Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 163 of 172
Found at i:47859377 original size:16 final size:18
Alignment explanation
Indices: 47859347--47859380 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
47859337 AAATTTAAAA
47859347 TAAAAAACTATTATATTT
1 TAAAAAACTATTATATTT
47859365 TAAAAAA-TA-TATATTT
1 TAAAAAACTATTATATTT
47859381 AATATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAAAACTATTATATTT
Found at i:47860378 original size:29 final size:29
Alignment explanation
Indices: 47860338--47860399 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
47860328 AAAAATCAAT
*
47860338 TAATTGAGTGACCAAAATAAGAAA-AATGA
1 TAATTGAGTGACCAAAATAA-AAATAATAA
*
47860367 TAATT-AGATGACCGAAATAAAAATAATAA
1 TAATTGAG-TGACCAAAATAAAAATAATAA
47860396 TAAT
1 TAAT
47860400 AATAATTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.56, C:0.06, G:0.13, T:0.24
Consensus pattern (29 bp):
TAATTGAGTGACCAAAATAAAAATAATAA
Found at i:47871137 original size:16 final size:16
Alignment explanation
Indices: 47871113--47871164 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
47871103 TGGTTCATTA
*
47871113 TAATGGAATATAACTG
1 TAATGGAATAAAACTG
* * *
47871129 TAATTGAATAGAGCTG
1 TAATGGAATAAAACTG
*
47871145 TAATGGAATAAAATTG
1 TAATGGAATAAAACTG
47871161 TAAT
1 TAAT
47871165 CAGTAATTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (16 bp):
TAATGGAATAAAACTG
Found at i:47871394 original size:58 final size:57
Alignment explanation
Indices: 47871341--47871464 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 57
47871331 TTTTAATAAG
47871341 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATTTTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACCATATTTTAACATA
* * ** * *
47871399 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCATATT-TTAACATA
47871457 ATTATTAT
1 ATTATTAT
47871465 ATGAATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.37
58 37 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCATATTTTAACATA
Found at i:47874454 original size:24 final size:25
Alignment explanation
Indices: 47874409--47874456 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
47874399 GAAGAAAAGA
*
47874409 GTTAACAGAAAAAATGGCAATAAAT
1 GTTAACAGAAAAAATGGAAATAAAT
47874434 GTTAA-AGAAAAAA-GGAAAATAAA
1 GTTAACAGAAAAAATGG-AAATAAA
47874457 GACACAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.67
25 5 0.24
ACGTcount: A:0.62, C:0.04, G:0.17, T:0.17
Consensus pattern (25 bp):
GTTAACAGAAAAAATGGAAATAAAT
Found at i:47874604 original size:23 final size:25
Alignment explanation
Indices: 47874555--47874615 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 25
47874545 AAATGTTGAG
47874555 GAAGAAATCTGCTGAAGTGAAAAAGTT
1 GAAGAAATCTGCT--AGTGAAAAAGTT
*
47874582 GAAGAAATCTGCT-G-GAAAGAGTT
1 GAAGAAATCTGCTAGTGAAAAAGTT
47874605 GAAGAAATCTG
1 GAAGAAATCTG
47874616 AGGGAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 19 0.58
24 1 0.03
27 13 0.39
ACGTcount: A:0.43, C:0.08, G:0.28, T:0.21
Consensus pattern (25 bp):
GAAGAAATCTGCTAGTGAAAAAGTT
Found at i:47874621 original size:23 final size:23
Alignment explanation
Indices: 47874573--47874621 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
47874563 CTGCTGAAGT
**
47874573 GAAAAAGTTGAAGAAATCTGCTG
1 GAAAAAGTTGAAGAAATCTGAGG
*
47874596 GAAAGAGTTGAAGAAATCTGAGG
1 GAAAAAGTTGAAGAAATCTGAGG
47874619 GAA
1 GAA
47874622 TAAACATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.31, T:0.18
Consensus pattern (23 bp):
GAAAAAGTTGAAGAAATCTGAGG
Found at i:47876620 original size:30 final size:31
Alignment explanation
Indices: 47876586--47876652 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
47876576 TACCCAATAA
** * **
47876586 TAAATACTCAAAATTTGAGGGATTAA-AGTG
1 TAAATACGAAAAATTTGAAGGACCAATAGTG
47876616 TAAATACGAAAAATTTGAAGGACCAATAGTG
1 TAAATACGAAAAATTTGAAGGACCAATAGTG
47876647 TAAATA
1 TAAATA
47876653 TTTTAAGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (31 bp):
TAAATACGAAAAATTTGAAGGACCAATAGTG
Found at i:47895843 original size:42 final size:42
Alignment explanation
Indices: 47895782--47895877 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
47895772 TTCGGTATCG
47895782 CACACTTAGTGCCCGTTATTCAACATC-TCCATTTTAATTTCA
1 CACACTTAGTGCCCGTTATTCAACATCGT-CATTTTAATTTCA
* * * *
47895824 CACACTTAGTGCCCTTTATTCAACCTCGTCATTTTAGTTTCG
1 CACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTCA
47895866 CACACTTAGTGC
1 CACACTTAGTGC
47895878 TGTTCATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.38
Consensus pattern (42 bp):
CACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTCA
Found at i:47901311 original size:21 final size:21
Alignment explanation
Indices: 47901287--47901327 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47901277 TATATATGTT
*
47901287 TAATTAAGC-TTTAGTTAATCG
1 TAATTAA-CTTTTAATTAATCG
47901308 TAATTAACTTTTAATTAATC
1 TAATTAACTTTTAATTAATC
47901328 TTTTCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
TAATTAACTTTTAATTAATCG
Found at i:47908531 original size:17 final size:18
Alignment explanation
Indices: 47908494--47908531 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
47908484 TATGTAAAAT
* *
47908494 TAACTTTAAATTTTTTTG
1 TAACTTTAAATGTTTTAG
47908512 TAACTTT-AATGTTTTAG
1 TAACTTTAAATGTTTTAG
47908529 TAA
1 TAA
47908532 TAATATGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (18 bp):
TAACTTTAAATGTTTTAG
Found at i:47910206 original size:26 final size:26
Alignment explanation
Indices: 47910154--47910208 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
47910144 GACTATATAA
* **
47910154 AAAATTTCTATAAATAAAAATTGTAT
1 AAAATTACTATAAATAAAAATAATAT
47910180 AAAATTACTA-AATATAAAAATAATAT
1 AAAATTACTATAA-ATAAAAATAATAT
47910206 AAA
1 AAA
47910209 CGGGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAATTACTATAAATAAAAATAATAT
Found at i:47915204 original size:31 final size:31
Alignment explanation
Indices: 47915160--47915240 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
47915150 GGGGGATGAG
* *
47915160 TAAATTTACAATTT-AGTCATTTAATTATTAA
1 TAAATTTATAATTTGA-TCACTTAATTATTAA
*
47915191 TAATTTTATAATTTGATCACTTAATTATTAA
1 TAAATTTATAATTTGATCACTTAATTATTAA
*
47915222 TAAATTTGTAATTTGATCA
1 TAAATTTATAATTTGATCA
47915241 TGCTTAGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (31 bp):
TAAATTTATAATTTGATCACTTAATTATTAA
Found at i:47921466 original size:21 final size:21
Alignment explanation
Indices: 47921442--47921524 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
47921432 CACGAGCTTC
* *
47921442 TGTTTAACTCATATGAGTTTT
1 TGTTTAACCCTTATGAGTTTT
*
47921463 TGTTTAACCCTTATGGGTTTT
1 TGTTTAACCCTTATGAGTTTT
* * * * * *
47921484 CGTTCAGCTC-TATTGAGCTTC
1 TGTTTAACCCTTA-TGAGTTTT
47921505 TGTTTAACCCTTATGAGTTT
1 TGTTTAACCCTTATGAGTTT
47921525 CAATTCAGCT
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (21 bp):
TGTTTAACCCTTATGAGTTTT
Found at i:47921545 original size:42 final size:42
Alignment explanation
Indices: 47921463--47921545 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
47921453 TATGAGTTTT
* * *
47921463 TGTTTAACCCTTATGGGTTTTCGTTCAGCTCTATTGAGCTTC
1 TGTTTAACCCTTATGAGTTTTCATTCAGCTCTATTAAGCTTC
47921505 TGTTTAACCCTTATGAG-TTTCAATTCAGCTCT-TGTAAGCTT
1 TGTTTAACCCTTATGAGTTTTC-ATTCAGCTCTAT-TAAGCTT
47921546 TCATTCAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 5 0.14
42 31 0.86
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
TGTTTAACCCTTATGAGTTTTCATTCAGCTCTATTAAGCTTC
Found at i:47924706 original size:43 final size:44
Alignment explanation
Indices: 47924645--47924753 Score: 202
Period size: 44 Copynumber: 2.5 Consensus size: 44
47924635 TTTGAGTACT
47924645 TCTGATCAGTGACAAGTGATAAGTGGTAG-TTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47924688 TCTGATCGGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
47924732 TCTGATCAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
47924754 ATGTGATCCG
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
43 28 0.44
44 35 0.56
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:47928001 original size:35 final size:35
Alignment explanation
Indices: 47927955--47928034 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
47927945 CTCTTCCAAC
47927955 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
1 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
47927990 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
1 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
*
47928025 GAGGAACTTT
1 GAGGACCTTT
47928035 GTCTGTGGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (35 bp):
GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
Found at i:47933751 original size:19 final size:19
Alignment explanation
Indices: 47933714--47933771 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
47933704 ATTTAAAAAA
*
47933714 TATAAAAATTTTGGAATTTT
1 TATAAATATTTT-GAATTTT
47933734 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
47933752 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
47933772 CTAAATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.24
19 12 0.35
20 14 0.41
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:47933777 original size:19 final size:18
Alignment explanation
Indices: 47933721--47933784 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
47933711 AAATATAAAA
*
47933721 ATTTTGGAATTTTTATAAAT
1 ATTTT-GAATTTTTA-AATT
*
47933741 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTT-TAAATT
47933760 ATTTTGAATTTTCTAAATTT
1 ATTTTGAATTTT-TAAA-TT
47933780 ATTTT
1 ATTTT
47933785 AAAATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 25 0.66
20 13 0.34
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTTGAATTTTTAAATT
Found at i:47933784 original size:20 final size:19
Alignment explanation
Indices: 47933721--47933771 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
47933711 AAATATAAAA
*
47933721 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAA-TTTTAAAAATT
47933741 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
47933760 ATTTTGAATTTT
1 ATTTTGAATTTT
47933772 CTAAATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.28
19 16 0.55
20 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:47935575 original size:13 final size:13
Alignment explanation
Indices: 47935557--47935584 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47935547 TACAAGAGAA
47935557 TTTTTTGAGAACT
1 TTTTTTGAGAACT
47935570 TTTTTTGAGAACT
1 TTTTTTGAGAACT
47935583 TT
1 TT
47935585 AACATTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTTTTTGAGAACT
Found at i:47936753 original size:281 final size:281
Alignment explanation
Indices: 47936250--47936818 Score: 1138
Period size: 281 Copynumber: 2.0 Consensus size: 281
47936240 TTTTGATTTG
47936250 AATAATTTTATTAATCCAAATTGTAAGATTTTAGTTTTCACGGGAAGATAACTATTAAATTTATT
1 AATAATTTTATTAATCCAAATTGTAAGATTTTAGTTTTCACGGGAAGATAACTATTAAATTTATT
47936315 AATTTTTGTTACTTTCAAAATTTGACGAACTAACCATAATATTATATATGTAATGCTATGTTAGC
66 AATTTTTGTTACTTTCAAAATTTGACGAACTAACCATAATATTATATATGTAATGCTATGTTAGC
47936380 TTGATATTTCAACATATCATTTCAGTTAATGAATTGATGATTGTCATTTGTGTCGAGAATAAAAT
131 TTGATATTTCAACATATCATTTCAGTTAATGAATTGATGATTGTCATTTGTGTCGAGAATAAAAT
47936445 TTCAAATATTGAAAAGTATAGGGATGTAGAATGATCCAATTGGATAACATAGACCAAATCTACAA
196 TTCAAATATTGAAAAGTATAGGGATGTAGAATGATCCAATTGGATAACATAGACCAAATCTACAA
47936510 CTGTACACATAGTACACTACT
261 CTGTACACATAGTACACTACT
47936531 AATAATTTTATTAATCCAAATTGTAAGATTTTAGTTTTCACGGGAAGATAACTATTAAATTTATT
1 AATAATTTTATTAATCCAAATTGTAAGATTTTAGTTTTCACGGGAAGATAACTATTAAATTTATT
47936596 AATTTTTGTTACTTTCAAAATTTGACGAACTAACCATAATATTATATATGTAATGCTATGTTAGC
66 AATTTTTGTTACTTTCAAAATTTGACGAACTAACCATAATATTATATATGTAATGCTATGTTAGC
47936661 TTGATATTTCAACATATCATTTCAGTTAATGAATTGATGATTGTCATTTGTGTCGAGAATAAAAT
131 TTGATATTTCAACATATCATTTCAGTTAATGAATTGATGATTGTCATTTGTGTCGAGAATAAAAT
47936726 TTCAAATATTGAAAAGTATAGGGATGTAGAATGATCCAATTGGATAACATAGACCAAATCTACAA
196 TTCAAATATTGAAAAGTATAGGGATGTAGAATGATCCAATTGGATAACATAGACCAAATCTACAA
47936791 CTGTACACATAGTACACTACT
261 CTGTACACATAGTACACTACT
47936812 AATAATT
1 AATAATT
47936819 GAAATTAACC
Statistics
Matches: 288, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
281 288 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (281 bp):
AATAATTTTATTAATCCAAATTGTAAGATTTTAGTTTTCACGGGAAGATAACTATTAAATTTATT
AATTTTTGTTACTTTCAAAATTTGACGAACTAACCATAATATTATATATGTAATGCTATGTTAGC
TTGATATTTCAACATATCATTTCAGTTAATGAATTGATGATTGTCATTTGTGTCGAGAATAAAAT
TTCAAATATTGAAAAGTATAGGGATGTAGAATGATCCAATTGGATAACATAGACCAAATCTACAA
CTGTACACATAGTACACTACT
Found at i:47939342 original size:58 final size:57
Alignment explanation
Indices: 47939236--47939358 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 57
47939226 TAACTTGGAC
* * * *
47939236 AAAAAAAAGGTTAAAGTCCTAATGTAAGAACAATTGTCAAGTTTAGGGCTTAACTTAA
1 AAAAAAAAGGTTAAAGTCCGAATGTAAGAACAATTGCCAAATTCAGGGC-TAACTTAA
* * * * *
47939294 ATAAAAAAAGGTTCAGGTCCGAATGT-GGGACAATTGCCAAATTCAGGGCTAACTTAG
1 A-AAAAAAAGGTTAAAGTCCGAATGTAAGAACAATTGCCAAATTCAGGGCTAACTTAA
47939351 AAAAAAAA
1 AAAAAAAA
47939359 TTTAACTCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
56 7 0.13
57 8 0.15
58 19 0.35
59 21 0.38
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (57 bp):
AAAAAAAAGGTTAAAGTCCGAATGTAAGAACAATTGCCAAATTCAGGGCTAACTTAA
Found at i:47940470 original size:12 final size:12
Alignment explanation
Indices: 47940455--47940479 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47940445 AAAAATAGAA
47940455 AAGGGTATGGGT
1 AAGGGTATGGGT
47940467 AAGGGTATGGGT
1 AAGGGTATGGGT
47940479 A
1 A
47940480 TGGAGGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (12 bp):
AAGGGTATGGGT
Found at i:47945699 original size:9 final size:9
Alignment explanation
Indices: 47945687--47945745 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
47945677 AATAAAAAAA
47945687 AATTCGGGT
1 AATTCGGGT
47945696 AATTCGGGT
1 AATTCGGGT
*
47945705 ATTTTTC-GGT
1 A--ATTCGGGT
*
47945715 AATTCGGTT
1 AATTCGGGT
47945724 AATTCGGGT
1 AATTCGGGT
47945733 AATTCGGGT
1 AATTCGGGT
47945742 AATT
1 AATT
47945746 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:47946592 original size:23 final size:22
Alignment explanation
Indices: 47946545--47946592 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
47946535 GCTACATCTT
***
47946545 AAATAAAAATAATATATGTTTC
1 AAATAAAAATAATATATGGCCC
47946567 AAATAAAAATAATAATATGGCCC
1 AAATAAAAATAAT-ATATGGCCC
47946590 AAA
1 AAA
47946593 GAGTTCGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (22 bp):
AAATAAAAATAATATATGGCCC
Found at i:47946887 original size:3 final size:3
Alignment explanation
Indices: 47946879--47946903 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47946869 TAATTTGACA
47946879 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
47946904 TTGGTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47958948 original size:16 final size:15
Alignment explanation
Indices: 47958922--47958955 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
47958912 TATAATTAGT
*
47958922 GCAATAAAAAATATA
1 GCAATAAAAAATAAA
47958937 GCAATGAAAAAATAAA
1 GCAAT-AAAAAATAAA
47958953 GCA
1 GCA
47958956 GAGATGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.15
Consensus pattern (15 bp):
GCAATAAAAAATAAA
Found at i:47960689 original size:32 final size:32
Alignment explanation
Indices: 47960652--47960728 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
47960642 ATGCATGTGT
* * **
47960652 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
47960684 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
47960716 GTAACTTTTCATA
1 GTAACTTTTCATA
47960729 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:47966053 original size:15 final size:15
Alignment explanation
Indices: 47966000--47966073 Score: 62
Period size: 16 Copynumber: 4.7 Consensus size: 15
47965990 GTCACATCAA
47966000 TAAATAATTGAAAATTT
1 TAAA-AATT-AAAATTT
* *
47966017 TAAAAAATATAATTAAT
1 TAAAAATTAAAATT--T
47966034 T-AAAATTAAAATTT
1 TAAAAATTAAAATTT
47966048 TAAAAA-TAAAATTT
1 TAAAAATTAAAATTT
*
47966062 TCATAAATTAAA
1 T-AAAAATTAAA
47966074 TAAATAGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 11 0.23
15 13 0.28
16 17 0.36
17 6 0.13
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (15 bp):
TAAAAATTAAAATTT
Found at i:47966070 original size:30 final size:30
Alignment explanation
Indices: 47966005--47966073 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 30
47965995 ATCAATAAAT
*
47966005 AATTGAAAATTTTAAAAAATATAATTAATTAA
1 AATT-AAAATTTTAAAAAATAAAATT-ATTAA
47966037 AATTAAAATTTT-AAAAATAAAATT-TTCATA
1 AATTAAAATTTTAAAAAATAAAATTATT-A-A
47966067 AATTAAA
1 AATTAAA
47966074 TAAATAGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.06
29 1 0.03
30 19 0.56
31 8 0.24
32 4 0.12
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
AATTAAAATTTTAAAAAATAAAATTATTAA
Found at i:47966829 original size:16 final size:17
Alignment explanation
Indices: 47966808--47966842 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47966798 GTTTTTAATT
47966808 ATTTTTTAATTA-ATAA
1 ATTTTTTAATTATATAA
*
47966824 ATTTTTTATTTATATAA
1 ATTTTTTAATTATATAA
47966841 AT
1 AT
47966843 AAAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTTAATTATATAA
Found at i:47966976 original size:18 final size:19
Alignment explanation
Indices: 47966955--47966994 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
47966945 CATAACTATA
47966955 TATATAATATA-TT-TTTAT
1 TATATAAT-TACTTATTTAT
47966973 TATATAATTACTTATTTAT
1 TATATAATTACTTATTTAT
47966992 TAT
1 TAT
47966995 TTTATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 10 0.50
19 8 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATAATTACTTATTTAT
Found at i:47967093 original size:23 final size:23
Alignment explanation
Indices: 47967060--47967104 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47967050 ATAATATATT
* *
47967060 TATTAATTAAAAATTAAAAATAA
1 TATTAAATAAAAAATAAAAATAA
*
47967083 TATTAAATAAAAAATACAAATA
1 TATTAAATAAAAAATAAAAATA
47967105 CTGAGTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
TATTAAATAAAAAATAAAAATAA
Found at i:47967546 original size:3 final size:3
Alignment explanation
Indices: 47967540--47967565 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47967530 AGCAAAAAAA
47967540 TGT TGT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TG
47967566 AGGTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:47971932 original size:15 final size:15
Alignment explanation
Indices: 47971895--47971936 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
47971885 TTTATAGGTT
47971895 AATTATTAA-ATTAA
1 AATTATTAATATTAA
** *
47971909 TTTTTTTAATATTAA
1 AATTATTAATATTAA
47971924 AATTATTAATATT
1 AATTATTAATATT
47971937 CTAGTTTTTC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTATTAATATTAA
Found at i:47985209 original size:41 final size:41
Alignment explanation
Indices: 47985164--47985248 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
47985154 CATTGTTTTG
47985164 AGATAAGAATATCACACTTAGAAAAAGAATTTTGATGATAA
1 AGATAAGAATATCACACTTAGAAAAAGAATTTTGATGATAA
47985205 AGATAAGAATATCACACTTAGAAAAAGAATTTTGATGATAA
1 AGATAAGAATATCACACTTAGAAAAAGAATTTTGATGATAA
47985246 AGA
1 AGA
47985249 AATAAAGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (41 bp):
AGATAAGAATATCACACTTAGAAAAAGAATTTTGATGATAA
Found at i:47985902 original size:6 final size:6
Alignment explanation
Indices: 47985891--47985923 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
47985881 GCTACATTTG
47985891 TGCGTT TGCGTT TGCGTT TGCGTT TGCGTT TGC
1 TGCGTT TGCGTT TGCGTT TGCGTT TGCGTT TGC
47985924 AATATAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.48
Consensus pattern (6 bp):
TGCGTT
Found at i:47990060 original size:14 final size:14
Alignment explanation
Indices: 47990041--47990071 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47990031 AGTCTCTTCA
47990041 TTATACTTTAATCT
1 TTATACTTTAATCT
*
47990055 TTATACTTTAATTT
1 TTATACTTTAATCT
47990069 TTA
1 TTA
47990072 ATATACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATACTTTAATCT
Found at i:47996955 original size:15 final size:16
Alignment explanation
Indices: 47996932--47996966 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
47996922 TTTATTTGCA
*
47996932 AATACTTTTTT-TAAG
1 AATAATTTTTTATAAG
47996947 AATAATTTTTTATAAG
1 AATAATTTTTTATAAG
47996963 AATA
1 AATA
47996967 TACAATAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (16 bp):
AATAATTTTTTATAAG
Found at i:48006163 original size:23 final size:23
Alignment explanation
Indices: 48006119--48006178 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
48006109 TTTTGTATCA
48006119 AAATTATGCAAATATACAAAACAC
1 AAATTATGCAAATATACAAAAC-C
* * *
48006143 AAATTA-GTAAATATTCCAAACC
1 AAATTATGCAAATATACAAAACC
*
48006165 AAATATATGAAAAT
1 AAAT-TATGCAAAT
48006179 TAATCATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.17
23 14 0.47
24 11 0.37
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (23 bp):
AAATTATGCAAATATACAAAACC
Found at i:48014098 original size:69 final size:69
Alignment explanation
Indices: 48014012--48014153 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
48014002 AATTAATCGA
48014012 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
1 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
48014077 ACGT
66 ACGT
48014081 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
1 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
48014146 ACGT
66 ACGT
48014150 AAAA
1 AAAA
48014154 TCACCTAATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (69 bp):
AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
ACGT
Found at i:48016269 original size:128 final size:128
Alignment explanation
Indices: 48016005--48016261 Score: 482
Period size: 126 Copynumber: 2.0 Consensus size: 128
48015995 AACATTAGCA
48016005 TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
1 TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
48016070 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
66 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
*
48016133 TTTATATATGCTACACACACTGGAAACACATTTAAATAGAAATAA-T-TCTCTTAATACATTTCC
1 TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
*
48016196 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAATTTTTTTTCAAAGTT
66 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
48016259 TTT
1 TTT
48016262 CCATATATTT
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
126 82 0.65
127 1 0.01
128 44 0.35
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (128 bp):
TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
Found at i:48021644 original size:27 final size:26
Alignment explanation
Indices: 48021591--48021647 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
48021581 AATTTTAAAA
* *
48021591 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATAATTTTTTATGTTT
*
48021617 TATTTTTAAAATAATTTTTTGGTGTTT
1 TATTTTTAAAATAATTTTTT-ATGTTT
48021644 TATT
1 TATT
48021648 AAAAAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (26 bp):
TATTTTTAAAATAATTTTTTATGTTT
Found at i:48024255 original size:24 final size:24
Alignment explanation
Indices: 48024228--48024274 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48024218 AATTATCAAT
48024228 TTGAATTCTAAATATTAACGGGTA
1 TTGAATTCTAAATATTAACGGGTA
* * *
48024252 TTGAATTTTAAATTTTAATGGGT
1 TTGAATTCTAAATATTAACGGGT
48024275 TTGGACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (24 bp):
TTGAATTCTAAATATTAACGGGTA
Found at i:48026253 original size:13 final size:14
Alignment explanation
Indices: 48026205--48026264 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
48026195 TAGATCAATT
* *
48026205 TAAAATTTCATATA
1 TAAAATTACACATA
*
48026219 TAAAATTACACAAAA
1 TAAAATTACAC-ATA
48026234 TTAAAATTA-ACATA
1 -TAAAATTACACATA
48026248 TAAAATTACACAT-
1 TAAAATTACACATA
48026261 TAAA
1 TAAA
48026265 CCCAAATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 12 0.31
14 15 0.38
15 4 0.10
16 8 0.21
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAATTACACATA
Found at i:48028609 original size:22 final size:22
Alignment explanation
Indices: 48028581--48028624 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
48028571 TTAATGATAG
48028581 ACATTTATGTCAAGACTGAAAT
1 ACATTTATGTCAAGACTGAAAT
*
48028603 ACATTTATGTCAAGATTGAAAT
1 ACATTTATGTCAAGACTGAAAT
48028625 TTCAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (22 bp):
ACATTTATGTCAAGACTGAAAT
Found at i:48038372 original size:29 final size:28
Alignment explanation
Indices: 48038324--48038378 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
48038314 TTTAATTTTG
*
48038324 AAATTGAGCAAATTAGTCCCTATCAAAA
1 AAATTGAGCAAATTAATCCCTATCAAAA
* *
48038352 AAATTGGAGCAATTTAATCCCTGTCAA
1 AAATT-GAGCAAATTAATCCCTATCAA
48038379 TTTTGAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (28 bp):
AAATTGAGCAAATTAATCCCTATCAAAA
Found at i:48052623 original size:10 final size:10
Alignment explanation
Indices: 48052610--48052637 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
48052600 GAGAGTTCGA
48052610 GAAAATGAAG
1 GAAAATGAAG
48052620 GAAAATGAAG
1 GAAAATGAAG
48052630 GAAAATGA
1 GAAAATGA
48052638 GAAATATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (10 bp):
GAAAATGAAG
Found at i:48054836 original size:48 final size:47
Alignment explanation
Indices: 48054784--48055772 Score: 711
Period size: 48 Copynumber: 20.7 Consensus size: 47
48054774 GGATGGAGGA
* * * *
48054784 GGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * * *
48054832 GGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGA-TGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * *
48054880 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
48054928 GGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGG-CGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGAC--TGGTGGT
* * * * *
48054976 GGAGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * *
48055024 GGTGGGGACTTGTAATAGTAGGGTGGTGGTAGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * * *
48055072 GGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGA-TGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * *
48055120 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
48055168 GGTGGAGATTTGTAGTAGTAGGGAGGAGGAGGAGATGG-CGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGAC--TGGTGGT
* * * * * *
48055216 GGAGGAGATTTGTAGTAATATGGTGGTGGTGGTGATGGAGATGGAGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* *
48055264 GGTGGAGATTTGTAGTAGTATGGTGGTGGT-GATGGT-GA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGA-GATGGACTGGTGGT
* * * * * * * * ** *
48055309 GGAGGGGAGTTGTAGTGGTAAGTTGGTGCTGGAGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAG-ATGGACTGGTGGT
* * * * * * *
48055357 GGTGGTGATTTGTAATAGTATGGTGGCGGAGGGGAATGAATTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAG-ATGGACTGGTGGT
* * * *
48055405 GGTGGGGATTTGTAATGGTATGGCGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
48055453 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * * * * * * *
48055501 GGTGGGGACTTGTAGTTGTAAGGAGGAGGCGGAGATGAAGAC-GGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATG--GACTGGTGGT
* * * * * *
48055549 GGAGGGGATTTGTAGTAGTATGGAGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
48055597 GGTGGGGATTTGTAGTAGTAAGGAGGAGGAGGAGATGGTGA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * * * * * * ** *
48055645 GGCGGGGAGTTGTAGTGGTA-GGTTGGTGCTGGGGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGG-TGGTGGTGGAG-ATGGACTGGTGGT
* * *
48055693 GGTGGTGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGG
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
48055741 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGG
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGG
48055773 TGGTGACTTA
Statistics
Matches: 740, Mismatches: 167, Indels: 68
0.76 0.17 0.07
Matches are distributed among these distances:
45 30 0.04
46 9 0.01
47 14 0.02
48 670 0.91
49 15 0.02
50 2 0.00
ACGTcount: A:0.20, C:0.03, G:0.51, T:0.27
Consensus pattern (47 bp):
GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGACTGGTGGT
Found at i:48055152 original size:240 final size:240
Alignment explanation
Indices: 48054748--48055293 Score: 975
Period size: 240 Copynumber: 2.3 Consensus size: 240
48054738 AGGTGAGTGA
* * * * *
48054748 TAGTAGTATGGGGGAGGGGGTGAAGGGGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
*
48054813 TGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
66 TAGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
48054878 GAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAG
131 GAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAG
48054943 TAGTAAGGAGGAGGAGGAGATGGCGATGGGGGAGGAGGAGATTTG
196 TAGTAAGGAGGAGGAGGAGATGGCGATGGGGGAGGAGGAGATTTG
*
48054988 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGGGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
48055053 TAGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
66 TAGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
48055118 GAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAG
131 GAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAG
*
48055183 TAGTAGGGAGGAGGAGGAGATGGCGATGGGGGAGGAGGAGATTTG
196 TAGTAAGGAGGAGGAGGAGATGGCGATGGGGGAGGAGGAGATTTG
* * * * *
48055228 TAGTAATATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGAGATTTGTAGTAGTATGGTGGTGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
48055293 T
66 T
48055294 GATGGTGATG
Statistics
Matches: 292, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
240 292 1.00
ACGTcount: A:0.22, C:0.01, G:0.52, T:0.25
Consensus pattern (240 bp):
TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
TAGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
GAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAG
TAGTAAGGAGGAGGAGGAGATGGCGATGGGGGAGGAGGAGATTTG
Found at i:48055455 original size:21 final size:21
Alignment explanation
Indices: 48055429--48055505 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 21
48055419 ATGGTATGGC
48055429 GGTGGTGGAGAGTGGACTGGT
1 GGTGGTGGAGAGTGGACTGGT
48055450 GGTGGTGGAGATTTGTAGTAGTA-TGGT
1 GGTGGTGGAGA---GT-G--G-ACTGGT
48055477 GGTGGTGGAGAGTGGACTGGT
1 GGTGGTGGAGAGTGGACTGGT
48055498 GGTGGTGG
1 GGTGGTGG
48055506 GGACTTGTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
20 1 0.02
21 24 0.50
23 1 0.02
24 4 0.08
25 1 0.02
27 16 0.33
28 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.55, T:0.29
Consensus pattern (21 bp):
GGTGGTGGAGAGTGGACTGGT
Found at i:48055484 original size:27 final size:26
Alignment explanation
Indices: 48055398--48055487 Score: 84
Period size: 27 Copynumber: 3.6 Consensus size: 26
48055388 GGGAATGAAT
* *
48055398 TGGTGGTGGTGGGGATTTGTAATGGTA
1 TGGTGGTGGTGGAGATTTGTAGT-GTA
*
48055425 TGGCGGTGGTGGAGA---GT-G-G-A
1 TGGTGGTGGTGGAGATTTGTAGTGTA
48055445 CTGGTGGTGGTGGAGATTTGTAGTAGTA
1 -TGGTGGTGGTGGAGATTTGTAGT-GTA
48055473 TGGTGGTGGTGGAGA
1 TGGTGGTGGTGGAGA
48055488 GTGGACTGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
24 4 0.08
25 1 0.02
27 29 0.57
28 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.31
Consensus pattern (26 bp):
TGGTGGTGGTGGAGATTTGTAGTGTA
Found at i:48055870 original size:66 final size:66
Alignment explanation
Indices: 48055734--48055892 Score: 176
Period size: 66 Copynumber: 2.4 Consensus size: 66
48055724 GAGAGTGGAC
* * * * * * *
48055734 TGGTGGGGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGGTGACTTATAAACATAGGTAGGGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
*
48055799 T
66 A
* * *
48055800 TGGTGGTGGCGGGGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTGTAAGCATAAGTA-GGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
48055864 GA
66 -A
* **
48055866 TGGTGGTGGTGGAGAGGTGTAATAGTA
1 TGGTGGTGGCGGAGACTTGTAATAGTA
48055893 AGGAGCTGGA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 3 0.04
66 74 0.96
ACGTcount: A:0.21, C:0.05, G:0.45, T:0.29
Consensus pattern (66 bp):
TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
A
Found at i:48055877 original size:36 final size:33
Alignment explanation
Indices: 48055757--48055877 Score: 95
Period size: 36 Copynumber: 3.6 Consensus size: 33
48055747 GATTTGTAGT
* *
48055757 AGTATGGTGGTGGTGGTGGTGACTTATAAACATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGT-AACATA
* * *
48055791 GGTAGGGCTTGGTGGTGGCGGGGACTTGT-A-AT-
1 AGTAGGG--TGGTGGTGGTGGTGACTTGTAACATA
* * *
48055823 AGTATGGTGGAGGAGGTGGTGACTTGTAAGCATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGTAA-CATA
48055857 AGTAGGCGATGGTGGTGGTGG
1 AGTAGG-G-TGGTGGTGGTGG
48055878 AGAGGTGTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
30 16 0.25
31 1 0.02
32 5 0.08
33 4 0.06
34 11 0.17
35 1 0.02
36 27 0.42
ACGTcount: A:0.21, C:0.07, G:0.45, T:0.28
Consensus pattern (33 bp):
AGTAGGGTGGTGGTGGTGGTGACTTGTAACATA
Found at i:48057072 original size:27 final size:27
Alignment explanation
Indices: 48057042--48057127 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
48057032 ATGCGGAGGA
*
48057042 GGTGGCGGAGACGTATAGTAGTAAGGT
1 GGTGGTGGAGACGTATAGTAGTAAGGT
* *
48057069 GGTGG-AG-GA-G-ATGGT-G-AAGGT
1 GGTGGTGGAGACGTATAGTAGTAAGGT
* * *
48057090 GGTGGTGGAGACTTGTAGTAGTAAGGA
1 GGTGGTGGAGACGTATAGTAGTAAGGT
48057117 GGTGGTGGAGA
1 GGTGGTGGAGA
48057128 TGGTGATGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 10 0.22
22 2 0.04
23 6 0.13
24 1 0.02
25 5 0.11
26 2 0.04
27 20 0.43
ACGTcount: A:0.24, C:0.03, G:0.50, T:0.22
Consensus pattern (27 bp):
GGTGGTGGAGACGTATAGTAGTAAGGT
Found at i:48057189 original size:24 final size:27
Alignment explanation
Indices: 48057132--48057195 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
48057122 TGGAGATGGT
*
48057132 GATGGTGGTGGGGGAGACTTATAATAG
1 GATGGTGGTGGGGGAGACTTACAATAG
* *
48057159 TATGGTGGTGGGGGAGACTT-CACT-G
1 GATGGTGGTGGGGGAGACTTACAATAG
48057184 GA-GGTGGTGGGG
1 GATGGTGGTGGGG
48057196 ACTTGTAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 10 0.30
25 2 0.06
26 2 0.06
27 19 0.58
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (27 bp):
GATGGTGGTGGGGGAGACTTACAATAG
Found at i:48057472 original size:21 final size:21
Alignment explanation
Indices: 48057448--48057533 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 21
48057438 TTGTAGTAAT
*
48057448 ATGGAGGAGGTGGAGATGGAG
1 ATGGAGGAGGTGGGGATGGAG
48057469 ATGGAGGAGGTGGGGACTTGTAGTAG
1 ATGGAGGAGGTGGGGA--TG--G-AG
*
48057495 TATGGAGGAGGTGGGGAAGGAG
1 -ATGGAGGAGGTGGGGATGGAG
*
48057517 ATGGAGGTGGTGGGGAT
1 ATGGAGGAGGTGGGGAT
48057534 TTGTAGTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
21 30 0.55
22 2 0.04
23 3 0.05
25 2 0.04
26 2 0.04
27 16 0.29
ACGTcount: A:0.24, C:0.01, G:0.56, T:0.19
Consensus pattern (21 bp):
ATGGAGGAGGTGGGGATGGAG
Found at i:48057766 original size:144 final size:144
Alignment explanation
Indices: 48057039--48057772 Score: 779
Period size: 144 Copynumber: 5.1 Consensus size: 144
48057029 GTAATGCGGA
* * * * * * *
48057039 GGAGGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGTGGAGACTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * * * * *
48057104 GTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGGGGAGACTTATAATAGTATGGTGGTG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* **
48057169 GGGGAGACT--TCAC
131 GTGGAGA-TGGAGAC
* * *
48057182 TGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGTGGTGGTGGAGATT
1 -GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATT
* * * * * *
48057247 TGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGTGGAGACTTATAATAGTAAGGTGGG
65 TGTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGA
* * *
48057312 GGTGGTGAAGGAGAA
130 GGTGGAGATGGAGAC
* * * * * * * * *
48057327 GGTGGGGGGGGAGACTTGTAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGAGGCGGCGGGGATTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * * * *
48057392 GTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGATTTGTAGTAATATGGAGGAG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
*
48057457 GTGGAGATGGAGAT
131 GTGGAGATGGAGAC
* * * * * * * * *
48057471 GGAGGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * * * * *
48057536 GTAGTAATAAGGAGGAGGTGGTGACGGGGACGGAGGTGGTGGAGACTTATAGTAATATGGAGGAG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* * *
48057601 GTGGGGATGGGGAT
131 GTGGAGATGGAGAC
* * * * * *
48057615 GGAGGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * *
48057680 GTAGTAGTATGGAGGAGGTGGTGACGGGGATGGTGGTGGAGGAGACTTATAATAGTATGGAGGAG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* *
48057745 GAGGTGATGGAGAC
131 GTGGAGATGGAGAC
*
48057759 GGTGGTGGTGGAGA
1 GGAGGTGGTGGAGA
48057773 TTTATAGTGG
Statistics
Matches: 508, Mismatches: 80, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
144 507 1.00
145 1 0.00
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (144 bp):
GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
GTGGAGATGGAGAC
Found at i:48057778 original size:48 final size:48
Alignment explanation
Indices: 48057042--48057790 Score: 636
Period size: 48 Copynumber: 15.6 Consensus size: 48
48057032 ATGCGGAGGA
* * * * * * * * * *
48057042 GGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * *
48057090 GGTGGTGGAGACTTGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * * ** * *
48057138 GGTGGGGGAGACTTATAATAGTATGGTGGTGGGGGAGACTTCA-CTGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGA-TGGAGATGGT
* * * * * * *
48057186 GGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * *
48057234 GGTGGTGGAGATTTGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * *
48057282 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * * *
48057330 GGGGGGGGAGACTTGTAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * *
48057378 GGCGGCGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * *
48057426 GGTGGTGGAGATTTGTAGTAATATGGAGGAGGTGGAGATGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * *
48057474 GGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * * *
48057522 GGTGGTGGGGATTTGTAGTAATAAGGAGGAGGTGGTGACGGGGACGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * *
48057570 GGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGATGGGGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * *
48057618 GGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTGATGGGGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* *
48057666 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGACGGGGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * *
48057714 GGTGGAGGAGACTTATAATAGTATGGAGGAGGAGGTGATGGAGACGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * *
48057762 GGTGGTGGAGATTTATAGTGGTATGGAGG
1 GGTGGTGGAGACTTGTAGTAGTATGGAGG
48057791 GTTCACTTCA
Statistics
Matches: 588, Mismatches: 111, Indels: 4
0.84 0.16 0.01
Matches are distributed among these distances:
47 1 0.00
48 586 1.00
49 1 0.00
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.24
Consensus pattern (48 bp):
GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
Found at i:48057862 original size:48 final size:48
Alignment explanation
Indices: 48057810--48057945 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 48
48057800 ATGTTTCGGT
* * *
48057810 GGAGGTGGTGGTGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGAA
1 GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
* * * * * * *
48057858 GGAGGTGGTGGAGATTTATACACGTATGGTGGTGGGGGAGATGGAGAA
1 GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
* *
48057906 GGTGGTGGAGGTGACTTATACTCATAAGGTGGTGGAGGAG
1 GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAG
48057946 GTGAAGAGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.24, C:0.06, G:0.46, T:0.24
Consensus pattern (48 bp):
GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
Found at i:48062580 original size:30 final size:30
Alignment explanation
Indices: 48062534--48062627 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
48062524 TTTTATTATG
*
48062534 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
48062565 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
48062595 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
48062625 CCA
1 CCA
48062628 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:48062589 original size:15 final size:15
Alignment explanation
Indices: 48062544--48062621 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
48062534 CCAATATCTC
48062544 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
48062559 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
48062574 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
48062589 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
48062604 GATACCCATATCTTT
1 GATACCCATATCTTT
48062619 GAT
1 GAT
48062622 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:48067240 original size:30 final size:30
Alignment explanation
Indices: 48067194--48067287 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
48067184 TTTTATTATG
*
48067194 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
48067225 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
48067255 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
48067285 CCA
1 CCA
48067288 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:48067249 original size:15 final size:15
Alignment explanation
Indices: 48067204--48067281 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
48067194 CCAATATCTC
48067204 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
48067219 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
48067234 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
48067249 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
48067264 GATACCCATATCTTT
1 GATACCCATATCTTT
48067279 GAT
1 GAT
48067282 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:48070670 original size:23 final size:23
Alignment explanation
Indices: 48070643--48070713 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
48070633 GAGCGATTTC
48070643 CTGACGCGTACCCTGACATCGCG
1 CTGACGCGTACCCTGACATCGCG
* * * **
48070666 CTGACGTGGACGC-G--ATTTC-
1 CTGACGCGTACCCTGACATCGCG
48070685 CTGACGCGTACCCTGACATCGCG
1 CTGACGCGTACCCTGACATCGCG
48070708 CTGACG
1 CTGACG
48070714 TGGACGCGAT
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
19 10 0.29
20 4 0.12
22 4 0.12
23 16 0.47
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (23 bp):
CTGACGCGTACCCTGACATCGCG
Found at i:48070682 original size:42 final size:42
Alignment explanation
Indices: 48070635--48070727 Score: 186
Period size: 42 Copynumber: 2.2 Consensus size: 42
48070625 GTCCTTGAGA
48070635 GCGATTTCCTGACGCGTACCCTGACATCGCGCTGACGTGGAC
1 GCGATTTCCTGACGCGTACCCTGACATCGCGCTGACGTGGAC
48070677 GCGATTTCCTGACGCGTACCCTGACATCGCGCTGACGTGGAC
1 GCGATTTCCTGACGCGTACCCTGACATCGCGCTGACGTGGAC
48070719 GCGATTTCC
1 GCGATTTCC
48070728 CGGAAAAAGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.16, C:0.33, G:0.28, T:0.23
Consensus pattern (42 bp):
GCGATTTCCTGACGCGTACCCTGACATCGCGCTGACGTGGAC
Found at i:48082176 original size:16 final size:17
Alignment explanation
Indices: 48082147--48082179 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48082137 CAACCCATGA
*
48082147 ACCAAGAACCCCAAACC
1 ACCAAGAACACCAAACC
48082164 ACCAA-AACACCAAACC
1 ACCAAGAACACCAAACC
48082180 CTTAAAGCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.45, G:0.03, T:0.00
Consensus pattern (17 bp):
ACCAAGAACACCAAACC
Found at i:48084501 original size:15 final size:16
Alignment explanation
Indices: 48084481--48084513 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48084471 ATATAAATAA
*
48084481 ACCTTC-ATTTTTCTT
1 ACCTTCAATTTTTATT
48084496 ACCTTCAATTTTTATT
1 ACCTTCAATTTTTATT
48084512 AC
1 AC
48084514 ATCTTGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (16 bp):
ACCTTCAATTTTTATT
Found at i:48088597 original size:14 final size:14
Alignment explanation
Indices: 48088553--48088598 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
48088543 TTAATTAAAT
48088553 TTTAAGGTTTAAG-
1 TTTAAGGTTTAAGA
48088566 TTTAATGGTTTATA-A
1 TTTAA-GGTTTA-AGA
*
48088581 TTTAAGATTTAAGA
1 TTTAAGGTTTAAGA
48088595 TTTA
1 TTTA
48088599 GACTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 6 0.21
14 16 0.57
15 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:48093105 original size:20 final size:20
Alignment explanation
Indices: 48093080--48093119 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48093070 CGTAAAATGA
*
48093080 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
48093100 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
48093120 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:48093109 original size:34 final size:35
Alignment explanation
Indices: 48093065--48093131 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
48093055 CAGTAAAATA
*
48093065 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
48093099 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
48093132 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:48093135 original size:14 final size:15
Alignment explanation
Indices: 48093059--48093135 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
48093049 GATTGCCAGT
* *
48093059 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
48093073 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
48093087 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
48093107 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
48093122 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
48093136 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:48098311 original size:218 final size:218
Alignment explanation
Indices: 48097931--48098372 Score: 805
Period size: 218 Copynumber: 2.0 Consensus size: 218
48097921 TACTAGTGCG
**
48097931 TTTCTTTTGGAGTTTTGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
1 TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
48097996 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
*
48098061 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAGTTACTTGATCCAAAT
131 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
*
48098126 TTGTTCAATGCTTGGATGATGCT
196 TTGTTCAATGCTTGGATGATGCC
* *
48098149 TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCGACAAAATTACTCATACTACAG
1 TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
*
48098214 TGTTTTTATGTCAACTGCAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
48098279 GCCATCTTTGGCTTACTGTCTATACT-TTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
131 GCCATCTTTGGCTTACTGTCTATA-TATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
48098343 TTTGTTCAATGCTTGGATGATGCC
195 TTTGTTCAATGCTTGGATGATGCC
48098367 TTTCTT
1 TTTCTT
48098373 AAATGTTTTG
Statistics
Matches: 216, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
218 215 1.00
219 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (218 bp):
TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
TTGTTCAATGCTTGGATGATGCC
Found at i:48120816 original size:24 final size:26
Alignment explanation
Indices: 48120779--48120827 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
48120769 ATAAAACAAC
48120779 AATATATTAGTTATATATATATATTA
1 AATATATTAGTTATATATATATATTA
*
48120805 AATA-ATTA-TTATATATTTATATT
1 AATATATTAGTTATATATATATATT
48120828 TATATTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
25 4 0.18
26 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AATATATTAGTTATATATATATATTA
Found at i:48120959 original size:26 final size:27
Alignment explanation
Indices: 48120930--48120995 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
48120920 AAATTTTAAA
*
48120930 ATTTATATTTAATACAAT-AAATATTT
1 ATTTATATTTAATACAATAAAACATTT
* *
48120956 ATTTGTACTTTTTAATATAATAAAACATTT
1 A-TT-TA-TATTTAATACAATAAAACATTT
48120986 A-TTATATTTA
1 ATTTATATTTA
48120996 TGGTAATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
26 6 0.19
27 4 0.12
28 3 0.09
29 11 0.34
30 8 0.25
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
ATTTATATTTAATACAATAAAACATTT
Found at i:48122037 original size:50 final size:52
Alignment explanation
Indices: 48121857--48122111 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 52
48121847 ATTTGGGTAA
*
48121857 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGGTCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC--GA-G-CATG
* *
48121913 AGAGGTCCCATGTAA-ACCATGTCTAGGACATGGCATTGGCATTCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TC-CGAG--CATG
*
48121968 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGCATG
* * * * *
48122018 AGATGTCCCCTATAAGACCACGTCTGGGACATGGCATGGGCA-CCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGCATG
** *
48122068 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
48122112 GTTATGATCA
Statistics
Matches: 174, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
50 49 0.28
51 33 0.19
53 3 0.02
54 2 0.01
55 47 0.27
56 40 0.23
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGCATG
Found at i:48122056 original size:111 final size:109
Alignment explanation
Indices: 48121857--48122111 Score: 312
Period size: 111 Copynumber: 2.4 Consensus size: 109
48121847 ATTTGGGTAA
48121857 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGGTCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGG-CATGAGAGGTCCC
* *
48121922 ATGTAAACCATGTCTAGGACATGGCATTGGCATTCTTGAGATCATG
64 ATATAAACCACGTCTAGGACATGGCATTGGCATTCTTGAGATCATG
* * * *
48121968 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-G-ATGAGATGTCCCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGGCATGAGAGGTCCCAT
* * * *
48122029 ATAAGACCACGTCTGGGACATGGCATGGGCA--C-CGAGATGA-G
66 ATAA-ACCACGTCTAGGACATGGCATTGGCATTCTTGAGATCATG
* *
48122070 A-ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
48122112 GTTATGATCA
Statistics
Matches: 129, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
101 37 0.29
102 2 0.02
103 6 0.05
104 1 0.01
105 15 0.12
106 23 0.18
107 1 0.01
108 2 0.02
110 2 0.02
111 40 0.31
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (109 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGGCATGAGAGGTCCCAT
ATAAACCACGTCTAGGACATGGCATTGGCATTCTTGAGATCATG
Found at i:48129058 original size:56 final size:53
Alignment explanation
Indices: 48128967--48129222 Score: 326
Period size: 56 Copynumber: 4.8 Consensus size: 53
48128957 ATTTGGGTAA
*
48128967 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGGTCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGA-GT-ATG
*
48129023 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCCTGAG-T-ATG
*
48129079 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CCT-AG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGTATG
* * *
48129129 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCA-CC-GA-TATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGTATG
** *
48129179 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
48129223 GTTATGATCA
Statistics
Matches: 180, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
50 49 0.27
51 34 0.19
53 2 0.01
54 2 0.01
55 1 0.01
56 90 0.50
57 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGTATG
Found at i:48141610 original size:7 final size:7
Alignment explanation
Indices: 48141598--48141622 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48141588 AGCTTCGGTT
48141598 CAATTTC
1 CAATTTC
48141605 CAATTTC
1 CAATTTC
48141612 CAATTTC
1 CAATTTC
48141619 CAAT
1 CAAT
48141623 CACATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (7 bp):
CAATTTC
Found at i:48146640 original size:12 final size:12
Alignment explanation
Indices: 48146623--48146648 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48146613 TTAATTTAAA
48146623 ATTAAAATAATT
1 ATTAAAATAATT
48146635 ATTAAAATAATT
1 ATTAAAATAATT
48146647 AT
1 AT
48146649 GTGTTTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTAAAATAATT
Found at i:48151136 original size:21 final size:23
Alignment explanation
Indices: 48151110--48151164 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
48151100 AGCTTATCAA
48151110 TTTAAATATTATAA-TAAA-ATT
1 TTTAAATATTATAATTAAACATT
*
48151131 TTTAAA-ATAATAATTAAAGCATT
1 TTTAAATATTATAATTAAA-CATT
48151154 TTTAATATATT
1 TTTAA-ATATT
48151165 CAACATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.22
21 10 0.37
23 8 0.30
24 1 0.04
25 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTAAATATTATAATTAAACATT
Found at i:48151138 original size:22 final size:24
Alignment explanation
Indices: 48151113--48151164 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
48151103 TTATCAATTT
48151113 AAATATTATAA-TAAA-ATTTTTA
1 AAATATTATAATTAAACATTTTTA
48151135 AAATA--ATAATTAAAGCATTTTTA
1 AAATATTATAATTAAA-CATTTTTA
*
48151158 ATATATT
1 AAATATT
48151165 CAACATATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 5 0.21
23 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AAATATTATAATTAAACATTTTTA
Found at i:48151749 original size:15 final size:15
Alignment explanation
Indices: 48151729--48151758 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48151719 TTAAAATTAT
48151729 GTACTTAAATTTTCA
1 GTACTTAAATTTTCA
*
48151744 GTACTTAATTTTTCA
1 GTACTTAAATTTTCA
48151759 ATTTATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (15 bp):
GTACTTAAATTTTCA
Found at i:48151825 original size:12 final size:13
Alignment explanation
Indices: 48151798--48151830 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
48151788 GTTTAAACTA
*
48151798 ATAATTGTAGATT
1 ATAATTATAGATT
48151811 ATAATTATA-ATT
1 ATAATTATAGATT
48151823 ATAATTAT
1 ATAATTAT
48151831 CACAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
ATAATTATAGATT
Found at i:48163807 original size:41 final size:41
Alignment explanation
Indices: 48163742--48163822 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
48163732 ATTATTATAT
*
48163742 TTTTGAGAAATCTTGCATAATTTAATATTATAATTGATTTG
1 TTTTGAGAAATCTTACATAATTTAATATTATAATTGATTTG
* * *
48163783 TTTTGA-AATATCTTACATATTTTAATGTTGTAATTGATTT
1 TTTTGAGAA-ATCTTACATAATTTAATATTATAATTGATTT
48163823 ATTAAAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (41 bp):
TTTTGAGAAATCTTACATAATTTAATATTATAATTGATTTG
Found at i:48174135 original size:14 final size:14
Alignment explanation
Indices: 48174091--48174138 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
48174081 TTAAGTTGTA
48174091 TATTTAATTTTTAT
1 TATTTAATTTTTAT
* *
48174105 T-TTTAAATTTGAT
1 TATTTAATTTTTAT
48174118 TATTT-ATTTTTAT
1 TATTTAATTTTTAT
48174131 ATATTTAA
1 -TATTTAA
48174139 GGTTTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 17 0.63
14 9 0.33
15 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTTAATTTTTAT
Found at i:48184499 original size:58 final size:58
Alignment explanation
Indices: 48184372--48184560 Score: 290
Period size: 58 Copynumber: 3.3 Consensus size: 58
48184362 AACTACACTA
*
48184372 GTTTCAAGTTAAAACATTGTCTCATAGTGATCTCCGCCA-CACATCTTTATAGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
* * * *
48184429 GTTTCGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCATATCTTTATCGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
* * * *
48184487 GTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
48184545 GTTTCAAGTTAAAACA
1 GTTTCAAGTTAAAACA
48184561 CATCTTTATC
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
57 36 0.31
58 81 0.69
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (58 bp):
GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
Found at i:48184568 original size:32 final size:32
Alignment explanation
Indices: 48184527--48184592 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
48184517 TCTCCGCCAC
*
48184527 CACATCTTTATTGAAACGGTTTCAAGTTAAAA
1 CACATCTTTATCGAAACGGTTTCAAGTTAAAA
*
48184559 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAAGTTAAAA
48184591 CA
1 CA
48184593 TAGTCTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (32 bp):
CACATCTTTATCGAAACGGTTTCAAGTTAAAA
Found at i:48184625 original size:90 final size:90
Alignment explanation
Indices: 48184472--48184650 Score: 322
Period size: 90 Copynumber: 2.0 Consensus size: 90
48184462 CCGCCACCAT
48184472 ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
1 ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
*
48184537 TTGAAACGGTTTCAAGTTAAAACAC
66 TCGAAACGGTTTCAAGTTAAAACAC
* *
48184562 ATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTA
1 ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
*
48184627 TCGAAATGGTTTCAAGTTAAAACA
66 TCGAAACGGTTTCAAGTTAAAACA
48184651 TGGTCTCATA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (90 bp):
ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
TCGAAACGGTTTCAAGTTAAAACAC
Found at i:48184649 original size:58 final size:58
Alignment explanation
Indices: 48184559--48184985 Score: 496
Period size: 58 Copynumber: 7.4 Consensus size: 58
48184549 CAAGTTAAAA
48184559 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * *
48184617 CACATCTTTATCGAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
48184675 CACATCTTTAGCGAAACGGTTTCAATTTAAAACATA--CTCATAGTGATCTCCGGCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGA--T----CTCCGCCAC
* ** * * * * ** *
48184737 CGCATCTTTAAAGAAACGGTTCCAAGTTAAAACATGGTTTCA-A-T--T-T---AAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
48184787 CACATATTTATCGAAACGGTTTCAATTTAAAACATAGTCTTATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * *
48184845 CACATCTTTATCAAAACAGTTTCAATTTAAAACATAGTATCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * *
48184903 CACATCTTTATCGAAACGGTTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
48184961 CACATCTTTATCAAAATGGTTTCAA
1 CACATCTTTATCGAAACGGTTTCAA
48184986 CCAGACGACA
Statistics
Matches: 307, Mismatches: 46, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
50 34 0.11
51 1 0.00
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 10 0.03
58 215 0.70
62 39 0.13
63 1 0.00
64 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.32
Consensus pattern (58 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
Found at i:48184678 original size:148 final size:148
Alignment explanation
Indices: 48184410--48184708 Score: 472
Period size: 148 Copynumber: 2.0 Consensus size: 148
48184400 GATCTCCGCC
* * *
48184410 ACACATCTTTATAGAAACGGTTTCGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCATATC
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
* * **
48184475 TTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTG
66 TTTATCGAAACGGTTCCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
48184540 AAACGGTTTCAAGTTAAA
131 AAACGGTTTCAAGTTAAA
* *
48184558 ACACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
* * **
48184623 TTTATCGAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCACCACATCTTTAGCG
66 TTTATCGAAACGGTTCCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
*
48184688 AAACGGTTTCAATTTAAA
131 AAACGGTTTCAAGTTAAA
48184706 ACA
1 ACA
48184709 TACTCATAGT
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
148 137 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (148 bp):
ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
TTTATCGAAACGGTTCCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
AAACGGTTTCAAGTTAAA
Found at i:48189553 original size:13 final size:13
Alignment explanation
Indices: 48189535--48189559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48189525 TAATTTATAT
48189535 GTGTGAAAATTTC
1 GTGTGAAAATTTC
48189548 GTGTGAAAATTT
1 GTGTGAAAATTT
48189560 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:48190771 original size:44 final size:43
Alignment explanation
Indices: 48190672--48190774 Score: 102
Period size: 44 Copynumber: 2.4 Consensus size: 43
48190662 CATAGGATTC
*
48190672 CGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * ** *
48190715 TGAT-TTGAGATTTATGTGTAAGACCTTGTTTGGGACAG-TGGCAT
1 CGATATT-TGATTT-CGTGTAAGACCACGTCTGGGAC-GTTGGCAT
48190759 CGATATTTGATTTCGT
1 CGATATTTGATTTCGT
48190775 CTAGGACATT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.02
43 10 0.22
44 32 0.70
45 3 0.07
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:48204017 original size:16 final size:16
Alignment explanation
Indices: 48203996--48204031 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
48203986 TAGTCTTAGT
48203996 TCTTTGTTATTTGCCC
1 TCTTTGTTATTTGCCC
48204012 TCTTTGTTATTTGCCC
1 TCTTTGTTATTTGCCC
48204028 TCTT
1 TCTT
48204032 ATGTCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.06, C:0.25, G:0.11, T:0.58
Consensus pattern (16 bp):
TCTTTGTTATTTGCCC
Found at i:48219292 original size:24 final size:24
Alignment explanation
Indices: 48219260--48219305 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48219250 TGAGACACTA
*
48219260 ACCTTTTCATTGCTATCCTTTTCG
1 ACCTTTTCATTGATATCCTTTTCG
*
48219284 ACCTTTTCATTGATATCTTTTT
1 ACCTTTTCATTGATATCCTTTT
48219306 TAGATAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.07, T:0.54
Consensus pattern (24 bp):
ACCTTTTCATTGATATCCTTTTCG
Found at i:48219353 original size:41 final size:40
Alignment explanation
Indices: 48219274--48219455 Score: 177
Period size: 41 Copynumber: 4.5 Consensus size: 40
48219264 TTTCATTGCT
* ** *
48219274 ATCCTTTTCGACCTTTTCA-TTGATATCTTTTTTAGATAA
1 ATCCTTTTCAACCTTTTCATTTGATATCCCTTTTGGATAA
* *
48219313 GATCCTTTTCAACCTTCTCATTTGATATCCTTTTTGGATAA
1 -ATCCTTTTCAACCTTTTCATTTGATATCCCTTTTGGATAA
* * * *
48219354 CACCCTTTTCAACCTTTTCATTTAATATCCCTTTTCGAATAT
1 -ATCCTTTTCAACCTTTTCATTTGATATCCCTTTT-GGATAA
* * * * *
48219396 ATCCTTTTCAACATTTTCATGTGTTATCCCTTTCGGGTAA
1 ATCCTTTTCAACCTTTTCATTTGATATCCCTTTTGGATAA
*
48219436 CTCTCTTTTCAACCTTTTCA
1 ATC-CTTTTCAACCTTTTCA
48219456 AGGATTCGGG
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
40 22 0.19
41 91 0.78
42 4 0.03
ACGTcount: A:0.21, C:0.24, G:0.07, T:0.47
Consensus pattern (40 bp):
ATCCTTTTCAACCTTTTCATTTGATATCCCTTTTGGATAA
Found at i:48238008 original size:31 final size:31
Alignment explanation
Indices: 48237947--48238011 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
48237937 ATTTTAAAAT
* *
48237947 ATTTTAATTAAAACCTACAAAAGTTTTGAAA
1 ATTTTAATTAAAACCTACAAAACTTCTGAAA
* **
48237978 ATTTTAATTAAACCCTTTAAAACTTCTGAAA
1 ATTTTAATTAAAACCTACAAAACTTCTGAAA
48238009 ATT
1 ATT
48238012 CTCATTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (31 bp):
ATTTTAATTAAAACCTACAAAACTTCTGAAA
Found at i:48240774 original size:27 final size:27
Alignment explanation
Indices: 48240736--48240789 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
48240726 TTGTATAAAA
48240736 CCTAGACCATGTATGATAAACCAAATT
1 CCTAGACCATGTATGATAAACCAAATT
*
48240763 CCTAGGCCATGTATGATAAACCAAATT
1 CCTAGACCATGTATGATAAACCAAATT
48240790 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (27 bp):
CCTAGACCATGTATGATAAACCAAATT
Found at i:48242800 original size:13 final size:13
Alignment explanation
Indices: 48242782--48242820 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
48242772 TGATTTAAAC
48242782 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
*
48242795 GCTTTTGAGAAGT
1 GCTTTTGAAAAGT
*
48242808 GATTTTGAAAAGT
1 GCTTTTGAAAAGT
48242821 TTAGTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (13 bp):
GCTTTTGAAAAGT
Found at i:48245759 original size:45 final size:46
Alignment explanation
Indices: 48245674--48245767 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 46
48245664 TGTTCACGAA
* * * *
48245674 TTTTGTTAAATTAAATTTTATAATATTGTAAATTAGTTCGAGCTGT
1 TTTTGTTAAATTAAATTTTATAACATTGAAAATTAATTCGAGCTAT
*
48245720 TTTTGTTAGATTAAA-TTTATAACATTGAAAATTAATTCGAGCTAT
1 TTTTGTTAAATTAAATTTTATAACATTGAAAATTAATTCGAGCTAT
48245765 TTT
1 TTT
48245768 AAGATCATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 29 0.67
46 14 0.33
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (46 bp):
TTTTGTTAAATTAAATTTTATAACATTGAAAATTAATTCGAGCTAT
Found at i:48246842 original size:29 final size:28
Alignment explanation
Indices: 48246810--48246895 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 28
48246800 GTTTTTTATT
48246810 TAATTTGATATATAAATTTTAATTTGGTG
1 TAATTT-ATATATAAATTTTAATTTGGTG
* * *
48246839 TAATTATACATATGAAATTTTAGTTGTGGTT
1 TAATT-TATATAT-AAATTTTAATT-TGGTG
*
48246870 TACATGTATATATTAAATTTTAATTT
1 TA-ATTTATATA-TAAATTTTAATTT
48246896 TGATTTAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 10 0.22
30 12 0.26
31 21 0.46
32 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (28 bp):
TAATTTATATATAAATTTTAATTTGGTG
Found at i:48247381 original size:31 final size:31
Alignment explanation
Indices: 48247303--48247384 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
48247293 AATGTACAAA
* *
48247303 TTGAATCAAAATCAAAATTTTATATATACAT
1 TTGAATCACAATCAAAGTTTTATATATACAT
* * * *
48247334 TGGAATCGCAATCAAAGTTTTATTTATATAT
1 TTGAATCACAATCAAAGTTTTATATATACAT
*
48247365 TTGAATTACAATCAAAGTTT
1 TTGAATCACAATCAAAGTTT
48247385 CATGTGTATA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (31 bp):
TTGAATCACAATCAAAGTTTTATATATACAT
Found at i:48247431 original size:29 final size:30
Alignment explanation
Indices: 48247374--48247431 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
48247364 TTTGAATTAC
*
48247374 AATCAAAGTTTCATGTGTATAATTGCACAA
1 AATCAAAGTTTCATGTGTATAATCGCACAA
*
48247404 AATCAAAGTTT-ATGTAT-TAAATCGCACA
1 AATCAAAGTTTCATGTGTAT-AATCGCACA
48247432 TTGAATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 13 0.52
30 11 0.44
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (30 bp):
AATCAAAGTTTCATGTGTATAATCGCACAA
Found at i:48247906 original size:28 final size:28
Alignment explanation
Indices: 48247874--48247930 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
48247864 ACTTAATATT
* * * *
48247874 AGAGGTTTTGATGTAAAATTATATTTTA
1 AGAGGGTTTGACGAAAAATTACATTTTA
48247902 AGAGGGTTTGACGAAAAATTACATTTTA
1 AGAGGGTTTGACGAAAAATTACATTTTA
48247930 A
1 A
48247931 AAATTCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (28 bp):
AGAGGGTTTGACGAAAAATTACATTTTA
Found at i:48251808 original size:18 final size:18
Alignment explanation
Indices: 48251785--48251871 Score: 129
Period size: 18 Copynumber: 4.8 Consensus size: 18
48251775 CGTTTACAGT
48251785 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
* * *
48251803 ACTATTTACGTATATGGT
1 ACTATTCACGTATACGGC
48251821 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
48251839 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
48251857 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
48251872 AGTAGTTGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:48251830 original size:36 final size:36
Alignment explanation
Indices: 48251783--48251871 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
48251773 ACCGTTTACA
* *
48251783 GTACTATTCACGTATACGGCACTATTTACGTATATG
1 GTACTATTCACGTATACGGCACTATTCACGTATACG
48251819 GTACTATTCACGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACGGCACTATTCACGTATACG
*
48251855 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
48251872 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (36 bp):
GTACTATTCACGTATACGGCACTATTCACGTATACG
Found at i:48260204 original size:19 final size:17
Alignment explanation
Indices: 48260175--48260226 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
48260165 AATTCCAAAA
48260175 AAATTATAAAAATTATT-T
1 AAATTA-AAAAA-TATTAT
48260193 AAACATTAAAAAATATTAT
1 -AA-ATTAAAAAATATTAT
48260212 AAATTAAAAAA-ATTA
1 AAATTAAAAAATATTA
48260227 ATTATCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.13
17 9 0.29
18 6 0.19
19 8 0.26
20 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTAAAAAATATTAT
Found at i:48263600 original size:27 final size:28
Alignment explanation
Indices: 48263569--48263622 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
48263559 TAACATTTAA
*
48263569 AAGA-TGATTTTTTTTTCTGTAAGACTG
1 AAGAGTGATTTCTTTTTCTGTAAGACTG
*
48263596 AAGATGTGATTTCTTTTTCTTTAAGAC
1 AAGA-GTGATTTCTTTTTCTGTAAGAC
48263623 AGAATGCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
29 19 0.83
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (28 bp):
AAGAGTGATTTCTTTTTCTGTAAGACTG
Found at i:48270416 original size:77 final size:77
Alignment explanation
Indices: 48270325--48270470 Score: 256
Period size: 77 Copynumber: 1.9 Consensus size: 77
48270315 TCCCATCAGT
* * *
48270325 ACTACATGCACATAAGTGCATTCACTATTCCATGCAATATCTCATTTGTCACATGCATTACGAAC
1 ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
48270390 CTGGTCCCCATC
66 CTGGTCCCCATC
*
48270402 ACTACATGCACATAAATGCATTCATTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
1 ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
48270467 CTGG
66 CTGG
48270471 ACCATCATCT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (77 bp):
ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
CTGGTCCCCATC
Found at i:48277202 original size:50 final size:50
Alignment explanation
Indices: 48277096--48277267 Score: 191
Period size: 50 Copynumber: 3.3 Consensus size: 50
48277086 GGGAATGAGA
* **
48277096 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGG
*
48277152 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * **
48277202 TCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
48277252 TCTCATGTAAGACCAT
1 TCCCACGTAAGACCAT
48277268 ACCATGAGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
50 65 0.63
52 1 0.01
53 3 0.03
56 34 0.33
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:48279011 original size:16 final size:15
Alignment explanation
Indices: 48278959--48279012 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
48278949 TGGTTCGCTA
*
48278959 TAATGGAATAGAGGTG
1 TAATAGAATAGAGG-G
48278975 TAAT-GAAATAGATGGG
1 TAATAG-AATAGA-GGG
48278991 TAATAGAATAGAGGCG
1 TAATAGAATAGAGG-G
48279007 TAATAG
1 TAATAG
48279013 GTAATTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (15 bp):
TAATAGAATAGAGGG
Found at i:48279080 original size:39 final size:43
Alignment explanation
Indices: 48278996--48279097 Score: 131
Period size: 39 Copynumber: 2.4 Consensus size: 43
48278986 ATGGGTAATA
* *
48278996 GAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTAAATGGAATG
1 GAATAGAGGTGTAATA-GTAATTCTTGTGTTTGGTT--ATGGAATG
48279042 GAATAGAGGTGTAATAGT-ATTCTTGTGTTTGG-T-T-GAATG
1 GAATAGAGGTGTAATAGTAATTCTTGTGTTTGGTTATGGAATG
48279081 GAATAGAGGTGTAATAG
1 GAATAGAGGTGTAATAG
48279098 CATAAAGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
39 22 0.41
40 1 0.02
43 1 0.02
44 13 0.24
45 2 0.04
46 15 0.28
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (43 bp):
GAATAGAGGTGTAATAGTAATTCTTGTGTTTGGTTATGGAATG
Found at i:48279081 original size:44 final size:46
Alignment explanation
Indices: 48278996--48279084 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
48278986 ATGGGTAATA
*
48278996 GAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTAAATGGAATG
1 GAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAAATGGAATG
* *
48279042 GAATAGAGGTGTAATA-GT-ATTCTTGTGTTTGGTTGAATGGAAT
1 GAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAAATGGAAT
48279085 AGAGGTGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 23 0.57
45 2 0.05
46 15 0.38
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.38
Consensus pattern (46 bp):
GAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAAATGGAATG
Found at i:48279327 original size:61 final size:61
Alignment explanation
Indices: 48279258--48279568 Score: 327
Period size: 61 Copynumber: 5.2 Consensus size: 61
48279248 ATTTAATAAA
48279258 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTTAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTTAAATCAT
* * * * * * * *
48279319 AATATATAA--TAATATAAAAT-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAT
1 AATATATAATTTAATA-AAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTTAAATCAT
*
48279378 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTTAAATCAT
* * * * * * * * *
48279439 AATATATAATACT-ATAAAA-T-ATAAT-TTAAA-ATTATTATTATTAAATATAATTTAATAAA
1 AATATATAAT-TTAATAAAATTCTTAATATTAAATATTCTTA-TA-TGAATTTACTTAAATCAT
*
48279498 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTTAAATCAT
48279559 AATATATAAT
1 AATATATAAT
48279569 ACTAAAATCA
Statistics
Matches: 197, Mismatches: 37, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
57 6 0.03
58 10 0.05
59 66 0.34
60 24 0.12
61 75 0.38
62 10 0.05
63 6 0.03
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTTAAATCAT
Found at i:48279365 original size:26 final size:28
Alignment explanation
Indices: 48279318--48279398 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 28
48279308 ACTTAAATCA
*
48279318 TAATATATAATA-AT-ATAAAATATAATT
1 TAATA-ATAATATATAATTAAATATAATT
*
48279345 TAA-AATAAT-TATTATTAAATATAATT
1 TAATAATAATATATAATTAAATATAATT
* *
48279371 TAATAATAATATATAATTTAATAAAATT
1 TAATAATAATATATAATTAAATATAATT
48279399 CTTAATATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 7 0.15
26 16 0.35
27 9 0.20
28 14 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATAATAATATATAATTAAATATAATT
Found at i:48279378 original size:49 final size:46
Alignment explanation
Indices: 48279310--48279413 Score: 118
Period size: 49 Copynumber: 2.2 Consensus size: 46
48279300 ATGAATTTAC
*
48279310 TTAAATCATAATATATAATAATATAAAATATAATTTAAAATAATTATTA
1 TTAAAT-ATAATATATAATAATATAAAATATAA--TAAAATAATTAATA
* * * **
48279359 TTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAATA
1 TTAAATATAATAT-ATAATAATATAAAATATAATAAAATAATTAATA
48279406 TTAAATAT
1 TTAAATAT
48279414 TCTTATATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 19 0.40
48 6 0.12
49 23 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (46 bp):
TTAAATATAATATATAATAATATAAAATATAATAAAATAATTAATA
Found at i:48279564 original size:59 final size:59
Alignment explanation
Indices: 48279381--48279564 Score: 200
Period size: 56 Copynumber: 3.1 Consensus size: 59
48279371 TAATAATAAT
48279381 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATA
* * * * * *
48279440 ATAT-ATAATACTATAAAATATAATTTAAAATT-ATTATTATTAAATAT-AATTTAATAAAA--A
1 ATATAAT-TTA--ATAAAAT-T--CTTAATATTAAATATTCTT--ATATGAATTTACTAAAATCA
48279500 T-
58 TA
48279501 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATA
48279560 ATATA
1 ATATA
48279565 TAATACTAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
55 4 0.04
56 18 0.18
57 7 0.07
58 5 0.05
59 18 0.18
61 13 0.13
62 5 0.05
63 7 0.07
64 18 0.18
65 4 0.04
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATA
Found at i:48279570 original size:120 final size:120
Alignment explanation
Indices: 48279223--48279572 Score: 655
Period size: 120 Copynumber: 2.9 Consensus size: 120
48279213 TTAATCATAT
*
48279223 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
48279288 AAATATTCTTATATGAATTTACTTAAATCATAATATATAATAATATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
48279343 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
48279408 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
48279463 TTTAAAATTATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
48279528 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
48279573 AAATCATAAT
Statistics
Matches: 224, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 224 1.00
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:48279591 original size:23 final size:21
Alignment explanation
Indices: 48279547--48279587 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
48279537 TATATGAATT
48279547 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
48279568 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
48279588 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Done.