Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 157 of 320
Found at i:51923386 original size:43 final size:42
Alignment explanation
Indices: 51923308--51923388 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 42
51923298 AGTGTTGACT
* * * *
51923308 ACACGGGCTGAGACACGGTCGTGTGTCTTAACCGTGTGAGGG
1 ACACGGCCTGAGACACGGGCGTGTGGCCTAACCGTGTGAGGG
**
51923350 ACACGGCCTGAAGACACGGGCGTGTGGCCTGGCCGTGTG
1 ACACGGCCTG-AGACACGGGCGTGTGGCCTAACCGTGTG
51923389 GTTCGACTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 9 0.28
43 23 0.72
ACGTcount: A:0.17, C:0.25, G:0.40, T:0.19
Consensus pattern (42 bp):
ACACGGCCTGAGACACGGGCGTGTGGCCTAACCGTGTGAGGG
Found at i:51925515 original size:48 final size:48
Alignment explanation
Indices: 51925444--51925922 Score: 521
Period size: 48 Copynumber: 10.0 Consensus size: 48
51925434 TGATACTATG
* *
51925444 GTTATGTGAGCTAGTGTAAGACCATGTTTGGAACGTGGCATCGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * ** * *
51925492 GTTATGAGAGCTAGTGTAAGACCATGTTTGGGATATGTTATCAGCGTT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * * * *
51925540 AATATGTGAGCCAGTATAAGACCATGTTTGGAACATAGCATCGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * * *
51925588 GTTATGAGAGCTAGTGTAAAACCATGTTTGGGACATGGCATCGTCCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * *
51925636 AATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * *
51925684 GTTATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * * *
51925732 AATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * * * *
51925780 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACAGGGCATTGGCCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * * * * *
51925828 AATATGTGAG-TCAGTGTAAGATCATGATTGGAACATGGCATCGACTTT
1 GTTATGAGAGCT-AGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
*
51925876 GTTATGAGAGCTAGTGTAAGACCATGTCTGCG-ACATGGCATCGGCAT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTG-GAACATGGCATCGGCAT
51925923 CTTACCTTTT
Statistics
Matches: 344, Mismatches: 84, Indels: 6
0.79 0.19 0.01
Matches are distributed among these distances:
47 1 0.00
48 341 0.99
49 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (48 bp):
GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
Found at i:51925612 original size:96 final size:96
Alignment explanation
Indices: 51925446--51925920 Score: 743
Period size: 96 Copynumber: 4.9 Consensus size: 96
51925436 ATACTATGGT
* *
51925446 TATGTGAGCTAGTGTAAGACCATGTTTGGAACGTGGCATCGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
* ** * * *
51925511 GACCATGTTTGGGATATGTTATCAGCGTTAA
66 GACCATGTTTGGGACATGGCATCGGCCTCAA
* *
51925542 TATGTGAGCCAGTATAAGACCATGTTTGGAACATAGCATCGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
* *
51925607 AACCATGTTTGGGACATGGCATCGTCCTCAA
66 GACCATGTTTGGGACATGGCATCGGCCTCAA
51925638 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
51925703 GACCATGTTTGGGACATGGCATCGGCCTCAA
66 GACCATGTTTGGGACATGGCATCGGCCTCAA
*
51925734 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
* * *
51925799 GACCATGTCTGGGACAGGGCATTGGCCTCAA
66 GACCATGTTTGGGACATGGCATCGGCCTCAA
* * * * *
51925830 TATGTGAGTCAGTGTAAGATCATGATTGGAACATGGCATCGACTTTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
* *
51925895 GACCATGTCTGCGACATGGCATCGGC
66 GACCATGTTTGGGACATGGCATCGGC
51925921 ATCTTACCTT
Statistics
Matches: 350, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 350 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
GACCATGTTTGGGACATGGCATCGGCCTCAA
Found at i:51929896 original size:41 final size:41
Alignment explanation
Indices: 51929800--51930081 Score: 396
Period size: 41 Copynumber: 6.9 Consensus size: 41
51929790 TGTAAAACAT
* **
51929800 AGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTAAAAA-C
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
*
51929840 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
51929881 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
51929922 AGAGCATT--CGGCGCGTTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGC--TTTTGGTAAAACGCCGCTAAAAACC
* **
51929963 AGAGCATTCGCGGCGCTTTTTGGTAAAATACCGCT-AAAACC
1 AGAGCATTAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAACC
*
51930004 AGAGCATT-GCGGCACTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
**
51930044 -GAAGCATTAGCGGCGCTTTCCGTAAAACGCCGCTAAAA
1 AG-AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
51930082 GTCATATAAC
Statistics
Matches: 223, Mismatches: 11, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
39 23 0.10
40 55 0.25
41 122 0.55
42 17 0.08
43 6 0.03
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (41 bp):
AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:51930016 original size:122 final size:122
Alignment explanation
Indices: 51929815--51930081 Score: 391
Period size: 122 Copynumber: 2.2 Consensus size: 122
51929805 AATAGCGGCA
*
51929815 TTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
1 TTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAAC
*
51929880 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC-AGAGCATT-CGGCGC
66 CAGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAACCGA-AGCATTACGGCGC
* * *
51929936 GTTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTCGCGGCGCTTTTTGGTAAAATACCGCT-AA
1 -TTTTTGGTAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGC-TTTTGGTAAAACACCGCTAAA
51930000 AACCAGAGCATT-GCGGCACTTTTGGTAAAACGCCGCTAAAAACCGAAGCATTAGCGGCGC
63 AACCAGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAACCGAAGCATTA-CGGCGC
**
51930060 -TTTCCGTAAAACGCCGCTAAAA
1 TTTTTGGTAAAACGCCGCTAAAA
51930082 GTCATATAAC
Statistics
Matches: 133, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
122 81 0.61
123 30 0.23
124 22 0.17
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (122 bp):
TTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACACCGCTAAAAAC
CAGAGCATTAGCGGCACTTTTGGTAAAACGCCGCTAAAAACCGAAGCATTACGGCGC
Found at i:51930057 original size:81 final size:81
Alignment explanation
Indices: 51929800--51930081 Score: 394
Period size: 81 Copynumber: 3.5 Consensus size: 81
51929790 TGTAAAACAT
* * * *
51929800 AGAGCAATAGCGGC-ATTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTA
1 AGAGCATTAGCGGCGCTTTTTGGTAAAACGCCGCTAAAACCAGAGC-ATTGCGGCGCTTTTGGTA
51929864 AAACGCCGCTAAAAACC
65 AAACGCCGCTAAAAACC
51929881 AGAGCATTAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAACCAGAGCATT-CGGCGCGTTTTTGG
1 AGAGCATTAGCGGCGCTTTTTGGTAAAACGCCGCT-AAAACCAGAGCATTGCGGCGC--TTTTGG
51929944 TAAAACGCCGCTAAAAACC
63 TAAAACGCCGCTAAAAACC
* ** *
51929963 AGAGCATTCGCGGCGCTTTTTGGTAAAATACCGCTAAAACCAGAGCATTGCGGCACTTTTGGTAA
1 AGAGCATTAGCGGCGCTTTTTGGTAAAACGCCGCTAAAACCAGAGCATTGCGGCGCTTTTGGTAA
51930028 AACGCCGCTAAAAACC
66 AACGCCGCTAAAAACC
**
51930044 -GAAGCATTAGCGGCGC-TTTCCGTAAAACGCCGCTAAAA
1 AG-AGCATTAGCGGCGCTTTTTGGTAAAACGCCGCTAAAA
51930082 GTCATATAAC
Statistics
Matches: 181, Mismatches: 13, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
80 25 0.14
81 71 0.39
82 64 0.35
83 21 0.12
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (81 bp):
AGAGCATTAGCGGCGCTTTTTGGTAAAACGCCGCTAAAACCAGAGCATTGCGGCGCTTTTGGTAA
AACGCCGCTAAAAACC
Found at i:51930169 original size:23 final size:22
Alignment explanation
Indices: 51930122--51930169 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
51930112 AACAAATCAT
* *
51930122 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
51930144 AAACACTAAACTTTTAAACCTTA
1 AAACACTAAAC-TATAAACCTTA
51930167 AAA
1 AAA
51930170 AATCTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:51930419 original size:15 final size:15
Alignment explanation
Indices: 51930381--51930415 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
51930371 TACTATTTTA
*
51930381 AGTTTATGGATTATG
1 AGTTTAGGGATTATG
51930396 AGTTTAGGGATTATG
1 AGTTTAGGGATTATG
51930411 -GTTTA
1 AGTTTA
51930416 AGGGTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (15 bp):
AGTTTAGGGATTATG
Found at i:51931257 original size:17 final size:18
Alignment explanation
Indices: 51931235--51931268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51931225 TATTTGTTTT
51931235 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
51931252 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
51931269 TTAAGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:51936126 original size:19 final size:19
Alignment explanation
Indices: 51936103--51936149 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
51936093 ATTTAATCTA
*
51936103 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
51936121 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
51936141 ATTTTTATT
1 ATTTTTATT
51936150 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:51938420 original size:42 final size:43
Alignment explanation
Indices: 51938361--51938483 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
51938351 AATTAAGAAG
* * * * *
51938361 TCCGAACTCGTTGAGTGGTCCGGGTTCGTGATATATG-TGGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGCTAGCA
* * *
51938403 TCCGAGCTCGTTGAGTGGTCCGAGATCATTATGGATGCTAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGCTAGCA
* *
51938446 TCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGC
51938484 GATACATGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 30 0.43
43 40 0.57
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGCTAGCA
Found at i:51938458 original size:43 final size:43
Alignment explanation
Indices: 51938400--51938483 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
51938390 GATATATGTG
*
51938400 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATTATGGATGCTA
1 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATAATGGATGCTA
*
51938443 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
1 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATAATGGATGC
51938484 GATACATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCCGAGATCATAATGGATGCTA
Found at i:51946326 original size:605 final size:605
Alignment explanation
Indices: 51945176--51946385 Score: 2294
Period size: 605 Copynumber: 2.0 Consensus size: 605
51945166 ATCGACTACA
*
51945176 ACCCGGGAAAGGCGGATATGGTCGCTGATGCACTGAGTAGAAAATCCTTGTATGTCTTGAGAGCT
1 ACCCGGGAAAGGCGAATATGGTCGCTGATGCACTGAGTAGAAAATCCTTGTATGTCTTGAGAGCT
*
51945241 ATCGATGCTCGTTTGACCTTGCTTGATGATGGTTTAGTTTTGGCCGAGCTGGAGGCTAGGCCAAC
66 ATCGATGCTCCTTTGACCTTGCTTGATGATGGTTTAGTTTTGGCCGAGCTGGAGGCTAGGCCAAC
51945306 ATTTCTGCAAGAAATTCATGATGCTCAGTTAAATGATGATGACTTGCAAGCAAAAAGGGCTCAAT
131 ATTTCTGCAAGAAATTCATGATGCTCAGTTAAATGATGATGACTTGCAAGCAAAAAGGGCTCAAT
51945371 GTGAGTCTGGGATTGAGTCCGATTTTCAAATTAGTCCTGATGGATGTTTGATGTTCAAAGATAGG
196 GTGAGTCTGGGATTGAGTCCGATTTTCAAATTAGTCCTGATGGATGTTTGATGTTCAAAGATAGG
*
51945436 GTTTGTGTACCCAAAGACAATGAACTTATTTAGAAGATTTTGCAAGAAGCACATAACAGTCATTT
261 GTTTGTGTACCCAAAGACAATGAACTTATTCAGAAGATTTTGCAAGAAGCACATAACAGTCATTT
*
51945501 GTCTATTCACCCGGGAAGTACCAAGATGTACAATGATTTAAAGAAGATGTACTGGTGGAACGGCA
326 GTCTATTCACCCGGGAAGTACCAAGATGTACAATGATTTAAAGAAGATGTACTAGTGGAACGGCA
51945566 TGAAAAGAGATGTTTCTGAATTTGTATCGAAATGCATAGTATGTCAGCAAGTTAAAGTTGAACAT
391 TGAAAAGAGATGTTTCTGAATTTGTATCGAAATGCATAGTATGTCAGCAAGTTAAAGTTGAACAT
* *
51945631 CAAGTGCCTTCAGGTATGTTATAGCCTGTAATGGTCACCGAATGGAAGTGGGATAGACTTACCAT
456 CAAGTGCCTTCAGGTATGTTACAGCCTGTAATGGTCACCGAATGGAAGTGGGATAGAATTACCAT
*
51945696 GGACTTCGTGACAGGACTACCTAAGACTCCAAAAAAGAAAGATGCCATATAGGTCATAGTGGACA
521 GGACTTCGTGACAGGAATACCTAAGACTCCAAAAAAGAAAGATGCCATATAGGTCATAGTGGACA
51945761 AATTGACAAATTCGGCTTAT
586 AATTGACAAATTCGGCTTAT
*
51945781 ACCCGGGAAAGGCGAATGTGGTCGCTGATGCACTGAGTAGAAAATCCTTGTATGTCTTGAGAGCT
1 ACCCGGGAAAGGCGAATATGGTCGCTGATGCACTGAGTAGAAAATCCTTGTATGTCTTGAGAGCT
*
51945846 ATCGATGCTCCTTTGACCTTGTTTGATGATGGTTTAGTTTTGGCCGAGCTGGAGGCTAGGCCAAC
66 ATCGATGCTCCTTTGACCTTGCTTGATGATGGTTTAGTTTTGGCCGAGCTGGAGGCTAGGCCAAC
51945911 ATTTCTGCAAGAAATTCATGATGCTCAGTTAAATGATGATGACTTGCAAGCAAAAAGGGCTCAAT
131 ATTTCTGCAAGAAATTCATGATGCTCAGTTAAATGATGATGACTTGCAAGCAAAAAGGGCTCAAT
51945976 GTGAGTCTGGGATTGAGTCCGATTTTCAAATTAGTCCTGATGGATGTTTGATGTTCAAAGATAGG
196 GTGAGTCTGGGATTGAGTCCGATTTTCAAATTAGTCCTGATGGATGTTTGATGTTCAAAGATAGG
51946041 GTTTGTGTACCCAAAGACAATGAACTTATTCAGAAGATTTTGCAAGAAGCACATAACAGTCATTT
261 GTTTGTGTACCCAAAGACAATGAACTTATTCAGAAGATTTTGCAAGAAGCACATAACAGTCATTT
51946106 GTCTATTCACCCGGGAAGTACCAAGATGTACAATGATTTAAAGAAGATGTACTAGTGGAACGGCA
326 GTCTATTCACCCGGGAAGTACCAAGATGTACAATGATTTAAAGAAGATGTACTAGTGGAACGGCA
* * *
51946171 TGAAAAGAGATGTTTCTGAATTTGTATCGAAATGCGTCGTATGTCAGTAAGTTAAAGTTGAACAT
391 TGAAAAGAGATGTTTCTGAATTTGTATCGAAATGCATAGTATGTCAGCAAGTTAAAGTTGAACAT
51946236 CAAGTGCCTTCAGGTATGTTACAGCCTGTAATGGTCACCGAATGGAAGTGGGATAGAATTACCAT
456 CAAGTGCCTTCAGGTATGTTACAGCCTGTAATGGTCACCGAATGGAAGTGGGATAGAATTACCAT
* *
51946301 GGACTTCGTGATAGGAATACCTAAGACTCCAAAAAAGAAAGATGCCATATGGGTCATAGTGGACA
521 GGACTTCGTGACAGGAATACCTAAGACTCCAAAAAAGAAAGATGCCATATAGGTCATAGTGGACA
51946366 AATTGACAAATTCGGCTTAT
586 AATTGACAAATTCGGCTTAT
51946386 TGCATCAGGG
Statistics
Matches: 591, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
605 591 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (605 bp):
ACCCGGGAAAGGCGAATATGGTCGCTGATGCACTGAGTAGAAAATCCTTGTATGTCTTGAGAGCT
ATCGATGCTCCTTTGACCTTGCTTGATGATGGTTTAGTTTTGGCCGAGCTGGAGGCTAGGCCAAC
ATTTCTGCAAGAAATTCATGATGCTCAGTTAAATGATGATGACTTGCAAGCAAAAAGGGCTCAAT
GTGAGTCTGGGATTGAGTCCGATTTTCAAATTAGTCCTGATGGATGTTTGATGTTCAAAGATAGG
GTTTGTGTACCCAAAGACAATGAACTTATTCAGAAGATTTTGCAAGAAGCACATAACAGTCATTT
GTCTATTCACCCGGGAAGTACCAAGATGTACAATGATTTAAAGAAGATGTACTAGTGGAACGGCA
TGAAAAGAGATGTTTCTGAATTTGTATCGAAATGCATAGTATGTCAGCAAGTTAAAGTTGAACAT
CAAGTGCCTTCAGGTATGTTACAGCCTGTAATGGTCACCGAATGGAAGTGGGATAGAATTACCAT
GGACTTCGTGACAGGAATACCTAAGACTCCAAAAAAGAAAGATGCCATATAGGTCATAGTGGACA
AATTGACAAATTCGGCTTAT
Found at i:51951824 original size:29 final size:29
Alignment explanation
Indices: 51951761--51951868 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 29
51951751 TTCACATACC
* * * *
51951761 TGTATCTGGTCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
51951789 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
* *
51951818 TGTATATGGTCCGTTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
51951847 TTTATGTGGCCCATTAGTCCCA
1 TGTATATGGCCCATTAGGCCCA
51951869 GTCACATTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
27 1 0.02
28 16 0.25
29 46 0.72
30 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:51951828 original size:57 final size:58
Alignment explanation
Indices: 51951758--51951868 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
51951748 AATTTCACAT
* *
51951758 ACCTGTATCTGGTCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGTCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * * *
51951815 ACCTGTATATGGTCCGTTAGGCCCAAATCACATTTATGTGGCCCATTAGTCCCA
1 ACCTGTATATGGTCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
51951869 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (58 bp):
ACCTGTATATGGTCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:51952252 original size:20 final size:20
Alignment explanation
Indices: 51952227--51952268 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
51952217 CTACAATCAA
51952227 TATCACTCAAAGATTAATCT
1 TATCACTCAAAGATTAATCT
51952247 TATCACTCAAAGATTAATCT
1 TATCACTCAAAGATTAATCT
51952267 TA
1 TA
51952269 CATACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (20 bp):
TATCACTCAAAGATTAATCT
Found at i:51953629 original size:46 final size:46
Alignment explanation
Indices: 51953574--51953746 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
51953564 TGGTTGAGCA
* *
51953574 TCCGGACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
51953620 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
51953667 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
51953713 CCCGAGCTGGTTGAGTTGAGTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51953747 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:51953730 original size:93 final size:93
Alignment explanation
Indices: 51953571--51953741 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
51953561 GGATGGTTGA
* * * *
51953571 GCATCCGGACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
51953636 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
51953664 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTGGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
51953729 TGAGTCCTAGTTC
66 TGAGTCCGAGTTC
51953742 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51960089 original size:84 final size:85
Alignment explanation
Indices: 51959864--51960113 Score: 258
Period size: 84 Copynumber: 2.9 Consensus size: 85
51959854 TGGGACGTTG
* * * * *
51959864 GCATTGATATGTGATTACGTGAAAGACCCTGTCTAGGATAGTAGCATCGATATGTG-TTCTCGTG
1 GCATCGATATGTGATTA-GTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGATT-ACGTG
* *
51959928 TAAGACCCTGTCTGGGACAGTG
64 TAAGACCATGTCTGGGACAGTC
* * * * *
51959950 GCATCGATATGTGTTCTCGTGTAAGACAC-GTCTGGGA-CGTTGGCATCAATATGTGATTACGTG
1 GCATCGATATGTGAT-TAGTGTAAGACCCTGTCTGGGATAG-TGGCATCGATATGTGATTACGTG
*
51960013 TAAAACCATGTCTGGGACA-TC
64 TAAGACCATGTCTGGGACAGTC
** * * *
51960034 G-ATATTATATTTGATTAGTGTAAGACCCTATCTGGGATAGTGGCATCGATATGTGATTACATGT
1 GCAT-CGATATGTGATTAGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGATTACGTGT
51960098 AAGACCATGTCTGGGA
65 AAGACCATGTCTGGGA
51960114 TGTTGGCATT
Statistics
Matches: 134, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
83 13 0.10
84 54 0.40
85 42 0.31
86 24 0.18
87 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (85 bp):
GCATCGATATGTGATTAGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGATTACGTGTA
AGACCATGTCTGGGACAGTC
Found at i:51960103 original size:43 final size:43
Alignment explanation
Indices: 51959862--51960122 Score: 241
Period size: 43 Copynumber: 6.1 Consensus size: 43
51959852 TTTGGGACGT
* * *
51959862 TGGCATTGATATGTGATTACGTGAAAGACCCTGTCTAGGATAG
1 TGGCATCGATATGTGATTACGTGTAAGACCCTGTCTGGGATAG
* * *
51959905 TAGCATCGATATGTG-TTCTCGTGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATGTGATT-ACGTGTAAGACCCTGTCTGGGATAG
* * *
51959948 TGGCATCGATATGTG-TTCTCGTGTAAGACAC-GTCTGGGA-CG
1 TGGCATCGATATGTGATT-ACGTGTAAGACCCTGTCTGGGATAG
* * * *
51959989 TTGGCATCAATATGTGATTACGTGTAAAACCATGTCTGGGACA-
1 -TGGCATCGATATGTGATTACGTGTAAGACCCTGTCTGGGATAG
* ** * *
51960032 TCG-ATATTATATTTGATTA-GTGTAAGACCCTATCTGGGATAG
1 TGGCAT-CGATATGTGATTACGTGTAAGACCCTGTCTGGGATAG
* *
51960074 TGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGAT-G
1 TGGCATCGATATGTGATTACGTGTAAGACCCTGTCTGGGATAG
51960116 TTGGCAT
1 -TGGCAT
51960123 TGTATGATAT
Statistics
Matches: 178, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
41 21 0.12
42 58 0.33
43 99 0.56
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGGCATCGATATGTGATTACGTGTAAGACCCTGTCTGGGATAG
Found at i:51960316 original size:19 final size:18
Alignment explanation
Indices: 51960292--51960335 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
51960282 GATACAAATT
51960292 ATATATGATGCAAATGAAA
1 ATATAT-ATGCAAATGAAA
* *
51960311 ATATATATGTATATGAAA
1 ATATATATGCAAATGAAA
51960329 AGTATAT
1 A-TATAT
51960336 TCGGCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (18 bp):
ATATATATGCAAATGAAA
Found at i:51965203 original size:46 final size:45
Alignment explanation
Indices: 51965153--51965328 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
51965143 TGTTTGGGCA
51965153 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
51965199 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
51965246 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
51965292 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51965329 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:51965308 original size:93 final size:93
Alignment explanation
Indices: 51965149--51965320 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
51965139 AGGATGTTTG
* *
51965149 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51965214 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
51965242 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51965307 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51965321 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:51968292 original size:15 final size:15
Alignment explanation
Indices: 51968272--51968340 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
51968262 ATATCTTGGG
51968272 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
51968287 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
51968302 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
51968317 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
51968332 TTTCTTTAT
1 TTTCTTTAT
51968341 TCGATTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:51968341 original size:30 final size:30
Alignment explanation
Indices: 51968263--51968342 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
51968253 CATAGTATCA
* * *
51968263 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
51968293 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
51968323 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
51968343 GATTTTCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:51970793 original size:46 final size:44
Alignment explanation
Indices: 51970743--51970918 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 44
51970733 TGTTTGGGCA
51970743 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
51970789 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
51970836 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
51970882 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51970919 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:51970898 original size:93 final size:93
Alignment explanation
Indices: 51970739--51970910 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
51970729 AGGATGTTTG
* * *
51970739 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51970804 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
51970832 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51970897 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51970911 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:51974278 original size:43 final size:42
Alignment explanation
Indices: 51974231--51974427 Score: 163
Period size: 43 Copynumber: 4.6 Consensus size: 42
51974221 TGTGTTCTCA
* * *
51974231 TGTAAGACCACATCTGGGACGTTGGCATTGATATGTGATTACG
1 TGTAAGACC-CGTCTGGGAAGTTGGCATCGATATGTGATTACG
51974274 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATGTGATTACG
1 TGTAAGACCC-GTCTGGGA-AGTTGGCATCGATATGTGATTACG
* * * * *
51974317 TGTAAGACCTTGTCTAGGACA-TCGGTATCG-TATTTGATT--G
1 TGTAAGACC-CGTCTGGGA-AGTTGGCATCGATATGTGATTACG
* *
51974357 TGTAAGACCCTATCTGGGATAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCC-GTCTGGGA-AGTTGGCATCGATATGTGATTACG
* * *
51974400 TGTAAGACCATGTCTGAGATGTTGGCAT
1 TGTAAGACC-CGTCTGGGAAGTTGGCAT
51974428 TGTACGATAT
Statistics
Matches: 122, Mismatches: 21, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
40 23 0.19
41 8 0.07
42 10 0.08
43 80 0.66
44 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCCGTCTGGGAAGTTGGCATCGATATGTGATTACG
Found at i:51974631 original size:18 final size:20
Alignment explanation
Indices: 51974600--51974640 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
51974590 ACAAATTATT
51974600 TATGATGCAAATGAAAA-TA
1 TATGATGCAAATGAAAAGTA
*
51974619 TATG-TGCATATGAAAAGTA
1 TATGATGCAAATGAAAAGTA
51974638 TAT
1 TAT
51974641 TAGGCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (20 bp):
TATGATGCAAATGAAAAGTA
Found at i:51981507 original size:28 final size:28
Alignment explanation
Indices: 51981467--51981524 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
51981457 CAGCCGTGTG
51981467 ACCCTAGACTACACAACATCAATTTTTT
1 ACCCTAGACTACACAACATCAATTTTTT
51981495 ACCCTAGACTACACAACATCAATTTTTT
1 ACCCTAGACTACACAACATCAATTTTTT
51981523 AC
1 AC
51981525 ATTGTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (28 bp):
ACCCTAGACTACACAACATCAATTTTTT
Found at i:51996745 original size:42 final size:42
Alignment explanation
Indices: 51996621--51996781 Score: 160
Period size: 42 Copynumber: 3.8 Consensus size: 42
51996611 TACCATACCA
* * **** *
51996621 ATGCCATATCCCATATATGGTCTTATATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCGCATATCG
* * *
51996663 ATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCGCATATCG
* * * * *
51996706 ATGCCATATCACAGATATGGTCTTACGCGAAGTCGCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCGCATATCG
* *
51996748 ATGTCATATCCCAGATATGGTCTTACACATAATC
1 ATGCCATATCCCAGATATGGTCTTACACAAAATC
51996782 TTAGTAACCC
Statistics
Matches: 96, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 62 0.65
43 34 0.35
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCGCATATCG
Found at i:52001750 original size:23 final size:23
Alignment explanation
Indices: 52001720--52001819 Score: 91
Period size: 23 Copynumber: 4.4 Consensus size: 23
52001710 CTGATGAACA
52001720 GTAAGCTCTATTGAGCTGAAATG
1 GTAAGCTCTATTGAGCTGAAATG
52001743 GTAAGCTCTATTGAGCTGAACA--
1 GTAAGCTCTATTGAGCTGAA-ATG
*
52001765 GTAAGCTCT-TTCAAGCT-AAATCG
1 GTAAGCTCTATT-GAGCTGAAAT-G
* * * **
52001788 ATAAGCTCAAATGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAAATG
52001811 GTAAGCTCT
1 GTAAGCTCT
52001820 TCCGAGCTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
20 1 0.02
21 4 0.07
22 13 0.21
23 38 0.62
24 5 0.08
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAATG
Found at i:52001766 original size:45 final size:45
Alignment explanation
Indices: 52001714--52001820 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
52001704 CCTGTGCTGA
* * * *
52001714 TGAACAGTAAGCTCTATT-GAGCTGAAAT-GGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCT-TTCAAGCT-AAATCGATAAGCTCAAATGAGC
52001759 TGAACAGTAAGCTCTTTCAAGCTAAATCGATAAGCTCAAATGAGC
1 TGAACAGTAAGCTCTTTCAAGCTAAATCGATAAGCTCAAATGAGC
52001804 TGAAACAGTAAGCTCTT
1 TG-AACAGTAAGCTCTT
52001821 CCGAGCTGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 6 0.11
45 35 0.64
46 14 0.25
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
TGAACAGTAAGCTCTTTCAAGCTAAATCGATAAGCTCAAATGAGC
Found at i:52001826 original size:23 final size:22
Alignment explanation
Indices: 52001716--52001828 Score: 72
Period size: 23 Copynumber: 5.0 Consensus size: 22
52001706 TGTGCTGATG
*
52001716 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCT-TCGAGCTGA
** *
52001739 AATGGTAAGCTCTATTGAGCTG-
1 AACAGTAAGCTCT-TCGAGCTGA
*
52001761 AACAGTAAGCTCTTTCAAGCT-A
1 AACAGTAAGCTC-TTCGAGCTGA
*
52001783 AATC-GATAAGCTCAAAT-GAGCTGA
1 AA-CAG-TAAGCTC--TTCGAGCTGA
52001807 AACAGTAAGCTCTTCCGAGCTG
1 AACAGTAAGCTCTT-CGAGCTG
52001829 TAGTGAGTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
21 1 0.01
22 18 0.25
23 47 0.66
24 5 0.07
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTTCGAGCTGA
Found at i:52002771 original size:27 final size:27
Alignment explanation
Indices: 52002733--52002786 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
52002723 CTTACTTCAT
52002733 CTACAAGAATCTCCATTATTATAATCA
1 CTACAAGAATCTCCATTATTATAATCA
52002760 CTACAAGAATCTCCATTATTATAATCA
1 CTACAAGAATCTCCATTATTATAATCA
52002787 AACTCGCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (27 bp):
CTACAAGAATCTCCATTATTATAATCA
Found at i:52012118 original size:42 final size:42
Alignment explanation
Indices: 52012071--52012151 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
52012061 CACTTGATCA
52012071 TAATACACATATGTATATATTGTAACAGCCCGATTTAGATTC
1 TAATACACATATGTATATATTGTAACAGCCCGATTTAGATTC
52012113 TAATACACATATGTATATATTGTAACAGCCCGATTTAGA
1 TAATACACATATGTATATATTGTAACAGCCCGATTTAGA
52012152 CCCTAATAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (42 bp):
TAATACACATATGTATATATTGTAACAGCCCGATTTAGATTC
Found at i:52015667 original size:42 final size:43
Alignment explanation
Indices: 52015587--52015688 Score: 145
Period size: 42 Copynumber: 2.4 Consensus size: 43
52015577 CCAAGACGTA
* *
52015587 GTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAGG
*
52015630 GTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAGACATG
1 GTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCAGACAGG
52015672 GTCTTACACGTAAATCA
1 GTCTTACACG-AAATCA
52015689 TAAGTTGACT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
42 29 0.54
43 25 0.46
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAGG
Found at i:52015687 original size:43 final size:43
Alignment explanation
Indices: 52015567--52015688 Score: 151
Period size: 43 Copynumber: 2.8 Consensus size: 43
52015557 AGCTGGTACA
* * * *
52015567 ATGCCAATGTCCAAGACGTAGTCTTACATGT-AATCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
*
52015610 ATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
52015652 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCA
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATCA
52015689 TAAGTTGACT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
42 30 0.43
43 39 0.57
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:52017293 original size:23 final size:23
Alignment explanation
Indices: 52017259--52017360 Score: 95
Period size: 23 Copynumber: 4.6 Consensus size: 23
52017249 TGAGTCAATG
52017259 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
52017282 AACGGTAAGCTCTATTGAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
* *
52017304 AACAGTAAGAT-T-TCGAGCT-A
1 AACAGTAAGCTCTATTGAGCTGA
* * * *
52017324 AATCGGTAAGCTCAAATGAGCCGA
1 AA-CAGTAAGCTCTATTGAGCTGA
*
52017348 AATAGTAAGCTCT
1 AACAGTAAGCTCT
52017361 TCCGAGCTGT
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
20 8 0.13
21 8 0.13
22 9 0.15
23 33 0.54
24 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:52017344 original size:43 final size:45
Alignment explanation
Indices: 52017257--52017344 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 45
52017247 CCTGAGTCAA
* * * *
52017257 TGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATTGAGC
1 TGAACAGTAAGATCTATCGAGCTGAAACGGTAAGCTCAAATGAGC
52017302 TGAACAGTAAGAT-T-TCGAGCT-AAATCGGTAAGCTCAAATGAGC
1 TGAACAGTAAGATCTATCGAGCTGAAA-CGGTAAGCTCAAATGAGC
52017345 CGAAATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 22 0.58
44 1 0.03
45 12 0.32
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (45 bp):
TGAACAGTAAGATCTATCGAGCTGAAACGGTAAGCTCAAATGAGC
Found at i:52033825 original size:5 final size:5
Alignment explanation
Indices: 52033815--52033841 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
52033805 TTCTTATATA
52033815 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
52033842 TTGAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:52045802 original size:48 final size:48
Alignment explanation
Indices: 52045731--52045825 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
52045721 TTATCAAAAT
52045731 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATCAT-TTTCATTCTAA
1 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCAT-ATGTTTCATTCTAA
*
52045779 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATTTGTTTCATTCTA
1 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATATGTTTCATTCTA
52045826 TCTTTCCATA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (48 bp):
AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATATGTTTCATTCTAA
Found at i:52048982 original size:27 final size:26
Alignment explanation
Indices: 52048942--52049107 Score: 197
Period size: 27 Copynumber: 6.2 Consensus size: 26
52048932 AGGAAGCGTC
* *
52048942 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
52048969 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
52048996 TTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
52049023 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
52049050 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
52049078 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
52049104 CTGG
1 CTGG
52049108 CAGCTATGCT
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
26 9 0.07
27 93 0.77
28 19 0.16
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52049025 original size:54 final size:54
Alignment explanation
Indices: 52048942--52049116 Score: 262
Period size: 54 Copynumber: 3.2 Consensus size: 54
52048932 AGGAAGCGTC
* *
52048942 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
52048996 TTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
52049050 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
**
52049104 CTGGCAGCTATGC
1 CTGGTGGCTATGC
52049117 TACATATTTC
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 92 0.84
55 18 0.16
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:52049122 original size:81 final size:81
Alignment explanation
Indices: 52048948--52049129 Score: 208
Period size: 81 Copynumber: 2.2 Consensus size: 81
52048938 CGTCCTGGTG
** * *
52048948 GCTATGCCACA-ATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTTTGGTGGCTATGCCAC
1 GCTATGCCACATA-TATCTGTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTATGCCAC
**
52049012 GATTATCTGATCTGGTG
65 GATTATCTGATCTGGCA
* * *
52049029 GCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACTCTGTCA
1 GCTATGCCACATATATCTGTTCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGACTATGCCA
*
52049093 C-ATTATCTGTTCTGGCA
64 CGATTATCTGATCTGGCA
* *
52049110 GCTATGCTACATATTTCTGT
1 GCTATGCCACATATATCTGT
52049130 GGTGTGTAGT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 69 0.81
82 16 0.19
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (81 bp):
GCTATGCCACATATATCTGTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTATGCCACG
ATTATCTGATCTGGCA
Found at i:52052915 original size:38 final size:38
Alignment explanation
Indices: 52052872--52053065 Score: 327
Period size: 38 Copynumber: 5.1 Consensus size: 38
52052862 AAAGGCCCAA
* *
52052872 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
52052910 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
52052948 ATATAATACCAGCACAAAGCCTGTGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
52052986 ATATAATA-CAGCACGAAGCTTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
52053023 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
52053061 ATATA
1 ATATA
52053066 CATCGAATAT
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
37 33 0.23
38 112 0.77
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:52053036 original size:75 final size:76
Alignment explanation
Indices: 52052872--52053065 Score: 327
Period size: 75 Copynumber: 2.6 Consensus size: 76
52052862 AAAGGCCCAA
* *
52052872 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG
52052937 ATTTAACCCGG
66 ATTTAACCCGG
* * *
52052948 ATATAATACCAGCACAAAGCCTGTGGGATTTAACTCGGATATAATA-CAGCACGAAGCTTGCGGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG
52053012 ATTTAACCCGG
66 ATTTAACCCGG
*
52053023 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATA
52053066 CATCGAATAT
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 68 0.62
76 42 0.38
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (76 bp):
ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG
ATTTAACCCGG
Found at i:52060425 original size:27 final size:26
Alignment explanation
Indices: 52060385--52060496 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
52060375 AGGAAGCGTC
* *
52060385 CTGGTGGCTATGCCAGAATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGAT
*
52060412 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
52060439 ATGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
52060467 CTGGTGGCTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
52060493 CTGG
1 CTGG
52060497 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52060489 original size:54 final size:54
Alignment explanation
Indices: 52060386--52060492 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
52060376 GGAAGCGTCC
52060386 TGGTGGCTATGCCAGAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTA
1 TGGTGGCTATGCCAGAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTA
* *
52060440 TGGTGGCTCTGCCACG-ATTATCTGTATCTGGTGGCTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCA-GAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
52060493 CTGGCAGCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
54 29 0.59
55 20 0.41
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCAGAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTA
Found at i:52063531 original size:14 final size:14
Alignment explanation
Indices: 52063494--52063525 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
52063484 GTCAATTTCA
*
52063494 TATTTAATATTTAG
1 TATTTAGTATTTAG
52063508 TATTTAGTATTTAG
1 TATTTAGTATTTAG
52063522 TATT
1 TATT
52063526 ATGTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (14 bp):
TATTTAGTATTTAG
Found at i:52065535 original size:19 final size:19
Alignment explanation
Indices: 52065508--52065608 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 19
52065498 AATTTTAATT
52065508 AAAAA-ATATAAAATATTA
1 AAAAATATATAAAATATTA
52065526 AAAAATATATAAAAT-TCGTA
1 AAAAATATATAAAATAT--TA
* *
52065546 ATAAATATAAAAATATATTA
1 AAAAATATATAAA-ATATTA
*
52065566 AAAAAT-TATAAAATTTTA
1 AAAAATATATAAAATATTA
52065584 TAAAAATCATA-AAAA-ATTA
1 -AAAAAT-ATATAAAATATTA
*
52065603 TAAAAT
1 AAAAAT
52065609 TGCATAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
18 16 0.24
19 23 0.34
20 24 0.35
21 4 0.06
22 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATATATAAAATATTA
Found at i:52065541 original size:40 final size:37
Alignment explanation
Indices: 52065487--52065609 Score: 122
Period size: 39 Copynumber: 3.2 Consensus size: 37
52065477 TAAAAGTTAT
* *
52065487 AAAAGTTATTAAATTTTAATTAAAAAATATAAAATATTA
1 AAAAATTATAAAATTTTAA-T-AAAAATATAAAATATTA
* * *
52065526 AAAAATATATAAAATTCGTAATAAATATAAAAATATATTA
1 AAAAAT-TATAAAATT-TTAATAAAAATATAAA-ATATTA
*
52065566 AAAAATTATAAAATTTT-ATAAAAATCATAAAAAATTA
1 AAAAATTATAAAATTTTAATAAAAAT-ATAAAATATTA
*
52065603 TAAAATT
1 AAAAATT
52065610 GCATAAAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
37 18 0.26
38 5 0.07
39 23 0.33
40 21 0.30
41 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (37 bp):
AAAAATTATAAAATTTTAATAAAAATATAAAATATTA
Found at i:52065605 original size:10 final size:10
Alignment explanation
Indices: 52065507--52065607 Score: 63
Period size: 10 Copynumber: 10.5 Consensus size: 10
52065497 AAATTTTAAT
52065507 TAAAAAA-TA
1 TAAAAAATTA
*
52065516 TAAAATA-T-
1 TAAAAAATTA
52065524 TAAAAAA-TA
1 TAAAAAATTA
* *
52065533 TATAAAATTCG
1 TAAAAAATT-A
*
52065544 TAATAAA-TA
1 TAAAAAATTA
52065553 T-AAAAATATA
1 TAAAAAAT-TA
52065563 TTAAAAAATTA
1 -TAAAAAATTA
**
52065574 TAAAATTTTA
1 TAAAAAATTA
*
52065584 T-AAAAATCA
1 TAAAAAATTA
52065593 TAAAAAATTA
1 TAAAAAATTA
52065603 TAAAA
1 TAAAA
52065608 TTGCATAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
8 11 0.16
9 20 0.29
10 25 0.36
11 8 0.11
12 6 0.09
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:52065617 original size:19 final size:19
Alignment explanation
Indices: 52065504--52065620 Score: 75
Period size: 19 Copynumber: 6.2 Consensus size: 19
52065494 ATTAAATTTT
52065504 AATTA-AAAAAT-ATAAAA
1 AATTATAAAAATCATAAAA
* *
52065521 TATTA-AAAAAT-ATATAA
1 AATTATAAAAATCATAAAA
*
52065538 AATTCGTAATAAAT-AT-AAA
1 AATT-ATAA-AAATCATAAAA
*
52065557 AATATATTAAAAAATTATAAAA
1 AAT-TA-T-AAAAATCATAAAA
**
52065579 TTTTATAAAAATCATAAAA
1 AATTATAAAAATCATAAAA
*
52065598 AATTATAAAATTGCATAAAA
1 AATTATAAAAAT-CATAAAA
52065618 AAT
1 AAT
52065621 GCCCTTTAGT
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
17 18 0.23
19 28 0.35
20 23 0.29
21 6 0.08
22 4 0.05
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AATTATAAAAATCATAAAA
Found at i:52065960 original size:10 final size:10
Alignment explanation
Indices: 52065892--52065965 Score: 50
Period size: 10 Copynumber: 7.8 Consensus size: 10
52065882 ATTTTGCAAT
52065892 TTTTTA-TAA
1 TTTTTATTAA
52065901 TTTTTAATTAA
1 TTTTT-ATTAA
52065912 -TTTTA--AA
1 TTTTTATTAA
*
52065919 TTTTAATTAA
1 TTTTTATTAA
** * *
52065929 AATTTAATCA
1 TTTTTATTAA
52065939 TTTTTA-TAA
1 TTTTTATTAA
*
52065948 TTTTTATTGA
1 TTTTTATTAA
52065958 TTTTTATT
1 TTTTTATT
52065966 TTTTACCATT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
9 14 0.29
10 26 0.53
11 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:52079826 original size:14 final size:14
Alignment explanation
Indices: 52079804--52079842 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52079794 TGAATCATAA
*
52079804 AATAATATATTATT
1 AATAATATAATATT
*
52079818 AATATTATAATATT
1 AATAATATAATATT
52079832 -ATAATATAATA
1 AATAATATAATA
52079843 ATAAAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATAATATAATATT
Found at i:52079830 original size:8 final size:8
Alignment explanation
Indices: 52079810--52079845 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
52079800 ATAAAATAAT
52079810 ATATTATTA
1 ATATTA-TA
52079819 ATATTATA
1 ATATTATA
52079827 ATATTATA
1 ATATTATA
*
52079835 ATATAATA
1 ATATTATA
52079843 ATA
1 ATA
52079846 AAAATCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATATTATA
Found at i:52079905 original size:21 final size:22
Alignment explanation
Indices: 52079871--52079929 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
52079861 TATATTTATT
*
52079871 TATTATTTACTATTATTAAATA
1 TATTTTTTACTATTATTAAATA
* **
52079893 TATTTTTTA-TATTCTTACTTA
1 TATTTTTTACTATTATTAAATA
*
52079914 TATTTTTTTCTATTAT
1 TATTTTTTACTATTAT
52079930 GTTATATGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTTTACTATTATTAAATA
Found at i:52090917 original size:39 final size:39
Alignment explanation
Indices: 52090863--52090940 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
52090853 TTAATACATC
*
52090863 TTATACATATACACTACATCAATTACACTATTTCATTCA
1 TTATACATATACACTACATCAATTACACCATTTCATTCA
*
52090902 TTATATATATACACTACATCAATTACACCATTTCATTCA
1 TTATACATATACACTACATCAATTACACCATTTCATTCA
52090941 AACGCACAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (39 bp):
TTATACATATACACTACATCAATTACACCATTTCATTCA
Found at i:52095128 original size:56 final size:57
Alignment explanation
Indices: 52094994--52095136 Score: 171
Period size: 57 Copynumber: 2.5 Consensus size: 57
52094984 CTATTAGCAT
* * * * * **
52094994 ATACCAATTTCACATAATTCATTCCTATATCAAATTCTATTATCAATCCATAAGTTC
1 ATACCAAATTCACATAATTCATTTCAATTTTAAATTCTATTATCAATCCATAAACTC
* *
52095051 ATACCAATTTCACATAATTCATTTTAATTTTAAATTCTATTATCAAT-CATAAACTC
1 ATACCAAATTCACATAATTCATTTCAATTTTAAATTCTATTATCAATCCATAAACTC
* * *
52095107 ATACTAAATTCACGTATTTCATTTCAATTT
1 ATACCAAATTCACATAATTCATTTCAATTT
52095137 CATACTCCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 32 0.43
57 42 0.57
ACGTcount: A:0.37, C:0.20, G:0.01, T:0.42
Consensus pattern (57 bp):
ATACCAAATTCACATAATTCATTTCAATTTTAAATTCTATTATCAATCCATAAACTC
Found at i:52095149 original size:56 final size:57
Alignment explanation
Indices: 52094994--52095151 Score: 156
Period size: 56 Copynumber: 2.8 Consensus size: 57
52094984 CTATTAGCAT
* * * * * * **
52094994 ATACCAATTTCACATAATTCATTCCTATATCAAATTCTATTATCAATCCATAAGTTC
1 ATACCAAATTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTC
* * * * *
52095051 ATACCAATTTCACATAATTCATTTTAATTTTAAATTCTATTATCAAT-CATAAACTC
1 ATACCAAATTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTC
* * * *
52095107 ATACTAAATTCACGTATTTCATTTCAATTTCATACTCCATTATCA
1 ATACCAAATTCACATAATTCATTTCAATTTCAAACTCCATTATCA
52095152 TTTTATAAGA
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
56 43 0.51
57 42 0.49
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (57 bp):
ATACCAAATTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTC
Found at i:52095598 original size:38 final size:38
Alignment explanation
Indices: 52095547--52095622 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52095537 GGTTGCTTCG
52095547 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
1 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
52095585 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
1 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
52095623 TACTGTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (38 bp):
CATTTTTACATCCTAAATCATTCACATTCACATATTCA
Found at i:52098087 original size:10 final size:10
Alignment explanation
Indices: 52098072--52098105 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
52098062 TCAATATGTA
52098072 TGCCCTGTTT
1 TGCCCTGTTT
52098082 TGCCCTGTTT
1 TGCCCTGTTT
* *
52098092 TTCCCTATTT
1 TGCCCTGTTT
52098102 TGCC
1 TGCC
52098106 ATGGTTTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.03, C:0.32, G:0.15, T:0.50
Consensus pattern (10 bp):
TGCCCTGTTT
Found at i:52098497 original size:5 final size:5
Alignment explanation
Indices: 52098489--52098519 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
52098479 GTTTCATTTA
*
52098489 AATTC AATTC AATTC AATTC AATCC AATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC A
52098520 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTC
Found at i:52100972 original size:25 final size:25
Alignment explanation
Indices: 52100924--52100972 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
52100914 CATAATTGAA
* * *
52100924 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
52100949 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
52100973 ATGCGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:52101417 original size:43 final size:43
Alignment explanation
Indices: 52101368--52101453 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
52101358 TATGTGATTG
52101368 ATATTGAAATGGA-AAAGATGAGAAATGAA-TATGAGATGAGAAA
1 ATATTGAAAT-GACAAAGATGAGAAAT-AATTATGAGATGAGAAA
*
52101411 ATATTGAAATGACAAATATGAGAAATAATTATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATAATTATGAGATGAGAAA
52101454 TTAAATATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.53, C:0.01, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATAATTATGAGATGAGAAA
Found at i:52101451 original size:18 final size:19
Alignment explanation
Indices: 52101428--52101468 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
52101418 AATGACAAAT
* *
52101428 ATGAGAAA-TAATTATGAG
1 ATGAGAAATTAAATATGAA
52101446 ATGAGAAATTAAATATGAA
1 ATGAGAAATTAAATATGAA
52101465 ATGA
1 ATGA
52101469 TGAATTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGAGAAATTAAATATGAA
Found at i:52102765 original size:15 final size:15
Alignment explanation
Indices: 52102722--52102771 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
52102712 CTGCCATTGC
52102722 ATATTATAATGTTATT
1 ATATTAT-ATGTTATT
52102738 AGTTAGTTTATATGTTATT
1 A--TA--TTATATGTTATT
52102757 ATATTATATGTTATT
1 ATATTATATGTTATT
52102772 CGTTAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 2 0.07
18 2 0.07
19 9 0.30
20 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (15 bp):
ATATTATATGTTATT
Found at i:52104465 original size:118 final size:118
Alignment explanation
Indices: 52104243--52104564 Score: 493
Period size: 118 Copynumber: 2.7 Consensus size: 118
52104233 CACAAATATG
*
52104243 AAACT-ATTTGACTAGTAATAATCCCAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
1 AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
* *
52104307 ACATATGAATTCTATGAAAATCACAAATATGAAAATAAATCAGTGCCAATTGC
66 ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
* *
52104360 AAAGTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTACTGAGTGTTCAAATTT
1 AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
52104425 ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
66 ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
* * * * * * *
52104478 AAACTGATTTGACTAATAGTAATCACAAATAAGGTCAGCACTTAGCAGTTGGTGAATGTTTAAAT
1 AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTA--ATTTGCTGAGTGTTCAAAT
* *
52104543 TTACATACGAATTCTCTGAAAA
64 TTACATATGAATTCTATGAAAA
52104565 GCATGAAGAA
Statistics
Matches: 186, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
117 4 0.02
118 148 0.80
120 34 0.18
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (118 bp):
AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
Found at i:52107286 original size:17 final size:18
Alignment explanation
Indices: 52107264--52107297 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
52107254 TATCCAAATA
52107264 CCAAAAAAAA-AAAAAAG
1 CCAAAAAAAACAAAAAAG
52107281 CCAAAAAAAACAAAAAA
1 CCAAAAAAAACAAAAAA
52107298 AAAACCTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (18 bp):
CCAAAAAAAACAAAAAAG
Found at i:52114200 original size:48 final size:46
Alignment explanation
Indices: 52114084--52114204 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 46
52114074 TGATATGTGT
*
52114084 GCTAGTGTAAGACATGTCTGAGACATGCATCGCCCACATTATGAGG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCCACATTATGAGG
* * * *
52114130 GCAAGTGTAAGACATGTTTGGGACATGCATCGGTCTCGAGATATAT-A-G
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-G-C-CCACAT-TATGAGG
*
52114178 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
52114205 GCGTCAGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 26 0.41
49 5 0.08
50 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCCACATTATGAGG
Found at i:52114352 original size:49 final size:49
Alignment explanation
Indices: 52114222--52114362 Score: 129
Period size: 49 Copynumber: 2.9 Consensus size: 49
52114212 CTTGTTGTGT
* * ** * * *
52114222 GTCAGTTTAAGACCTGTCTGGGACATGGCATCGACATCAATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGAACATGGCATCGACATTGATATATAAAA
* * * * * * *
52114271 GCCAGTGTAAGACTTGTCTAGAACACGACATCGGCCTTGATATATAAAA
1 GTCAGTGTAAGACCTGTCTGGAACATGGCATCGACATTGATATATAAAA
* * *
52114320 GTCAGTGTAAGACCTGTTTGGTACATGGCATCGACTTTGATAT
1 GTCAGTGTAAGACCTGTCTGGAACATGGCATCGACATTGATAT
52114363 GCTAGCCAGT
Statistics
Matches: 69, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGAACATGGCATCGACATTGATATATAAAA
Found at i:52118803 original size:18 final size:18
Alignment explanation
Indices: 52118770--52118805 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52118760 TACCATTGAA
* *
52118770 GTTTAACACGAGCATCAT
1 GTTTAACACAACCATCAT
52118788 GTTTAACACAACCATCAT
1 GTTTAACACAACCATCAT
52118806 ATTCCCGATG
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:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (18 bp):
GTTTAACACAACCATCAT
Found at i:52119891 original size:42 final size:42
Alignment explanation
Indices: 52119793--52119879 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
52119783 TCTTTTTCAA
52119793 TTTTT-CCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTTT
1 TTTTTACCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTTT
52119834 TTTTTACCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTTT
1 TTTTTACCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTTT
52119876 TTTT
1 TTTT
52119880 CTTTCTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.06, C:0.23, G:0.05, T:0.67
Consensus pattern (42 bp):
TTTTTACCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTTT
Found at i:52120486 original size:11 final size:11
Alignment explanation
Indices: 52120450--52120489 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
52120440 CATTACAATT
52120450 TTATCATTCTC
1 TTATCATTCTC
*
52120461 TTAT-ATGCTC
1 TTATCATTCTC
52120471 GTTATCATTCTC
1 -TTATCATTCTC
52120483 TTATCAT
1 TTATCAT
52120490 ACTAAGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 5 0.20
11 15 0.60
12 5 0.20
ACGTcount: A:0.20, C:0.23, G:0.05, T:0.53
Consensus pattern (11 bp):
TTATCATTCTC
Found at i:52121088 original size:31 final size:31
Alignment explanation
Indices: 52121050--52121109 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
52121040 AATATTTATC
52121050 AAGATAATCACTTCAATATTAAATTAATATT
1 AAGATAATCACTTCAATATTAAATTAATATT
52121081 AAGATAATCACTTCAATATTAAATTAATA
1 AAGATAATCACTTCAATATTAAATTAATA
52121110 AAATACTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (31 bp):
AAGATAATCACTTCAATATTAAATTAATATT
Found at i:52126389 original size:27 final size:27
Alignment explanation
Indices: 52126359--52126411 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
52126349 GTCGATAAGG
* *
52126359 CATTCCTTTCAGAGTGTGCCACAAAGC
1 CATTCCTTTCAAAGTGTGCCAAAAAGC
*
52126386 CATTCCTTTCAAAGTGTTCCAAAAAG
1 CATTCCTTTCAAAGTGTGCCAAAAAG
52126412 GTTAATAGGA
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:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
CATTCCTTTCAAAGTGTGCCAAAAAGC
Found at i:52130793 original size:17 final size:16
Alignment explanation
Indices: 52130767--52130838 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 16
52130757 TACCTATGCG
52130767 ATGTATCTTCAAGTAC
1 ATGTATCTTCAAGTAC
*
52130783 ATGTATCCTTCAAGTTC
1 ATGTAT-CTTCAAGTAC
* * * *
52130800 ATGAATCCTC-CGATGC
1 ATGTATCTTCAAG-TAC
*
52130816 AATGTATCTTTAAGTAC
1 -ATGTATCTTCAAGTAC
52130833 ATGTAT
1 ATGTAT
52130839 GATCATTAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
15 1 0.02
16 17 0.40
17 23 0.55
18 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (16 bp):
ATGTATCTTCAAGTAC
Found at i:52133453 original size:46 final size:45
Alignment explanation
Indices: 52133359--52133453 Score: 104
Period size: 46 Copynumber: 2.1 Consensus size: 45
52133349 GGTTTAGTAA
* *** *
52133359 CAGAAGCAATTTCAGTTCGGATTTAGAACAGATCAATTGCATATG
1 CAGAAGCAATTTCAGTTCAGAAACAGAACAGATCAATTGCAGATG
52133404 CAGAAGCAATTTCAGTTTCAGAAACAGAACATGA-CAGATT-CAGATG
1 CAGAAGCAATTTCAG-TTCAGAAACAGAACA-GATCA-ATTGCAGATG
52133450 CAGA
1 CAGA
52133454 TATTCCTACC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
45 15 0.36
46 22 0.52
47 5 0.12
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (45 bp):
CAGAAGCAATTTCAGTTCAGAAACAGAACAGATCAATTGCAGATG
Found at i:52134917 original size:23 final size:24
Alignment explanation
Indices: 52134891--52134937 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
52134881 CTTTTTTATA
52134891 TTTTTT-T-AATTTGAAAGAGTTT
1 TTTTTTCTAAATTTGAAAGAGTTT
52134913 TTTTTTCTAAATTTGAAAGAGTTT
1 TTTTTTCTAAATTTGAAAGAGTTT
52134937 T
1 T
52134938 AGAGAGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.26
23 1 0.04
24 16 0.70
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (24 bp):
TTTTTTCTAAATTTGAAAGAGTTT
Found at i:52140116 original size:26 final size:26
Alignment explanation
Indices: 52140087--52140170 Score: 152
Period size: 26 Copynumber: 3.2 Consensus size: 26
52140077 TGGTACAAAT
52140087 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
52140113 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52140139 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52140165 TGATAA
1 TGATAA
52140171 GAATTTCATG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 54 0.95
27 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:52141676 original size:26 final size:26
Alignment explanation
Indices: 52141638--52141687 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
52141628 CTATGTATGG
*
52141638 AAAATTACTGTTATACCCCTAGGTGC
1 AAAATTACCGTTATACCCCTAGGTGC
52141664 AAAATTACCGTTATACCCCTAGGT
1 AAAATTACCGTTATACCCCTAGGT
52141688 TTAATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (26 bp):
AAAATTACCGTTATACCCCTAGGTGC
Found at i:52141830 original size:27 final size:27
Alignment explanation
Indices: 52141789--52141901 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 27
52141779 GAGGAAGCGT
* * *
52141789 TCTGGTGGCTATGCCACAAATATTTGA
1 TCTGGTGACTCTGCCACAAATATCTGA
* *
52141816 TCTGGTGACTCTGCCACATATATCTGT
1 TCTGGTGACTCTGCCACAAATATCTGA
* * * *
52141843 TCTGGTGGCTCTGCCCCGATTATCTGTA
1 TCTGGTGACTCTGCCACAAATATCTG-A
* * *
52141871 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGACTCTGCCACAAATATCTGA
52141897 TCTGG
1 TCTGG
52141902 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
26 5 0.07
27 51 0.73
28 14 0.20
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGGTGACTCTGCCACAAATATCTGA
Found at i:52141894 original size:54 final size:54
Alignment explanation
Indices: 52141787--52141901 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
52141777 TGGAGGAAGC
*
52141787 GTTCTGGTGGCTATGCCACAAATATTTGATCTGGTGACTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
52141841 GTTCTGGTGGCTCTGCCCCGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
52141895 GTTCTGG
1 GTTCTGG
52141902 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.65
55 19 0.35
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:52144013 original size:19 final size:21
Alignment explanation
Indices: 52143978--52144016 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
52143968 ATTTTTTTCC
52143978 TCCTTCGTCCGTTCTTCATCT
1 TCCTTCGTCCGTTCTTCATCT
52143999 TCCTTC-TCC-TTCTTCATC
1 TCCTTCGTCCGTTCTTCATC
52144017 CAGGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.05, C:0.41, G:0.05, T:0.49
Consensus pattern (21 bp):
TCCTTCGTCCGTTCTTCATCT
Found at i:52144862 original size:15 final size:14
Alignment explanation
Indices: 52144828--52144862 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
52144818 ACTGACTTAG
52144828 GTTATTATCCCCCT
1 GTTATTATCCCCCT
52144842 GATTATTATCCCCCT
1 G-TTATTATCCCCCT
52144857 AGTTAT
1 -GTTAT
52144863 CATTCCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 17 0.89
16 1 0.05
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.43
Consensus pattern (14 bp):
GTTATTATCCCCCT
Found at i:52148732 original size:41 final size:40
Alignment explanation
Indices: 52148673--52148785 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 40
52148663 AATAGGGCTT
** * *
52148673 TAGCGGCATTTTTGGTAAAACGCCGCTAAAAAATAGAGCAA
1 TAGCGGCGCTTTT-GTAAAACGCTGCTAAAAAACAGAGCAA
* * * *
52148714 TGGCGGTGCTTTCTGTAAAACGCTGCTAAAAACCAGAGCAT
1 TAGCGGCGCTTT-TGTAAAACGCTGCTAAAAAACAGAGCAA
52148755 TAGCGGCGCTTTTGATAAAACGCTGCTAAAA
1 TAGCGGCGCTTTTG-TAAAACGCTGCTAAAA
52148786 CTCATATAAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.03
41 57 0.95
42 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (40 bp):
TAGCGGCGCTTTTGTAAAACGCTGCTAAAAAACAGAGCAA
Found at i:52148821 original size:18 final size:18
Alignment explanation
Indices: 52148800--52148834 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52148790 TATAACCCCT
* *
52148800 AAAATCCTAAACCCTAAA
1 AAAATCATAAACACTAAA
52148818 AAAATCATAAACACTAA
1 AAAATCATAAACACTAA
52148835 TCTATAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATCATAAACACTAAA
Found at i:52149575 original size:66 final size:66
Alignment explanation
Indices: 52149505--52149634 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
52149495 TAACCCTTTA
* * * *
52149505 AATCAACAACCCTTTAAACCCCAAACCTTAAATCTCTAATCATAAACCCCTAAAACTATAAACAC
1 AATCAACAACCCTTTAAACACCAAACCCTAAATATCAAATCATAAACCCCTAAAACTATAAACAC
52149570 T
66 T
* * * * *
52149571 AATCAATAACTCTTTAAACACCAGACCCTAAATATCAAATCATAAACCCTTAAAACTCTAAACA
1 AATCAACAACCCTTTAAACACCAAACCCTAAATATCAAATCATAAACCCCTAAAACTATAAACA
52149635 ACAAACCTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (66 bp):
AATCAACAACCCTTTAAACACCAAACCCTAAATATCAAATCATAAACCCCTAAAACTATAAACAC
T
Found at i:52149689 original size:22 final size:22
Alignment explanation
Indices: 52149595--52149689 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 22
52149585 TAAACACCAG
*
52149595 ACCC-TAAATATCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
*
52149616 ACCCTTAAAACTCTAAA-CA-ACA
1 ACCCTTAAATCTC-AAATCATA-A
* * * *
52149638 AACCTT-AATCCCAACACCCTAA
1 ACCCTTAAATCTCAA-ATCATAA
*
52149660 ACTC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
52149681 ACCCTTAAA
1 ACCCTTAAA
52149690 ACTCCAACCC
Statistics
Matches: 54, Mismatches: 12, Indels: 15
0.67 0.15 0.19
Matches are distributed among these distances:
20 2 0.04
21 19 0.35
22 29 0.54
23 4 0.07
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
ACCCTTAAATCTCAAATCATAA
Found at i:52149732 original size:65 final size:65
Alignment explanation
Indices: 52149512--52149732 Score: 198
Period size: 65 Copynumber: 3.4 Consensus size: 65
52149502 TTAAATCAAC
* * * * * *
52149512 AACCCTTTAAACCCCAAACCTTAAATCTCTAATCATAAACCCCTAAAACT-ATAAACACTAATCA
1 AACCC-TTAAACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCA-AACCACTAAACC
52149576 AT
64 AT
* * * * *
52149578 AACTCTTTAAACACCAGACCCTAAATATCAAATCATAAACCCTTAAAACTCTAAACAAC-AAACC
1 AAC-CCTTAAACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTC-AAACCACTAAACC
*
52149642 TT
64 AT
* * * *
52149644 AATCCC--AACACCCTAAACTCTAAATCTCAAATCATAAACCCTTAAAACTCCAACCCCTAAACC
1 AA-CCCTTAA-ACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCACTAAACC
*
52149707 CT
64 AT
*
52149709 AACCCTTAAACCCCACACCCTAAA
1 AACCCTTAAACCCCAAACCCTAAA
52149733 ACAATGGTTT
Statistics
Matches: 122, Mismatches: 25, Indels: 17
0.74 0.15 0.10
Matches are distributed among these distances:
64 9 0.07
65 56 0.46
66 50 0.41
67 6 0.05
68 1 0.01
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.21
Consensus pattern (65 bp):
AACCCTTAAACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCAAACCACTAAACCAT
Found at i:52150036 original size:8 final size:7
Alignment explanation
Indices: 52150010--52150035 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
52150000 AAATAAACTC
52150010 AAAAATT
1 AAAAATT
52150017 AAAAATT
1 AAAAATT
52150024 AAAAATT
1 AAAAATT
52150031 AAAAA
1 AAAAA
52150036 ACTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:52150038 original size:30 final size:30
Alignment explanation
Indices: 52150004--52150060 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
52149994 AATAAAAAAT
*
52150004 AAACTCAAAAATTAAAAATTAAAAATTAAA
1 AAACTAAAAAATTAAAAATTAAAAATTAAA
* * *
52150034 AAACTAAAAAATTTAAATTTTAAAATT
1 AAACTAAAAAATTAAAAATTAAAAATT
52150061 TAATATTTTA
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:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (30 bp):
AAACTAAAAAATTAAAAATTAAAAATTAAA
Found at i:52150042 original size:14 final size:14
Alignment explanation
Indices: 52150004--52150043 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
52149994 AATAAAAAAT
52150004 AAACTCAAAAATTAA
1 AAACT-AAAAATTAA
*
52150019 AAATTAAAAATTAAA
1 AAACTAAAAATT-AA
52150034 AAACTAAAAA
1 AAACTAAAAA
52150044 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACTAAAAATTAA
Found at i:52150058 original size:14 final size:15
Alignment explanation
Indices: 52150041--52150070 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52150031 AAAAAACTAA
52150041 AAAATTTAA-ATTTT
1 AAAATTTAATATTTT
52150055 AAAATTTAATATTTT
1 AAAATTTAATATTTT
52150070 A
1 A
52150071 GTCCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATTTAATATTTT
Found at i:52159188 original size:19 final size:20
Alignment explanation
Indices: 52159164--52159201 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52159154 GGTACCACCA
52159164 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52159183 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52159202 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52159500 original size:47 final size:49
Alignment explanation
Indices: 52159426--52159555 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 49
52159416 AACCCGCCCC
*
52159426 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * * *
52159474 TCA-CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
52159519 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
52159556 TCAACCATCC
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.09
44 3 0.04
45 3 0.04
46 26 0.38
47 26 0.38
48 3 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:52159571 original size:46 final size:45
Alignment explanation
Indices: 52159428--52159571 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
52159418 CCCGCCCCTA
52159428 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
52159475 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCT-CAACCATCT
52159521 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
52159567 AGTGA
1 AGTGA
52159572 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 8 0.10
45 3 0.04
46 31 0.40
47 29 0.38
48 2 0.03
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:52167180 original size:27 final size:27
Alignment explanation
Indices: 52167135--52167195 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
52167125 AATTTTTATT
*
52167135 GTAATATAAAAGTATGTTTAAAAATAA
1 GTAATATAAAAGCATGTTTAAAAATAA
* *
52167162 GTAATA-AAAAGCATGGTTTGAAACTAA
1 GTAATATAAAAGCAT-GTTTAAAAATAA
52167189 GTAATAT
1 GTAATAT
52167196 TAACACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (27 bp):
GTAATATAAAAGCATGTTTAAAAATAA
Found at i:52169658 original size:50 final size:50
Alignment explanation
Indices: 52169588--52169904 Score: 257
Period size: 50 Copynumber: 6.6 Consensus size: 50
52169578 TCAAAGTCGG
*
52169588 TGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
* * * * *
52169638 TGCCATGTCCCA-ATCATGGTCTTACACTGGCTTTCATCTGTCGATGCCGA
1 TGCCATGTCCCAGA-CATGGTCTTACACTGACTCTCATATATCGAGGCCGA
* * * *
52169688 TGCCATGTCCTAGACATGGTCTTACATTGA----CACATATC-AAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
* * * * *
52169733 TGCCATGTCTCAGACATAGTCTTACACT-AGCTTTCATATCTCGAGGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCGA
* ** * * * * *
52169783 TGCCATATCTTAGACATGGTCTTACA-TTAGCTCTCGTCT-T-AATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCGA
* * * *
52169831 TGCCATGTCCCAGACAGGGTCTTACACTGGCTCTCATA-AT-GTGGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
*
52169879 TG-CATGTCCCAGGCAT-GTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
52169905 AGCACACATG
Statistics
Matches: 212, Mismatches: 44, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
44 1 0.00
45 30 0.14
46 15 0.07
47 12 0.06
48 40 0.19
49 10 0.05
50 103 0.49
51 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
Found at i:52169766 original size:95 final size:97
Alignment explanation
Indices: 52169588--52169810 Score: 281
Period size: 95 Copynumber: 2.3 Consensus size: 97
52169578 TCAAAGTCGG
* * *
52169588 TGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCCAATC
1 TGCCATGTCCTAGACATGGTCTTACATTGA--C-CACATATCGAAGCCGATGCCATGTCCCAATC
* * * * *
52169653 ATGGTCTTACACTGGCTTTCATCTGTCGATGCCGA
63 ATAGTCTTACACTAGCTTTCATATCTCGAGGCCGA
*
52169688 TGCCATGTCCTAGACATGGTCTTACATTGA-CACATATC-AAGCCGATGCCATGTCTCAGA-CAT
1 TGCCATGTCCTAGACATGGTCTTACATTGACCACATATCGAAGCCGATGCCATGTCCCA-ATCAT
*
52169750 AGTCTTACACTAGCTTTCATATCTCGAGGCTGA
65 AGTCTTACACTAGCTTTCATATCTCGAGGCCGA
* *
52169783 TGCCATATCTTAGACATGGTCTTACATT
1 TGCCATGTCCTAGACATGGTCTTACATT
52169811 AGCTCTCGTC
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
95 73 0.66
96 8 0.07
100 29 0.26
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (97 bp):
TGCCATGTCCTAGACATGGTCTTACATTGACCACATATCGAAGCCGATGCCATGTCCCAATCATA
GTCTTACACTAGCTTTCATATCTCGAGGCCGA
Found at i:52169801 original size:145 final size:146
Alignment explanation
Indices: 52169532--52169861 Score: 375
Period size: 145 Copynumber: 2.3 Consensus size: 146
52169522 CATAGGGTAA
* * * * * *
52169532 GATGCCGACGCCATGTCTTGGACATGGTCTTACACTGGCTCACACATCAAAGTCGGTGCCATGTC
1 GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGTC
* *
52169597 CTAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCCAATCATGGTCTTA
66 CTAGACATAGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATATCCCAATCATGGTCTTA
* *
52169662 CACTGGCTTTCATCTGT
131 CACTAGCTCTCATCT-T
* *
52169679 CGATGCCGATGCCATGTCCTAGACATGGTCTTACA-TTG-ACACATATC-AAGCCGATGCCATGT
1 -GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGT
* * * **
52169741 -CTCAGACATAGTCTTACACT-AGCTTTCATATCTCGAGGCTGATGCCATATCTTAGA-CATGGT
65 CCT-AGACATAGTCTTACACTGA-CTCTCATATATCGAGGCCGATGCCATATCCCA-ATCATGGT
* *
52169803 CTTACATTAGCTCTCGTCTT
127 CTTACACTAGCTCTCATCTT
* * *
52169823 AATGCCGATGCCATGTCCCAGACAGGGTCTTACACTGGC
1 GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
52169862 TCTCATAATG
Statistics
Matches: 154, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
143 31 0.20
144 6 0.04
145 76 0.49
146 8 0.05
147 2 0.01
148 31 0.20
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (146 bp):
GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGTC
CTAGACATAGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATATCCCAATCATGGTCTTA
CACTAGCTCTCATCTT
Found at i:52170974 original size:40 final size:40
Alignment explanation
Indices: 52170930--52171011 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
52170920 GAAAAAGATT
52170930 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
1 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
52170970 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
1 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
52171010 AC
1 AC
52171012 CTAATGCCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.46
Consensus pattern (40 bp):
ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
Found at i:52173811 original size:24 final size:25
Alignment explanation
Indices: 52173771--52173818 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
52173761 TAGTAAACAG
* *
52173771 GTTATAAGGAGATGAAATGTGAAAC
1 GTTATAAGAAGATGAAAGGTGAAAC
52173796 GTTA-AAGAAGATGAAAGGTGAAA
1 GTTATAAGAAGATGAAAGGTGAAA
52173819 GGTTGATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (25 bp):
GTTATAAGAAGATGAAAGGTGAAAC
Found at i:52175787 original size:41 final size:45
Alignment explanation
Indices: 52175667--52175792 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 45
52175657 CTCACACAAT
* * *
52175667 AAGTGCCAATAATAATATAGCCGAAGCTATCTCAATAATCTTGCACCCG
1 AAGTGCCAAT-AT-ACATAGCCGAAGCTATCTCGATAA--TTGCACACG
* *
52175716 AAGTGCCAATATACATAGCTGAAGCCATCTCGATAA-TGCACACG
1 AAGTGCCAATATACATAGCCGAAGCTATCTCGATAATTGCACACG
52175760 AAGTGCC-A-AT-CATAGCCGAAGCTATCTCGATAA
1 AAGTGCCAATATACATAGCCGAAGCTATCTCGATAA
52175793 CTATCCCTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
41 21 0.30
42 2 0.03
43 1 0.01
44 14 0.20
47 20 0.29
48 2 0.03
49 10 0.14
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (45 bp):
AAGTGCCAATATACATAGCCGAAGCTATCTCGATAATTGCACACG
Found at i:52176374 original size:21 final size:20
Alignment explanation
Indices: 52176345--52176383 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
52176335 CAAAACTTGT
52176345 ATAATTATCATCAAACATTC
1 ATAATTATCATCAAACATTC
52176365 ATAATCTATCATCAAACAT
1 ATAAT-TATCATCAAACAT
52176384 CAAAATACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATTATCATCAAACATTC
Found at i:52184045 original size:20 final size:21
Alignment explanation
Indices: 52184020--52184064 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
52184010 TCAATTAACA
52184020 AAACTTGT-ATAA-CTATCATC
1 AAACTT-TCATAATCTATCATC
52184040 AAACTTTCATAATCTATCATC
1 AAACTTTCATAATCTATCATC
52184061 AAAC
1 AAAC
52184065 ATCAAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.04
20 10 0.43
21 12 0.52
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (21 bp):
AAACTTTCATAATCTATCATC
Found at i:52189141 original size:29 final size:29
Alignment explanation
Indices: 52189109--52189185 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
52189099 AAATCCCCGG
*
52189109 TGGTGATCTCTGTTATAAGAAAGCCTTTA
1 TGGTGATCTCTGTTATAAAAAAGCCTTTA
* *
52189138 TGGTAATCTCTGTTATAAAAAAGTCTTTA
1 TGGTGATCTCTGTTATAAAAAAGCCTTTA
52189167 TGGTGATCTCT-TCTATAAA
1 TGGTGATCTCTGT-TATAAA
52189186 GATTCCTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 1 0.02
29 42 0.98
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (29 bp):
TGGTGATCTCTGTTATAAAAAAGCCTTTA
Found at i:52189204 original size:29 final size:28
Alignment explanation
Indices: 52189172--52189264 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 28
52189162 CTTTATGGTG
* *
52189172 ATCTCTTCTATAAAGATTCCTTTGTGGCT
1 ATCTCTT-TATAAGGATACCTTTGTGGCT
* *
52189201 ATCTTTGTTATAAGGATGA-ATTTGTGGCT
1 ATCTCT-TTATAAGGAT-ACCTTTGTGGCT
52189230 ATCTCTGTTATAAGGATACCTTTGTGGCT
1 ATCTCT-TTATAAGGATACCTTTGTGGCT
*
52189259 ACCTCT
1 ATCTCT
52189265 ATTAAAAGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 1 0.02
29 52 0.96
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (28 bp):
ATCTCTTTATAAGGATACCTTTGTGGCT
Found at i:52193670 original size:46 final size:45
Alignment explanation
Indices: 52193571--52193696 Score: 164
Period size: 46 Copynumber: 2.7 Consensus size: 45
52193561 CTATGAGAGC
* *
52193571 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGGGACAAGTG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACAAGTG
* *
52193618 CTAGTGTAAGACGTGTCTGGGACATGCATCGGCCTTGAGACGTAAGT-
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC--AAGTG
52193665 CAGTGTAAGACATGTCTGGGACATGCATCGGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGC
52193697 TACGAGATCT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
46 44 0.62
47 14 0.20
48 13 0.18
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAAGTG
Found at i:52196634 original size:41 final size:40
Alignment explanation
Indices: 52196573--52196682 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 40
52196563 CAATGTGGGT
*
52196573 CTTAGCCTACTTAGATACAGAATCAGATATAAATTAGGGC
1 CTTAGCCTACTCAGATACAGAATCAGATATAAATTAGGGC
* *
52196613 CTTAGCCTAGCTCAGATACAGAGTCAGGA-ATATATTAGGGC
1 CTTAGCCTA-CTCAGATACAGAATCA-GATATAAATTAGGGC
* * *
52196654 CTCAGCCCAATCAGATACAGAATGCAGAT
1 CTTAGCCTACTCAGATACAGAAT-CAGAT
52196683 CAGAATATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
40 23 0.39
41 34 0.58
42 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTAGCCTACTCAGATACAGAATCAGATATAAATTAGGGC
Found at i:52199733 original size:19 final size:20
Alignment explanation
Indices: 52199700--52199737 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52199690 TACCCAAATG
52199700 GTACAACTTGAAAAGGTTAT
1 GTACAACTTGAAAAGGTTAT
*
52199720 GTAC-ACTTGGAAAGGTTA
1 GTACAACTTGAAAAGGTTA
52199738 GATATACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (20 bp):
GTACAACTTGAAAAGGTTAT
Found at i:52206470 original size:38 final size:38
Alignment explanation
Indices: 52206428--52206503 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52206418 CTTTACTTAT
52206428 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
1 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
52206466 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
1 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
52206504 CCATTGAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.18
Consensus pattern (38 bp):
TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
Found at i:52207528 original size:30 final size:30
Alignment explanation
Indices: 52207494--52207554 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52207484 TCCTTAACTC
*
52207494 AAACTTTTGCAAAATTATAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
52207524 AAACTTTTTCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
52207554 A
1 A
52207555 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:52212478 original size:50 final size:48
Alignment explanation
Indices: 52212368--52212691 Score: 259
Period size: 50 Copynumber: 6.7 Consensus size: 48
52212358 TGATATGTGT
* * *
52212368 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAGA
* * * *
52212414 GCTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAAGACCTGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATA--TGAGA
* ** **
52212464 GCTAGTGTAAGACCATATCTGGGACATGGCATCGG-CTTGATATTTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAGA
* * * * * *
52212510 TC-AGTGTAAAACCATGTCTAGGATATGGCATCGGCACTGACAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCA-ATATGAGA
* *
52212559 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-A-ATATGAGA
* * ** *
52212609 G-TCAGTGTAAGACCATGCCTGGGACATGGCATCGAG-TTTGATGT-ATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCG-GCCTCAATATGA-GA
* * *
52212657 GCCAGTGTAAGACCATGTCTGGGATATGGCGTCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
52212692 TATCTTACCC
Statistics
Matches: 220, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
45 28 0.13
46 12 0.05
47 18 0.08
48 50 0.23
49 7 0.03
50 104 0.47
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAGA
Found at i:52212539 original size:95 final size:96
Alignment explanation
Indices: 52212425--52212642 Score: 253
Period size: 95 Copynumber: 2.2 Consensus size: 96
52212415 CTAGTATAAG
* * *
52212425 ACCATGTTTGGGACATGGCATCGGC-CTCA-AGACCTGAAAGCTAGTGTAAGACCATATCTGGGA
1 ACCATGTCTAGGACATGGCATCGGCACTCACAGA--TGAAAGCCAGTGTAAGACCATATCTGGGA
*
52212488 CATGGCATCGG-CTTGATATTTGTCAGTGTAAA
64 CATGGCATCGGTCTCGATATTTGTCAGTGTAAA
* * * *
52212520 ACCATGTCTAGGATATGGCATCGGCACTGACAGATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 ACCATGTCTAGGACATGGCATCGGCACTCACAGATGAAAGCCAGTGTAAGACCATATCTGGGACA
* *
52212585 TGGCATCGGTCTCGATATATGAGAGTCAGTGTAAG
66 TGGCATCGGTCTCGATAT-T---TGTCAGTGTAAA
* *
52212620 ACCATGCCTGGGACATGGCATCG
1 ACCATGTCTAGGACATGGCATCG
52212643 AGTTTGATGT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
95 59 0.57
96 10 0.10
97 4 0.04
100 30 0.29
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (96 bp):
ACCATGTCTAGGACATGGCATCGGCACTCACAGATGAAAGCCAGTGTAAGACCATATCTGGGACA
TGGCATCGGTCTCGATATTTGTCAGTGTAAA
Found at i:52212619 original size:145 final size:147
Alignment explanation
Indices: 52212421--52212691 Score: 359
Period size: 145 Copynumber: 1.9 Consensus size: 147
52212411 AGGGCTAGTA
* * *
52212421 TAAGACCATGTTTGGGACATGGCATCGGCCTCAAGACCTGAAAGCTAGTGTAAGACCATATCTGG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCAAGACATGAAAGCTAGTGTAAGACCATACCTGG
** *
52212486 GACATGGCATCG-GCTTGA-TATTTGTCAGTGTAAAACCATGTCTAGGATATGGCATCGGCACTG
66 GACATGGCATCGAGCTTGAGTATGAGCCAGTGTAAAACCATGTCTAGGATATGGCATCGGCACTG
52212549 ACAGATGAGAGCCAGTG
131 ACAGATGAGAGCCAGTG
* * * * * *
52212566 TAAGACCATGTCTGGGACATGGCATCGGTCTCGATATATGAGAG-TCAGTGTAAGACCATGCCTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCAAGACATGAAAGCT-AGTGTAAGACCATACCTG
* * * *
52212630 GGACATGGCATCGAGTTTGATGTATGAGCCAGTGTAAGACCATGTCTGGGATATGGCGTCGG
65 GGACATGGCATCGAGCTTGA-GTATGAGCCAGTGTAAAACCATGTCTAGGATATGGCATCGG
52212692 TATCTTACCC
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
144 1 0.01
145 66 0.62
146 5 0.05
148 34 0.32
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (147 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCAAGACATGAAAGCTAGTGTAAGACCATACCTGG
GACATGGCATCGAGCTTGAGTATGAGCCAGTGTAAAACCATGTCTAGGATATGGCATCGGCACTG
ACAGATGAGAGCCAGTG
Found at i:52217478 original size:21 final size:21
Alignment explanation
Indices: 52217445--52217485 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
52217435 TGGGGAAATT
*
52217445 CAAAATAAATAAT-AATAAAA
1 CAAAAAAAATAATAAATAAAA
52217465 CAAAAAAAAGTAATAAATAAA
1 CAAAAAAAA-TAATAAATAAA
52217486 TAAATCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (21 bp):
CAAAAAAAATAATAAATAAAA
Found at i:52218952 original size:178 final size:176
Alignment explanation
Indices: 52218763--52219198 Score: 613
Period size: 177 Copynumber: 2.5 Consensus size: 176
52218753 CTTCTAGCTT
*
52218763 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCGTCTTTGATTTGCTCCACTACTGCT
1 AAATCTGCTCCATT-CTGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCT
* * *
52218828 TAGGGAGATAAGATCTATAACTTTCAGTCTACTCCCTTGCTACCTCAGGAAAGATAAGACTTGTA
65 TAGGGAGATAAGATCTACAACTTTCAGTCTACTCCCTTACTACCTCAAG-AAGATAAGACTTGTA
* *
52218893 TCTTCAACCTGCTCTC-CTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
129 TCTTCAACCTGCTC-CACTGCAACCTCAGAGAGACAAGGCTAGTGGCTA
* *
52218941 AAATTTGCTCCATTGCCGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCT
1 AAATCTGCTCCATT-CTGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCT
* * *
52219006 TAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTACTACCTCAAGAAGATAAGACTTGTAT
65 TAGGGAGATAAGATCTACAACTTTCAGTCTACTCCCTTACTACCTCAAGAAGATAAGACTTGTAT
* * * * *
52219071 CTTGAACCTGCTCCACTGCAACTTCAGGGAGACGAGGCTGGTGGCTA
130 CTTCAACCTGCTCCACTGCAACCTCAGAGAGACAAGGCTAGTGGCTA
* * * * * * *
52219118 AAATCTACTCCATTTTCGATACATGGAGATAAGATTCGCCGTCTTCAATTTACTCCTCTACAGCT
1 AAATCTGCTCCATTCT-GATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCT
52219183 TAGGGAGATAAGATCT
65 TAGGGAGATAAGATCT
52219199 GTGATTTTCA
Statistics
Matches: 230, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
176 1 0.00
177 125 0.54
178 104 0.45
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (176 bp):
AAATCTGCTCCATTCTGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTT
AGGGAGATAAGATCTACAACTTTCAGTCTACTCCCTTACTACCTCAAGAAGATAAGACTTGTATC
TTCAACCTGCTCCACTGCAACCTCAGAGAGACAAGGCTAGTGGCTA
Found at i:52219163 original size:177 final size:178
Alignment explanation
Indices: 52218713--52219208 Score: 647
Period size: 178 Copynumber: 2.8 Consensus size: 178
52218703 TAAGATTCGC
** * * * ** * *
52218713 TATCTTCAGTCTGTTCCACTGCAACTTCAAGGAGATAAGACTTCTAGCTTAAATCTGCTCCA-TT
1 TATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTT
*
52218777 ACTGATACATGGAGATAAGATTCACCGTCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGAT
66 AC-GATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGAT
* * * *
52218842 CTATAACTTTCAGTCTACTCCCTTGCTACCTCAGGAAAGATAAGACTTG
130 CTGTAATTTTCAGTCTACTCCCTTACTACCTCAAGAAAGATAAGACTTG
* * * *
52218891 TATCTTCAACCTGCTCTC-CTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATTTGCTCCATT
1 TATCTTCAACCTGCTC-CACTGCAACTTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCATT
**
52218955 GCCGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGAT
65 TACGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGAT
* *
52219020 CTGCAATTTTCAGTCTACTTCCTTACTACCTCAAG-AAGATAAGACTTG
130 CTGTAATTTTCAGTCTACTCCCTTACTACCTCAAGAAAGATAAGACTTG
* ** * *
52219068 TATCTTGAACCTGCTCCACTGCAACTTCAGGGAGACGAGGCTGGTGGCTAAAATCTACTCCATTT
1 TATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTT
* * * * * *
52219133 TCGATACATGGAGATAAGATTCGCCGTCTTCAATTTACTCCTCTACAGCTTAGGGAGATAAGATC
66 ACGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATC
*
52219198 TGTGATTTTCA
131 TGTAATTTTCA
52219209 CTGATGTTGC
Statistics
Matches: 275, Mismatches: 40, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
176 1 0.00
177 134 0.49
178 137 0.50
179 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (178 bp):
TATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTT
ACGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATC
TGTAATTTTCAGTCTACTCCCTTACTACCTCAAGAAAGATAAGACTTG
Done.