Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 103 of 203
Found at i:32705466 original size:22 final size:21
Alignment explanation
Indices: 32705422--32705463 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32705412 TTCAAATTAC
32705422 ACAAAAAGTATCGATACCTTT
1 ACAAAAAGTATCGATACCTTT
*
32705443 ACAAAAAGTATTGATACCTTT
1 ACAAAAAGTATCGATACCTTT
32705464 TACCAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (21 bp):
ACAAAAAGTATCGATACCTTT
Found at i:32707946 original size:22 final size:21
Alignment explanation
Indices: 32707904--32707943 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32707894 TCAATTACAT
32707904 AAAAAGTATCGATACCTTTAC
1 AAAAAGTATCGATACCTTTAC
*
32707925 AAAAAGTATTGATACCTTT
1 AAAAAGTATCGATACCTTT
32707944 TACCAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGTATCGATACCTTTAC
Found at i:32710745 original size:41 final size:41
Alignment explanation
Indices: 32710667--32710780 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
32710657 TTATATAAAA
* * * * *
32710667 CACCGGCATAAAGCCTGCTAGACACAAAGGCCGATACATTT
1 CACCGGCATAGAGCCTGCTAGGCATAAAGCCCAATACATTT
* *
32710708 CACCAGCATAGAGCATGCTAGGCATAAAGCCCAATACATTT
1 CACCGGCATAGAGCCTGCTAGGCATAAAGCCCAATACATTT
*
32710749 CACCGGCACAGAGCCTGCTAGGCATAAAGCCC
1 CACCGGCATAGAGCCTGCTAGGCATAAAGCCC
32710781 GAACTTACAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.33, C:0.31, G:0.20, T:0.16
Consensus pattern (41 bp):
CACCGGCATAGAGCCTGCTAGGCATAAAGCCCAATACATTT
Found at i:32710988 original size:47 final size:47
Alignment explanation
Indices: 32710918--32711257 Score: 283
Period size: 47 Copynumber: 6.9 Consensus size: 47
32710908 AAATATATAT
* * *
32710918 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCTATAGATTAATTCATTTCTCTGCATAACAATTAC
** * *
32710965 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATAT
1 ATATACATTCAGCTATAGATTAATTCATTTCTCTGCATAAC-AAT-TAC
* * *
32711014 ATATACATTCGGC-ATAGTTTAATTTATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCTATAGATTAATTCATTTCTCTGCATAACAATTAC
** * *
32711060 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATAG
1 ATATACATTCAGCTATAGATTAATTCATTTCTCTGCATAAC-AAT-TAC
* ** *
32711109 ATATACATTCAGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAA--AT
1 ATATACATTCAG-C-T-A--TA-G--A--T----TAATTCATTTCTCTGCATAACAATTAC
* * * *
32711168 ATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCTATAGATTAATTCATTTCTCTGCATAACAATTAC
32711215 ATATACATTCAGCTATAGATTAATTCATTT-TCATGCATAACAA
1 ATATACATTCAGCTATAGATTAATTCATTTCTC-TGCATAACAA
32711258 ATATATTTAT
Statistics
Matches: 237, Mismatches: 34, Indels: 44
0.75 0.11 0.14
Matches are distributed among these distances:
45 21 0.09
46 16 0.07
47 97 0.41
48 28 0.12
49 29 0.12
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 4 0.02
55 1 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 13 0.05
62 2 0.01
63 19 0.08
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (47 bp):
ATATACATTCAGCTATAGATTAATTCATTTCTCTGCATAACAATTAC
Found at i:32711058 original size:95 final size:96
Alignment explanation
Indices: 32710887--32711125 Score: 408
Period size: 95 Copynumber: 2.5 Consensus size: 96
32710877 TAACTTCAAA
* *
32710887 TAATTTATTTCAATGCATAACAAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCT
1 TAATTCATTTCAATGTATAAC-AA-ATATATATATACATTCGGCCATAGTTTAATTCATTTCTCT
32710952 GCATAACAATTACATATACATTCAGCTATAGAT
64 GCATAACAATTACATATACATTCAGCTATAGAT
*
32710985 TAATTCATTTCAATGTATAACAAATATATATATACATTCGG-CATAGTTTAATTTATTTCTCTGC
1 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
32711049 ATAACAATTACATATACATTCAGCTATAGAT
66 ATAACAATTACATATACATTCAGCTATAGAT
* *
32711080 TAATTCATTTCAATGTATAACAAATATAGATATACATTCAGCCATA
1 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATA
32711126 ACCTATGTAA
Statistics
Matches: 135, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
95 92 0.68
96 22 0.16
97 2 0.01
98 19 0.14
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.38
Consensus pattern (96 bp):
TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
ATAACAATTACATATACATTCAGCTATAGAT
Found at i:32712750 original size:30 final size:30
Alignment explanation
Indices: 32712716--32712778 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
32712706 ACTTAATAAG
32712716 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
32712746 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
32712776 CAA
1 CAA
32712779 TAAAATAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:32728076 original size:15 final size:15
Alignment explanation
Indices: 32728056--32728089 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32728046 CTTCCTTTTT
32728056 TATTTGATTCATAAA
1 TATTTGATTCATAAA
* *
32728071 TATTTGATTGATGAA
1 TATTTGATTCATAAA
32728086 TATT
1 TATT
32728090 ACTTACCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (15 bp):
TATTTGATTCATAAA
Found at i:32730496 original size:20 final size:22
Alignment explanation
Indices: 32730467--32730508 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
32730457 CCTATGACCA
*
32730467 AGTTGCCTTCG-CTCCA-AACG
1 AGTTGACTTCGACTCCATAACG
32730487 AGTTGACTTCGACTCCATAACG
1 AGTTGACTTCGACTCCATAACG
32730509 GACGAGGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (22 bp):
AGTTGACTTCGACTCCATAACG
Found at i:32735560 original size:110 final size:110
Alignment explanation
Indices: 32735393--32735866 Score: 530
Period size: 110 Copynumber: 4.4 Consensus size: 110
32735383 TTTGGAACTT
* * *
32735393 TTTATAATTTTATTGAACTTTTAAATGAATTTCTTAAAATTTTAGATAGACAATTTACCCTTCAA
1 TTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCAA
*
32735458 GAAGCAAATAACACATTTTTTTTGAGTTTTTGAAACTTTTTATATA
66 GAAGCAAATAACACATTTTTTTTGAATTTTTG-AACTTTTTATATA
* *
32735504 TTTATAGTTTTATTGAA-TTTTAAAT-AAGTTTCTTAAAATTTTAGATAGACATTTTACTATTCA
1 TTTATAATTTTATTGAATTTTTAAATGAA-TTTCTTAAAATTTTAGATAGACATTTTACCATTCA
* * * * * *
32735567 AGAAACAAATAACACGTTTTTTTTAAACTTTTGGAGTTTTTATAT-
65 AGAAGCAAATAACACATTTTTTTTGAATTTTTGAACTTTTTATATA
* * * *
32735612 TTGTATGACTTTATTGAATTTTTAAATGAATTTCTTAAAAATTTAGATAGATATTTTACCATTCA
1 TT-TATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCA
* * *
32735677 AGAA-AAAATAACA-A-TTTTTTT-AATTTTTG-------GA-GT-
65 AGAAGCAAATAACACATTTTTTTTGAATTTTTGAACTTTTTATATA
* *
32735710 TTTATAATTTTATTGAATTTTTAAATGAATTTTTTAAAATTTTAGATAGACATTTTACCATTGAA
1 TTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCAA
* * *
32735775 AAAGTAAATAACACACTTTTTTTTTGAATTTTTGGAACTTTTTTATATT
66 GAAGCAAATAACACA--TTTTTTTTGAATTTTT-GAAC-TTTTTATATA
* * *
32735824 TTTATAATTTTATTAAAATTTTAAATGATTTTCTTAAAATTTT
1 TTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTT
32735867 TATTTGTACT
Statistics
Matches: 306, Mismatches: 36, Indels: 39
0.80 0.09 0.10
Matches are distributed among these distances:
97 59 0.19
98 11 0.04
99 2 0.01
102 7 0.02
103 7 0.02
104 1 0.00
106 7 0.02
107 7 0.02
108 2 0.01
109 32 0.10
110 112 0.37
111 18 0.06
112 1 0.00
113 1 0.00
114 39 0.13
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (110 bp):
TTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCAA
GAAGCAAATAACACATTTTTTTTGAATTTTTGAACTTTTTATATA
Found at i:32739519 original size:14 final size:14
Alignment explanation
Indices: 32739483--32739521 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
32739473 GCTTAATAAA
32739483 TTATGACATATGCT
1 TTATGACATATGCT
* * *
32739497 TAATAACATATGGT
1 TTATGACATATGCT
32739511 TTATGACATAT
1 TTATGACATAT
32739522 AAACTAATGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (14 bp):
TTATGACATATGCT
Found at i:32739805 original size:20 final size:21
Alignment explanation
Indices: 32739768--32739817 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
32739758 ATATAATAAT
32739768 AATTATATTAAGAATTTTATTA
1 AATTATA-TAAGAATTTTATTA
32739790 AATTATATAA-AATTTTATTA
1 AATTATATAAGAATTTTATTA
32739810 AATTATAT
1 AATTATAT
32739818 TTAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 18 0.64
21 3 0.11
22 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTATATAAGAATTTTATTA
Found at i:32739818 original size:10 final size:10
Alignment explanation
Indices: 32739768--32739852 Score: 61
Period size: 10 Copynumber: 8.6 Consensus size: 10
32739758 ATATAATAAT
32739768 AATTATATTAA
1 AATTATATT-A
*
32739779 GAATTTTATTA
1 -AATTATATTA
*
32739790 AATTATATAA
1 AATTATATTA
*
32739800 AATTTTATTA
1 AATTATATTA
*
32739810 AATTATATTT
1 AATTATATTA
32739820 AA-TA-A-T-
1 AATTATATTA
*
32739826 AATTATGTTA
1 AATTATATTA
*
32739836 AAATATGATTA
1 AATTAT-ATTA
32739847 AATTAT
1 AATTAT
32739853 TTATTATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
6 2 0.04
7 3 0.05
8 1 0.02
9 3 0.05
10 31 0.54
11 9 0.16
12 8 0.14
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (10 bp):
AATTATATTA
Found at i:32739864 original size:58 final size:59
Alignment explanation
Indices: 32739731--32739894 Score: 167
Period size: 58 Copynumber: 2.8 Consensus size: 59
32739721 TTTTTATAGT
* * *
32739731 ATTATATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTTATTAAATT-ATATTTAATAATAATTATATTAAGAATATGATTAA
* * *
32739791 ATTATATA-AAATTTTATTAAATTATATTTAATAATAATTATGTTAA-AATATGATTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGATTAA
* ** *
32739848 ATTATTTATTATTTTTATTAAATCGTTTTTAATAATAATCT-TATTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAA
32739895 AATTTAATAA
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
56 3 0.03
57 27 0.31
58 47 0.54
59 2 0.02
60 8 0.09
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (59 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGATTAA
Found at i:32740082 original size:16 final size:16
Alignment explanation
Indices: 32740061--32740117 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
32740051 AATTGAATTA
32740061 CTATTACAGCTTTATT
1 CTATTACAGCTTTATT
32740077 CTATTACAGCTTTATT
1 CTATTACAGCTTTATT
* *
32740093 CAATTACAGCTCTATT
1 CTATTACAGCTTTATT
*
32740109 CCATTACAG
1 CTATTACAG
32740118 TGAACCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (16 bp):
CTATTACAGCTTTATT
Found at i:32740507 original size:82 final size:82
Alignment explanation
Indices: 32740370--32740536 Score: 289
Period size: 82 Copynumber: 2.0 Consensus size: 82
32740360 TTACTTTGGT
* *
32740370 TTGGAAATTGTCTTGATGGTATAGTTCTTCATAAATGTACTAATATGCCAAATCTTAATCAACTA
1 TTGGAAAATGTCGTGATGGTATAGTTCTTCATAAATGTACTAATATGCCAAATCTTAATCAACTA
32740435 TAATATGTGGTGAGGAA
66 TAATATGTGGTGAGGAA
* * *
32740452 TTGGAAAATGTCGTGATGGTATGGTTCTTCATAAATGTACTACTATGCCAAATCTTGATCAACTA
1 TTGGAAAATGTCGTGATGGTATAGTTCTTCATAAATGTACTAATATGCCAAATCTTAATCAACTA
32740517 TAATATGTGGTGAGGAA
66 TAATATGTGGTGAGGAA
32740534 TTG
1 TTG
32740537 TTATGATGAT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (82 bp):
TTGGAAAATGTCGTGATGGTATAGTTCTTCATAAATGTACTAATATGCCAAATCTTAATCAACTA
TAATATGTGGTGAGGAA
Found at i:32754391 original size:43 final size:43
Alignment explanation
Indices: 32754356--32754497 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
32754346 CTTACATGTT
* * * *
32754356 ATCACATATCGATGCCACTGTCCCAGAGAGGGTCTTACACGAA
1 ATCACATAACGATGACAATGTCCCAGACAGGGTCTTACACGAA
* * *
32754399 ATCATATAACGATGACAATGTCCCAGACATGGTCTTACACGTA
1 ATCACATAACGATGACAATGTCCCAGACAGGGTCTTACACGAA
* * * * * * *
32754442 ATTATA-ATACAATG-CAGATGTCCCATACATGGTCTTACATGTA
1 ATCACATA-ACGATGACA-ATGTCCCAGACAGGGTCTTACACGAA
*
32754485 ATCACATATCGAT
1 ATCACATAACGAT
32754498 AACCCAATGT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.04
43 77 0.95
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
ATCACATAACGATGACAATGTCCCAGACAGGGTCTTACACGAA
Found at i:32757680 original size:104 final size:104
Alignment explanation
Indices: 32757500--32757712 Score: 417
Period size: 104 Copynumber: 2.0 Consensus size: 104
32757490 CCGTGTCGTG
*
32757500 ACATCAAGGTGCTTTCTTCGATTCTTGCAGTATGCACGCACAACATCGACTCTATTTCAGCCCCA
1 ACATCAAGGTGCTTTCTTCGATTCTTGCAGTATGCACGCACAACATCGACTCTATTTCAGCCCAA
32757565 AATTTCCATTTTTGGAATGCCATGATCTATATTAAACAT
66 AATTTCCATTTTTGGAATGCCATGATCTATATTAAACAT
32757604 ACATCAAGGTGCTTTCTTCGATTCTTGCAGTATGCACGCACAACATCGACTCTATTTCAGCCCAA
1 ACATCAAGGTGCTTTCTTCGATTCTTGCAGTATGCACGCACAACATCGACTCTATTTCAGCCCAA
32757669 AATTTCCATTTTTGGAATGCCATGATCTATATTAAACAT
66 AATTTCCATTTTTGGAATGCCATGATCTATATTAAACAT
32757708 ACATC
1 ACATC
32757713 TAATATAAGT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 108 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (104 bp):
ACATCAAGGTGCTTTCTTCGATTCTTGCAGTATGCACGCACAACATCGACTCTATTTCAGCCCAA
AATTTCCATTTTTGGAATGCCATGATCTATATTAAACAT
Found at i:32766541 original size:11 final size:11
Alignment explanation
Indices: 32766525--32766549 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32766515 TTTAATGGTC
32766525 TAATTACCATA
1 TAATTACCATA
32766536 TAATTACCATA
1 TAATTACCATA
32766547 TAA
1 TAA
32766550 GAACCATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATTACCATA
Found at i:32771007 original size:9 final size:9
Alignment explanation
Indices: 32770993--32771019 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
32770983 AAAAGAATAA
32770993 GTTAGAAAT
1 GTTAGAAAT
32771002 GTTAGAAAT
1 GTTAGAAAT
32771011 GTTAGAAAT
1 GTTAGAAAT
32771020 AAACCGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (9 bp):
GTTAGAAAT
Found at i:32785165 original size:17 final size:17
Alignment explanation
Indices: 32785129--32785164 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
32785119 ATATCAAAAG
*
32785129 TTTGAAAATATTTTGAT
1 TTTGAAAATATTCTGAT
32785146 TTTGAAAATATTCT-AT
1 TTTGAAAATATTCTGAT
32785162 TTT
1 TTT
32785165 TTTATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (17 bp):
TTTGAAAATATTCTGAT
Found at i:32796179 original size:20 final size:20
Alignment explanation
Indices: 32796154--32796191 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
32796144 TTGTACGGGA
32796154 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCGGTGCCTCTAT
32796174 TTGCACTTCGGTGCCTCT
1 TTGCACTTCGGTGCCTCT
32796192 GTTACACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.32, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTAT
Found at i:32798818 original size:39 final size:39
Alignment explanation
Indices: 32798764--32798841 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
32798754 TTAAATTATA
* *
32798764 ATTTTTGTCCATGTATTATTCAAATTTAGATATTTTAAT
1 ATTTTTGTCCATGTATTATACAAATTTAGATATTCTAAT
*
32798803 ATTTTTGTCCATGTATTATACGAATTTAGATATTCTAAT
1 ATTTTTGTCCATGTATTATACAAATTTAGATATTCTAAT
32798842 TTATGAACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (39 bp):
ATTTTTGTCCATGTATTATACAAATTTAGATATTCTAAT
Found at i:32799305 original size:13 final size:13
Alignment explanation
Indices: 32799287--32799323 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
32799277 AAAGCGCTTT
32799287 TGAAAAA-TGCTG
1 TGAAAAAGTGCTG
32799299 TGAAAAAGTGCTG
1 TGAAAAAGTGCTG
32799312 TGAAAAAGTGCT
1 TGAAAAAGTGCT
32799324 TTTGAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (13 bp):
TGAAAAAGTGCTG
Found at i:32803028 original size:5 final size:5
Alignment explanation
Indices: 32802997--32803057 Score: 77
Period size: 5 Copynumber: 11.4 Consensus size: 5
32802987 TTTTTACAAT
*
32802997 TAATA TTAATA TAATTA TATTGAA TAATA TAATA TAATA TAATA TAATA
1 TAATA -TAATA TAA-TA TAAT--A TAATA TAATA TAATA TAATA TAATA
32803046 TAATA TAATA TA
1 TAATA TAATA TA
32803058 TGTTTAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
5 37 0.74
6 9 0.18
7 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:32803876 original size:20 final size:20
Alignment explanation
Indices: 32803829--32803878 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
32803819 GGGGTCGCAT
*
32803829 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCTTGGGACAC
* *
32803849 GGCTGTGTGGCTTGGGACAC
1 GCCCGTGTGGCTTGGGACAC
32803869 GCCCGTGTGG
1 GCCCGTGTGG
32803879 TCACACACGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.24, G:0.44, T:0.24
Consensus pattern (20 bp):
GCCCGTGTGGCTTGGGACAC
Found at i:32807991 original size:17 final size:17
Alignment explanation
Indices: 32807969--32808023 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
32807959 TTCTATTCTT
*
32807969 TTTCTTTTCTTTATTTA
1 TTTCTTTTATTTATTTA
*
32807986 TTTCTTTTATTTATTTC
1 TTTCTTTTATTTATTTA
32808003 TTT-TATTATATTTACTTTA
1 TTTCT-TT-TATTTA-TTTA
32808022 TT
1 TT
32808024 ATATTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.03
17 20 0.62
18 6 0.19
19 5 0.16
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTCTTTTATTTATTTA
Found at i:32808028 original size:14 final size:13
Alignment explanation
Indices: 32807974--32808020 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
32807964 TTCTTTTTCT
32807974 TTTC-TTTATTTA
1 TTTCTTTTATTTA
32807986 TTTCTTTTATTTA
1 TTTCTTTTATTTA
32807999 TTTCTTTTATTATA
1 TTTCTTTTATT-TA
32808013 TTTACTTT
1 TTT-CTTT
32808021 ATTATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.12
13 19 0.59
14 5 0.16
15 4 0.12
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTTATTTA
Found at i:32808030 original size:19 final size:18
Alignment explanation
Indices: 32807978--32808039 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
32807968 TTTTCTTTTC
* *
32807978 TTTATTTATT-TCTTTTA
1 TTTATTTATTATATTATA
* *
32807995 TTTATTTCTTTTATTATA
1 TTTATTTATTATATTATA
32808013 TTTACTTTATTATATTATA
1 TTTA-TTTATTATATTATA
*
32808032 TATATTTA
1 TTTATTTA
32808040 CTTAAATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 9 0.24
18 13 0.35
19 15 0.41
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTATTATATTATA
Found at i:32811298 original size:3 final size:3
Alignment explanation
Indices: 32811290--32811323 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
32811280 ATCTTAAAAA
*
32811290 ATC ATC ATC ATT ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
32811324 CCGTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:32812983 original size:34 final size:34
Alignment explanation
Indices: 32812907--32812983 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
32812897 ATCACAATGC
* **
32812907 CAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAGTAGGGCCTTAGCCCAATAACAGTAA
* *
32812942 TAGTATCAGTGGGGCCTTAGCCC-ATAACAGTAA
1 CAGTATCAGTAGGGCCTTAGCCCAATAACAGTAA
32812975 CAGATATCA
1 CAG-TATCA
32812984 ATCATGCAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 10 0.29
34 22 0.63
35 3 0.09
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTAGGGCCTTAGCCCAATAACAGTAA
Found at i:32813045 original size:29 final size:31
Alignment explanation
Indices: 32812983--32813047 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
32812973 AACAGATATC
*
32812983 AATC-ATGCAGTGAACAGTATGTAAAATCATT
1 AATCAATGCAGTGAACAGTA-GCAAAATCATT
32813014 AATCAATGCAGT-AACAGTA-CAAAATCATT
1 AATCAATGCAGTGAACAGTAGCAAAATCATT
32813043 AATCA
1 AATCA
32813048 GTGTAGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.44
31 11 0.34
32 7 0.22
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (31 bp):
AATCAATGCAGTGAACAGTAGCAAAATCATT
Found at i:32813467 original size:27 final size:27
Alignment explanation
Indices: 32813447--32813862 Score: 363
Period size: 27 Copynumber: 15.4 Consensus size: 27
32813437 GGGTATAACA
32813447 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
*
32813474 GTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * *
32813501 GTTATTCTACCCTAT-AGGAGTATTTCA
1 GTCATTTTACCCTATAAGG-GTATTTCG
**
32813528 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
32813555 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32813582 GTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32813609 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * * *
32813636 ATCATTTTATCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32813662 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
32813689 TTCATTTTACCCATATAGGGGGTATTTCG
1 GTCATTTTACCC-TATA-AGGGTATTTCG
* * * *
32813718 GTTATTTTATCCTAT-GGGGATATTTTG
1 GTCATTTTACCCTATAAGGG-TATTTCG
* * ** *
32813745 GTTATTTTACCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32813772 GTCCTTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
*
32813799 GTCATTTTACCCTAT-GGAGGTATTTCG
1 GTCATTTTACCCTATAAG-GGTATTTCG
* * * *
32813826 ATCATTCTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
32813853 GTCATTTTAC
1 GTCATTTTAC
32813863 ATATTTTAAG
Statistics
Matches: 333, Mismatches: 47, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
26 30 0.09
27 270 0.81
28 14 0.04
29 19 0.06
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTCG
Found at i:32813495 original size:54 final size:54
Alignment explanation
Indices: 32813447--32813862 Score: 521
Period size: 54 Copynumber: 7.7 Consensus size: 54
32813437 GGGTATAACA
* * * ** *
32813447 GTCATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * **
32813501 GTTATTCTACCCTATAGGAGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * *
32813555 GTCATTTTACCCTATAGGGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * * *
32813609 GTCATTCTACCCTATGGGGGTATTTTGATCATTTTATCCTAT-GGGGTATTTCA
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* *
32813662 GTCATTCTACCCTATGGGGGTATTTTGTTCATTTTACCCATATAGGGGGTATTTCG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCC-TAT-GGGGGTATTTCG
* * * * * *
32813718 GTTATTTTATCCTAT-GGGGATATTTTGGTTATTTTACCCTGTGGGGGTATTTTG
1 GTCATTCTACCCTATAGGGG-TATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * * *
32813772 GTCCTTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGAGGTATTTCG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
*
32813826 ATCATTCTACCCTATAGGGGTATTTTGGTCATTTTAC
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTAC
32813863 ATATTTTAAG
Statistics
Matches: 316, Mismatches: 41, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
53 48 0.15
54 219 0.69
55 10 0.03
56 39 0.12
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (54 bp):
GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
Found at i:32813580 original size:81 final size:80
Alignment explanation
Indices: 32813436--32813862 Score: 523
Period size: 81 Copynumber: 5.3 Consensus size: 80
32813426 TCATCTCCTA
** ** *
32813436 GGGGTATAACAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTTG
* *
32813501 GTTATTCTACCCTATA
65 GTCATTCTACCCTATG
*
32813517 GGAGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTTG
32813582 GTCATTCTACCCTATG
65 GTCATTCTACCCTATG
* * * * **
32813598 GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTTGATCATTTTATCCTATGGGGTATTTCAG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTTGG
32813663 TCATTCTACCCTATG
66 TCATTCTACCCTATG
* * *
32813678 GGGGTATTT-TGTTCATTTTACCCATATAGGGGGTATTTCGGTTATTTTATCCTATGGGGATATT
1 GGGGTATTTCAG-TCATTTTACCC-TAT-GGGGGTATTTCGGTCATTTTACCCTATGGGG-TATT
* * *
32813742 TTGGTTATTTTACCCTGTG
62 TTGGTCATTCTACCCTATG
** * * *
32813761 GGGGTATTTTGGTCCTTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGAGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGG-GGTATTTTG
* *
32813826 ATCATTCTACCCTATA
65 GTCATTCTACCCTATG
**
32813842 GGGGTATTTTGGTCATTTTAC
1 GGGGTATTTCAGTCATTTTAC
32813863 ATATTTTAAG
Statistics
Matches: 303, Mismatches: 37, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.00
80 44 0.15
81 187 0.62
82 33 0.11
83 37 0.12
84 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (80 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTTGG
TCATTCTACCCTATG
Found at i:32817738 original size:34 final size:34
Alignment explanation
Indices: 32817662--32817738 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
32817652 ATCACAATGC
* **
32817662 CAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAGTAGGGCCTTAGCCCAATAACAGTAA
* *
32817697 TAGTATCAGTGGGGCCTTAGCCC-ATAACAGTAA
1 CAGTATCAGTAGGGCCTTAGCCCAATAACAGTAA
32817730 CAGATATCA
1 CAG-TATCA
32817739 ATCATGCAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 10 0.29
34 22 0.63
35 3 0.09
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTAGGGCCTTAGCCCAATAACAGTAA
Found at i:32817800 original size:29 final size:31
Alignment explanation
Indices: 32817738--32817802 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
32817728 AACAGATATC
*
32817738 AATC-ATGCAGTGAACAGTATGTAAAATCATT
1 AATCAATGCAGTGAACAGTA-GCAAAATCATT
32817769 AATCAATGCAGT-AACAGTA-CAAAATCATT
1 AATCAATGCAGTGAACAGTAGCAAAATCATT
32817798 AATCA
1 AATCA
32817803 GTGTAGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.44
31 11 0.34
32 7 0.22
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (31 bp):
AATCAATGCAGTGAACAGTAGCAAAATCATT
Found at i:32818222 original size:27 final size:27
Alignment explanation
Indices: 32818202--32818617 Score: 363
Period size: 27 Copynumber: 15.4 Consensus size: 27
32818192 GGGTATAACA
32818202 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
*
32818229 GTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * *
32818256 GTTATTCTACCCTAT-AGGAGTATTTCA
1 GTCATTTTACCCTATAAGG-GTATTTCG
**
32818283 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
32818310 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32818337 GTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32818364 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * * *
32818391 ATCATTTTATCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32818417 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
32818444 TTCATTTTACCCATATAGGGGGTATTTCG
1 GTCATTTTACCC-TATA-AGGGTATTTCG
* * * *
32818473 GTTATTTTATCCTAT-GGGGATATTTTG
1 GTCATTTTACCCTATAAGGG-TATTTCG
* * ** *
32818500 GTTATTTTACCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** *
32818527 GTCCTTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
*
32818554 GTCATTTTACCCTAT-GGAGGTATTTCG
1 GTCATTTTACCCTATAAG-GGTATTTCG
* * * *
32818581 ATCATTCTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
32818608 GTCATTTTAC
1 GTCATTTTAC
32818618 ATATTTTAAG
Statistics
Matches: 333, Mismatches: 47, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
26 30 0.09
27 270 0.81
28 14 0.04
29 19 0.06
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTCG
Found at i:32818250 original size:54 final size:54
Alignment explanation
Indices: 32818202--32818617 Score: 521
Period size: 54 Copynumber: 7.7 Consensus size: 54
32818192 GGGTATAACA
* * * ** *
32818202 GTCATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * **
32818256 GTTATTCTACCCTATAGGAGTATTTCAGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * *
32818310 GTCATTTTACCCTATAGGGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * * *
32818364 GTCATTCTACCCTATGGGGGTATTTTGATCATTTTATCCTAT-GGGGTATTTCA
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* *
32818417 GTCATTCTACCCTATGGGGGTATTTTGTTCATTTTACCCATATAGGGGGTATTTCG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCC-TAT-GGGGGTATTTCG
* * * * * *
32818473 GTTATTTTATCCTAT-GGGGATATTTTGGTTATTTTACCCTGTGGGGGTATTTTG
1 GTCATTCTACCCTATAGGGG-TATTTTGGTCATTTTACCCTATGGGGGTATTTCG
* * * *
32818527 GTCCTTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGAGGTATTTCG
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
*
32818581 ATCATTCTACCCTATAGGGGTATTTTGGTCATTTTAC
1 GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTAC
32818618 ATATTTTAAG
Statistics
Matches: 316, Mismatches: 41, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
53 48 0.15
54 219 0.69
55 10 0.03
56 39 0.12
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (54 bp):
GTCATTCTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
Found at i:32818335 original size:81 final size:80
Alignment explanation
Indices: 32818191--32818617 Score: 523
Period size: 81 Copynumber: 5.3 Consensus size: 80
32818181 TCATCTCCTA
** ** *
32818191 GGGGTATAACAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTTG
* *
32818256 GTTATTCTACCCTATA
65 GTCATTCTACCCTATG
*
32818272 GGAGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTTG
32818337 GTCATTCTACCCTATG
65 GTCATTCTACCCTATG
* * * * **
32818353 GGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTTGATCATTTTATCCTATGGGGTATTTCAG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTTGG
32818418 TCATTCTACCCTATG
66 TCATTCTACCCTATG
* * *
32818433 GGGGTATTT-TGTTCATTTTACCCATATAGGGGGTATTTCGGTTATTTTATCCTATGGGGATATT
1 GGGGTATTTCAG-TCATTTTACCC-TAT-GGGGGTATTTCGGTCATTTTACCCTATGGGG-TATT
* * *
32818497 TTGGTTATTTTACCCTGTG
62 TTGGTCATTCTACCCTATG
** * * *
32818516 GGGGTATTTTGGTCCTTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGAGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGG-GGTATTTTG
* *
32818581 ATCATTCTACCCTATA
65 GTCATTCTACCCTATG
**
32818597 GGGGTATTTTGGTCATTTTAC
1 GGGGTATTTCAGTCATTTTAC
32818618 ATATTTTAAG
Statistics
Matches: 303, Mismatches: 37, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.00
80 44 0.15
81 187 0.62
82 33 0.11
83 37 0.12
84 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (80 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTTGG
TCATTCTACCCTATG
Found at i:32823525 original size:14 final size:14
Alignment explanation
Indices: 32823508--32823536 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32823498 TTCTAAGGTC
32823508 TTTAAGTTTATTAT
1 TTTAAGTTTATTAT
32823522 TTTAAGTTTATTAT
1 TTTAAGTTTATTAT
32823536 T
1 T
32823537 AATTAAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTAAGTTTATTAT
Found at i:32828423 original size:30 final size:30
Alignment explanation
Indices: 32828376--32828462 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
32828366 GAGAATAAGT
* * * *
32828376 TGCTTACACAAGCTGACATTATATCAGGGC
1 TGCTCACACAAGTTGACATTATATCAAGAC
* * *
32828406 TGCTCATACAAGTTGACATTATATTAAGAT
1 TGCTCACACAAGTTGACATTATATCAAGAC
32828436 TGCTCACACAAGTTGACATTATATCAA
1 TGCTCACACAAGTTGACATTATATCAA
32828463 TGTTACCAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (30 bp):
TGCTCACACAAGTTGACATTATATCAAGAC
Found at i:32828614 original size:23 final size:23
Alignment explanation
Indices: 32828586--32828629 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
32828576 GCATGCCATG
32828586 CGTATCCTAACCTTTTACTAATA
1 CGTATCCTAACCTTTTACTAATA
32828609 CGTATCCTAACCTTTTACTAA
1 CGTATCCTAACCTTTTACTAA
32828630 GTTCACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (23 bp):
CGTATCCTAACCTTTTACTAATA
Found at i:32828656 original size:2 final size:2
Alignment explanation
Indices: 32828651--32828675 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32828641 CATAATTTCC
32828651 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32828676 CGTCATTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32831635 original size:86 final size:86
Alignment explanation
Indices: 32831529--32831697 Score: 329
Period size: 86 Copynumber: 2.0 Consensus size: 86
32831519 ATAGGCTAGG
32831529 TATAAATTGAGAAAGAAGTGATTATATGATGTGTGTGTGATGTATGTTGTGGTCATGGATTTATT
1 TATAAATTGAGAAAGAAGTGATTATATGATGTGTGTGTGATGTATGTTGTGGTCATGGATTTATT
32831594 ATGTTGAAATTGATATGTAGC
66 ATGTTGAAATTGATATGTAGC
*
32831615 TATAAATTGAGAATGAAGTGATTATATGATGTGTGTGTGATGTATGTTGTGGTCATGGATTTATT
1 TATAAATTGAGAAAGAAGTGATTATATGATGTGTGTGTGATGTATGTTGTGGTCATGGATTTATT
32831680 ATGTTGAAATTGATATGT
66 ATGTTGAAATTGATATGT
32831698 TGGATTTATT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.42
Consensus pattern (86 bp):
TATAAATTGAGAAAGAAGTGATTATATGATGTGTGTGTGATGTATGTTGTGGTCATGGATTTATT
ATGTTGAAATTGATATGTAGC
Found at i:32835428 original size:20 final size:21
Alignment explanation
Indices: 32835399--32835457 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
32835389 GCTTTGGAAA
*
32835399 TTTT-TTCTTCTTTTTCTTC-
1 TTTTCTTCTTCTTTTTCTACG
32835418 TTTTCTTCTTC-TTTTCTACG
1 TTTTCTTCTTCTTTTTCTACG
* *
32835438 TTTTCTTTTTCTTTTACTAC
1 TTTTCTTCTTCTTTTTCTAC
32835458 CCAACCTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.32
20 16 0.47
21 7 0.21
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTCTTCTTCTTTTTCTACG
Found at i:32835434 original size:11 final size:10
Alignment explanation
Indices: 32835399--32835432 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
32835389 GCTTTGGAAA
32835399 TTTTTTCTTC
1 TTTTTTCTTC
32835409 -TTTTTCTTC
1 TTTTTTCTTC
32835418 TTTTCTTCTTC
1 TTTT-TTCTTC
32835429 TTTT
1 TTTT
32835433 CTACGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:32837115 original size:27 final size:26
Alignment explanation
Indices: 32837036--32837198 Score: 134
Period size: 27 Copynumber: 6.1 Consensus size: 26
32837026 AAGGCCATAA
* **
32837036 CAGTCATTTTATCTCCTA-AGGGTATAA
1 CAGTCATTTTA-CT-CTATGGGGTATTT
*
32837063 CAGTCATTTTACCCTATGGAGGTATTT
1 CAGTCATTTTACTCTATGG-GGTATTT
32837090 CAGTCATTTTACTCTATAGGGGTATTT
1 CAGTCATTTTACTCTAT-GGGGTATTT
** * *
32837117 TGGTCATTTTACGCTATCGGGTATTT
1 CAGTCATTTTACTCTATGGGGTATTT
**
32837143 TGGTCATTTTA-TCCTATGGGGGTATTT
1 CAGTCATTTTACT-CTAT-GGGGTATTT
*
32837170 CGGTCATTTTA-TCTTATGGGGGTATTT
1 CAGTCATTTTACTC-TAT-GGGGTATTT
32837197 CA
1 CA
32837199 CTGCAGATAT
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
25 3 0.03
26 26 0.22
27 86 0.74
28 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (26 bp):
CAGTCATTTTACTCTATGGGGTATTT
Found at i:32837165 original size:53 final size:54
Alignment explanation
Indices: 32837065--32837198 Score: 155
Period size: 53 Copynumber: 2.5 Consensus size: 54
32837055 GGGTATAACA
* *
32837065 GTCATTTTACCCTATGGAGGTATTTCAGTCATTTTACTCTATAGGGGTATTTTG
1 GTCATTTTACCCTATCGAGGTATTTCAGTCATTTTACTCTATAGGGGTATTTCG
* ** *
32837119 GTCATTTTACGCTATCG-GGTATTTTGGTCATTTTA-TCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATCGAGGTATTTCAGTCATTTTACT-CTATAGGGGTATTTCG
* * * *
32837172 GTCATTTTATCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATCGAGGTATTTCA
32837199 CTGCAGATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 1 0.02
53 43 0.65
54 22 0.33
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (54 bp):
GTCATTTTACCCTATCGAGGTATTTCAGTCATTTTACTCTATAGGGGTATTTCG
Found at i:32851619 original size:69 final size:69
Alignment explanation
Indices: 32851523--32851676 Score: 272
Period size: 69 Copynumber: 2.2 Consensus size: 69
32851513 TTATTTTATA
* *
32851523 GAATCTCTCATGTTTACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTG
1 GAATCTCTCATGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATGTTGTTG
32851588 CAGG
66 CAGG
*
32851592 GAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATGTTGTTG
1 GAATCTCTCATGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATGTTGTTG
32851657 CAGG
66 CAGG
*
32851661 AAATCTCTCATGTTCA
1 GAATCTCTCATGTTCA
32851677 TGTAAAATAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (69 bp):
GAATCTCTCATGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATGTTGTTG
CAGG
Found at i:32851628 original size:34 final size:34
Alignment explanation
Indices: 32851523--32851676 Score: 200
Period size: 35 Copynumber: 4.5 Consensus size: 34
32851513 TTATTTTATA
* *
32851523 GAATCTCTCATGTTTACACATCATTTCTTGCAGG
1 GAATCTCTCCTGTTCACACATCATTTCTTGCAGG
* * *
32851557 GAATCTCTCCTGTTCACGCATTATTTTGTTGCAGG
1 GAATCTCTCCTGTTCACACATCA-TTTCTTGCAGG
32851592 GAATCTCTCCTGTTCACACATCATTTCTTGCAGG
1 GAATCTCTCCTGTTCACACATCATTTCTTGCAGG
* * *
32851626 GAATCTCTCCTGTTCACGCATTATGTTGTTGCAGG
1 GAATCTCTCCTGTTCACACATCAT-TTCTTGCAGG
* *
32851661 AAATCTCTCATGTTCA
1 GAATCTCTCCTGTTCA
32851677 TGTAAAATAA
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
34 51 0.49
35 54 0.51
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (34 bp):
GAATCTCTCCTGTTCACACATCATTTCTTGCAGG
Found at i:32854249 original size:12 final size:12
Alignment explanation
Indices: 32854227--32854259 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
32854217 AACTTATTTT
32854227 TTTCTTTTAAAAG
1 TTTC-TTTAAAAG
32854240 TTTCTTT-AAAG
1 TTTCTTTAAAAG
32854251 TTTCTTTAA
1 TTTCTTTAA
32854260 TCGTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 4 0.21
13 4 0.21
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (12 bp):
TTTCTTTAAAAG
Found at i:32858193 original size:60 final size:60
Alignment explanation
Indices: 32858093--32858234 Score: 137
Period size: 60 Copynumber: 2.4 Consensus size: 60
32858083 GTTTACTTAT
* * * * * **
32858093 AATTTTCAAAAAATTAAAAGATATAATGAAATTTTCCAAAAATTTTG-AGGGGTC-AATTA
1 AATTTTTAAAAAATTTAAAGATAAAAGGAAATTATCC-AAAATTTTGAAGGGACCTAATTA
*
32858152 CAATTTTTAAAAAATTTTAAGA-AAAAGGAAATTATCTCAAAATTTTGAAGGGACCTAATTA
1 -AATTTTTAAAAAATTTAAAGATAAAAGGAAATTATC-CAAAATTTTGAAGGGACCTAATTA
* *
32858213 AATTTATTTAAAAATTTCAAGA
1 AATTT-TTAAAAAATTTAAAGA
32858235 GAGAATTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 20 0.29
60 29 0.43
61 19 0.28
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (60 bp):
AATTTTTAAAAAATTTAAAGATAAAAGGAAATTATCCAAAATTTTGAAGGGACCTAATTA
Found at i:32861984 original size:2 final size:2
Alignment explanation
Indices: 32861977--32862001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32861967 GTTATGTTTT
32861977 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32862002 TTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32862796 original size:12 final size:12
Alignment explanation
Indices: 32862760--32862800 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
32862750 TTTGACAAGT
32862760 TTAAGTACTAAA
1 TTAAGTACTAAA
* **
32862772 TTAAATAAAAAA
1 TTAAGTACTAAA
32862784 TTAAGTACTAAA
1 TTAAGTACTAAA
32862796 TTAAG
1 TTAAG
32862801 AAAAAAGTGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (12 bp):
TTAAGTACTAAA
Found at i:32862814 original size:23 final size:24
Alignment explanation
Indices: 32862761--32862808 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
32862751 TTGACAAGTT
* *
32862761 TAAGTACTAAATTAAATAAAAAAT
1 TAAGTACTAAATTAAAGAAAAAAG
32862785 TAAGTACTAAATT-AAGAAAAAAG
1 TAAGTACTAAATTAAAGAAAAAAG
32862808 T
1 T
32862809 GGGTACCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.27
Consensus pattern (24 bp):
TAAGTACTAAATTAAAGAAAAAAG
Found at i:32864715 original size:3 final size:3
Alignment explanation
Indices: 32864646--32864700 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
32864636 AAAATAAAAC
* *
32864646 TAA TAA TAA TAAA TAA TAA TAA TAG TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32864692 TAA TAA TAA
1 TAA TAA TAA
32864701 ATGTAATGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:32867390 original size:31 final size:31
Alignment explanation
Indices: 32867318--32867378 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
32867308 AACAGTTCAG
* * *
32867318 TGACTTAAATAAAAACTTTTGAATAGTTTAA
1 TGACTTAAATGAAAACTTTTAAATAATTTAA
32867349 TGACTTAAATGAAAACTTTTAAATAATTTA
1 TGACTTAAATGAAAACTTTTAAATAATTTA
32867379 GAGACTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTTAAATAATTTAA
Found at i:32867398 original size:30 final size:31
Alignment explanation
Indices: 32867318--32867398 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
32867308 AACAGTTCAG
* * * *
32867318 TGACTTAAATAAAAACTTTTGAATAGTTTAA
1 TGACTAAAATGAAAACTTTTAAATAATTTAA
*
32867349 TGACTTAAATGAAAACTTTTAAATAATTTAGA
1 TGACTAAAATGAAAACTTTTAAATAATTTA-A
*
32867381 -GACTAAAATG-TAACTTTT
1 TGACTAAAATGAAAACTTTT
32867399 TTTTAATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
30 7 0.16
31 36 0.82
32 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (31 bp):
TGACTAAAATGAAAACTTTTAAATAATTTAA
Found at i:32868381 original size:31 final size:31
Alignment explanation
Indices: 32868324--32868382 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
32868314 TTATTTATGT
**
32868324 ATTTTTAAATATTTTTAATTTTAATTTTGAA
1 ATTTTTAAATATTTTTAATTAAAATTTTGAA
**
32868355 ATTTTTATGTATTTTTAATTAAAATTTT
1 ATTTTTAAATATTTTTAATTAAAATTTT
32868383 ATGATTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (31 bp):
ATTTTTAAATATTTTTAATTAAAATTTTGAA
Found at i:32868390 original size:31 final size:31
Alignment explanation
Indices: 32868317--32868395 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
32868307 TTTTGTTTTA
**
32868317 TTTATGTATTTTTAAATATTTTTAATTTTAAT
1 TTTATG-ATTTTTAAATATTTTTAATTAAAAT
* **
32868349 TTTGA-AATTTTTATGTATTTTTAATTAAAAT
1 TTT-ATGATTTTTAAATATTTTTAATTAAAAT
32868380 TTTATGATTTTCTAAA
1 TTTATGATTTT-TAAA
32868396 ATTAAGATTG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
30 1 0.03
31 29 0.81
32 5 0.14
33 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTATGATTTTTAAATATTTTTAATTAAAAT
Found at i:32869019 original size:20 final size:20
Alignment explanation
Indices: 32868970--32869009 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32868960 TTTTTACATG
32868970 GAAATTTTCTCATCCTATAT
1 GAAATTTTCTCATCCTATAT
32868990 GAAATTTTCTCATCCTATAT
1 GAAATTTTCTCATCCTATAT
32869010 ATAGTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (20 bp):
GAAATTTTCTCATCCTATAT
Found at i:32873773 original size:29 final size:28
Alignment explanation
Indices: 32873741--32873800 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
32873731 TAGTTTATAC
*
32873741 TTTTTAAATAATTT-TAATGTTTTTTAATT
1 TTTTTAAATAATTTAT-AT-ATTTTTAATT
32873770 TTTTTAAATAATTTATATATTTTTAATT
1 TTTTTAAATAATTTATATATTTTTAATT
32873798 TTT
1 TTT
32873801 AAAGTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 12 0.41
29 16 0.55
30 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTTAAATAATTTATATATTTTTAATT
Found at i:32873784 original size:28 final size:29
Alignment explanation
Indices: 32873741--32873800 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
32873731 TAGTTTATAC
*
32873741 TTTTTAAATAATTTTA-ATGTTTTTTAATT
1 TTTTTAAATAATTTTATAT-ATTTTTAATT
32873770 TTTTTAAATAA-TTTATATATTTTTAATT
1 TTTTTAAATAATTTTATATATTTTTAATT
32873798 TTT
1 TTT
32873801 AAAGTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTTAAATAATTTTATATATTTTTAATT
Found at i:32882132 original size:6 final size:6
Alignment explanation
Indices: 32882123--32882150 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32882113 ATAGGAATAT
32882123 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
32882151 TGAAGGGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:32883726 original size:18 final size:18
Alignment explanation
Indices: 32883672--32883729 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
32883662 CATTTAGCTC
*
32883672 TCATGCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
* *** *
32883690 TCATCCAGTAAGCTTCCT
1 TCATCCATTCTTCTCCCT
32883708 TCATCCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
32883726 TCAT
1 TCAT
32883730 TCCTTCAAAT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.38, G:0.05, T:0.41
Consensus pattern (18 bp):
TCATCCATTCTTCTCCCT
Found at i:32884452 original size:12 final size:12
Alignment explanation
Indices: 32884435--32884460 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32884425 CGTTTGTGTA
32884435 TTCGATATAATG
1 TTCGATATAATG
32884447 TTCGATATAATG
1 TTCGATATAATG
32884459 TT
1 TT
32884461 TTCTGGAAAA
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTCGATATAATG
Found at i:32885873 original size:13 final size:13
Alignment explanation
Indices: 32885855--32885882 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32885845 CTTGTACAAG
32885855 TAAACTTCATAAA
1 TAAACTTCATAAA
32885868 TAAACTTCATAAA
1 TAAACTTCATAAA
32885881 TA
1 TA
32885883 GAGAAAGAAT
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:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:32886341 original size:20 final size:20
Alignment explanation
Indices: 32886316--32886355 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32886306 AATATTTTTC
*
32886316 AGTAAATCATTTTACAGAAA
1 AGTAAAGCATTTTACAGAAA
*
32886336 AGTAAAGCATTTTCCAGAAA
1 AGTAAAGCATTTTACAGAAA
32886356 TCATTTTACG
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:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (20 bp):
AGTAAAGCATTTTACAGAAA
Found at i:32886459 original size:20 final size:19
Alignment explanation
Indices: 32886418--32886458 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32886408 AAAAGCCCTC
32886418 AAACTTTAAAAAAATAATA
1 AAACTTTAAAAAAATAATA
* * *
32886437 AAACTTTTAAAATATATTA
1 AAACTTTAAAAAAATAATA
32886456 AAA
1 AAA
32886459 AGGCCCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAACTTTAAAAAAATAATA
Found at i:32886646 original size:36 final size:35
Alignment explanation
Indices: 32886607--32886697 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 35
32886597 AAAATTAGAA
*
32886607 AAAAATTTATTAAAAATTAA-AATCAATAAAAAGAT
1 AAAAATTTATTAAAAATTAATAA-AAATAAAAAGAT
** ** *
32886642 AAAAATATTATTAAATTTTAATAAAAATTTAAATATT
1 AAAAAT-TTATTAAAAATTAATAAAAATAAAAAGA-T
32886679 AAAAATTTATTAAAAATTA
1 AAAAATTTATTAAAAATTA
32886698 GAAGAAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
35 6 0.13
36 30 0.67
37 9 0.20
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (35 bp):
AAAAATTTATTAAAAATTAATAAAAATAAAAAGAT
Found at i:32886724 original size:19 final size:19
Alignment explanation
Indices: 32886702--32886848 Score: 63
Period size: 19 Copynumber: 7.7 Consensus size: 19
32886692 AAATTAGAAG
32886702 AAAAATATA-AAAATCATAA
1 AAAAATATATAAAAT-ATAA
* **
32886721 AAAATATATATAAAAAATTGT
1 AAAA-ATATATAAAATA-TAA
* *
32886742 AAAAGT-TATAAAATATAT
1 AAAAATATATAAAATATAA
* *
32886760 AGAAATATA-AAAA-ATTA
1 AAAAATATATAAAATATAA
* * *
32886777 TAAAATTTATAAAGTCATAA
1 AAAAATATATAAAAT-ATAA
* * *
32886797 GAAAATTATACAAAATGTAA
1 -AAAAATATATAAAATATAA
**
32886817 AAAAATATA-AATTTCATAA
1 AAAAATATATAAAAT-ATAA
32886836 AAAAAT-TATAAAA
1 AAAAATATATAAAA
32886849 GTTATTGTAC
Statistics
Matches: 91, Mismatches: 27, Indels: 20
0.66 0.20 0.14
Matches are distributed among these distances:
17 8 0.09
18 18 0.20
19 33 0.36
20 13 0.14
21 19 0.21
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAATATATAAAATATAA
Found at i:32886729 original size:20 final size:20
Alignment explanation
Indices: 32886679--32886735 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
32886669 TTTAAATATT
* *
32886679 AAAAATTTATTAAAAATTAGA
1 AAAAATATA-TAAAAATCAGA
*
32886700 AGAAAA-ATATAAAAATCATA
1 A-AAAATATATAAAAATCAGA
32886720 AAAAATATATATAAAA
1 AAAAATATATA-AAAA
32886736 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.13
20 15 0.50
21 7 0.23
22 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAATATATAAAAATCAGA
Found at i:32886777 original size:27 final size:27
Alignment explanation
Indices: 32886703--32886806 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
32886693 AATTAGAAGA
32886703 AAAATATA-AAAATCATAAAAAA-TAT
1 AAAATATATAAAATCATAAAAAATTAT
* ** *
32886728 ---ATATAAAAAATTGT-AAAAGTTAT
1 AAAATATATAAAATCATAAAAAATTAT
32886751 AAAATATATAGAAAT-ATAAAAAATTAT
1 AAAATATATA-AAATCATAAAAAATTAT
* *
32886778 AAAATTTATAAAGTCATAAGAAAATTAT
1 AAAATATATAAAATCATAA-AAAATTAT
32886806 A
1 A
32886807 CAAAATGTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
22 9 0.15
23 9 0.15
26 10 0.16
27 25 0.40
28 9 0.15
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATATATAAAATCATAAAAAATTAT
Found at i:32886853 original size:9 final size:9
Alignment explanation
Indices: 32886662--32886789 Score: 57
Period size: 9 Copynumber: 13.6 Consensus size: 9
32886652 TTAAATTTTA
32886662 ATAAAAATT
1 ATAAAAATT
*
32886671 -TAAATATT
1 ATAAAAATT
*
32886679 A-AAAATTT
1 ATAAAAATT
32886687 ATTAAAAATT
1 A-TAAAAATT
* *
32886697 AGAAGAAAAAT
1 A-TA-AAAATT
32886708 ATAAAAATCAT
1 ATAAAAAT--T
*
32886719 AAAAAATATAT
1 ATAAAA-AT-T
32886730 ATAAAAAATT
1 AT-AAAAATT
* *
32886740 GTAAAAGTT
1 ATAAAAATT
32886749 AT-AAAATAT
1 ATAAAAAT-T
*
32886758 ATAGAAA-T
1 ATAAAAATT
32886766 ATAAAAAATT
1 AT-AAAAATT
*
32886776 ATAAAATTT
1 ATAAAAATT
32886785 ATAAA
1 ATAAA
32886790 GTCATAAGAA
Statistics
Matches: 89, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
8 20 0.22
9 29 0.33
10 17 0.19
11 17 0.19
12 6 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:32887058 original size:39 final size:38
Alignment explanation
Indices: 32886984--32887075 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 38
32886974 CGGGTTATTA
** ** * *
32886984 ATTTTTTATGATTTTTAAAAAATTTTACAATTTTTTTT
1 ATTTTTTAAAATTTTTAAAAAAAATTACAACTTTTTAT
* *
32887022 ATTTTTTACAATTTTTATAAAAAAATTATAACTTTTTAT
1 ATTTTTTAAAATTTTTA-AAAAAAATTACAACTTTTTAT
32887061 ATTTTATTAAAATTT
1 ATTTT-TTAAAATTT
32887076 AATAATTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 15 0.34
39 21 0.48
40 8 0.18
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (38 bp):
ATTTTTTAAAATTTTTAAAAAAAATTACAACTTTTTAT
Found at i:32887103 original size:18 final size:17
Alignment explanation
Indices: 32887056--32887103 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
32887046 ATTATAACTT
32887056 TTTA-TATTTTATTAAAA
1 TTTATTATTTT-TTAAAA
*
32887073 TTTAATAATTTTTCTAAAA
1 TTT-ATTATTTTT-TAAAA
32887092 TTTATTATTTTT
1 TTTATTATTTTT
32887104 ATGATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.12
18 10 0.38
19 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTATTTTTTAAAA
Found at i:32893843 original size:18 final size:18
Alignment explanation
Indices: 32893820--32893854 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32893810 TAGTAGTCAA
*
32893820 TGCTACCTCTACCTCTAC
1 TGCTACCTCTACATCTAC
*
32893838 TGCTACGTCTACATCTA
1 TGCTACCTCTACATCTA
32893855 TGTTAATTAG
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:0.20, C:0.37, G:0.09, T:0.34
Consensus pattern (18 bp):
TGCTACCTCTACATCTAC
Found at i:32895632 original size:22 final size:22
Alignment explanation
Indices: 32895607--32895704 Score: 100
Period size: 22 Copynumber: 4.7 Consensus size: 22
32895597 TGTGCCTAGT
*
32895607 AGGCTTCGTGCCGGTGATATTC
1 AGGCTTTGTGCCGGTGATATTC
*
32895629 AGGCTTTGTGCC-----TA-GC
1 AGGCTTTGTGCCGGTGATATTC
*
32895645 AGGCTTTGTGCTGGTGATATTC
1 AGGCTTTGTGCCGGTGATATTC
* *
32895667 AGGCTTTGTACCAGTGATATTC
1 AGGCTTTGTGCCGGTGATATTC
*
32895689 AGGCTTTGTGCTGGTG
1 AGGCTTTGTGCCGGTG
32895705 TAATTATATA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
16 12 0.20
17 2 0.03
21 2 0.03
22 44 0.73
ACGTcount: A:0.14, C:0.18, G:0.32, T:0.36
Consensus pattern (22 bp):
AGGCTTTGTGCCGGTGATATTC
Found at i:32895649 original size:38 final size:38
Alignment explanation
Indices: 32895587--32895675 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
32895577 CATAAGATTA
* * *
32895587 ATTCGGGCTCTGTGCCTAGTAGGCTTCGTGCCGGTGAT
1 ATTCAGGCTTTGTGCCTAGCAGGCTTCGTGCCGGTGAT
* *
32895625 ATTCAGGCTTTGTGCCTAGCAGGCTTTGTGCTGGTGAT
1 ATTCAGGCTTTGTGCCTAGCAGGCTTCGTGCCGGTGAT
32895663 ATTCAGGCTTTGT
1 ATTCAGGCTTTGT
32895676 ACCAGTGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.12, C:0.20, G:0.31, T:0.36
Consensus pattern (38 bp):
ATTCAGGCTTTGTGCCTAGCAGGCTTCGTGCCGGTGAT
Found at i:32899452 original size:16 final size:17
Alignment explanation
Indices: 32899418--32899454 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
32899408 GGGGATGGCG
32899418 TTTGTTTGTTGTTTATT
1 TTTGTTTGTTGTTTATT
32899435 TTTGTTT-TTGTGTT-TT
1 TTTGTTTGTTGT-TTATT
32899451 TTTG
1 TTTG
32899455 CATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.03, C:0.00, G:0.19, T:0.78
Consensus pattern (17 bp):
TTTGTTTGTTGTTTATT
Found at i:32908307 original size:35 final size:35
Alignment explanation
Indices: 32908261--32908331 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
32908251 CATATTCGGA
*
32908261 GCTTGGTAAATATGGAAAATGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAATGATCTTCAAAGATAT
** *
32908296 GCTTGGCAAATATGGAATGTGATCTTCAGAGATAT
1 GCTTGGCAAATATGGAAAATGATCTTCAAAGATAT
32908331 G
1 G
32908332 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAATGATCTTCAAAGATAT
Found at i:32912860 original size:35 final size:35
Alignment explanation
Indices: 32912816--32912885 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
32912806 TCTCCGGAGC
*
32912816 TTGGTAAATATGGAAAGTGATCTTCAAAGATATGT
1 TTGGCAAATATGGAAAGTGATCTTCAAAGATATGT
* *
32912851 TTGGCAAATATGGAAGGTGATCTTCAGAGATATGT
1 TTGGCAAATATGGAAAGTGATCTTCAAAGATATGT
32912886 GATCCTAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (35 bp):
TTGGCAAATATGGAAAGTGATCTTCAAAGATATGT
Found at i:32915163 original size:21 final size:21
Alignment explanation
Indices: 32915139--32915414 Score: 180
Period size: 21 Copynumber: 13.1 Consensus size: 21
32915129 TCGAAAGCTG
*
32915139 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGTTA
* * * *
32915160 AACAGAAACCCATAAGGGTAA
1 AACAGAAGCTCATAAGAGTTA
* * *
32915181 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCATAAGAGTTA
* * *
32915202 AAC-GAAAACCCATAAGGGTTA
1 AACAG-AAGCTCATAAGAGTTA
* * * *
32915223 AACAGAAGCTTAAAAGAATTG
1 AACAGAAGCTCATAAGAGTTA
* * * *
32915244 AAC-GAAAACCCATTAGGGTTA
1 AACAG-AAGCTCATAAGAGTTA
* * *
32915265 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCATAAGAGTTA
* * * *
32915286 AACGGAAACTCATATGAGATA
1 AACAGAAGCTCATAAGAGTTA
* * *
32915307 AACAGAAGCTTATAAGAGCTG
1 AACAGAAGCTCATAAGAGTTA
* *
32915328 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGTTA
* * *
32915349 AATAGAAGCTCAAAAGAGTTG
1 AACAGAAGCTCATAAGAGTTA
*
32915370 AAC-GAAAGCTCATATGAGTTA
1 AACAG-AAGCTCATAAGAGTTA
*
32915391 AACAGAAGCTCGTAAGAGTTA
1 AACAGAAGCTCATAAGAGTTA
32915412 AAC
1 AAC
32915415 GGAAAGTAAA
Statistics
Matches: 185, Mismatches: 64, Indels: 12
0.71 0.25 0.05
Matches are distributed among these distances:
20 3 0.02
21 179 0.97
22 3 0.02
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTA
Found at i:32915187 original size:42 final size:41
Alignment explanation
Indices: 32915139--32915401 Score: 283
Period size: 42 Copynumber: 6.3 Consensus size: 41
32915129 TCGAAAGCTG
* * * *
32915139 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTAA
1 AACAGAAGCTCAAAAGAGCTGAAC-GAAACCCATAAGAGTTA
*
32915181 AACAGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTGAACG-AAACCCATAAGAGTTA
* ** * *
32915223 AACAGAAGCTTAAAAGAATTGAACGAAAACCCATTAGGGTTA
1 AACAGAAGCTCAAAAGAGCTGAACG-AAACCCATAAGAGTTA
* * *
32915265 AACAGAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGATA
1 AACAGAAGCTCAAAAGAGCTGAAC-GAAACCCATAAGAGTTA
* * * *
32915307 AACAGAAGCTTATAAGAGCTGAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCAAAAGAGCTGAAC-GAAACCCATAAGAGTTA
* * * *
32915349 AATAGAAGCTCAAAAGAGTTGAACGAAAGCTCATATGAGTTA
1 AACAGAAGCTCAAAAGAGCTGAACGAAA-CCCATAAGAGTTA
32915391 AACAGAAGCTC
1 AACAGAAGCTC
32915402 GTAAGAGTTA
Statistics
Matches: 190, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
41 5 0.03
42 184 0.97
43 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (41 bp):
AACAGAAGCTCAAAAGAGCTGAACGAAACCCATAAGAGTTA
Found at i:32915407 original size:84 final size:83
Alignment explanation
Indices: 32915139--32915408 Score: 335
Period size: 84 Copynumber: 3.2 Consensus size: 83
32915129 TCGAAAGCTG
* *
32915139 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTAAAACAGAAGCTCAAAAGAGCTGAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAA
* * *
32915204 CGAAAACCCATAAGGGTTA
66 CG-AAACTCATATGAGTTA
* * ** *
32915223 AACAGAAGCTTAAAAGAATTGAAC-GAAAACCCATTAGGGTTAAACAGAAGCTCAAAAGAGCTGA
1 AACAGAAGCTCATAAGAGCTGAACAG-AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGA
*
32915287 ACGGAAACTCATATGAGATA
65 AC-GAAACTCATATGAGTTA
* * * * * *
32915307 AACAGAAGCTTATAAGAGCTGAACAGAAACTCATAAGAGTTGAATAGAAGCTCAAAAGAGTTGAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAA
32915372 CGAAAGCTCATATGAGTTA
66 CGAAA-CTCATATGAGTTA
*
32915391 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCATAAGAG
32915409 TTAAACGGAA
Statistics
Matches: 159, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
83 5 0.03
84 152 0.96
85 2 0.01
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (83 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAA
CGAAACTCATATGAGTTA
Found at i:32917818 original size:19 final size:18
Alignment explanation
Indices: 32917790--32917830 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
32917780 TCTCATTACT
32917790 TCATTCCATATTTCATTTC
1 TCATTCCATA-TTCATTTC
* *
32917809 TCATTTCATATTCATTTT
1 TCATTCCATATTCATTTC
32917827 TCAT
1 TCAT
32917831 CTTTGTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (18 bp):
TCATTCCATATTCATTTC
Found at i:32918522 original size:19 final size:18
Alignment explanation
Indices: 32918484--32918522 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
32918474 TACTACACGC
*
32918484 TTCAATTTCACATTAAAT
1 TTCAATTTCACACTAAAT
*
32918502 TTCAATTTTCACACTATAT
1 TTCAA-TTTCACACTAAAT
32918521 TT
1 TT
32918523 TGCTTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCAATTTCACACTAAAT
Found at i:32918942 original size:9 final size:9
Alignment explanation
Indices: 32918928--32918971 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
32918918 GCCGTGCGCC
*
32918928 CTTTTCTCT
1 CTTTTCTTT
32918937 CTTTTCTTT
1 CTTTTCTTT
32918946 C-TTTCTTTT
1 CTTTTC-TTT
32918955 CTTTTTCTTT
1 C-TTTTCTTT
32918965 CTTTTCT
1 CTTTTCT
32918972 AATGTTTGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 4 0.13
9 19 0.61
10 4 0.13
11 4 0.13
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:32918963 original size:15 final size:15
Alignment explanation
Indices: 32918929--32918971 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
32918919 CCGTGCGCCC
*
32918929 TTTTCTCTCTTTTC-
1 TTTTCTTTCTTTTCT
32918943 -TTTCTTTCTTTTCT
1 TTTTCTTTCTTTTCT
32918957 TTTTCTTTCTTTTCT
1 TTTTCTTTCTTTTCT
32918972 AATGTTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.46
15 14 0.54
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCTTTCTTTTCT
Found at i:32925293 original size:28 final size:28
Alignment explanation
Indices: 32925262--32925347 Score: 68
Period size: 28 Copynumber: 3.0 Consensus size: 28
32925252 ATATAATAAG
*
32925262 AAATATATATAAGTAGGTATATGTATAT
1 AAATATATATAAATAGGTATATGTATAT
* * *
32925290 AAAT-TATAAAAAATATGTATGTGTATAT
1 AAATATAT-ATAAATAGGTATATGTATAT
* * *
32925318 ATATAT-TATAAAAATGTATGAATGTATAT
1 AAATATATATAAATAGGTAT--ATGTATAT
32925347 A
1 A
32925348 TATAACAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
27 13 0.28
28 24 0.52
29 9 0.20
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (28 bp):
AAATATATATAAATAGGTATATGTATAT
Found at i:32925345 original size:27 final size:29
Alignment explanation
Indices: 32925282--32925350 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
32925272 AAGTAGGTAT
* *
32925282 ATGTATATAAATTATAAAAAATATGTATGT
1 ATGTATATATATTAT-AAAAATATGTATGA
* *
32925312 GTATATATATATTAT-AAAA-ATGTATGA
1 ATGTATATATATTATAAAAATATGTATGA
32925339 ATGTATATATAT
1 ATGTATATATAT
32925351 AACAAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 17 0.52
28 4 0.12
30 12 0.36
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (29 bp):
ATGTATATATATTATAAAAATATGTATGA
Found at i:32925357 original size:27 final size:25
Alignment explanation
Indices: 32925294--32925358 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 25
32925284 GTATATAAAT
32925294 TATAAAAAATATGTATGTGTATATA
1 TATAAAAAATATGTATGTGTATATA
32925319 TATATTATAAAA-ATGTATGAATGTATATA
1 TATA--A-AAAATATGTATG--TGTATATA
32925348 TATAACAAAAT
1 TATAA-AAAAT
32925359 TTGAAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
25 4 0.12
27 13 0.39
28 4 0.12
29 12 0.36
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (25 bp):
TATAAAAAATATGTATGTGTATATA
Found at i:32927188 original size:44 final size:45
Alignment explanation
Indices: 32927140--32927247 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
32927130 GGTTTAATTC
* * **
32927140 GCTCCACTGCAATTTCAGGGAAATAGGATTAG-TAGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAAATAAGACCAGTTAGCTTCAGTCT
* * *
32927184 GCTCCACTGCAACTTCAGGGAGATAAGACCCGTTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAAATAAGACCAGTTAGCTTCAGTCT
*
32927229 GCCCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGG
32927248 AGGCTAAGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 26 0.47
45 29 0.53
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAAATAAGACCAGTTAGCTTCAGTCT
Found at i:32927430 original size:50 final size:50
Alignment explanation
Indices: 32927366--32927713 Score: 265
Period size: 50 Copynumber: 7.0 Consensus size: 50
32927356 TTCTGTCTAA
* *
32927366 TTAACTACAATGTCGAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTT
1 TTAACTACAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
* * * *
32927416 TTAATTACAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTT
1 TTAACTACAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TT
* * * * * * * *
32927467 CT-GCTGCACTGCCAAGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTT
1 TTAACTACAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
* ** * * *
32927516 TTAATTGTAATATCGGGGAAGTAAGATTTGCCGTTGTAGCTTCAATCTATT
1 TTAACTACAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TT
* * * * * * *
32927567 CT-ACTGCACTG-CTAGGGAAGTAAGATTCGTCGTTGTGGCTTAAATCTTT
1 TTAACTACAATGTCGA-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
* * ** * *
32927616 TTAATTACAATATCGAGGAAACAAGATTCGCTGTTGTAGCTTCAATCTAT
1 TTAACTACAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
** * * * *
32927666 TCCACTAC-ATCG-CCAGATAAGTAAGATTCACCATTGTAGCTTCAATCT
1 TTAACTACAAT-GTCGAG-GAAGTAAGATTCGCCGTTGTAGCTTCAATCT
32927714 ATTCCACTGT
Statistics
Matches: 225, Mismatches: 65, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
49 12 0.05
50 205 0.91
51 8 0.04
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (50 bp):
TTAACTACAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTT
Found at i:32927505 original size:100 final size:100
Alignment explanation
Indices: 32927381--32927667 Score: 414
Period size: 100 Copynumber: 2.9 Consensus size: 100
32927371 TACAATGTCG
* * *
32927381 AGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCG
1 AGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTCG
* * *
32927446 CCATTGTAGCTTCAATCTGTTCTGCTGCACTGCCA
66 CCGTTGTAGCTTCAATCTATTCTACTGCACTGCCA
** * *
32927481 AGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGTAATATCGGGGAAGTAAGATTTG
1 AGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTCG
*
32927546 CCGTTGTAGCTTCAATCTATTCTACTGCACTGCTA
66 CCGTTGTAGCTTCAATCTATTCTACTGCACTGCCA
* * * *
32927581 GGGAAGTAAGATTCG-TCGTTGTGGCTTAAATCTTTTTAATTACAATATCGAGGAAACAAGATTC
1 AGGAAGTAAGATTCGCT-GTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTC
*
32927645 GCTGTTGTAGCTTCAATCTATTC
65 GCCGTTGTAGCTTCAATCTATTC
32927668 CACTACATCG
Statistics
Matches: 166, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
99 1 0.01
100 165 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (100 bp):
AGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTCG
CCGTTGTAGCTTCAATCTATTCTACTGCACTGCCA
Found at i:32927688 original size:100 final size:99
Alignment explanation
Indices: 32927383--32927713 Score: 405
Period size: 100 Copynumber: 3.3 Consensus size: 99
32927373 CAATGTCGAG
* *
32927383 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCGCC
1 GAAGTAAGATTCG-CGTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTCGCC
* * *
32927448 ATTGTAGCTTCAATCTGTTCTGCTGCACTGCCA-A
65 GTTGTAGCTTCAATCTATTCTACTGCACTGCCAGA
** * *
32927482 GGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTGTAATATCGGGGAAGTAAGATTTGC
1 -GAAGTAAGATTCGC-GTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTCGC
* *
32927547 CGTTGTAGCTTCAATCTATTCTACTGCACTGCTAGG
64 CGTTGTAGCTTCAATCTATTCTACTGCACTGCCAGA
* * * *
32927583 GAAGTAAGATTCGTCGTTGTGGCTTAAATCTTTTTAATTACAATATCGAGGAAACAAGATTCGCT
1 GAAGTAAGATTCG-CGTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTCGCC
* *
32927648 GTTGTAGCTTCAATCTATTCCACTACA-TCGCCAGA
65 GTTGTAGCTTCAATCTATTCTACTGCACT-GCCAGA
* * * *
32927683 TAAGTAAGATTCACCATTGTAGCTTCAATCT
1 GAAGTAAGATTC-GCGTTGTGGCTTCAATCT
32927714 ATTCCACTGT
Statistics
Matches: 198, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
99 2 0.01
100 195 0.98
101 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (99 bp):
GAAGTAAGATTCGCGTTGTGGCTTCAATCTTTTTAATTACAATATCGGGGAAGCAAGATTCGCCG
TTGTAGCTTCAATCTATTCTACTGCACTGCCAGA
Found at i:32927888 original size:45 final size:45
Alignment explanation
Indices: 32927837--32928158 Score: 450
Period size: 45 Copynumber: 7.2 Consensus size: 45
32927827 GATGCTGGTG
* * *
32927837 TCTTCGATCTGCTTCGCTGCCAATACAGGAAGAAAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
* * *
32927882 TCTTCGATCTACTTCGTTGCCAATATAGGAAGACAAGACCTACTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
* * * *
32927927 TCTTCAATCTACTTCGTTGCCAATACAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
*
32927972 TCTTC-AGTCTACTTCGCTACCAATACAGGAAGACAAGACCTGCTA
1 TCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
* * *
32928017 TCTTCGATCTACTTTGCTGCCAATACAGGAAGAAAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
*
32928062 TCTTC-AGTCTATTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
1 TCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
* * *
32928107 TCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGACTTGCAA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
32928152 TCTTCGA
1 TCTTCGA
32928159 CTTACTCCAC
Statistics
Matches: 246, Mismatches: 27, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
44 2 0.01
45 242 0.98
46 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGACCTGCTA
Found at i:32928156 original size:90 final size:90
Alignment explanation
Indices: 32927837--32928144 Score: 501
Period size: 90 Copynumber: 3.4 Consensus size: 90
32927827 GATGCTGGTG
* *
32927837 TCTTCGATCTGCTTCGCTGCCAATACAGGAAGAAAAGATCTGCTATCTTC-GATCTACTTCGTTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGATCTGCTATCTTCAG-TCTACTTCGCTG
* *
32927901 CCAATATAGGAAGACAAGACCTACTA
65 CCAATACAGGAAGACAAGACCTGCTA
* * * *
32927927 TCTTCAATCTACTTCGTTGCCAATACAGGAAGATAAGATCTGCTATCTTCAGTCTACTTCGCTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGATCTGCTATCTTCAGTCTACTTCGCTGC
32927992 CAATACAGGAAGACAAGACCTGCTA
66 CAATACAGGAAGACAAGACCTGCTA
* *
32928017 TCTTCGATCTACTTTGCTGCCAATACAGGAAGAAAAGATCTGCTATCTTCAGTCTATTTCGCTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGATCTGCTATCTTCAGTCTACTTCGCTGC
32928082 CAATACAGGAAGACAAGACCTGCTA
66 CAATACAGGAAGACAAGACCTGCTA
*
32928107 TCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGA
32928145 CTTGCAATCT
Statistics
Matches: 201, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
90 200 1.00
91 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (90 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGAAAAGATCTGCTATCTTCAGTCTACTTCGCTGC
CAATACAGGAAGACAAGACCTGCTA
Found at i:32929357 original size:17 final size:18
Alignment explanation
Indices: 32929331--32929388 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
32929321 TGGACTCTCA
*
32929331 TTTTTTTTTTCGTTCTTC
1 TTTTTCTTTTCGTTCTTC
*
32929349 -TTTTCTTTTC-TTTTTC
1 TTTTTCTTTTCGTTCTTC
*
32929365 TTTTTCTTTTTGTTCCTT-
1 TTTTTCTTTTCGTT-CTTC
32929383 TTTTTC
1 TTTTTC
32929389 AAGTTAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.15
17 18 0.55
18 8 0.24
19 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTCGTTCTTC
Found at i:32929365 original size:6 final size:6
Alignment explanation
Indices: 32929331--32929375 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
32929321 TGGACTCTCA
*
32929331 TTTTT- TTTTTC GTTCTTC -TTTTC -TTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
32929376 GTTCCTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 14 0.40
6 16 0.46
7 5 0.14
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:32929383 original size:22 final size:23
Alignment explanation
Indices: 32929336--32929385 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
32929326 TCTCATTTTT
*
32929336 TTTTTCGTTCTTCTTTTCTTTTC
1 TTTTTCGTTCTTCTTTTCTTTCC
*
32929359 TTTTTC-TTTTTCTTTT-TGTTCC
1 TTTTTCGTTCTTCTTTTCT-TTCC
32929381 TTTTT
1 TTTTT
32929386 TTCAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTCGTTCTTCTTTTCTTTCC
Found at i:32929835 original size:7 final size:7
Alignment explanation
Indices: 32929823--32929872 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
32929813 AGTAGAGGTT
*
32929823 TTTTTTG
1 TTTTTTA
32929830 TTTTTTA
1 TTTTTTA
32929837 TTTTCTTA
1 TTTT-TTA
32929845 TTTCTTT-
1 TTT-TTTA
32929852 TTCTTTTA
1 TT-TTTTA
32929860 TTTTTTA
1 TTTTTTA
32929867 TTTTTT
1 TTTTTT
32929873 TCTCTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 26 0.68
8 11 0.29
9 1 0.03
ACGTcount: A:0.08, C:0.06, G:0.02, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:32929883 original size:30 final size:29
Alignment explanation
Indices: 32929821--32929884 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
32929811 CCAGTAGAGG
*
32929821 TTTTTTTTGTTTTTTATTTTCTTATTTCT
1 TTTTTTTTATTTTTTATTTTCTTATTTCT
*
32929850 TTTTCTTTTATTTTTTATTTT-TT-TCTCT
1 TTTT-TTTTATTTTTTATTTTCTTATTTCT
32929878 TTTTTTT
1 TTTTTTT
32929885 GCCTCCACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.09
28 8 0.25
29 6 0.19
30 15 0.47
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.84
Consensus pattern (29 bp):
TTTTTTTTATTTTTTATTTTCTTATTTCT
Found at i:32932618 original size:24 final size:25
Alignment explanation
Indices: 32932591--32932644 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
32932581 GGGCTCTTTC
*
32932591 ATGAAATTTAATACAAATG-ATGCA
1 ATGAAATGTAATACAAATGCATGCA
* * *
32932615 ATGAAATGTAATGCAGATGCATGGA
1 ATGAAATGTAATACAAATGCATGCA
32932640 ATGAA
1 ATGAA
32932645 TGCAAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.26
Consensus pattern (25 bp):
ATGAAATGTAATACAAATGCATGCA
Found at i:32933607 original size:24 final size:24
Alignment explanation
Indices: 32933574--32933656 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
32933564 GCTTGAACCA
32933574 AAAAAGTAAACATATTAAAGATCAC
1 AAAAA-TAAACATATTAAAGATCAC
** *
32933599 AAAAATAAA-GGA-CAAA-ATGCAAC
1 AAAAATAAACATATTAAAGAT-C-AC
*
32933622 GAAAGGATAAACATATTAAAGATCAC
1 -AAA-AATAAACATATTAAAGATCAC
32933648 AAAAATAAA
1 AAAAATAAA
32933657 GGACAAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 15
0.65 0.12 0.23
Matches are distributed among these distances:
21 2 0.05
22 4 0.09
23 3 0.07
24 12 0.28
25 13 0.30
26 3 0.07
27 4 0.09
28 2 0.05
ACGTcount: A:0.63, C:0.11, G:0.11, T:0.16
Consensus pattern (24 bp):
AAAAATAAACATATTAAAGATCAC
Found at i:32933690 original size:49 final size:49
Alignment explanation
Indices: 32933580--32933678 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
32933570 ACCAAAAAAG
32933580 TAAACATATTAAAGATCACAAAAATAAAGGACAAAATGCAACGAAAGGA
1 TAAACATATTAAAGATCACAAAAATAAAGGACAAAATGCAACGAAAGGA
32933629 TAAACATATTAAAGATCACAAAAATAAAGGACAAAATGCAACGAAAGGA
1 TAAACATATTAAAGATCACAAAAATAAAGGACAAAATGCAACGAAAGGA
32933678 T
1 T
32933679 CGTACATTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.15
Consensus pattern (49 bp):
TAAACATATTAAAGATCACAAAAATAAAGGACAAAATGCAACGAAAGGA
Found at i:32935062 original size:27 final size:29
Alignment explanation
Indices: 32934999--32935067 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
32934989 AAGTAGGCAT
*
32934999 ATGTATATATATTATAAAAAATATGTATGT
1 ATGTATATATATTAT-AAAAATATGTATGA
* *
32935029 GTATATATATATTAT-AAAA-ATGTATGA
1 ATGTATATATATTATAAAAATATGTATGA
32935056 ATGTATATATAT
1 ATGTATATATAT
32935068 AACAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 17 0.50
28 4 0.12
30 13 0.38
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.43
Consensus pattern (29 bp):
ATGTATATATATTATAAAAATATGTATGA
Found at i:32935074 original size:27 final size:25
Alignment explanation
Indices: 32934998--32935075 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 25
32934988 TAAGTAGGCA
*
32934998 TATGTATATATATTATAAAAAATATG
1 TATGTGTATATA-TATAAAAAATATG
32935024 TATGTGTATATATATATTATAAAA-ATG
1 TATGTGTATATATATA--A-AAAATATG
32935051 TATGAATGTATATATATAACAAAAT
1 TATG--TGTATATATATAA-AAAAT
32935076 TTGAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
25 4 0.09
26 11 0.25
27 13 0.30
28 4 0.09
29 12 0.27
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (25 bp):
TATGTGTATATATATAAAAAATATG
Found at i:32935655 original size:11 final size:11
Alignment explanation
Indices: 32935639--32935668 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32935629 TTCCACGGTG
32935639 GCTCCGCCGCA
1 GCTCCGCCGCA
*
32935650 GCTCCGCCGTA
1 GCTCCGCCGCA
32935661 GCTCCGCC
1 GCTCCGCC
32935669 TTATCGCCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.53, G:0.27, T:0.13
Consensus pattern (11 bp):
GCTCCGCCGCA
Found at i:32939525 original size:17 final size:17
Alignment explanation
Indices: 32939505--32939538 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32939495 GATTTAAAAT
32939505 ATATATTAAAAATTTTA
1 ATATATTAAAAATTTTA
* *
32939522 ATATTTTTAAAATTTTA
1 ATATATTAAAAATTTTA
32939539 TAAATCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATTAAAAATTTTA
Found at i:32939764 original size:41 final size:41
Alignment explanation
Indices: 32939672--32939765 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
32939662 AATCAGTTTT
*
32939672 TTTAAATTATTTAAATAATAAAAACTAATATTATTTCAATTA
1 TTTAAATAATTTAAATAATAAAAAC-AATATTATTTCAATTA
** * *
32939714 AAT-ATTAATTTAAATAATAAATAA-AA-ATTACTTTTAATTA
1 TTTAAATAATTTAAATAATAAA-AACAATATTA-TTTCAATTA
32939754 TTTAAATAATTT
1 TTTAAATAATTT
32939766 TAAAAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
39 4 0.10
40 11 0.27
41 23 0.56
42 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (41 bp):
TTTAAATAATTTAAATAATAAAAACAATATTATTTCAATTA
Found at i:32939922 original size:17 final size:17
Alignment explanation
Indices: 32939902--32939939 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
32939892 TTTTAAATAG
*
32939902 TTTTTAAACAT-TTTTAA
1 TTTTTAAA-ATATTTCAA
32939919 TTTTTAAAATATTTCAA
1 TTTTTAAAATATTTCAA
32939936 TTTT
1 TTTT
32939940 GAAAGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAAAATATTTCAA
Found at i:32939950 original size:17 final size:17
Alignment explanation
Indices: 32939911--32939952 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
32939901 GTTTTTAAAC
*
32939911 ATTTTT-AATTTTTAAA
1 ATTTTTCAATTTTGAAA
*
32939927 ATATTTCAATTTTGAAA
1 ATTTTTCAATTTTGAAA
*
32939944 GTTTTTCAA
1 ATTTTTCAA
32939953 ATGACTACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (17 bp):
ATTTTTCAATTTTGAAA
Found at i:32943060 original size:17 final size:19
Alignment explanation
Indices: 32943032--32943071 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
32943022 AAAATTCACG
32943032 AAAAATTCTAAAATA-TAT
1 AAAAATTCTAAAATATTAT
32943050 AAAAATT-TAAAATATTAT
1 AAAAATTCTAAAATATTAT
32943068 AAAA
1 AAAA
32943072 TACATGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCTAAAATATTAT
Found at i:32944954 original size:34 final size:34
Alignment explanation
Indices: 32944909--32945031 Score: 156
Period size: 34 Copynumber: 3.6 Consensus size: 34
32944899 ACATATACAA
*
32944909 ATATCATATCAGAATGTCATATTACCAAAAACAT
1 ATATCATATCAGAATGTCATATTTCCAAAAACAT
* * *
32944943 ATATCAAATCAGAATGTCATATTTCGAGAAACAT
1 ATATCATATCAGAATGTCATATTTCCAAAAACAT
* * * * *
32944977 ATACCAGATTAGAATATCATATTTTCAAAAACAT
1 ATATCATATCAGAATGTCATATTTCCAAAAACAT
*
32945011 ATATCATATCAGAATGCCATA
1 ATATCATATCAGAATGTCATA
32945032 CCATATCAGA
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 73 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTTCCAAAAACAT
Found at i:32949952 original size:31 final size:29
Alignment explanation
Indices: 32949917--32949974 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
32949907 AAGACTATTT
*
32949917 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
32949948 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
32949975 GTAGACAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:32952736 original size:16 final size:15
Alignment explanation
Indices: 32952714--32952762 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
32952704 AATTTAATTC
32952714 TTTTATTTTCTTTTT
1 TTTTATTTTCTTTTT
*
32952729 TCTTTATTTTCCTTTAT
1 T-TTTATTTT-CTTTTT
*
32952746 TTTTCTTTTCTTCTTT
1 TTTTATTTTCTT-TTT
32952762 T
1 T
32952763 ATAATGCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTTCTTTTT
Found at i:32953698 original size:47 final size:47
Alignment explanation
Indices: 32953629--32953722 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
32953619 AATTATATTC
*
32953629 TATACTTAAATTTTGTTAACATGATTTTATAATGTAAATTCTGCACT
1 TATACTTAAATTTTATTAACATGATTTTATAATGTAAATTCTGCACT
*
32953676 TATACTTAAATTTTATTAACATGATTTTATGATGTAAATTCTGCACT
1 TATACTTAAATTTTATTAACATGATTTTATAATGTAAATTCTGCACT
32953723 CATAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (47 bp):
TATACTTAAATTTTATTAACATGATTTTATAATGTAAATTCTGCACT
Found at i:32958497 original size:33 final size:34
Alignment explanation
Indices: 32958431--32958497 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
32958421 TTGTATACAA
* *
32958431 AAATAATTATATTTATTTAATGTGAAAAAGAATT
1 AAATAATTATATTTACTTAATATGAAAAAGAATT
*
32958465 AAATAATTATATTTACTTGATAT-AAAAAGAATT
1 AAATAATTATATTTACTTAATATGAAAAAGAATT
32958498 GAATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (34 bp):
AAATAATTATATTTACTTAATATGAAAAAGAATT
Found at i:32958851 original size:22 final size:24
Alignment explanation
Indices: 32958807--32958850 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
32958797 AAATTTTAAA
32958807 AATATAAATGTTTTTCAAATTTTG
1 AATATAAATGTTTTTCAAATTTTG
32958831 AATA-AAAT-TTTTT-AAATTTT
1 AATATAAATGTTTTTCAAATTTT
32958851 TTCTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 4 0.20
24 4 0.20
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (24 bp):
AATATAAATGTTTTTCAAATTTTG
Done.