAGGGTAAACTATCAAAATAGTCATTTTTGTTTGACTCAGATTACA
190 TAACTTCAAATAATTAAAAAAGGGTAAACTATCAAAATAGTCATTTTTGTTTGACTCAGATTACA
51080034 TTTTAGTCACTTATGTTTGAAATGTTACGTTTTAGTCACTTACGTTAT
255 TTTTAGTCACTTATGTTTGAAATGTTACGTTTTAGTCACTTACGTTAT
51080082 CGTGTTGTAA
Statistics
Matches: 297, Mismatches: 4, Indels: 7
0.96 0.01 0.02
Matches are distributed among these distances:
316 10 0.03
317 4 0.01
318 4 0.01
319 26 0.09
320 2 0.01
321 251 0.85
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (316 bp):
AAAAACAAATAAAATTACATTATAACAAATCACAATAAACACTAAACTAAACAAACAATTTATAA
CCTAATCATAAATTACTAACAAAATAACTTTAAATTAATTAAAAAAACAAAAGAAAATTTACATT
CATAAAAAATCACAATAAACACAAACAATTTATAATCTAATCATAAATTACTAACAAAATAACTT
CAAATAATTAAAAAAGGGTAAACTATCAAAATAGTCATTTTTGTTTGACTCAGATTACATTTTAG
TCACTTATGTTTGAAATGTTACGTTTTAGTCACTTACGTTATTTTAAAATAATTTA
Found at i:51080669 original size:31 final size:29
Alignment explanation
Indices: 51080631--51080729 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 29
51080621 CTAACGGCTT
* *
51080631 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
51080662 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
*
51080691 AGTGACTAAAATGTAAC-CTGAGTCAAACAAA
1 AGTGACTAAAATGTAACAC--A-TCAAACATA
51080722 AGTGACTA
1 AGTGACTA
51080730 TTTTGGTAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 22 0.39
30 3 0.05
31 31 0.55
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:51081033 original size:113 final size:111
Alignment explanation
Indices: 51080750--51081045 Score: 407
Period size: 112 Copynumber: 2.6 Consensus size: 111
51080740 TTACCCTTAG
*
51080750 AAAAAACAAAA-AAAAAA-TTACATTCATAAAAAATCACAATAAACACTAAACTAAACATAAACA
1 AAAAAA-AAAACAAAAAATTTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACA
* * * *
51080813 ATTTATAACCTAACCATAAATTACTGACAAAATGACTTTAAAATAATTT
63 ATTTATAACCTAACAATAAATTACTAACAAAATAACTATAAAATAATTT
** * * *
51080862 TTAAAAAAAACAAAAAAATTTACATTCACAAAAACTCACAAAACACTAAACTAAACACAAATAAT
1 AAAAAAAAAAC-AAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAAT
*
51080927 TTATAACCTAATAATAAATTACTAACAAAATAACTATAAAATAATTT
65 TTATAACCTAACAATAAATTACTAACAAAATAACTATAAAATAATTT
* *
51080974 AAAAACAAAAAACAAAAAATTTACATTCATAAAAAATTACAAAATACTAAACTAAACACAAACAA
1 -AAAA-AAAAAACAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAA
51081039 TTTATAA
64 TTTATAA
51081046 TAATTAATAA
Statistics
Matches: 161, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
111 4 0.02
112 69 0.43
113 63 0.39
114 25 0.16
ACGTcount: A:0.61, C:0.15, G:0.01, T:0.24
Consensus pattern (111 bp):
AAAAAAAAAACAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATT
TATAACCTAACAATAAATTACTAACAAAATAACTATAAAATAATTT
Found at i:51111840 original size:152 final size:146
Alignment explanation
Indices: 51111669--51111986 Score: 368
Period size: 146 Copynumber: 2.1 Consensus size: 146
51111659 TTTGGGAGGA
* * * *
51111669 AAAAAATTTGTTTGTGTTGGAATTTTAGGGAGAAATTGTGA-AATTTTAATGTGTGTTTTTATTG
1 AAAAAATTTGTTTGTGTTGGAATTTTAGAGAGAAATTATGATAATTTTAAGGT-TGTTTTTAGT-
** *
51111733 TTGTAATAATAATTTGTATATTATATGTTTATATTTTAATTTATTGTTAATCTTTAGATTAAATA
64 TTGTAATAATAATTTGTATATTATATG--TATA-TTT--TTTATTGTTAAAATTTAAATTAAATA
*
51111798 TTTAATATTATATTTTTGTTTAT
124 TTTAAGATTATATTTTTGTTTAT
* * * ** * *
51111821 AAAAAATCTGTTTGTGTTGGAGTTTTAGAGATAGTTTATGATAGTTTTAAGGTTTTTTTTAGTTT
1 AAAAAATTTGTTTGTGTTGGAATTTTAGAGAGAAATTATGATAATTTTAAGGTTGTTTTTAGTTT
* * * * *
51111886 GTAATAATAATTTTTATATTATATGTCTATTTTTTATTTTTAAAATTTAAATTTAATGTTTAAGA
66 GTAATAATAATTTGTATATTATATGTATATTTTTTATTGTTAAAATTTAAATTAAATATTTAAGA
*
51111951 TTATATTTTTGTTTGT
131 TTATATTTTTGTTTAT
51111967 AAAAAATTTTGTTTGTGTTG
1 AAAAAA-TTTGTTTGTGTTG
51111987 AGGTCTTAGG
Statistics
Matches: 142, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
146 47 0.33
147 12 0.08
148 3 0.02
149 3 0.02
151 26 0.18
152 42 0.30
153 9 0.06
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (146 bp):
AAAAAATTTGTTTGTGTTGGAATTTTAGAGAGAAATTATGATAATTTTAAGGTTGTTTTTAGTTT
GTAATAATAATTTGTATATTATATGTATATTTTTTATTGTTAAAATTTAAATTAAATATTTAAGA
TTATATTTTTGTTTAT
Found at i:51112524 original size:22 final size:23
Alignment explanation
Indices: 51112471--51112526 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
51112461 CCCGTTTTTA
* * *
51112471 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
51112494 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
51112516 ATTAAAATTAA
1 ATTAAAATTAA
51112527 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:51112539 original size:16 final size:16
Alignment explanation
Indices: 51112502--51112541 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
51112492 TTAATAAAAT
* *
51112502 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
51112518 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
51112534 TAAAATTA
1 TAAAATTA
51112542 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:51112611 original size:66 final size:59
Alignment explanation
Indices: 51112544--51112663 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
51112534 TAAAATTATC
* * *
51112544 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
51112602 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
51112661 AAA
1 AAA
51112664 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:51115407 original size:42 final size:43
Alignment explanation
Indices: 51115348--51115453 Score: 155
Period size: 42 Copynumber: 2.5 Consensus size: 43
51115338 GAGACGTTTA
* *
51115348 ATTGGTA-AATGGTGTTGTGGTGGGATCCATAGGAGTGGGAAG
1 ATTGGTAGGATGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
* *
51115390 ATTGGT-GGATGGTGTTGTGATGGGGTCCATAGGAGTAGGAAG
1 ATTGGTAGGATGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
51115432 ATTGGTAGG-TGGTGTTGTGGTG
1 ATTGGTAGGATGGTGTTGTGGTG
51115454 TGACCCGTAG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.20, C:0.04, G:0.45, T:0.31
Consensus pattern (43 bp):
ATTGGTAGGATGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
Found at i:51127807 original size:14 final size:14
Alignment explanation
Indices: 51127788--51127815 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51127778 ACGCCAAAGT
51127788 ATGTTTTCAAGAAG
1 ATGTTTTCAAGAAG
51127802 ATGTTTTCAAGAAG
1 ATGTTTTCAAGAAG
51127816 CCAGAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
ATGTTTTCAAGAAG
Found at i:51142903 original size:7 final size:8
Alignment explanation
Indices: 51142891--51142932 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
51142881 TATTATTATT
51142891 AATTT-AA
1 AATTTAAA
51142898 AATTTAAAA
1 AATTT-AAA
51142907 AATTTAAA
1 AATTTAAA
51142915 AATTATAAA
1 AATT-TAAA
51142924 AGATTTAAA
1 A-ATTTAAA
51142933 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 5 0.16
8 7 0.23
9 16 0.52
10 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (8 bp):
AATTTAAA
Found at i:51142935 original size:16 final size:17
Alignment explanation
Indices: 51142891--51142932 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
51142881 TATTATTATT
51142891 AATTTAAAATT-TAAAA
1 AATTTAAAATTATAAAA
51142907 AATTTAAAAATTATAAAA
1 AATTT-AAAATTATAAAA
*
51142925 GATTTAAA
1 AATTTAAA
51142933 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AATTTAAAATTATAAAA
Found at i:51143489 original size:22 final size:21
Alignment explanation
Indices: 51143449--51143491 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51143439 ATTTTTGGGG
*
51143449 AAAAGATTAAATTATATTTTT
1 AAAAGATTAAAATATATTTTT
* *
51143470 AAAAGGTTAAAATATAATTTT
1 AAAAGATTAAAATATATTTTT
51143491 A
1 A
51143492 TTATTACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
AAAAGATTAAAATATATTTTT
Found at i:51150786 original size:6 final size:6
Alignment explanation
Indices: 51150775--51150805 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
51150765 ATTGGATGGT
51150775 CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA C
1 CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA C
51150806 ATGCGTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCAAA
Found at i:51153959 original size:15 final size:15
Alignment explanation
Indices: 51153941--51153969 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51153931 TTCCCCCTCG
51153941 TCATCTTCATCATCT
1 TCATCTTCATCATCT
51153956 TCATCTTCATCATC
1 TCATCTTCATCATC
51153970 ATTTTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (15 bp):
TCATCTTCATCATCT
Found at i:51156080 original size:31 final size:31
Alignment explanation
Indices: 51156017--51156110 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
51156007 CTTACATGAA
* * *
51156017 AGCCAAAAC--TTTCAAAGTGCTCAAATACG
1 AGCCAAAACTTTTTAAAAGTGTTCAAATAAG
* * * *
51156046 AGCCAAAAGTTTTTGAAAGTGTTCTAGTAAG
1 AGCCAAAACTTTTTAAAAGTGTTCAAATAAG
*
51156077 AGCCAAACCTTTTTAAAAGTGTTCAAATAAG
1 AGCCAAAACTTTTTAAAAGTGTTCAAATAAG
51156108 AGC
1 AGC
51156111 TTCTCAAATA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 8 0.15
31 44 0.85
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (31 bp):
AGCCAAAACTTTTTAAAAGTGTTCAAATAAG
Found at i:51156479 original size:44 final size:44
Alignment explanation
Indices: 51156431--51156518 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
51156421 ATGAATATGC
*
51156431 CTAATAAGCAATAATGATATAAAATAGCTTACATGATAACTTTT
1 CTAATAAGCAATAATGATATAAAATAGCTTACATGATAAATTTT
* *
51156475 CTAATAAGTAATAATGATATAAAATAGCTTATATGATAAATTTT
1 CTAATAAGCAATAATGATATAAAATAGCTTACATGATAAATTTT
51156519 AGAAGGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (44 bp):
CTAATAAGCAATAATGATATAAAATAGCTTACATGATAAATTTT
Found at i:51156782 original size:9 final size:9
Alignment explanation
Indices: 51156759--51156821 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
51156749 TACTTTTTTG
*
51156759 AATTCTTAT
1 AATTTTTAT
*
51156768 ACTTTTTAT
1 AATTTTTAT
51156777 AATTTTTTTAT
1 AA--TTTTTAT
51156788 AATTTTTAT
1 AATTTTTAT
* *
51156797 ATTATTTTCT
1 AAT-TTTTAT
51156807 -ATTTTTAT
1 AATTTTTAT
51156815 AATTTTT
1 AATTTTT
51156822 TAAATTATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 5 0.12
9 24 0.56
10 5 0.12
11 9 0.21
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (9 bp):
AATTTTTAT
Found at i:51156812 original size:18 final size:19
Alignment explanation
Indices: 51156764--51156827 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 19
51156754 TTTTGAATTC
* *
51156764 TTATACTTTTTATAATTTTT
1 TTATAATTTTTAT-ATTATT
51156784 TTATAATTTTTATATTATT
1 TTATAATTTTTATATTATT
*
51156803 TTCT-ATTTTTATAATT-TT
1 TTATAATTTTTAT-ATTATT
51156821 TTA-AATT
1 TTATAATT
51156828 ATTTGTTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 15 0.39
19 11 0.29
20 12 0.32
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATAATTTTTATATTATT
Found at i:51156822 original size:11 final size:11
Alignment explanation
Indices: 51156770--51156804 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
51156760 ATTCTTATAC
51156770 TTTTTATAATT
1 TTTTTATAATT
51156781 TTTTTATAATT
1 TTTTTATAATT
* *
51156792 TTTATATTATT
1 TTTTTATAATT
51156803 TT
1 TT
51156805 CTATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:51156827 original size:9 final size:10
Alignment explanation
Indices: 51156770--51156827 Score: 54
Period size: 9 Copynumber: 6.1 Consensus size: 10
51156760 ATTCTTATAC
51156770 TTTTTATAATT
1 TTTTTATAA-T
51156781 TTTTTATAA-
1 TTTTTATAAT
51156790 TTTTTAT-AT
1 TTTTTATAAT
*
51156799 TATTTTCT-A-
1 T-TTTTATAAT
51156808 TTTTTATAAT
1 TTTTTATAAT
51156818 TTTTTA-AAT
1 TTTTTATAAT
51156827 T
1 T
51156828 ATTTGTTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 6 0.15
9 14 0.34
10 12 0.29
11 9 0.22
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:51159779 original size:16 final size:17
Alignment explanation
Indices: 51159758--51159798 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
51159748 AAGTTCTTTT
51159758 ATTAAAAAAAT-TAAAA
1 ATTAAAAAAATATAAAA
*
51159774 ATTAAAAAAATGATTAAA
1 ATTAAAAAAAT-ATAAAA
51159792 ATTAAAA
1 ATTAAAA
51159799 TTTGCTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
18 11 0.50
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
ATTAAAAAAATATAAAA
Found at i:51163586 original size:51 final size:51
Alignment explanation
Indices: 51163470--51163798 Score: 502
Period size: 51 Copynumber: 6.5 Consensus size: 51
51163460 CTTACGTATG
* * *
51163470 ATCACTTATCACTTGTCCCAGATCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
51163520 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCT-ACAACTACCGCTT
1 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGA-AGCTACCACTT
** *
51163571 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
51163622 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
51163673 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
51163724 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * *
51163774 ATCACTTATCACTTATCACTAATCA
1 ATCACTTACCACTTGTCACTGATCA
51163799 AAAGTACTCA
Statistics
Matches: 259, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
50 68 0.26
51 190 0.73
52 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
ATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
Found at i:51163781 original size:7 final size:7
Alignment explanation
Indices: 51163769--51163798 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
51163759 GCTAAGCTAC
51163769 CACTTAT
1 CACTTAT
51163776 CACTTAT
1 CACTTAT
51163783 CACTTAT
1 CACTTAT
*
51163790 CACTAAT
1 CACTTAT
51163797 CA
1 CA
51163799 AAAGTACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (7 bp):
CACTTAT
Found at i:51165228 original size:73 final size:73
Alignment explanation
Indices: 51165110--51165268 Score: 221
Period size: 73 Copynumber: 2.2 Consensus size: 73
51165100 GGCGTTTTCC
* * *
51165110 AGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCATTCTGGGCTTTAGAGG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGAGG
*
51165174 CGATTTTG
66 CGATTTTA
* * * *
51165182 AGAAAGCGCTGCAAAAAAACCTAATCCCAACGATGCCGTTTTCTGAGCATTCAGGGATTTAGCGG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGAGG
* *
51165247 TGTTTTTA
66 CGATTTTA
51165255 AGAAAGCGCCGCAA
1 AGAAAGCGCCGCAA
51165269 TGCTCAAGGC
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 11 0.15
73 64 0.85
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (73 bp):
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGAGG
CGATTTTA
Found at i:51165592 original size:113 final size:114
Alignment explanation
Indices: 51165162--51165832 Score: 972
Period size: 114 Copynumber: 5.9 Consensus size: 114
51165152 TGAGCATTCT
* * * *
51165162 GGGCTTTAGAGGCGATTTTGAGAAAGCGCTGCAAAAAAACCTAATCCCAACGATGCCGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTG
*
51165227 AGCATTCAGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGC-AATGCTCA
66 AGCATTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* *
51165275 AGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGATGCTGTTTTCT
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGATGCCGTTTTCT
* * *
51165340 GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCA
65 GAGCATTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * *
51165390 GGGCTTTAGCGGCATTTTTGAGAAAGTGCCGTAAAAAAAACCTAAGCCCAACGATGCCGTTTTCT
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCG-CAAAAAAACCTAAGCCCAACGATGCCGTTTTCT
* * *
51165455 GAGCATTCTGGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT-T
65 GAGCATTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * * * **
51165504 GGGCTTTAGCAGCGTTTTTGAGAAAGCGCTGCAAAAAAACCTAAGCCCAGCGACGTTGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTG
* * *
51165569 AGTAGTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
66 AGCATTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* *
51165618 GGGCTTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGATGCTGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTG
*** * *
51165683 AGCATTTTCGGATTTAGCGGCGTTTTTAAGAAAGCGCTGCTAATGCT-T
66 AGCATTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * *
51165731 GGGCTTTAGCGGTGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAGCGACGCCGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTG
*
51165795 AGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
66 AGCATTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
51165833 ACAAAAAACC
Statistics
Matches: 498, Mismatches: 56, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
112 62 0.12
113 130 0.26
114 195 0.39
115 111 0.22
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (114 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTG
AGCATTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
Found at i:51165856 original size:72 final size:72
Alignment explanation
Indices: 51165735--51165904 Score: 295
Period size: 72 Copynumber: 2.4 Consensus size: 72
51165725 ATGCTTGGGC
* * * *
51165735 TTTAGCGGTGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAGCGACGCCGTTTTCTGAGCTT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
51165800 TCAGGGA
66 TCAGGGA
*
51165807 TTTAGCGGCGTTTTTAAGAAAGCGCCACAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
51165872 TCAGGGA
66 TCAGGGA
51165879 TTTAGCGGCGTTTTTAAGAAAGCGCC
1 TTTAGCGGCGTTTTTAAGAAAGCGCC
51165905 GCTAATGCTC
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (72 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCAGGGA
Found at i:51165964 original size:102 final size:102
Alignment explanation
Indices: 51165835--51166026 Score: 321
Period size: 102 Copynumber: 1.9 Consensus size: 102
51165825 AAAGCGCCAC
* * * *
51165835 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCAGGGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCAGGGATTTAACAGCGTTTTTAAGAAA
51165900 GCGCCGCTAATGCTCAGGGCTTTAGCGAACGCCGCAA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGAACGCCGCAA
* *
51165937 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAACAGCGTTTTTGAGAAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCAGGGATTTAACAGCGTTTTTAAGAAA
*
51166002 GGGCCGCTAATGCTCAGGGCTTTAG
66 GCGCCGCTAATGCTCAGGGCTTTAG
51166027 TGGCGTTTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (102 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCAGGGATTTAACAGCGTTTTTAAGAAA
GCGCCGCTAATGCTCAGGGCTTTAGCGAACGCCGCAA
Found at i:51166049 original size:41 final size:41
Alignment explanation
Indices: 51165988--51166066 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
51165978 GGATTTAACA
* *
51165988 GCGTTTTTGAGAAAGGGCCGCTAATGCTCAGGGCTTTAGTG
1 GCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGTG
51166029 GCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTA
1 GCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTA
51166067 AAATAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (41 bp):
GCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGTG
Found at i:51166217 original size:21 final size:22
Alignment explanation
Indices: 51166193--51166237 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
51166183 TATATAATCG
51166193 TAAAGAGATA-GTGTTAA-GGTT
1 TAAAG-GATATGTGTTAAGGGTT
*
51166214 TAAAGGTTATGTGTTAAGGGTT
1 TAAAGGATATGTGTTAAGGGTT
51166236 TA
1 TA
51166238 TGGGTAGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.57
22 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.38
Consensus pattern (22 bp):
TAAAGGATATGTGTTAAGGGTT
Found at i:51166560 original size:14 final size:15
Alignment explanation
Indices: 51166526--51166603 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 15
51166516 AATTATATAT
*
51166526 GGATTT-AGGGATTAT
1 GGATTTAAGGG-TTAG
51166541 GG-TTTAAGGGTT-G
1 GGATTTAAGGGTTAG
*
51166554 GGATTTAAGGTTTAG
1 GGATTTAAGGGTTAG
* *
51166569 GG-GTTAAGAGTTAG
1 GGATTTAAGGGTTAG
*
51166583 GGATTTAGGGGTTA-
1 GGATTTAAGGGTTAG
51166597 GGATTTA
1 GGATTTA
51166604 GGGATTCAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 2 0.04
14 32 0.63
15 17 0.33
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.37
Consensus pattern (15 bp):
GGATTTAAGGGTTAG
Found at i:51166567 original size:21 final size:20
Alignment explanation
Indices: 51166533--51166573 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
51166523 TATGGATTTA
*
51166533 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
51166553 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
51166574 AAGAGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:51166575 original size:28 final size:29
Alignment explanation
Indices: 51166526--51166598 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
51166516 AATTATATAT
* * *
51166526 GGATTTAGGGATTATGGTTTAAGGGTT-G
1 GGATTTAGGGATTAGGGGTTAAGAGTTAG
* *
51166554 GGATTTAAGGTTTAGGGGTTAAGAGTTAG
1 GGATTTAGGGATTAGGGGTTAAGAGTTAG
*
51166583 GGATTTAGGGGTTAGG
1 GGATTTAGGGATTAGG
51166599 ATTTAGGGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 22 0.59
29 15 0.41
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (29 bp):
GGATTTAGGGATTAGGGGTTAAGAGTTAG
Found at i:51166616 original size:22 final size:22
Alignment explanation
Indices: 51166543--51166616 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
51166533 GGGATTATGG
* *
51166543 TTTAAGGGTTGGGATTTAAGG-
1 TTTAAGGGTTAGGATTTAGGGA
* * *
51166564 TTTAGGGGTTAAGAGTTAGGGA
1 TTTAAGGGTTAGGATTTAGGGA
*
51166586 TTTAGGGGTTAGGATTTAGGGA
1 TTTAAGGGTTAGGATTTAGGGA
*
51166608 TTCAAGGGT
1 TTTAAGGGT
51166617 CGGGTTAGGG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 16 0.37
22 27 0.63
ACGTcount: A:0.24, C:0.01, G:0.39, T:0.35
Consensus pattern (22 bp):
TTTAAGGGTTAGGATTTAGGGA
Found at i:51169839 original size:4 final size:4
Alignment explanation
Indices: 51169832--51169866 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
51169822 GATATAGATA
51169832 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
51169867 CTAATATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:51170620 original size:43 final size:43
Alignment explanation
Indices: 51170557--51170669 Score: 190
Period size: 43 Copynumber: 2.6 Consensus size: 43
51170547 AATATTTTTT
* *
51170557 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCGGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* *
51170600 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
51170643 TAAAGGTCTTGTTCTTTAGCGGCGTTT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTT
51170670 ATTTCTAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
Found at i:51184587 original size:13 final size:14
Alignment explanation
Indices: 51184571--51184603 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
51184561 TCTATTTTAA
51184571 TTATCTTAATTA-T
1 TTATCTTAATTATT
*
51184584 TTATTTTAATTATT
1 TTATCTTAATTATT
51184598 TTATCT
1 TTATCT
51184604 GACTTGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATCTTAATTATT
Found at i:51192425 original size:24 final size:24
Alignment explanation
Indices: 51192398--51192448 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
51192388 CTAACCAAGG
*
51192398 TTAATAATCTACATCTTTTAACTA
1 TTAAAAATCTACATCTTTTAACTA
* *
51192422 TTAAAAATCTACATTTTTTAAGTA
1 TTAAAAATCTACATCTTTTAACTA
51192446 TTA
1 TTA
51192449 TTACTTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (24 bp):
TTAAAAATCTACATCTTTTAACTA
Found at i:51192666 original size:21 final size:20
Alignment explanation
Indices: 51192642--51192688 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
51192632 ATTGCACTTT
51192642 CCATGTAAAAGATTGCTGTGA
1 CCATGT-AAAGATTGCTGTGA
***
51192663 CCATGTTTTGATTGCTGTGA
1 CCATGTAAAGATTGCTGTGA
51192683 CCATGT
1 CCATGT
51192689 TTTCTTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
CCATGTAAAGATTGCTGTGA
Found at i:51192677 original size:20 final size:20
Alignment explanation
Indices: 51192652--51192691 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
51192642 CCATGTAAAA
51192652 GATTGCTGTGACCATGTTTT
1 GATTGCTGTGACCATGTTTT
51192672 GATTGCTGTGACCATGTTTT
1 GATTGCTGTGACCATGTTTT
51192692 CTTGTGTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.45
Consensus pattern (20 bp):
GATTGCTGTGACCATGTTTT
Found at i:51193688 original size:5 final size:5
Alignment explanation
Indices: 51193678--51193705 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
51193668 GTTCTGAAGT
51193678 CTAAG CTAAG CTAAG CTAAG CTAAG CTA
1 CTAAG CTAAG CTAAG CTAAG CTAAG CTA
51193706 CCCAAAGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (5 bp):
CTAAG
Found at i:51198238 original size:97 final size:97
Alignment explanation
Indices: 51198065--51198364 Score: 381
Period size: 96 Copynumber: 3.1 Consensus size: 97
51198055 TAAATAAGGG
* * * * *
51198065 ATTAAGGTTTAGAGTTTCTTAATTAAATTAATTATAAATTTTT-CAAAATTAGATTAGGGTTTTG
1 ATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
* * *
51198129 TGTTTATAGTTTTTAAGGAAAAAATTAATTAA
66 TGTTAAGAGTTTTTAAGGAAAAAATTAAATAA
* * * *
51198161 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATCAGATTAAGGTTTAG
1 ATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
*
51198226 TGTTAAGAGTTTTTAAGG-AAAAATCAAATAA
66 TGTTAAGAGTTTTTAAGGAAAAAATTAAATAA
* * * * * *
51198257 ATTAGGGTTTAGGATTACCTAAGTAAATTAATTATAAGTTTTAAAAAAATTTTGATTAGGGTTTA
1 ATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAA-TTAGATTAGGGTTTA
*
51198322 GTGTTTAAG-GTTTTTAAGGAAAAACTTAAATAA
65 GTG-TTAAGAGTTTTTAAGGAAAAAATTAAATAA
51198355 ATTAAGGTTT
1 ATTAAGGTTT
51198365 GAGATTTAGG
Statistics
Matches: 176, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
96 93 0.53
97 58 0.33
98 25 0.14
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (97 bp):
ATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
TGTTAAGAGTTTTTAAGGAAAAAATTAAATAA
Found at i:51198630 original size:125 final size:125
Alignment explanation
Indices: 51198407--51198697 Score: 492
Period size: 125 Copynumber: 2.3 Consensus size: 125
51198397 TAATTTAAAA
* *
51198407 AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT-AAAAAATAATTTGGAGAAGATGTTT
* * * *
51198472 CTGAGCAAATAGTGGCAAAAACGCTTTAAGCAGGATGCATTGTTAGTAAAAGTACTGGAAG
65 CTGAGCAAATAGTGGCAAAAACACTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
51198533 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAATAATTTGGAGAAGATGTTTC
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAATAATTTGGAGAAGATGTTTC
* *
51198598 TGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 TGAGCAAATAGTGGCAAAAACACTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
*
51198658 AAGCTCACACGTGGACGCTCTTTTGCTACAGTAGTTCCTA
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTA
51198698 TTTGGCCTGA
Statistics
Matches: 156, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 118 0.76
126 38 0.24
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (125 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAATAATTTGGAGAAGATGTTTC
TGAGCAAATAGTGGCAAAAACACTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:51200905 original size:61 final size:61
Alignment explanation
Indices: 51200828--51201033 Score: 223
Period size: 61 Copynumber: 3.5 Consensus size: 61
51200818 ATATTGTATT
* *
51200828 ATTTATATTTTTTTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTATTTAAAAGA
1 ATTTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTATCTTATTTAAAAGA
* * * * * *
51200889 ATTTATATTTTATT-AA--AAATATTAAAGTAA-ATT--ACA-ATTA-CTTTATTCAAAACA
1 ATTTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTATC-TTATTTAAAAGA
*
51200943 ACGTTT-TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
1 A--TTTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTATCTTATTTAAAAGA
* *
51201005 ATTTCTATTTTATTACATGAAATAATATA
1 ATTTATATTTTATTAAATGAAATAATATA
51201034 AAAGAATTTC
Statistics
Matches: 118, Mismatches: 15, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
53 1 0.01
54 14 0.12
55 11 0.09
56 5 0.04
57 3 0.03
58 22 0.19
59 3 0.03
60 5 0.04
61 38 0.32
62 15 0.13
63 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (61 bp):
ATTTATATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTATCTTATTTAAAAGA
Found at i:51201041 original size:34 final size:34
Alignment explanation
Indices: 51200998--51201070 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
51200988 TTACCTTATT
*
51200998 TAAAAGAATTTCTATTTTATTACATGAAATAATA
1 TAAAAGAATTTCTATTTTATTACATAAAATAATA
51201032 TAAAAGAATTTCTATTTTATTACATAAAATAATA
1 TAAAAGAATTTCTATTTTATTACATAAAATAATA
51201066 TAAAA
1 TAAAA
51201071 ATATTCAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (34 bp):
TAAAAGAATTTCTATTTTATTACATAAAATAATA
Found at i:51201516 original size:18 final size:18
Alignment explanation
Indices: 51201490--51201532 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
51201480 GACTAGAAAA
* * *
51201490 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
51201508 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
51201526 AGGATAC
1 AGGATAC
51201533 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:51201659 original size:30 final size:30
Alignment explanation
Indices: 51201625--51201681 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
51201615 CTGAGCCTGG
* **
51201625 TGATTGTATGGGTGCTGTTGATGGGCCGAA
1 TGATTGTATAGGCACTGTTGATGGGCCGAA
*
51201655 TGATTGTGTAGGCACTGTTGATGGGCC
1 TGATTGTATAGGCACTGTTGATGGGCC
51201682 TGCGTCGTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.12, G:0.39, T:0.33
Consensus pattern (30 bp):
TGATTGTATAGGCACTGTTGATGGGCCGAA
Found at i:51202189 original size:7 final size:7
Alignment explanation
Indices: 51202179--51202203 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51202169 TTATATACAT
51202179 AATACTA
1 AATACTA
51202186 AATACTA
1 AATACTA
51202193 AATACTA
1 AATACTA
51202200 AATA
1 AATA
51202204 TGAATCGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:51203356 original size:11 final size:11
Alignment explanation
Indices: 51203342--51203414 Score: 94
Period size: 11 Copynumber: 6.6 Consensus size: 11
51203332 GAGAGTTTTA
51203342 AGAGAAATTTG
1 AGAGAAATTTG
*
51203353 AGAGGAATTTG
1 AGAGAAATTTG
*
51203364 AGAGAAATATG
1 AGAGAAATTTG
*
51203375 AGAGAATATTGG
1 AGAGAA-ATTTG
*
51203387 AGAGAAATATG
1 AGAGAAATTTG
51203398 AGAG-AATTTG
1 AGAGAAATTTG
51203408 AGAGAAA
1 AGAGAAA
51203415 GGATTTAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.17
11 34 0.65
12 9 0.17
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (11 bp):
AGAGAAATTTG
Found at i:51203393 original size:23 final size:21
Alignment explanation
Indices: 51203342--51203414 Score: 110
Period size: 23 Copynumber: 3.3 Consensus size: 21
51203332 GAGAGTTTTA
*
51203342 AGAGAAATTTGAGAGGAATTTG
1 AGAGAAATATGAGA-GAATTTG
51203364 AGAGAAATATGAGAGAATATTGG
1 AGAGAAATATGAGAGAAT-TT-G
51203387 AGAGAAATATGAGAGAATTTG
1 AGAGAAATATGAGAGAATTTG
51203408 AGAGAAA
1 AGAGAAA
51203415 GGATTTAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
21 12 0.25
22 17 0.35
23 19 0.40
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (21 bp):
AGAGAAATATGAGAGAATTTG
Found at i:51207706 original size:4 final size:4
Alignment explanation
Indices: 51207697--51207721 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
51207687 GTATTATACG
51207697 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
51207722 GAGTTGGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:51216816 original size:2 final size:2
Alignment explanation
Indices: 51216811--51216837 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51216801 CTCTCTCTCT
51216811 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
51216838 AATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:51220959 original size:19 final size:20
Alignment explanation
Indices: 51220921--51220959 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51220911 AATTAGTTTC
51220921 AAAGCAAATAAGAGAAAGGA
1 AAAGCAAATAAGAGAAAGGA
51220941 AAAGCAAGA-AAGA-AAAGGA
1 AAAGCAA-ATAAGAGAAAGGA
51220960 GGGAAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 11 0.61
21 1 0.06
ACGTcount: A:0.67, C:0.05, G:0.26, T:0.03
Consensus pattern (20 bp):
AAAGCAAATAAGAGAAAGGA
Found at i:51221843 original size:18 final size:18
Alignment explanation
Indices: 51221820--51221857 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
51221810 TGTTCACAAT
*
51221820 TTGTTAATAAAACCATAA
1 TTGTTAACAAAACCATAA
51221838 TTGTTAACAAAACCATAA
1 TTGTTAACAAAACCATAA
51221856 TT
1 TT
51221858 ACTAACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (18 bp):
TTGTTAACAAAACCATAA
Found at i:51221863 original size:18 final size:18
Alignment explanation
Indices: 51221828--51221863 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51221818 ATTTGTTAAT
**
51221828 AAAACCATAATTGTTAAC
1 AAAACCATAATTACTAAC
51221846 AAAACCATAATTACTAAC
1 AAAACCATAATTACTAAC
51221864 TTTAATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAACCATAATTACTAAC
Found at i:51222723 original size:142 final size:142
Alignment explanation
Indices: 51222457--51222738 Score: 501
Period size: 142 Copynumber: 2.0 Consensus size: 142
51222447 TGATGAAAAC
* *
51222457 GTTAAAAAAATTTATTAATTAATAATTATAAGTTCAGCGTGATTTTAGAAATATTTTTGAATTAG
1 GTTAAAAAAATTTATTAATTAATAATTATAAGTTAAGCGTGATTTTAGAAATATTTTTGAATGAG
*
51222522 CGAATTTTGTGATTTAAAAGAAATTATTAGGAAAATTGGGTCGAAAATGAGGTATCGAGACCTCG
66 CGAATTTTGTGATTTAAAAGAAATTATTAGGAAAATTGGGTCAAAAATGAGGTATCGAGACCTCG
51222587 ATATTATAAATA
131 ATATTATAAATA
* *
51222599 GTTAGAAAATTTTATTAATTAATAATTATAAGTTAAGCGTGATTTTAGAAATATTTTTGAATGAG
1 GTTAAAAAAATTTATTAATTAATAATTATAAGTTAAGCGTGATTTTAGAAATATTTTTGAATGAG
* *
51222664 TGAATTTTGTGATTTAAAAGAAATTATTAGGTAAATTGGGTCAAAAATGAGGTATCGAGACCTCG
66 CGAATTTTGTGATTTAAAAGAAATTATTAGGAAAATTGGGTCAAAAATGAGGTATCGAGACCTCG
51222729 ATATTATAAA
131 ATATTATAAA
51222739 CTGAGCCATA
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 133 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.37
Consensus pattern (142 bp):
GTTAAAAAAATTTATTAATTAATAATTATAAGTTAAGCGTGATTTTAGAAATATTTTTGAATGAG
CGAATTTTGTGATTTAAAAGAAATTATTAGGAAAATTGGGTCAAAAATGAGGTATCGAGACCTCG
ATATTATAAATA
Found at i:51222990 original size:8 final size:8
Alignment explanation
Indices: 51222973--51223044 Score: 69
Period size: 8 Copynumber: 9.0 Consensus size: 8
51222963 TTTTTCGAAG
51222973 TATATTAT
1 TATATTAT
*
51222981 TATTTTAT
1 TATATTAT
*
51222989 TATATT-G
1 TATATTAT
*
51222996 TAAATTA-
1 TATATTAT
51223003 TAT-TATAT
1 TATAT-TAT
51223011 TATATTATAT
1 TATA-T-TAT
51223021 TATATTAT
1 TATATTAT
51223029 TATATTAT
1 TATATTAT
51223037 TATATTAT
1 TATATTAT
51223045 AAATAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
6 1 0.02
7 9 0.17
8 34 0.63
9 1 0.02
10 9 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (8 bp):
TATATTAT
Found at i:51222994 original size:5 final size:5
Alignment explanation
Indices: 51222973--51223045 Score: 76
Period size: 5 Copynumber: 13.8 Consensus size: 5
51222963 TTTTTCGAAG
* *
51222973 TATAT TATTAT TTTAT TATATT GTAAAT TATAT TATAT TATAT TATAT
1 TATAT TA-TAT TATAT TATA-T -TATAT TATAT TATAT TATAT TATAT
51223021 TATAT TAT-T ATATTAT TATAT TATA
1 TATAT TATAT -TA-TAT TATAT TATA
51223046 AATAAACAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
4 1 0.02
5 44 0.76
6 9 0.16
7 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:51223274 original size:13 final size:13
Alignment explanation
Indices: 51223243--51223283 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
51223233 GACGAAACAG
*
51223243 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
51223255 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
51223268 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
51223281 AGA
1 AGA
51223284 GAAAATTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:51224531 original size:38 final size:39
Alignment explanation
Indices: 51224479--51224561 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
51224469 ATTTGTCGGC
*
51224479 TTACTGATCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
* *
51224517 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACTGTTACTG
51224556 TTACTG
1 TTACTG
51224562 TTACTGTTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 12 0.30
39 28 0.70
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
Found at i:51224556 original size:6 final size:6
Alignment explanation
Indices: 51224545--51224571 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51224535 GTGTGTCGAA
51224545 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
51224572 CGACTCGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:51224566 original size:51 final size:51
Alignment explanation
Indices: 51224506--51224663 Score: 211
Period size: 51 Copynumber: 3.2 Consensus size: 51
51224496 ATGTGCCGAC
*
51224506 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
* *
51224557 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATAC---TA---T
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
** *
51224602 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
*
51224653 TATTGTTACTG
1 TACTGTTACTG
51224664 CTACCGTTAC
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
45 38 0.41
48 4 0.04
51 51 0.55
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (51 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
Done.