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 178 of 203
Found at i:56678538 original size:51 final size:51
Alignment explanation
Indices: 56678373--56678559 Score: 159
Period size: 51 Copynumber: 3.7 Consensus size: 51
56678363 AGTGAAAGTG
* * *
56678373 ATGGTCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGAATGATA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGTA
* * * * * * *
56678425 GAT--T-GCATGTGTAGTACTATGTGCAAGCTACTATGCGTACTGGATAGT-
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGTA
* * ** *
56678473 TTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATC-GAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGTA
*
56678525 ATGGTCACATGTGTAGCACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
56678560 TGTGAATCGA
Statistics
Matches: 103, Mismatches: 25, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
47 1 0.01
49 5 0.05
50 30 0.29
51 63 0.61
52 2 0.02
53 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGTA
Found at i:56678634 original size:45 final size:45
Alignment explanation
Indices: 56678570--56678657 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
56678560 TGTGAATCGA
* * *
56678570 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGG
56678615 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
56678658 AAGTATCTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGG
Found at i:56678972 original size:51 final size:51
Alignment explanation
Indices: 56678807--56678993 Score: 159
Period size: 51 Copynumber: 3.7 Consensus size: 51
56678797 AGTGAAAGTG
* * *
56678807 ATGGTCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGAATGATA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGTA
* * * * * * *
56678859 GAT--T-GCATGTGTAGTACTATGTGCAAGCTACTATGCGTACTGGATAGT-
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGTA
* * ** *
56678907 TTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATC-GAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGTA
*
56678959 ATGGTCACATGTGTAGCACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
56678994 TGTGAATCGA
Statistics
Matches: 103, Mismatches: 25, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
47 1 0.01
49 5 0.05
50 30 0.29
51 63 0.61
52 2 0.02
53 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGTA
Found at i:56679068 original size:45 final size:45
Alignment explanation
Indices: 56679004--56679091 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
56678994 TGTGAATCGA
* * *
56679004 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGG
56679049 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
56679092 AAGTATCTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGG
Found at i:56679141 original size:434 final size:434
Alignment explanation
Indices: 56678333--56679201 Score: 1738
Period size: 434 Copynumber: 2.0 Consensus size: 434
56678323 CACATGTGTG
56678333 GTATGGATTGTGTGTAGGCCACTACGTAAAAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTG
1 GTATGGATTGTGTGTAGGCCACTACGTAAAAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTG
56678398 CAGACTACTACGTGTACCAGAATGATAGATTGCATGTGTAGTACTATGTGCAAGCTACTATGCGT
66 CAGACTACTACGTGTACCAGAATGATAGATTGCATGTGTAGTACTATGTGCAAGCTACTATGCGT
56678463 ACTGGATAGTTTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATGGTAATG
131 ACTGGATAGTTTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATGGTAATG
56678528 GTCACATGTGTAGCACTATGTGCAGGCTACTATGTGAATCGAACATCATTGATTAGTAAGGTGGT
196 GTCACATGTGTAGCACTATGTGCAGGCTACTATGTGAATCGAACATCATTGATTAGTAAGGTGGT
56678593 TGCTATGTGCTGATTCCACCGGACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
261 TGCTATGTGCTGATTCCACCGGACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
56678658 AAGTATCTGTTATTATTCCAAAGTTTTCGTCGGGAAATTAACTAAGTGTAATTGAATAATGAATA
326 AAGTATCTGTTATTATTCCAAAGTTTTCGTCGGGAAATTAACTAAGTGTAATTGAATAATGAATA
56678723 TAGGTGTAGAATTGAATTGAATATCGACTTAAAAATGGAAAAGT
391 TAGGTGTAGAATTGAATTGAATATCGACTTAAAAATGGAAAAGT
56678767 GTATGGATTGTGTGTAGGCCACTACGTAAAAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTG
1 GTATGGATTGTGTGTAGGCCACTACGTAAAAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTG
56678832 CAGACTACTACGTGTACCAGAATGATAGATTGCATGTGTAGTACTATGTGCAAGCTACTATGCGT
66 CAGACTACTACGTGTACCAGAATGATAGATTGCATGTGTAGTACTATGTGCAAGCTACTATGCGT
56678897 ACTGGATAGTTTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATGGTAATG
131 ACTGGATAGTTTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATGGTAATG
56678962 GTCACATGTGTAGCACTATGTGCAGGCTACTATGTGAATCGAACATCATTGATTAGTAAGGTGGT
196 GTCACATGTGTAGCACTATGTGCAGGCTACTATGTGAATCGAACATCATTGATTAGTAAGGTGGT
56679027 TGCTATGTGCTGATTCCACCGGACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
261 TGCTATGTGCTGATTCCACCGGACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
56679092 AAGTATCTGTTATTATTCCAAAGTTTTCGTCGGGAAATTAACTAAGTGTAATTGAATAATGAATA
326 AAGTATCTGTTATTATTCCAAAGTTTTCGTCGGGAAATTAACTAAGTGTAATTGAATAATGAATA
56679157 TAGGTGTAGAATTGAATTGAATATCGACTTAAAAATGGAAAAGT
391 TAGGTGTAGAATTGAATTGAATATCGACTTAAAAATGGAAAAGT
56679201 G
1 G
56679202 AATTTTGAAT
Statistics
Matches: 435, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
434 435 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (434 bp):
GTATGGATTGTGTGTAGGCCACTACGTAAAAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTG
CAGACTACTACGTGTACCAGAATGATAGATTGCATGTGTAGTACTATGTGCAAGCTACTATGCGT
ACTGGATAGTTTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATGGTAATG
GTCACATGTGTAGCACTATGTGCAGGCTACTATGTGAATCGAACATCATTGATTAGTAAGGTGGT
TGCTATGTGCTGATTCCACCGGACATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACC
AAGTATCTGTTATTATTCCAAAGTTTTCGTCGGGAAATTAACTAAGTGTAATTGAATAATGAATA
TAGGTGTAGAATTGAATTGAATATCGACTTAAAAATGGAAAAGT
Found at i:56686525 original size:50 final size:50
Alignment explanation
Indices: 56686448--56686543 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
56686438 AGGTGCTAAT
56686448 ATTTTATTATATGTGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
1 ATTTTATTATATGTGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
* **
56686498 ATTTTGTTATATGTGGTATGTGGTGTATGCTTTATAAATGGAGTTT
1 ATTTTATTATATGTGGTATGTCATGTATGCTTTATAAATGGAGTTT
56686544 TAGCTTTGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (50 bp):
ATTTTATTATATGTGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
Found at i:56687319 original size:41 final size:41
Alignment explanation
Indices: 56687262--56687344 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
56687252 TGCAAGGGCA
56687262 TTGCCTAGAGGCTTGGTATCAATACCTAAGCCCCTAAGTTC
1 TTGCCTAGAGGCTTGGTATCAATACCTAAGCCCCTAAGTTC
56687303 TTGCCTAGAGGCTTGGTATCAATACCTAAGCCCCTAAGTTC
1 TTGCCTAGAGGCTTGGTATCAATACCTAAGCCCCTAAGTTC
56687344 T
1 T
56687345 AATACCTAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
TTGCCTAGAGGCTTGGTATCAATACCTAAGCCCCTAAGTTC
Found at i:56688966 original size:34 final size:34
Alignment explanation
Indices: 56688923--56688991 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
56688913 TGAGACCGAT
*
56688923 TCAGGACAAAGCTGTTGCTAAGCAATTCCAACTA
1 TCAGGACAAAGCTGTTGCCAAGCAATTCCAACTA
56688957 TCAGGACAAAGCTGTTGCCAAGCAATTCCAACTA
1 TCAGGACAAAGCTGTTGCCAAGCAATTCCAACTA
56688991 T
1 T
56688992 AAGCCACCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (34 bp):
TCAGGACAAAGCTGTTGCCAAGCAATTCCAACTA
Found at i:56698882 original size:105 final size:105
Alignment explanation
Indices: 56698747--56698959 Score: 381
Period size: 105 Copynumber: 2.0 Consensus size: 105
56698737 AAAACCCTAC
* * *
56698747 ACATCACAGTAGTGACAACTGACAACACAAAACTAAAGAACCGATAACTGCTAGCAGTGAAGTGT
1 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
* *
56698812 ATTAACCAAAGTTCATGTGCAGTCTCATTTTCATAGGCAT
66 ATGAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
56698852 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
1 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
56698917 ATGAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
66 ATGAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
56698957 ACA
1 ACA
56698960 CCAATGCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (105 bp):
ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
ATGAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
Found at i:56700376 original size:12 final size:12
Alignment explanation
Indices: 56700359--56700384 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56700349 AAAGAGAAGA
56700359 AAGGGGTAAACC
1 AAGGGGTAAACC
56700371 AAGGGGTAAACC
1 AAGGGGTAAACC
56700383 AA
1 AA
56700385 AACGGGTGAA
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:0.46, C:0.15, G:0.31, T:0.08
Consensus pattern (12 bp):
AAGGGGTAAACC
Found at i:56714552 original size:46 final size:46
Alignment explanation
Indices: 56714484--56714573 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
56714474 TTTATTGCAA
* * *
56714484 TAAGAGTTTTAGTTTTATTTATTTTCTTTATTATATCAGGTTTTAT
1 TAAGAGTGTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
*
56714530 TAAGAGTGTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 TAAGAGTGTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
56714574 TATTTCCTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.59
Consensus pattern (46 bp):
TAAGAGTGTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
Found at i:56716017 original size:46 final size:46
Alignment explanation
Indices: 56715939--56716028 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
56715929 TTTATTGCAA
* * * * *
56715939 TAAGATTTTTAGTCTTATTTATTTTCTTTATTATATCAGGTTTTAT
1 TAAGAGTTTTAATCTTACTTATATTCTCTATTATATCAGGTTTTAT
* *
56715985 TAAGAGTTTTAATTTTACTTATATTCTCTATTATATTAGGTTTT
1 TAAGAGTTTTAATCTTACTTATATTCTCTATTATATCAGGTTTT
56716029 TATTTCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (46 bp):
TAAGAGTTTTAATCTTACTTATATTCTCTATTATATCAGGTTTTAT
Found at i:56722659 original size:25 final size:25
Alignment explanation
Indices: 56722631--56722724 Score: 90
Period size: 25 Copynumber: 3.8 Consensus size: 25
56722621 CTGCTCTTAT
*
56722631 GAGCGTCCCAA-TATATGGCTCTTCG
1 GAGCTTCCCAATTA-ATGGCTCTTCG
* *
56722656 GAGCTTCCCAATTAAAGGCTCTTTG
1 GAGCTTCCCAATTAATGGCTCTTCG
*
56722681 TGAGC-TCCTAATTAATGGCTC-TCTG
1 -GAGCTTCCCAATTAATGGCTCTTC-G
56722706 GAGCTTCCCAA-T-ATGGCTC
1 GAGCTTCCCAATTAATGGCTC
56722725 GCTTGAACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
23 7 0.12
24 6 0.10
25 39 0.67
26 6 0.10
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCAATTAATGGCTCTTCG
Found at i:56722760 original size:25 final size:24
Alignment explanation
Indices: 56722695--56722760 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 24
56722685 CTCCTAATTA
*
56722695 ATGGCTCTCTGGAGCTT-CCCAAT
1 ATGGCTCTCTAGAGCTTCCCCAAT
* * *
56722718 ATGGCTCGCTTGAACTTCCCCATAT
1 ATGGCTCTCTAGAGCTTCCCCA-AT
*
56722743 ATGGCTATCTAGAGCTTC
1 ATGGCTCTCTAGAGCTTC
56722761 TTGATTAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 14 0.41
24 4 0.12
25 16 0.47
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (24 bp):
ATGGCTCTCTAGAGCTTCCCCAAT
Found at i:56722880 original size:50 final size:52
Alignment explanation
Indices: 56722826--56722940 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 52
56722816 TATGGTTATT
* *
56722826 ATGAGCTTCCCGTTATACAGCCCGA-ATA-AGCTTCCCG-TTATATGGCTCAC
1 ATGAGATTCCCGTTATACAGCCCGAGAAAGAGCTTCCCGTTTATAT-GCTCAC
* ** * *
56722876 ATGAGATTCCTGTTATATGGCTCGAGAAAGAGCTTCCCGTTTATATGCTCAT
1 ATGAGATTCCCGTTATACAGCCCGAGAAAGAGCTTCCCGTTTATATGCTCAC
56722928 ATGAGTATTCCCG
1 ATGAG-ATTCCCG
56722941 AATATGAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
50 20 0.38
51 2 0.04
52 19 0.36
53 12 0.23
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (52 bp):
ATGAGATTCCCGTTATACAGCCCGAGAAAGAGCTTCCCGTTTATATGCTCAC
Found at i:56722885 original size:25 final size:25
Alignment explanation
Indices: 56722857--56722940 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 25
56722847 CCGAATAAGC
*
56722857 TTCCCGTTATATGGCTCACATGAGA
1 TTCCCGTTATATGGCTCAAATGAGA
* * *
56722882 TTCCTGTTATATGGCTCGAGAAAGAGC
1 TTCCCGTTATATGGCTC-A-AATGAGA
*
56722909 TTCCCGTTTATAT-GCTCATATGAGTA
1 TTCCCG-TTATATGGCTCAAATGAG-A
56722935 TTCCCG
1 TTCCCG
56722941 AATATGAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
25 20 0.43
26 8 0.17
27 13 0.28
28 6 0.13
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (25 bp):
TTCCCGTTATATGGCTCAAATGAGA
Found at i:56724024 original size:31 final size:29
Alignment explanation
Indices: 56723956--56724030 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
56723946 TTTATTTTTT
56723956 ATTTTTTTAATTTTAAAATACTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATA--TTTTTTAAA
56723987 ATTTTTTTAATTTTAAAATA-TTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTTAAA
*
56724015 ATACATTTTTAATTTT
1 AT--TTTTTTAATTTT
56724031 TTTAATTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 10 0.24
30 11 0.27
31 20 0.49
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATATTTTTTAAA
Found at i:56724029 original size:39 final size:40
Alignment explanation
Indices: 56723966--56724063 Score: 153
Period size: 39 Copynumber: 2.4 Consensus size: 40
56723956 ATTTTTTTAA
*
56723966 TTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATAC-ATTTTT-AAATTTTTTTAATTTTAAAATAT
56724008 TTTTAAAATACATTTTT-AATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACATTTTTAAATTTTTTTAATTTTAAAATAT
*
56724047 TTTTAAAATAAATTTTT
1 TTTTAAAATACATTTTT
56724064 TTTAATTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 38 0.70
41 5 0.09
42 11 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (40 bp):
TTTTAAAATACATTTTTAAATTTTTTTAATTTTAAAATAT
Found at i:56724098 original size:24 final size:23
Alignment explanation
Indices: 56724045--56724101 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
56724035 ATTTTAAAAT
**
56724045 ATTTTTAAAATAAATTTTTTTTA
1 ATTTTTAAAATAAATTTTTGGTA
56724068 ATTTTTAAAATAAATTTTTGGTA
1 ATTTTTAAAATAAATTTTTGGTA
*
56724091 TTTATTTAAAA
1 ATT-TTTAAAA
56724102 AACGGGCCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTTTAAAATAAATTTTTGGTA
Found at i:56731373 original size:25 final size:25
Alignment explanation
Indices: 56731297--56731394 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 25
56731287 GTCCCAATAT
56731297 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCG-GAGCTTCCCGATTA
* * **
56731323 AAGGCTCTTTGTGAGCTTCCTAATTA
1 ATGGCTCTTCG-GAGCTTCCCGATTA
* *
56731349 ATGGCTATCCGGAGCTTCCCGATTA
1 ATGGCTCTTCGGAGCTTCCCGATTA
*
56731374 ATGGCTCTTCGGAGCTACCCG
1 ATGGCTCTTCGGAGCTTCCCG
56731395 TTATTTACTC
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
25 30 0.51
26 29 0.49
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTTCCCGATTA
Found at i:56733768 original size:17 final size:18
Alignment explanation
Indices: 56733748--56733790 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
56733738 ATTTTAATTA
56733748 TTATTAAGTA-TTTTAAG
1 TTATTAAGTAGTTTTAAG
* *
56733765 TTATTTAGTAGTTTTATG
1 TTATTAAGTAGTTTTAAG
*
56733783 TTAATAAG
1 TTATTAAG
56733791 AAAGTTTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (18 bp):
TTATTAAGTAGTTTTAAG
Found at i:56740118 original size:24 final size:24
Alignment explanation
Indices: 56740091--56740140 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
56740081 AAAGGATGCA
56740091 ATTCAATTAACTCGGCTTCTCAGC
1 ATTCAATTAACTCGGCTTCTCAGC
56740115 ATTCAATTAACTCGGCTTCTCAGC
1 ATTCAATTAACTCGGCTTCTCAGC
56740139 AT
1 AT
56740141 GCTGTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (24 bp):
ATTCAATTAACTCGGCTTCTCAGC
Found at i:56744159 original size:14 final size:15
Alignment explanation
Indices: 56744124--56744162 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
56744114 TCTTTATATA
56744124 TAATATTTATATGTC
1 TAATATTTATATGTC
* *
56744139 AAATATTTAT-TTTC
1 TAATATTTATATGTC
56744153 TAATATTTAT
1 TAATATTTAT
56744163 GGTTATGGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (15 bp):
TAATATTTATATGTC
Found at i:56746039 original size:13 final size:13
Alignment explanation
Indices: 56746021--56746052 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56746011 TTTCCAGCAA
56746021 TTATGAATTTATT
1 TTATGAATTTATT
56746034 TTATGAATTTATT
1 TTATGAATTTATT
*
56746047 TGATGA
1 TTATGA
56746053 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56746227 original size:50 final size:50
Alignment explanation
Indices: 56746147--56746389 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
56746137 ATTTGGGTAA
* * *
56746147 AGAGGGCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
56746197 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
56746247 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
56746297 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGTATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
56746347 AGTACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
56746390 TGTCATTATC
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 140 0.81
51 33 0.19
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:56747880 original size:27 final size:28
Alignment explanation
Indices: 56747850--56747904 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
56747840 TAAAATTTAA
56747850 ATTTTAAAATACTTTTAAAAT-ATTTTT
1 ATTTTAAAATACTTTTAAAATAATTTTT
* ** *
56747877 ATTTTTATTTATTTTTAAAATAATTTTT
1 ATTTTAAAATACTTTTAAAATAATTTTT
56747905 TAATGTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTTAAAATACTTTTAAAATAATTTTT
Found at i:56748118 original size:23 final size:23
Alignment explanation
Indices: 56748087--56748142 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
56748077 GTCCAAAGCT
*
56748087 AAATGTAAAATTATCGAAACCTA
1 AAATCTAAAATTATCGAAACCTA
* * *
56748110 AAATCTAAAAATTATTGATATCTA
1 AAATCT-AAAATTATCGAAACCTA
*
56748134 AATTCTAAA
1 AAATCTAAA
56748143 TAAAAACCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATCTAAAATTATCGAAACCTA
Found at i:56748134 original size:24 final size:24
Alignment explanation
Indices: 56748093--56748142 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
56748083 AGCTAAATGT
56748093 AAAATTATCGAAACCTAAAATCTA
1 AAAATTATCGAAACCTAAAATCTA
* * * *
56748117 AAAATTATTGATATCTAAATTCTA
1 AAAATTATCGAAACCTAAAATCTA
56748141 AA
1 AA
56748143 TAAAAACCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAATTATCGAAACCTAAAATCTA
Found at i:56748573 original size:21 final size:21
Alignment explanation
Indices: 56748534--56748573 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56748524 CCGTTCACTT
*
56748534 TTGCTTCTCCCTTTGTTTTCC
1 TTGCTTCTCCCTTTCTTTTCC
* *
56748555 TTGCTTTTCCTTTTCTTTT
1 TTGCTTCTCCCTTTCTTTT
56748574 TACCAAATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.65
Consensus pattern (21 bp):
TTGCTTCTCCCTTTCTTTTCC
Found at i:56749550 original size:23 final size:22
Alignment explanation
Indices: 56749494--56749551 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
56749484 GTTATTTAAA
* *
56749494 CTCCATTTTTTTTCTTTTCTTT
1 CTCCATTTCTTTTCTTTGCTTT
* * *
56749516 CTTCACTACTTTTCTTTGCTCTT
1 CTCCATTTCTTTTCTTTGCT-TT
56749539 CTCCATTTCTTTT
1 CTCCATTTCTTTT
56749552 TGGTTGGTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.64
Consensus pattern (22 bp):
CTCCATTTCTTTTCTTTGCTTT
Found at i:56763409 original size:44 final size:44
Alignment explanation
Indices: 56763361--56763541 Score: 129
Period size: 44 Copynumber: 4.1 Consensus size: 44
56763351 GGAAAAGGTT
56763361 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* ** * *
56763405 GAAGATGGCGGATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATT
1 GAAGATTGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATC
* *** * * * * * * * *
56763449 TAAGCCA-CCAAG-CCTTGTCTCCCTCAGGAGTAGCGGAGAAGGTT
1 GAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
56763493 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
56763537 GAAGA
1 GAAGA
56763542 CGGCGAATCT
Statistics
Matches: 98, Mismatches: 29, Indels: 20
0.67 0.20 0.14
Matches are distributed among these distances:
42 5 0.05
43 8 0.08
44 74 0.76
45 7 0.07
46 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (44 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:56763497 original size:132 final size:132
Alignment explanation
Indices: 56763260--56763648 Score: 688
Period size: 132 Copynumber: 2.9 Consensus size: 132
56763250 TTGCATTGAC
* *
56763260 AGTGGATCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
56763325 CAAGCCTTTTCTCCCTCAGCAGCAGCGGAAAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
56763390 GT
131 GT
* *
56763392 AGTGGAGCAGATCGAAGATGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
56763457 CAAGCCTTGTCTCCCTCAGGAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
56763522 GT
131 GT
56763524 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
56763589 CAAGCCTTGTCTCCCTCAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCCTATCTCCCT
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
56763649 GAAGTTGCAG
Statistics
Matches: 243, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 243 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:56763782 original size:44 final size:42
Alignment explanation
Indices: 56763640--56763802 Score: 118
Period size: 44 Copynumber: 3.8 Consensus size: 42
56763630 TTGTAGATCC
** * * *
56763640 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AACCTTAGATCT
1 TATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * *
56763684 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCT
1 TATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
56763724 TATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCC-TGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* *
56763768 TATCCTCCTCAAGTTGCAGTGGGGCAGACTGAAGA
1 TAT-CTCCTGAAGTTGCAGTGGAGCAGACT-AAGA
56763803 TGGCAAGTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
39 1 0.01
40 20 0.21
41 10 0.10
42 4 0.04
43 7 0.07
44 48 0.49
45 7 0.07
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
TATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
Found at i:56763838 original size:57 final size:57
Alignment explanation
Indices: 56763753--56763867 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
56763743 TGGAGCAGAC
*
56763753 TAAGTAAGCAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGACTGAAGATGGCAAG
1 TAAGTAAGCAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAG
*
56763810 TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAG
1 TAAGTAAGCAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAG
56763867 T
1 T
56763868 CTTATCTCCC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (57 bp):
TAAGTAAGCAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAG
Found at i:56763925 original size:89 final size:89
Alignment explanation
Indices: 56763810--56763986 Score: 354
Period size: 89 Copynumber: 2.0 Consensus size: 89
56763800 AGATGGCAAG
56763810 TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
1 TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
56763875 CCCTGAAGTTGCAGTGGAGCAGAC
66 CCCTGAAGTTGCAGTGGAGCAGAC
56763899 TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
1 TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
56763964 CCCTGAAGTTGCAGTGGAGCAGA
66 CCCTGAAGTTGCAGTGGAGCAGA
56763987 TTAAAGCCAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (89 bp):
TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
CCCTGAAGTTGCAGTGGAGCAGAC
Found at i:56763928 original size:44 final size:43
Alignment explanation
Indices: 56763810--56764379 Score: 348
Period size: 44 Copynumber: 13.1 Consensus size: 43
56763800 AGATGGCAAG
* * *
56763810 TAAGTAAGTAAGTCTTATC-CTCCTCAAGTTGCAGTGGGGCAGAA
1 TAAG-AAGTAAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGAC
* *
56763854 TGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 T-AAGA-AGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * *
56763899 TAAGTAAGTAAGTCTTATC-CTCCTCAAGTTGCAGTGGGGCAGAA
1 TAAG-AAGTAAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGAC
* * *
56763943 TGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 T-AAGA-AGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * *
56763988 TAAAGCCAA-TAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
1 T-AAG--AAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
56764032 TAA-AACCTTAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-
1 TAAGAA-GTAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * *
56764074 T-CGCA-TCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TAAGAAGT-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
56764116 TAAGTAAGCAAGTCTTATC-CTCCTAAAGTTACAGTGGGGCAGAC
1 TAAG-AAGTAAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGAC
* * * ** *
56764160 TGAAGATCGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAATAGAT
1 T-AAGA-AGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** * * *
56764205 TAAAGCCGATAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
1 T-AAGAAG-TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
56764249 TAA-AACCTTAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-
1 TAAGAA-GTAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * * *
56764291 T-CGCA-TCTAGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGAC
1 TAAGAAGT-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * *
56764333 TAAATAAGCAAGTCTTAT-TGTCCTGAAGTTGCAGT-GAGGCAGAC
1 T-AAGAAGTAAGTCTTATCT-CCCTGAAGTTGCAGTGGA-GCAGAC
56764377 TAA
1 TAA
56764380 AGATGACACT
Statistics
Matches: 414, Mismatches: 74, Indels: 77
0.73 0.13 0.14
Matches are distributed among these distances:
40 47 0.11
41 17 0.04
42 10 0.02
43 23 0.06
44 200 0.48
45 113 0.27
46 3 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
TAAGAAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:56764017 original size:89 final size:89
Alignment explanation
Indices: 56763810--56764024 Score: 328
Period size: 89 Copynumber: 2.4 Consensus size: 89
56763800 AGATGGCAAG
* *
56763810 TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
1 TAAGCAAGTAAGTCCTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
56763875 CCCTGAAGTTGCAGTGGAGCAGAC
66 CCCTGAAGTTGCAGTGGAGCAGAC
* *
56763899 TAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
1 TAAGCAAGTAAGTCCTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
*
56763964 CCCTGAAGTTGCAGTGGAGCAGAT
66 CCCTGAAGTTGCAGTGGAGCAGAC
*
56763988 TAAAGCCAA-TAA-TCCTAT-CTCCCTGAAGTTGCAGTGG
1 T-AAG-CAAGTAAGTCCTATCCT-CCTCAAGTTGCAGTGG
56764025 AGCGGATTAA
Statistics
Matches: 119, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
88 2 0.02
89 109 0.92
90 6 0.05
91 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (89 bp):
TAAGCAAGTAAGTCCTATCCTCCTCAAGTTGCAGTGGGGCAGAATGAAGATGGCAAGTCTTATCT
CCCTGAAGTTGCAGTGGAGCAGAC
Found at i:56764061 original size:133 final size:127
Alignment explanation
Indices: 56763870--56764114 Score: 298
Period size: 133 Copynumber: 1.9 Consensus size: 127
56763860 TGGCAAGTCT
* *
56763870 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AACTAAGTCTTATCCTCCTCAAGTTGCAG-A
* * *
56763935 GGGCAGAAT-GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
64 GAGCAG-ATCG--CAT--CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
56763999 ATCC
124 ATCC
* * * *
56764003 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTAGATCTTAT-CTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAA-CTAAG-TCTTATCCTC-CTCAAGTTGCAG
56764066 AGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
63 AGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
56764115 CTAAGTAAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
128 34 0.34
130 2 0.02
131 4 0.04
132 12 0.12
133 47 0.47
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACTAAGTCTTATCCTCCTCAAGTTGCAGAGA
GCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC
Found at i:56764242 original size:217 final size:217
Alignment explanation
Indices: 56763867--56764383 Score: 863
Period size: 217 Copynumber: 2.4 Consensus size: 217
56763857 AGATGGCAAG
* *
56763867 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCTTATCCTCCTCAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
* * *
56763932 GTGGGGCAGAATGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
66 GTGGGGCAGACTGAAGATCGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAA
56763997 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
131 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
56764062 GCAGAGAGCAGATCGCATCAAA
196 GCAGAGAGCAGATCGCATCAAA
*
56764084 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
* * *
56764149 GTGGGGCAGACTGAAGATCGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCCGA
66 GTGGGGCAGACTGAAGATCGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAA
56764214 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
131 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
* *
56764279 GCAGAGAGCAGATCGCATCTAG
196 GCAGAGAGCAGATCGCATCAAA
* * * ** *
56764301 TCTTATCTCTCTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGTCTTATTGTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
* *
56764366 GTGAGGCAGACTAAAGAT
66 GTGGGGCAGACTGAAGAT
56764384 GACACTAATT
Statistics
Matches: 280, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 280 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
GTGGGGCAGACTGAAGATCGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAA
TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
GCAGAGAGCAGATCGCATCAAA
Found at i:56764577 original size:19 final size:19
Alignment explanation
Indices: 56764553--56764684 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
56764543 AATTTTTGAG
56764553 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
56764572 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
56764591 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
56764610 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
56764631 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
56764650 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
56764669 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
56764685 ATATATGATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:56764620 original size:59 final size:57
Alignment explanation
Indices: 56764553--56764691 Score: 219
Period size: 59 Copynumber: 2.4 Consensus size: 57
56764543 AATTTTTGAG
*
56764553 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
* *
56764610 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
56764669 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
56764692 ATTTTGTAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
55 5 0.06
56 2 0.03
57 16 0.21
59 54 0.70
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:56765474 original size:25 final size:26
Alignment explanation
Indices: 56765441--56765490 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
56765431 TACATGTATA
56765441 TATATTTTTTAAAACGAATATTTTCC
1 TATATTTTTTAAAACGAATATTTTCC
* *
56765467 TATATTTTTT-TAATGAATATTTTC
1 TATATTTTTTAAAACGAATATTTTC
56765491 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTTTTTAAAACGAATATTTTCC
Found at i:56766287 original size:98 final size:98
Alignment explanation
Indices: 56766164--56766358 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
56766154 AAAAATCATG
*
56766164 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
56766229 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
56766262 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCGTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
56766327 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
56766359 TTTATTGTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:56782243 original size:23 final size:23
Alignment explanation
Indices: 56782215--56782271 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
56782205 GAAACTAAAA
*
56782215 TTTTCTTTTCTCTTACCTTGTAT
1 TTTTCTTTTATCTTACCTTGTAT
56782238 TTTTCTTTTATCTTACCTTGTAT
1 TTTTCTTTTATCTTACCTTGTAT
56782261 TTTTCTTTTAT
1 TTTTCTTTTAT
56782272 TGTCTTCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTTCTTTTATCTTACCTTGTAT
Found at i:56783107 original size:27 final size:27
Alignment explanation
Indices: 56783069--56783167 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 27
56783059 ACATGCAATA
* * *
56783069 AAATGGAAGCCTTTGTAGAAATCTATG
1 AAATGAAAGCCTTTGTGGAAATATATG
* * *
56783096 AAATGAAAGCCTTTATGGCAATATATT
1 AAATGAAAGCCTTTGTGGAAATATATG
* * *
56783123 AAATTAAAGCCCTTGTGGAAATTTATG
1 AAATGAAAGCCTTTGTGGAAATATATG
*
56783150 AAATGGAAG-CTTTCGTGG
1 AAATGAAAGCCTTT-GTGG
56783168 CGATCTATGG
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (27 bp):
AAATGAAAGCCTTTGTGGAAATATATG
Found at i:56783367 original size:27 final size:27
Alignment explanation
Indices: 56783329--56783416 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
56783319 GAATGATAAC
* * *
56783329 TATGACAAACTCTGAAGGACTAGTAGG
1 TATGGCAAACTCTGAAGGAATAGTACG
* *
56783356 TATGGTAAACTCTGAAAGAATAGTACG
1 TATGGCAAACTCTGAAGGAATAGTACG
* * *
56783383 TATGGCGAACTTTGAAGGAATAAGTATG
1 TATGGCAAACTCTGAAGGAAT-AGTACG
56783411 TATGGC
1 TATGGC
56783417 GAGGTCTGAG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 39 0.78
28 11 0.22
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (27 bp):
TATGGCAAACTCTGAAGGAATAGTACG
Found at i:56785987 original size:27 final size:27
Alignment explanation
Indices: 56785957--56786009 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
56785947 CTAGGCCATT
* * *
56785957 TGGCGATCCTTGTTTTGCCAAACCCGC
1 TGGCGATCCTTGCTTCGACAAACCCGC
56785984 TGGCGATCCTTGCTTCGACAAACCCG
1 TGGCGATCCTTGCTTCGACAAACCCG
56786010 TTGCCGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.23, T:0.26
Consensus pattern (27 bp):
TGGCGATCCTTGCTTCGACAAACCCGC
Found at i:56786017 original size:27 final size:27
Alignment explanation
Indices: 56785960--56786017 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
56785950 GGCCATTTGG
* * * *
56785960 CGATCCTTGTTTTGCCAAACCCGCTGG
1 CGATCCTTGCTTCGACAAACCCGCTGC
*
56785987 CGATCCTTGCTTCGACAAACCCGTTGC
1 CGATCCTTGCTTCGACAAACCCGCTGC
56786014 CGAT
1 CGAT
56786018 TATATTTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.34, G:0.21, T:0.28
Consensus pattern (27 bp):
CGATCCTTGCTTCGACAAACCCGCTGC
Found at i:56786272 original size:55 final size:54
Alignment explanation
Indices: 56786180--56786296 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 54
56786170 ATAAAAAATG
* * *
56786180 AAATGAAATTGGACCTCACAACAACGCCTTCACAACAAAATGTGACATAAATGAA
1 AAATGAAATTGGACATCACAACAACGCCTTCAAAACAAAATGTAACATAAAT-AA
* * ** *
56786235 GAATGAAATTGGACATCATAATTA-GCCTTCTAAAACAAAATGTAACATGAATAA
1 AAATGAAATTGGACATCACAACAACGCCTTC-AAAACAAAATGTAACATAAATAA
56786289 AAATGAAA
1 AAATGAAA
56786297 CCAAACCTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
54 15 0.29
55 37 0.71
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (54 bp):
AAATGAAATTGGACATCACAACAACGCCTTCAAAACAAAATGTAACATAAATAA
Found at i:56786390 original size:59 final size:59
Alignment explanation
Indices: 56786327--56786488 Score: 192
Period size: 54 Copynumber: 2.8 Consensus size: 59
56786317 ACTTAAATAG
56786327 AATGCAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCCTCTAAAACAA
1 AATGCAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCCTCTAAAACAA
* * * *
56786386 AATGCAACATAAATG---A--AAATGAAATTGGA-CTTCATAACCAGGCCTCTAAAATAG
1 AATGCAACATAAATGAAAATGAAATGAAATTGGACCTT-AAAACTAGGCCTCTAAAACAA
* * * * *
56786440 GATGCAACATAAATGAAAATGAAATGAAACTAGACCTCACAACTAGGCC
1 AATGCAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCC
56786489 CCTGGAAACA
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
53 3 0.03
54 44 0.51
56 1 0.01
57 1 0.01
59 35 0.41
60 2 0.02
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (59 bp):
AATGCAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCCTCTAAAACAA
Found at i:56786395 original size:113 final size:114
Alignment explanation
Indices: 56786236--56786488 Score: 305
Period size: 113 Copynumber: 2.2 Consensus size: 114
56786226 ATAAATGAAG
* * * * *
56786236 AATGAAATTGGACATCATAATTA-GCCTTCTAAAACAAAATGTAACATGAATAAAAATGAAACCA
1 AATGAAATTGGACCTCAAAACTAGGCCTTCTAAAACAAAATGCAACATAAATAAAAATGAAACCA
*
56786300 AACCTCACAACCAAG-CTACTTAAATAGAATGCAACATAAATGAAAATGA
66 AACCTCACAACCAAGCCT-CTAAAATAGAATGCAACATAAATGAAAATGA
* * ***
56786349 AATGAAATTGGACCTTAAAACTAGGCC-TCTAAAACAAAATGCAACATAAATGAAAATGAAATTG
1 AATGAAATTGGACCTCAAAACTAGGCCTTCTAAAACAAAATGCAACATAAATAAAAATGAAACCA
* * * * *
56786413 GACTTCATAACCAGGCCTCTAAAATAGGATGCAACATAAATGAAAATGA
66 AACCTCACAACCAAGCCTCTAAAATAGAATGCAACATAAATGAAAATGA
* * *
56786462 AATGAAACTAGACCTCACAACTAGGCC
1 AATGAAATTGGACCTCAAAACTAGGCC
56786489 CCTGGAAACA
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
113 113 0.96
114 5 0.04
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.21
Consensus pattern (114 bp):
AATGAAATTGGACCTCAAAACTAGGCCTTCTAAAACAAAATGCAACATAAATAAAAATGAAACCA
AACCTCACAACCAAGCCTCTAAAATAGAATGCAACATAAATGAAAATGA
Found at i:56786430 original size:54 final size:54
Alignment explanation
Indices: 56786175--56786464 Score: 219
Period size: 54 Copynumber: 5.3 Consensus size: 54
56786165 TTCAAATAAA
* * * **
56786175 AAATG-AAATGAAATTGGACCTCACAACAACGCCT-TCACAACAAAATGTGACAT
1 AAATGAAAATGAAATTGGACCTCACAACCAGGCCTCT-AAAACAAAATGCAACAT
* * ** *
56786228 AAATGAAGAATGAAATTGGACATCATAATTA-GCCTTCTAAAACAAAATGTAACAT
1 AAATGAA-AATGAAATTGGACCTCACAACCAGGCC-TCTAAAACAAAATGCAACAT
* * **** * * * *
56786283 GAATAAAAATGAAACCAAACCTCACAACCAAG-CTACTTAAATAGAATGCAACAT
1 AAATGAAAATGAAATTGGACCTCACAACCAGGCCT-CTAAAACAAAATGCAACAT
* * *
56786337 AAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCCTCTAAAACAAAATGCAACAT
1 AAATG---A--AAATGAAATTGGACCTCACAACCAGGCCTCTAAAACAAAATGCAACAT
* * * **
56786396 AAATGAAAATGAAATTGGACTTCATAACCAGGCCTCTAAAATAGGATGCAACAT
1 AAATGAAAATGAAATTGGACCTCACAACCAGGCCTCTAAAACAAAATGCAACAT
56786450 AAATGAAAATGAAAT
1 AAATGAAAATGAAAT
56786465 GAAACTAGAC
Statistics
Matches: 185, Mismatches: 40, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
53 6 0.03
54 94 0.51
55 41 0.22
56 2 0.01
57 1 0.01
59 39 0.21
60 2 0.01
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (54 bp):
AAATGAAAATGAAATTGGACCTCACAACCAGGCCTCTAAAACAAAATGCAACAT
Found at i:56794556 original size:43 final size:43
Alignment explanation
Indices: 56794501--56794685 Score: 307
Period size: 43 Copynumber: 4.3 Consensus size: 43
56794491 CTTAAAAACA
*
56794501 AAACGCCGCTAAAGAACATGATCTTTAGCAGCACTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
* * * * *
56794544 AAATGCCACTAAAAAACATGATCTTTAACGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
*
56794587 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
56794630 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
56794673 AAACGCCGCTAAA
1 AAACGCCGCTAAA
56794686 AGTACGATTC
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 131 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
Found at i:56794569 original size:86 final size:86
Alignment explanation
Indices: 56794474--56794685 Score: 273
Period size: 86 Copynumber: 2.5 Consensus size: 86
56794464 CGCTAAAGGT
* *
56794474 CATGTTCTTTAGCGGTGCTTAAAA-ACAAAACGCCGCTAAAGAACATGATCTTTAGCAGCACTTT
1 CATGATCTTTAGCGGCGCTTAAAACAC-AAACGCCGCTAAAGAACATGATCTTTAGCAGCACTTT
*
56794538 TATCACAAATGCCACTAAAAAA
65 TATCACAAACGCCACTAAAAAA
* ** * * *
56794560 CATGATCTTTAACGGCGCTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTT
1 CATGATCTTTAGCGGCGCTTAAAACACAAACGCCGCTAAAGAACATGATCTTTAGCAGCACTTTT
* *
56794625 ATCACAAACGCCGCTAAAGAA
66 ATCACAAACGCCACTAAAAAA
* ** *
56794646 CATGATCTTTAGCGGCACTTTTATCACAAACGCCGCTAAA
1 CATGATCTTTAGCGGCGCTTAAAACACAAACGCCGCTAAA
56794686 AGTACGATTC
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 110 0.98
87 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (86 bp):
CATGATCTTTAGCGGCGCTTAAAACACAAACGCCGCTAAAGAACATGATCTTTAGCAGCACTTTT
ATCACAAACGCCACTAAAAAA
Found at i:56795152 original size:21 final size:21
Alignment explanation
Indices: 56795119--56795159 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56795109 GTCTCCTTTG
*
56795119 CTTTATCTTCAGTTTCAAATA
1 CTTTATCTGCAGTTTCAAATA
*
56795140 CTTTGTCTGCAGTTTCAAAT
1 CTTTATCTGCAGTTTCAAAT
56795160 CTTAACTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (21 bp):
CTTTATCTGCAGTTTCAAATA
Found at i:56796583 original size:40 final size:40
Alignment explanation
Indices: 56796520--56796604 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
56796510 TAGCTTGAAT
* * *
56796520 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
*
56796560 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACAAAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
56796600 ATCAA
1 ATCAA
56796605 TCTTACAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:56796620 original size:40 final size:40
Alignment explanation
Indices: 56796534--56796620 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
56796524 ACACTTCAAT
* * * * *
56796534 ATTTAATATGTAAGGAATTATCAAAAATCAACATTTCAATA
1 ATTT-ATATGCAAGAAATTAACAAAAATCAACATTACAACA
56796575 ATTTATATGCAAGAAATTAACAAAAATCAATC-TTACAACA
1 ATTTATATGCAAGAAATTAACAAAAATCAA-CATTACAACA
*
56796615 GTTTAT
1 ATTTAT
56796621 GTGAAACAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (40 bp):
ATTTATATGCAAGAAATTAACAAAAATCAACATTACAACA
Found at i:56799511 original size:147 final size:147
Alignment explanation
Indices: 56799264--56799986 Score: 1142
Period size: 146 Copynumber: 5.0 Consensus size: 147
56799254 GCGGCGTTTT
*
56799264 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCTGCAAAATTTTTTT-ATTTTGAACAAAA
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGC-AAATTTTTTTCATTTTGAACAAAA
* *
56799328 CGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAACTGATTTATTTTTTGCGGCG
65 CGACGCCGTTTTGCTATTCTAAAATTTTTTTAATTTTTTTATAAATTGATTTATTTTTTGCGGCG
56799393 TTTTTATAGAAAACGCCG
130 TTTTTATAGAAAACGCCG
56799411 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAAC
*
56799476 GACGCCGTTTTGCTATTCTAAAATTTTTTT-ATTTTTTTATAAATTGATTTATTTTTTACGGCG-
66 GACGCCGTTTTGCTATTCTAAAATTTTTTTAATTTTTTTATAAATTGATTTATTTTTTGCGGCGT
56799539 -TTT-T-----------
131 TTTTATAGAAAACGCCG
*
56799543 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCTGCAAAATTTTTTT-ATTTTGAACAAAA
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGC-AAATTTTTTTCATTTTGAACAAAA
* *
56799607 CGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAACTGATTTATTTTTTGCGGCG
65 CGACGCCGTTTTGCTATTCTAAAATTTTTTTAATTTTTTTATAAATTGATTTATTTTTTGCGGCG
56799672 TTTTTATAGAAAACGCCG
130 TTTTTATAGAAAACGCCG
56799690 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAAC
*
56799755 GACGCCGTTTTGCTATTCTAAAA-ATTTTTAATTTTTTTATAAATTGATTTATTTTTTGCGGCGT
66 GACGCCGTTTTGCTATTCTAAAATTTTTTTAATTTTTTTATAAATTGATTTATTTTTTGCGGCGT
56799819 TTTTATAGAAAACGCCG
131 TTTTATAGAAAACGCCG
* * *
56799836 CTATTGCTTACCTTTAGCGGCGTTTCTTATAAAGCGTCGCAAAATTTTTTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAAC
* * * *
56799901 GACGCCGTTTTGCTATTAT-AATTTTTTTTAATTTTTTTATAAGTTGATTTATTTTTTGTGGCGT
66 GACGCCGTTTTGCTATTCTAAAATTTTTTTAATTTTTTTATAAATTGATTTATTTTTTGCGGCGT
* *
56799965 TTTTGTAAAAAACGCCG
131 TTTTATAGAAAACGCCG
56799982 CTATT
1 CTATT
56799987 TCATTTTGAA
Statistics
Matches: 535, Mismatches: 22, Indels: 39
0.90 0.04 0.07
Matches are distributed among these distances:
132 83 0.16
133 40 0.07
135 3 0.01
136 1 0.00
143 1 0.00
144 3 0.01
145 2 0.00
146 243 0.45
147 159 0.30
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (147 bp):
CTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAAC
GACGCCGTTTTGCTATTCTAAAATTTTTTTAATTTTTTTATAAATTGATTTATTTTTTGCGGCGT
TTTTATAGAAAACGCCG
Found at i:56799614 original size:279 final size:278
Alignment explanation
Indices: 56799182--56799986 Score: 1260
Period size: 279 Copynumber: 2.9 Consensus size: 278
56799172 TTAAAAAAAA
* * * * * *
56799182 TTTT-ATTTTGAACAAAAGGATGTCGTTTTACTATTCTAAAA-ATTAT-TTTTTTTATAAATTGA
1 TTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTATTTTTTTATAAATTGA
56799244 TTTATTTTTTGCGGCGTTTTCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCTGCAAAAT
66 TTTATTTTTTGCGGCGTTTTCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCTGCAAAAT
56799309 TTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAAC
131 TTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAAC
56799374 TGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTT
196 TGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTT
56799439 ATAAAGCGCCGCAAATTT
261 ATAAAGCGCCGCAAATTT
56799457 TTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTATAAATTG
1 TTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAA-TTTTTTATTTTTTTATAAATTG
*
56799522 ATTTATTTTTTACGGCGTTTTCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCTGCAAAA
65 ATTTATTTTTTGCGGCGTTTTCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCTGCAAAA
56799587 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAA
130 TTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAA
56799652 CTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCT
195 CTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCT
56799717 TATAAAGCGCCGCAAATTT
260 TATAAAGCGCCGCAAATTT
*
56799736 TTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTAATTTTTTTATAAATTG
1 TTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCT-AAAATTTTTTATTTTTTTATAAATTG
*
56799801 ATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTCTTAT
65 ATTTATTTTTTGCGGCG--TTT-T-----------CTATTGCTTACCTTTAGCGGCGCTTCTTAT
* * *
56799866 AAAGCG-TCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTAT-AATTTTTTT
116 AAAGCGCT-GCAAAATTTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTT
* ** * * *
56799929 TAATTTTTTTATAAGTTGATTTATTTTTTGTGGCGTTTTTGTAAAAAACGCCGCTATT
180 TATTTTTTTTATAAACTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATT
56799987 TCATTTTGAA
Statistics
Matches: 491, Mismatches: 19, Indels: 23
0.92 0.04 0.04
Matches are distributed among these distances:
275 4 0.01
276 33 0.07
278 3 0.01
279 303 0.62
280 4 0.01
281 3 0.01
282 1 0.00
292 61 0.12
293 79 0.16
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (278 bp):
TTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTATTTTTTTATAAATTGA
TTTATTTTTTGCGGCGTTTTCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCTGCAAAAT
TTTTTTATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTTATAAAC
TGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTT
ATAAAGCGCCGCAAATTT
Found at i:56800655 original size:14 final size:14
Alignment explanation
Indices: 56800636--56800669 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
56800626 AACCTTAAAT
56800636 CCCTAAC-TCTTAAC
1 CCCTAACATC-TAAC
56800650 CCCTAACATCTAAC
1 CCCTAACATCTAAC
56800664 CCCTAA
1 CCCTAA
56800670 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:56800685 original size:21 final size:21
Alignment explanation
Indices: 56800622--56800693 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
56800612 CCCCTGAATT
* *
56800622 CCTAAACCTTAAATCCCTAACT
1 CCTAAACCTTAAATCTC-AACC
* * *
56800644 CTTAACCCCTAACATCT-AACC
1 CCTAAACCTTAA-ATCTCAACC
56800665 CCTAAACCTTAAATCTCAACC
1 CCTAAACCTTAAATCTCAACC
*
56800686 CTTAAACC
1 CCTAAACC
56800694 ATAATCCTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
20 4 0.10
21 23 0.59
22 9 0.23
23 3 0.08
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTAAACCTTAAATCTCAACC
Found at i:56800998 original size:15 final size:15
Alignment explanation
Indices: 56800974--56801004 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56800964 AACCCCTAAT
56800974 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
56800989 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
56801004 C
1 C
56801005 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:56801582 original size:113 final size:112
Alignment explanation
Indices: 56801267--56801693 Score: 549
Period size: 114 Copynumber: 3.8 Consensus size: 112
56801257 GCACTTTTCA
* *
56801267 AAAAACGCCGCTAAATCCTCGAAAGCTCAAAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCT-TAAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
* * *
56801332 GCTTTTCCAAAAACGCCGTTAAAGCCCTGGGCATTAGCGGCACTTTACC--
65 GCTTTCCCAAAAACGCCGCTAAAGCCCT-GGCATTAGCGGCGC-TT-CCTT
* *
56801381 AAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTTA-AAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
**
56801446 GCTTTATCAAAAACGCCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCTT
65 GCTTTCCCAAAAACGCCGCTAAAGCCCT-GGCATTAGCGGCGCTTCCTT
* * *
56801495 AAAAACGTCGCTAAATCCCCGAAAGCTTAAAAAC-GACGTCGTTAGGCTTAGGTTTTTTTGCGGT
1 AAAAACGCCGCTAAATCCCCGAAAGCTTAAAAACAG-CGTCGTTGGGCTTAGGTTTTTTTGCGGC
* *
56801559 GCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
65 GCTTTCCCAAAAACGCCGCTAAAGCCCTG-GCATTAGCGGCGCTTCCTT
* * *
56801608 ATAAACGCCTCTAAATCCCCGAAAGCTTGAGAAAC-GACGTCGTTGGGCTTAGG-TTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTT-AAAAACAG-CGTCGTTGGGCTTAGGTTTTTTTGCGG
* * *
56801671 CGCTTTCTCAAAAATGTCGCTAA
64 CGCTTTCCCAAAAACGCCGCTAA
56801694 TGCTTATTTT
Statistics
Matches: 282, Mismatches: 25, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
112 4 0.01
113 132 0.47
114 146 0.52
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (112 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTTAAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCG
CTTTCCCAAAAACGCCGCTAAAGCCCTGGCATTAGCGGCGCTTCCTT
Found at i:56801663 original size:227 final size:227
Alignment explanation
Indices: 56801267--56801693 Score: 612
Period size: 227 Copynumber: 1.9 Consensus size: 227
56801257 GCACTTTTCA
* *
56801267 AAAAACGCCGCTAAATCCTCGAAAGCTCAAAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCGTTAGGCTTAGGTTTTTTTGCGGC
* * *
56801332 GCTTTTCCAAAAACGCCGTTAAAGCCCTGGGCATTAGCGGCACTTTACCAAAAACGCCGCTAAAT
66 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTACCAAAAACGCCGCTAAAT
*
56801397 CCCTGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTATCAAAAACGC
131 CCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTATCAAAAACGC
56801462 CGCTAAAGCCCTAGGCATTAGCGGCGCTTCCTT
195 CGCTAAAGCCCTAGGCATTAGCGGCGCTTCCTT
* *
56801495 AAAAACGTCGCTAAATCCCCGAAAGCT-TAAAAAC-GACGTCGTTAGGCTTAGGTTTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACAG-CGTCGTTAGGCTTAGGTTTTTTTGCGG
* * * * * *
56801558 TGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT-CTTATAAACGCCTCTAA
65 CGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTAC-CAAAAACGCCGCTAA
* *
56801622 ATCCCCGAAAGCT-TGAGAAAC-GACGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAA
129 ATCCCCGAAAGCTCAGA-AAACAG-CGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTATCAAAAA
* *
56801685 TGTCGCTAA
192 CGCCGCTAA
56801694 TGCTTATTTT
Statistics
Matches: 177, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
226 35 0.20
227 117 0.66
228 25 0.14
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (227 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCGTTAGGCTTAGGTTTTTTTGCGGC
GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTACCAAAAACGCCGCTAAAT
CCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTATCAAAAACGCC
GCTAAAGCCCTAGGCATTAGCGGCGCTTCCTT
Found at i:56801779 original size:12 final size:12
Alignment explanation
Indices: 56801762--56801787 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56801752 TTTTTTATCC
56801762 AAACGCCGCTAA
1 AAACGCCGCTAA
56801774 AAACGCCGCTAA
1 AAACGCCGCTAA
56801786 AA
1 AA
56801788 GCCTATTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:56804018 original size:13 final size:14
Alignment explanation
Indices: 56803997--56804033 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
56803987 TCCAAGTAAG
56803997 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
56804011 AT-AAATAACTAAA
1 ATAAAATAATTAAA
56804024 ATAAAATAAT
1 ATAAAATAAT
56804034 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:56811363 original size:18 final size:21
Alignment explanation
Indices: 56811340--56811384 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
56811330 TAATTAAATT
56811340 ATATTTTT-TTTAT-TT-TTA
1 ATATTTTTATTTATCTTATTA
56811358 ATATTTTTATTTATCTTATTA
1 ATATTTTTATTTATCTTATTA
56811379 A-ATTTT
1 ATATTTT
56811385 ATTAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.33
19 5 0.21
20 7 0.29
21 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATATTTTTATTTATCTTATTA
Found at i:56813427 original size:49 final size:49
Alignment explanation
Indices: 56813370--56813469 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
56813360 GTGTTATAAG
* * *
56813370 TTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTTTAAT
1 TTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTTTAAT
*
56813419 TTTATAAAGTGTTCCCCTTTTGATTCATGATATTAAACTTAATTTTAAT
1 TTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTTTAAT
56813468 TT
1 TT
56813470 GTTTTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTTTAAT
Found at i:56814987 original size:120 final size:120
Alignment explanation
Indices: 56814863--56815222 Score: 666
Period size: 120 Copynumber: 3.0 Consensus size: 120
56814853 AGATTAGAAT
* *
56814863 TTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGACTATTTAATATTAAGA
1 TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
56814928 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
56814983 TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
56815048 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAGA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
*
56815103 TTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAGA
1 TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
* *
56815168 ATTTTATTAAATTATATATTTTTATTAAAATATATTTAATAATAATTATGTTAAA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
56815223 ATATGATTAA
Statistics
Matches: 233, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 233 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
Found at i:56815202 original size:16 final size:17
Alignment explanation
Indices: 56815169--56815204 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
56815159 ATATTAAGAA
56815169 TTTTATTAAATTATATAT
1 TTTTATTAAA-TATATAT
56815187 TTTTATTAAA-ATATAT
1 TTTTATTAAATATATAT
56815203 TT
1 TT
56815205 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:56815969 original size:29 final size:28
Alignment explanation
Indices: 56815929--56816022 Score: 78
Period size: 28 Copynumber: 3.5 Consensus size: 28
56815919 AAAAATTATT
*
56815929 TTTTA-TAAATATTAAATTATTTATATAA
1 TTTTATTATATATT-AATTATTTATATAA
56815957 TTTTATTATATATTATATT-TTTA-A-AA
1 TTTTATTATATATTA-ATTATTTATATAA
*
56815983 TTTGTATT-T-T-CT-ATTATTTATATAA
1 TTT-TATTATATATTAATTATTTATATAA
*
56816008 TTTTATTGTATATTA
1 TTTTATTATATATTA
56816023 TTTGTATAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
22 3 0.06
23 4 0.08
24 6 0.11
25 7 0.13
26 7 0.13
27 6 0.11
28 10 0.19
29 10 0.19
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTATTATATATTAATTATTTATATAA
Found at i:56816025 original size:15 final size:14
Alignment explanation
Indices: 56815945--56816025 Score: 57
Period size: 15 Copynumber: 6.1 Consensus size: 14
56815935 AAATATTAAA
56815945 TTATTTATATAATT
1 TTATTTATATAATT
56815959 TTA-TTATAT-ATT
1 TTATTTATATAATT
* * *
56815971 ATATTTTTAAAATT
1 TTATTTATATAATT
*
56815985 TGTATTT-TCT-A--
1 T-TATTTATATAATT
56815996 TTATTTATATAATT
1 TTATTTATATAATT
*
56816010 TTATTGTATATTATT
1 TTATT-TATATAATT
56816025 T
1 T
56816026 GTATAATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
10 5 0.10
11 3 0.06
12 6 0.12
13 11 0.22
14 12 0.24
15 14 0.27
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTTATATAATT
Found at i:56816039 original size:24 final size:24
Alignment explanation
Indices: 56815944--56816039 Score: 111
Period size: 24 Copynumber: 3.9 Consensus size: 24
56815934 TAAATATTAA
*
56815944 ATTATTTATATAATTTTATTATAT
1 ATTATTTATATAATTTTATTGTAT
* * * *
56815968 ATTATATTTTTAAAATTTGTATTTTCT
1 A-T-TATTTATATAATTT-TATTGTAT
56815995 ATTATTTATATAATTTTATTGTAT
1 ATTATTTATATAATTTTATTGTAT
*
56816019 ATTATTTGTATAATTTTATTG
1 ATTATTTATATAATTTTATTG
56816040 CATTTTCCGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
24 27 0.45
25 13 0.22
26 13 0.22
27 7 0.12
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTATTTATATAATTTTATTGTAT
Found at i:56818455 original size:4 final size:4
Alignment explanation
Indices: 56818446--56818476 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
56818436 GTAAGTTGAT
56818446 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATC
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATC
56818477 AATACGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.48, G:0.00, T:0.26
Consensus pattern (4 bp):
ATCC
Found at i:56822188 original size:20 final size:20
Alignment explanation
Indices: 56822154--56822195 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56822144 AACTATTTAA
** *
56822154 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
56822174 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
56822194 AT
1 AT
56822196 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:56823152 original size:21 final size:22
Alignment explanation
Indices: 56823107--56823161 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
56823097 TCCTTCCTTC
*
56823107 ATTTTAT-AATATTATTAGATT
1 ATTTTATAAATATTATTAGATA
56823128 ATTTTATAAAGTATTATTA-A-A
1 ATTTTATAAA-TATTATTAGATA
56823149 ATTTCTATAAATA
1 ATTT-TATAAATA
56823162 GAAATGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 13 0.43
22 9 0.30
23 8 0.27
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
ATTTTATAAATATTATTAGATA
Found at i:56823215 original size:113 final size:113
Alignment explanation
Indices: 56823030--56823259 Score: 460
Period size: 113 Copynumber: 2.0 Consensus size: 113
56823020 ATGAAGAGAC
56823030 ATTAAAATTTCTATAAATAGAAATGAAATTTCATTTGGAAAATACACCAACAAATTCTAATATTC
1 ATTAAAATTTCTATAAATAGAAATGAAATTTCATTTGGAAAATACACCAACAAATTCTAATATTC
56823095 TTTCCTTCCTTCATTTTATAATATTATTAGATTATTTTATAAAGTATT
66 TTTCCTTCCTTCATTTTATAATATTATTAGATTATTTTATAAAGTATT
56823143 ATTAAAATTTCTATAAATAGAAATGAAATTTCATTTGGAAAATACACCAACAAATTCTAATATTC
1 ATTAAAATTTCTATAAATAGAAATGAAATTTCATTTGGAAAATACACCAACAAATTCTAATATTC
56823208 TTTCCTTCCTTCATTTTATAATATTATTAGATTATTTTATAAAGTATT
66 TTTCCTTCCTTCATTTTATAATATTATTAGATTATTTTATAAAGTATT
56823256 ATTA
1 ATTA
56823260 TAGAAATCCT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 117 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.43
Consensus pattern (113 bp):
ATTAAAATTTCTATAAATAGAAATGAAATTTCATTTGGAAAATACACCAACAAATTCTAATATTC
TTTCCTTCCTTCATTTTATAATATTATTAGATTATTTTATAAAGTATT
Found at i:56824192 original size:39 final size:38
Alignment explanation
Indices: 56824122--56824203 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
56824112 ACAATTTTTC
*
56824122 AAAATTTTTAAAATGTTTTCAAAAAATAT-AAAATATAT
1 AAAATTTTTAAAATGTTTTCAAAAAACATAAAAAT-TAT
* * * *
56824160 AAAATTTTTTAGATTTTTTTAAAAATACATAAAAATTAT
1 AAAATTTTTAAAATGTTTTCAAAAA-ACATAAAAATTAT
56824199 AAAAT
1 AAAAT
56824204 ATTAAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 21 0.57
39 11 0.30
40 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (38 bp):
AAAATTTTTAAAATGTTTTCAAAAAACATAAAAATTAT
Found at i:56833963 original size:23 final size:21
Alignment explanation
Indices: 56833912--56833969 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
56833902 GTGGGGGTTT
*
56833912 ACACGCCCATGTGAAGGCCAC
1 ACACGCCCGTGTGAAGGCCAC
* *
56833933 ATATGCCCGTGTGAAGGCTACAC
1 ACACGCCCGTGTGAAGGC--CAC
56833956 ACACGCCCGTGTGA
1 ACACGCCCGTGTGA
56833970 GCAGTCCCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 15 0.50
23 15 0.50
ACGTcount: A:0.26, C:0.33, G:0.26, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGAAGGCCAC
Found at i:56834698 original size:8 final size:8
Alignment explanation
Indices: 56834687--56834738 Score: 65
Period size: 8 Copynumber: 6.9 Consensus size: 8
56834677 AAACAAACAA
56834687 ATAAATAC
1 ATAAATAC
56834695 ATAAATAC
1 ATAAATAC
56834703 ATAAATAC
1 ATAAATAC
56834711 AT-AA-A-
1 ATAAATAC
*
56834716 ATAAAAAC
1 ATAAATAC
*
56834724 AAAAATAC
1 ATAAATAC
56834732 ATAAATA
1 ATAAATA
56834739 TCTAAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
7 3 0.08
8 30 0.79
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (8 bp):
ATAAATAC
Found at i:56834717 original size:29 final size:29
Alignment explanation
Indices: 56834685--56834750 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
56834675 ACAAACAAAC
* *
56834685 AAATAAATACATAAATACATAAATA-CATA
1 AAATAAAAACAAAAATACATAAATATC-TA
56834714 AAATAAAAACAAAAATACATAAATATCTA
1 AAATAAAAACAAAAATACATAAATATCTA
56834743 AAATAAAA
1 AAATAAAA
56834751 TTATCCTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (29 bp):
AAATAAAAACAAAAATACATAAATATCTA
Found at i:56834729 original size:21 final size:21
Alignment explanation
Indices: 56834695--56834736 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56834685 AAATAAATAC
* *
56834695 ATAAATACATAAATACATAAA
1 ATAAAAACAAAAATACATAAA
56834716 ATAAAAACAAAAATACATAAA
1 ATAAAAACAAAAATACATAAA
56834737 TATCTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAAAACAAAAATACATAAA
Found at i:56836284 original size:22 final size:22
Alignment explanation
Indices: 56836258--56836311 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
56836248 ATATTCAAAC
**
56836258 AATAACAACAAAATAGTAGTAA
1 AATAACAACAAAATAGTAACAA
* * * *
56836280 TATAATAACGAAATGGTAACAA
1 AATAACAACAAAATAGTAACAA
56836302 AATAACAACA
1 AATAACAACA
56836312 TAACAACAAC
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.19
Consensus pattern (22 bp):
AATAACAACAAAATAGTAACAA
Found at i:56836311 original size:11 final size:11
Alignment explanation
Indices: 56836297--56836330 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
56836287 ACGAAATGGT
*
56836297 AACAAAATAAC
1 AACAAAACAAC
*
56836308 AACATAACAAC
1 AACAAAACAAC
56836319 AACAAAACAAC
1 AACAAAACAAC
56836330 A
1 A
56836331 GGGGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.71, C:0.24, G:0.00, T:0.06
Consensus pattern (11 bp):
AACAAAACAAC
Found at i:56837264 original size:43 final size:43
Alignment explanation
Indices: 56837199--56837368 Score: 184
Period size: 43 Copynumber: 4.0 Consensus size: 43
56837189 ATAAACGCCG
56837199 CATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGGT
1 CATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGGT
* *
56837242 CATAACCTTTAGCGGCGCTTCT-CCATCAAACGCCGCT-ATGGAT
1 CATGACCTTTAGCGGCGCTTCTCCCA-CAAACGCCGCTAAAGG-T
* * *
56837285 CATGACTTTTAGCGGCACTT-TCCCCACAAACGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGCTTCT-CCCACAAACGCCGCTAAAGGT
** * * ***
56837328 CATGTTCTTTAGCAGCGCTTTTATAACAAACGCCGCTAAAG
1 CATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAG
56837369 AACATGGCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
42 7 0.07
43 92 0.87
44 7 0.07
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGGT
Found at i:56837346 original size:86 final size:86
Alignment explanation
Indices: 56837199--56837365 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 86
56837189 ATAAACGCCG
* * *
56837199 CATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGGTCATAACCTTTAGCGGCGCTTCT
1 CATGACCTTTAGCGGCACTTCTCCCACAAACGCCGCTAAAGGCCATAACCTTTAGCAGCGCTTCT
* *
56837264 CCATCAAACGCCGCTATGGAT
66 ACAACAAACGCCGCTATGGAT
* *** *
56837285 CATGACTTTTAGCGGCACTT-TCCCCACAAACGCCGCTAAAGGCCATGTTCTTTAGCAGCGCTTT
1 CATGACCTTTAGCGGCACTTCT-CCCACAAACGCCGCTAAAGGCCATAACCTTTAGCAGCGCTTC
*
56837349 TATAACAAACGCCGCTA
65 TACAACAAACGCCGCTA
56837366 AAGAACATGG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
85 1 0.01
86 68 0.99
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (86 bp):
CATGACCTTTAGCGGCACTTCTCCCACAAACGCCGCTAAAGGCCATAACCTTTAGCAGCGCTTCT
ACAACAAACGCCGCTATGGAT
Found at i:56837382 original size:43 final size:43
Alignment explanation
Indices: 56837310--56837444 Score: 121
Period size: 43 Copynumber: 3.1 Consensus size: 43
56837300 CACTTTCCCC
** *
56837310 ACAAACGCCGCTAAAGGCCAT-GTTCTTTAGCAGCGCTTTTATA
1 ACAAACGCCGCTAAAGAACATGGCT-TTTAGCAGCGCTTTTATA
* * *
56837353 ACAAACGCCGCTAAAGAACATGGCTTTTAG-TGATGCTTTTCTA
1 ACAAACGCCGCTAAAGAACATGGCTTTTAGCAG-CGCTTTTATA
* ** * * *
56837396 ACAATCGCTACTAAAGAACATGGCTTTTAACAACGCTTTTTATC
1 ACAAACGCCGCTAAAGAACATGGCTTTTAGCAGCGC-TTTTATA
56837440 ACAAA
1 ACAAA
56837445 TGCTCTTTAG
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
43 60 0.83
44 11 0.15
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGGCTTTTAGCAGCGCTTTTATA
Found at i:56837530 original size:23 final size:24
Alignment explanation
Indices: 56837502--56837558 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
56837492 CATTTAAAAA
* *
56837502 TATTAAATAT-TAAAATTAAACAT
1 TATTAAATATAAAAAATTAAACAG
**
56837525 TATT-AATATAAAAAATTAATTAG
1 TATTAAATATAAAAAATTAAACAG
56837548 TATTAAATATA
1 TATTAAATATA
56837559 TACTTTTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 17 0.61
24 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TATTAAATATAAAAAATTAAACAG
Found at i:56846778 original size:59 final size:58
Alignment explanation
Indices: 56846694--56846836 Score: 180
Period size: 59 Copynumber: 2.4 Consensus size: 58
56846684 TGGCTTGCAG
* *
56846694 TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGCTGGTTA-TTATGAC
1 TTGCGGTTACTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGG-TAGTTATGAC
* * * * * *
56846752 TTGTGGTTTACTTTTAGTGGCAAAACAAATTTAATTCTTGACATGCTGGTAGTTGTGGC
1 TTGCGG-TTACTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTAGTTATGAC
*
56846811 TTGCGGTTGCTTTTAGTGCCAAAACA
1 TTGCGGTTACTTTTAGTGCCAAAACA
56846837 TAGCAACTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
58 25 0.35
59 47 0.65
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (58 bp):
TTGCGGTTACTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTAGTTATGAC
Found at i:56847935 original size:18 final size:17
Alignment explanation
Indices: 56847905--56847938 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56847895 AATTTTAAGA
*
56847905 ATAAATGTTAAATTGAT
1 ATAAATGTAAAATTGAT
56847922 ATAATATGTAAAATTGA
1 ATAA-ATGTAAAATTGA
56847939 AGGTTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATAAATGTAAAATTGAT
Found at i:56848136 original size:121 final size:121
Alignment explanation
Indices: 56848004--56848231 Score: 413
Period size: 121 Copynumber: 1.9 Consensus size: 121
56847994 TATTGTAGTA
* *
56848004 TTATATATTATGATTTTAGTAATTTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
1 TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
56848069 ATATTTTTATTAAATTATATTTAAT-AGTAATTATGTTAAAATTATATTTTATAGCG
66 ATATTTTTATTAAATTATATTTAATGA-TAATTATGTTAAAATTATATTTTATAGCG
*
56848125 TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAAATTAT
1 TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
56848190 ATATTTTTATTAAATTATATTTAATGATAATTATGTTAAAAT
66 ATATTTTTATTAAATTATATTTAATGATAATTATGTTAAAAT
56848232 ATGATTAAAT
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
121 102 0.99
122 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (121 bp):
TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
ATATTTTTATTAAATTATATTTAATGATAATTATGTTAAAATTATATTTTATAGCG
Found at i:56848197 original size:18 final size:18
Alignment explanation
Indices: 56848163--56848209 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
56848153 ATAAGAATAT
56848163 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
56848181 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
56848199 TTAAATTATAT
1 TTAAATTATAT
56848210 TTAATGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:56848455 original size:46 final size:44
Alignment explanation
Indices: 56848378--56848463 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 44
56848368 TATTCCATTC
* *
56848378 AACCAAACACAAGAATACTATTACGCCTCTATTCCATTACAGCG
1 AACCAAACAAAAGAATACTATTACGCATCTATTCCATTACAGCG
* *
56848422 AACCAAACAAAAAGATTACCTATTACGTATCTATTCCATTAC
1 AACCAAAC-AAAAGAATA-CTATTACGCATCTATTCCATTAC
56848464 GCCTCTATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 8 0.22
45 7 0.19
46 21 0.58
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.26
Consensus pattern (44 bp):
AACCAAACAAAAGAATACTATTACGCATCTATTCCATTACAGCG
Found at i:56848464 original size:16 final size:15
Alignment explanation
Indices: 56848443--56848496 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 15
56848433 AAGATTACCT
56848443 ATTACGTATCTATTCC
1 ATTACGT-TCTATTCC
*
56848459 ATTACGCCTCTATTCC
1 ATTACG-TTCTATTCC
56848475 ATTACGCTTCTATTCC
1 ATTACG-TTCTATTCC
56848491 ATTACG
1 ATTACG
56848497 CCTCTATCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.22, C:0.30, G:0.07, T:0.41
Consensus pattern (15 bp):
ATTACGTTCTATTCC
Found at i:56848479 original size:32 final size:31
Alignment explanation
Indices: 56848443--56848508 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 31
56848433 AAGATTACCT
56848443 ATTACG-TATCTATTCCATTACGCCTCTATTCC
1 ATTACGCT-TCTATTCCATTACGCCTCTA-TCC
56848475 ATTACGCTTCTATTCCATTACGCCTCTATCC
1 ATTACGCTTCTATTCCATTACGCCTCTATCC
56848506 ATT
1 ATT
56848509 GCAGCGAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 6 0.18
32 26 0.79
33 1 0.03
ACGTcount: A:0.21, C:0.32, G:0.06, T:0.41
Consensus pattern (31 bp):
ATTACGCTTCTATTCCATTACGCCTCTATCC
Found at i:56848497 original size:16 final size:16
Alignment explanation
Indices: 56848451--56848508 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
56848441 CTATTACGTA
56848451 TCTATTCCATTACGCC
1 TCTATTCCATTACGCC
*
56848467 TCTATTCCATTACGCT
1 TCTATTCCATTACGCC
56848483 TCTATTCCATTACGCC
1 TCTATTCCATTACGCC
56848499 TCTA-TCCATT
1 TCTATTCCATT
56848509 GCAGCGAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 6 0.15
16 34 0.85
ACGTcount: A:0.19, C:0.34, G:0.05, T:0.41
Consensus pattern (16 bp):
TCTATTCCATTACGCC
Found at i:56851549 original size:50 final size:50
Alignment explanation
Indices: 56851474--56851573 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
56851464 GAAAACGGCG
56851474 CCGTTTTGAATGTTATTTAAAACCATTTTTCCTTTTTAAAAATCATTACA
1 CCGTTTTGAATGTTATTTAAAACCATTTTTCCTTTTTAAAAATCATTACA
56851524 CCGTTTTGAATGTTATTTAAAACCATTTTTCCTTTTTAAAAATCATTACA
1 CCGTTTTGAATGTTATTTAAAACCATTTTTCCTTTTTAAAAATCATTACA
56851574 ACCGAATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (50 bp):
CCGTTTTGAATGTTATTTAAAACCATTTTTCCTTTTTAAAAATCATTACA
Found at i:56853772 original size:14 final size:14
Alignment explanation
Indices: 56853738--56853784 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
56853728 CTAATTAATT
*
56853738 TAAACCCTAA-ACC
1 TAAACCCTAACCCC
56853751 TAAACCCTAACCCC
1 TAAACCCTAACCCC
* *
56853765 TAACCCCTAACCCT
1 TAAACCCTAACCCC
56853779 TAAACC
1 TAAACC
56853785 TTATTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCCTAACCCC
Found at i:56853787 original size:7 final size:7
Alignment explanation
Indices: 56853738--56853784 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
56853728 CTAATTAATT
56853738 TAAACCC
1 TAAACCC
56853745 TAAA-CC
1 TAAACCC
56853751 TAAACCC
1 TAAACCC
*
56853758 TAACCCC
1 TAAACCC
*
56853765 TAACCCC
1 TAAACCC
56853772 T-AACCC
1 TAAACCC
56853778 TTAAACC
1 -TAAACC
56853785 TTATTTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 10 0.29
7 21 0.60
8 4 0.11
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:56853823 original size:81 final size:84
Alignment explanation
Indices: 56853669--56853831 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 84
56853659 CTTAACCTCT
* *
56853669 AACCTCTAACCTCTAATCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
1 AACCTCTAACCCCTAACCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
*
56853734 AATTTAAACCCTAAACCTA
66 AATCTAAACCCTAAACCTA
* * *
56853753 AACC-CTAACCCCTAACCCCTAACCCTTAAACCTTATTT-A-ATATAAATTAAAACACACTAATT
1 AACCTCTAACCCCTAACCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
56853815 AATCTAAACCCTAAACC
66 AATCTAAACCCTAAACC
56853832 CTAACCTGAC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 38 0.52
82 1 0.01
83 30 0.41
84 4 0.05
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (84 bp):
AACCTCTAACCCCTAACCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
AATCTAAACCCTAAACCTA
Found at i:56853891 original size:14 final size:14
Alignment explanation
Indices: 56853874--56853932 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
56853864 CTTTAACTCT
*
56853874 TAACCCCTAACCCA
1 TAACCCCTAAACCA
56853888 TAACCCCTAAACCA
1 TAACCCCTAAACCA
* *
56853902 CAACCCTTAAACCA
1 TAACCCCTAAACCA
* * *
56853916 GAATCCCTAATCCA
1 TAACCCCTAAACCA
56853930 TAA
1 TAA
56853933 TCTAAAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.17
Consensus pattern (14 bp):
TAACCCCTAAACCA
Found at i:56854120 original size:14 final size:14
Alignment explanation
Indices: 56854086--56854132 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
56854076 CTAATTAATT
*
56854086 TAAACCCTAA-ACC
1 TAAACCCTAACCCC
56854099 TAAACCCTAACCCC
1 TAAACCCTAACCCC
* *
56854113 TAACCCCTAACCCT
1 TAAACCCTAACCCC
56854127 TAAACC
1 TAAACC
56854133 TTATTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCCTAACCCC
Found at i:56854135 original size:7 final size:7
Alignment explanation
Indices: 56854086--56854132 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
56854076 CTAATTAATT
56854086 TAAACCC
1 TAAACCC
56854093 TAAA-CC
1 TAAACCC
56854099 TAAACCC
1 TAAACCC
*
56854106 TAACCCC
1 TAAACCC
*
56854113 TAACCCC
1 TAAACCC
56854120 T-AACCC
1 TAAACCC
56854126 TTAAACC
1 -TAAACC
56854133 TTATTTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 10 0.29
7 21 0.60
8 4 0.11
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:56854164 original size:348 final size:348
Alignment explanation
Indices: 56853587--56854282 Score: 1392
Period size: 348 Copynumber: 2.0 Consensus size: 348
56853577 TATATAAATT
56853587 TAAAAAATACTAATTAATCTAAACCTTAAACCTTAACCCGACCCCGAATCTCTAAACCTTAAATC
1 TAAAAAATACTAATTAATCTAAACCTTAAACCTTAACCCGACCCCGAATCTCTAAACCTTAAATC
56853652 ACTAACTCTTAACCTCTAACCTCTAACCTCTAATCCCAAACCCCTAAACCTTATTTAATATATAA
66 ACTAACTCTTAACCTCTAACCTCTAACCTCTAATCCCAAACCCCTAAACCTTATTTAATATATAA
56853717 ATTAAAAAACACTAATTAATTTAAACCCTAAACCTAAACCCTAACCCCTAACCCCTAACCCTTAA
131 ATTAAAAAACACTAATTAATTTAAACCCTAAACCTAAACCCTAACCCCTAACCCCTAACCCTTAA
56853782 ACCTTATTTAATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAACCTGACACCGA
196 ACCTTATTTAATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAACCTGACACCGA
56853847 ATCTATAAACCTTAAATCTTTAACTCTTAACCCCTAACCCATAACCCCTAAACCACAACCCTTAA
261 ATCTATAAACCTTAAATCTTTAACTCTTAACCCCTAACCCATAACCCCTAAACCACAACCCTTAA
56853912 ACCAGAATCCCTAATCCATAATC
326 ACCAGAATCCCTAATCCATAATC
56853935 TAAAAAATACTAATTAATCTAAACCTTAAACCTTAACCCGACCCCGAATCTCTAAACCTTAAATC
1 TAAAAAATACTAATTAATCTAAACCTTAAACCTTAACCCGACCCCGAATCTCTAAACCTTAAATC
56854000 ACTAACTCTTAACCTCTAACCTCTAACCTCTAATCCCAAACCCCTAAACCTTATTTAATATATAA
66 ACTAACTCTTAACCTCTAACCTCTAACCTCTAATCCCAAACCCCTAAACCTTATTTAATATATAA
56854065 ATTAAAAAACACTAATTAATTTAAACCCTAAACCTAAACCCTAACCCCTAACCCCTAACCCTTAA
131 ATTAAAAAACACTAATTAATTTAAACCCTAAACCTAAACCCTAACCCCTAACCCCTAACCCTTAA
56854130 ACCTTATTTAATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAACCTGACACCGA
196 ACCTTATTTAATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAACCTGACACCGA
56854195 ATCTATAAACCTTAAATCTTTAACTCTTAACCCCTAACCCATAACCCCTAAACCACAACCCTTAA
261 ATCTATAAACCTTAAATCTTTAACTCTTAACCCCTAACCCATAACCCCTAAACCACAACCCTTAA
56854260 ACCAGAATCCCTAATCCATAATC
326 ACCAGAATCCCTAATCCATAATC
56854283 CCTAATTCCA
Statistics
Matches: 348, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
348 348 1.00
ACGTcount: A:0.41, C:0.31, G:0.01, T:0.26
Consensus pattern (348 bp):
TAAAAAATACTAATTAATCTAAACCTTAAACCTTAACCCGACCCCGAATCTCTAAACCTTAAATC
ACTAACTCTTAACCTCTAACCTCTAACCTCTAATCCCAAACCCCTAAACCTTATTTAATATATAA
ATTAAAAAACACTAATTAATTTAAACCCTAAACCTAAACCCTAACCCCTAACCCCTAACCCTTAA
ACCTTATTTAATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAACCTGACACCGA
ATCTATAAACCTTAAATCTTTAACTCTTAACCCCTAACCCATAACCCCTAAACCACAACCCTTAA
ACCAGAATCCCTAATCCATAATC
Found at i:56854171 original size:81 final size:84
Alignment explanation
Indices: 56854017--56854179 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 84
56854007 CTTAACCTCT
* *
56854017 AACCTCTAACCTCTAATCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
1 AACCTCTAACCCCTAACCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
*
56854082 AATTTAAACCCTAAACCTA
66 AATCTAAACCCTAAACCTA
* * *
56854101 AACC-CTAACCCCTAACCCCTAACCCTTAAACCTTATTT-A-ATATAAATTAAAACACACTAATT
1 AACCTCTAACCCCTAACCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
56854163 AATCTAAACCCTAAACC
66 AATCTAAACCCTAAACC
56854180 CTAACCTGAC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 38 0.52
82 1 0.01
83 30 0.41
84 4 0.05
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (84 bp):
AACCTCTAACCCCTAACCCCAAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
AATCTAAACCCTAAACCTA
Found at i:56854239 original size:14 final size:14
Alignment explanation
Indices: 56854222--56854287 Score: 69
Period size: 14 Copynumber: 4.7 Consensus size: 14
56854212 CTTTAACTCT
*
56854222 TAACCCCTAACCCA
1 TAACCCCTAAACCA
56854236 TAACCCCTAAACCA
1 TAACCCCTAAACCA
* *
56854250 CAACCCTTAAACCA
1 TAACCCCTAAACCA
* * *
56854264 GAATCCCTAATCCA
1 TAACCCCTAAACCA
*
56854278 TAATCCCTAA
1 TAACCCCTAA
56854288 TTCCATAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.18
Consensus pattern (14 bp):
TAACCCCTAAACCA
Found at i:56854294 original size:15 final size:14
Alignment explanation
Indices: 56854226--56854297 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
56854216 AACTCTTAAC
* *
56854226 CCCTAACCCATAAC
1 CCCTAATCCATAAT
* *
56854240 CCCTAAACCACAA-
1 CCCTAATCCATAAT
* *
56854253 CCCTTAAACCAGAAT
1 CCC-TAATCCATAAT
56854268 CCCTAATCCATAAT
1 CCCTAATCCATAAT
56854282 CCCTAATTCCATAAT
1 CCCTAA-TCCATAAT
56854297 C
1 C
56854298 TATAAACCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
13 3 0.06
14 35 0.70
15 12 0.24
ACGTcount: A:0.38, C:0.40, G:0.01, T:0.21
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:56854961 original size:12 final size:12
Alignment explanation
Indices: 56854944--56854969 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56854934 TTTTTTATCC
56854944 AAATGCTACTAA
1 AAATGCTACTAA
56854956 AAATGCTACTAA
1 AAATGCTACTAA
56854968 AA
1 AA
56854970 GTCTATTTTG
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AAATGCTACTAA
Found at i:56857732 original size:13 final size:13
Alignment explanation
Indices: 56857714--56857748 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
56857704 CTCAAAATTT
56857714 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
56857727 TCAAAAGTACTTT
1 TCAAAAGCACTTC
56857740 TCAAAAGCA
1 TCAAAAGCA
56857749 ATGAAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:56865025 original size:28 final size:28
Alignment explanation
Indices: 56864957--56865196 Score: 349
Period size: 28 Copynumber: 8.5 Consensus size: 28
56864947 CATGAGATTG
* * *
56864957 GCACTAAGTGTGCGGGTTTAAAT-TGTTCA
1 GCACTAAGTGTGCGAGTTTGATTATG-T-A
56864986 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
56865014 GCACTAAGTGTGCAAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGT-A
56865043 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
56865071 GCACTAAGTGTGCAAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGT-A
56865100 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
56865128 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* *
56865156 GCACTAATTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
56865183 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
56865197 GACTTAATAT
Statistics
Matches: 197, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
27 23 0.12
28 97 0.49
29 75 0.38
30 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:56865046 original size:57 final size:57
Alignment explanation
Indices: 56864985--56865195 Score: 363
Period size: 57 Copynumber: 3.7 Consensus size: 57
56864975 TAAATTGTTC
56864985 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
56865042 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
* *
56865099 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAT-
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
* * *
56865155 AGCACTAATTGTGCGAG-TTGATTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGC
56865196 GGACTTAATA
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
55 22 0.15
56 16 0.11
57 111 0.74
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCAAGTTTGATTATGTA
Found at i:56870862 original size:15 final size:15
Alignment explanation
Indices: 56870842--56870871 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56870832 TAATAATGGC
56870842 TTCTTTGGATTTATA
1 TTCTTTGGATTTATA
*
56870857 TTCTTTTGATTTATA
1 TTCTTTGGATTTATA
56870872 ACTGCTAGTA
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:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (15 bp):
TTCTTTGGATTTATA
Found at i:56871769 original size:19 final size:19
Alignment explanation
Indices: 56871747--56871838 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
56871737 TTTAGTATTA
56871747 CACCACATAATTAATAGTT
1 CACCACATAATTAATAGTT
*
56871766 CACCACATAA-TAATATTGT
1 CACCACATAATTAATAGT-T
*** * * * *
56871785 CAAGTGCATATTTAGTACTA
1 C-ACCACATAATTAATAGTT
* *
56871805 CACCATATAATTGATAGTT
1 CACCACATAATTAATAGTT
56871824 CACCACATAA-TAATA
1 CACCACATAATTAATA
56871839 TTGTCCAAGT
Statistics
Matches: 51, Mismatches: 19, Indels: 7
0.66 0.25 0.09
Matches are distributed among these distances:
18 10 0.20
19 30 0.59
20 6 0.12
21 5 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (19 bp):
CACCACATAATTAATAGTT
Found at i:56871793 original size:58 final size:59
Alignment explanation
Indices: 56871718--56871868 Score: 236
Period size: 58 Copynumber: 2.6 Consensus size: 59
56871708 TGATGACTAC
*
56871718 AATATTGTCCAAGTGCATATTTAGTATTACACCACATAATTAATAGTTCACCACATAAT
1 AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
* *
56871777 AATATTGT-CAAGTGCATATTTAGTACTACACCATATAATTGATAGTTCACCACATAAT
1 AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
56871835 AATATTGTCCAAGTG-A-ATTACTAGTACTACACCA
1 AATATTGTCCAAGTGCATATT--TAGTACTACACCA
56871869 TATTAAAACA
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
57 3 0.03
58 56 0.65
59 27 0.31
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (59 bp):
AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
Found at i:56872823 original size:16 final size:16
Alignment explanation
Indices: 56872790--56872853 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
56872780 ATTCTACATT
*
56872790 AATAATTTACATTATC
1 AATAATTTACAATATC
56872806 AATAATTT-CAATATTC
1 AATAATTTACAATA-TC
* * *
56872822 AACAAGTTTAAAACAT-
1 AATAA-TTTACAATATC
56872838 AATAATTT-CAATATC
1 AATAATTTACAATATC
56872853 A
1 A
56872854 GTATCCAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
14 4 0.11
15 8 0.22
16 18 0.49
17 4 0.11
18 3 0.08
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (16 bp):
AATAATTTACAATATC
Found at i:56873768 original size:5 final size:5
Alignment explanation
Indices: 56873758--56873810 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
56873748 TTTAAGTAAT
56873758 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
56873808 TAT
1 TAT
56873811 TTAGATTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:56903211 original size:12 final size:11
Alignment explanation
Indices: 56903159--56903211 Score: 65
Period size: 11 Copynumber: 4.7 Consensus size: 11
56903149 ATCCTTTCTG
56903159 TCAATTT-CTC
1 TCAATTTCCTC
56903169 TCTAATATT-CTC
1 TC-AAT-TTCCTC
56903181 TCAATTTCCTC
1 TCAATTTCCTC
56903192 TCAATTTCCTC
1 TCAATTTCCTC
56903203 TCAAATTTC
1 TC-AATTTC
56903212 TATTTAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.10
11 22 0.56
12 13 0.33
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (11 bp):
TCAATTTCCTC
Found at i:56904642 original size:21 final size:22
Alignment explanation
Indices: 56904584--56904648 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
56904574 TATTTACATA
*
56904584 TACATATATATA-ATAAAT-CTG
1 TACATATATATATA-AAATAATG
56904605 TACATATATATATAAAATAAT-
1 TACATATATATATAAAATAATG
56904626 TACATATATATATAAAAATAATG
1 TACATATATATAT-AAAATAATG
56904649 ATTACACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 29 0.74
22 10 0.26
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (22 bp):
TACATATATATATAAAATAATG
Found at i:56904652 original size:25 final size:23
Alignment explanation
Indices: 56904563--56904673 Score: 84
Period size: 25 Copynumber: 4.6 Consensus size: 23
56904553 ATTTTAAAAA
* * *
56904563 ATATAACAATATATTTACATATAC
1 ATATAAAAATA-AATTACATATAT
*
56904587 ATATATATAATAAATCTGTACATATAT
1 ATATA-AAAATAAA--T-TACATATAT
56904614 ATAT-AAAAT-AATTACATATAT
1 ATATAAAAATAAATTACATATAT
56904635 ATATAAAAATAATGATTACACTATAT
1 ATATAAAAATAA--ATTACA-TATAT
*
56904661 -TAAAAAAATAAAT
1 ATATAAAAATAAAT
56904674 ATGCGTGTCA
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
21 13 0.18
22 6 0.08
23 3 0.04
24 8 0.11
25 25 0.34
26 6 0.08
27 12 0.16
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAAAAATAAATTACATATAT
Found at i:56905074 original size:30 final size:30
Alignment explanation
Indices: 56905040--56905106 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
56905030 GAAAACGCGT
56905040 GGACCCAACCTGCGGGTCGGGTCGACGCAC
1 GGACCCAACCTGCGGGTCGGGTCGACGCAC
*
56905070 GGACCCAACCTGCGGGTCGGGTCGACGCGC
1 GGACCCAACCTGCGGGTCGGGTCGACGCAC
56905100 GGACCCA
1 GGACCCA
56905107 CCCCCAAACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.16, C:0.37, G:0.37, T:0.09
Consensus pattern (30 bp):
GGACCCAACCTGCGGGTCGGGTCGACGCAC
Done.