Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 300 of 427
Found at i:86964307 original size:15 final size:17
Alignment explanation
Indices: 86964287--86964325 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
86964277 TTTTTTTATC
86964287 TAAATAA-TA-TAAAAA
1 TAAATAATTACTAAAAA
86964302 TAAATAATTACTAAAAA
1 TAAATAATTACTAAAAA
*
86964319 TGAATAA
1 TAAATAA
86964326 ATGAGCCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 12 0.57
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
TAAATAATTACTAAAAA
Found at i:86964860 original size:25 final size:25
Alignment explanation
Indices: 86964822--86964869 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
86964812 AATTTTTTTA
86964822 TATTATATTTGAAAAAAATTATTTG
1 TATTATATTTGAAAAAAATTATTTG
* *
86964847 TATT-TATTTCGAAATAGATTATT
1 TATTATATTT-GAAAAAAATTATT
86964870 AAGCTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (25 bp):
TATTATATTTGAAAAAAATTATTTG
Found at i:86965610 original size:30 final size:30
Alignment explanation
Indices: 86965574--86965636 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
86965564 ACTTAACAAG
86965574 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
86965604 CAAATGTCTTTAAAATACTAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
86965634 CAA
1 CAA
86965637 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:86966828 original size:23 final size:23
Alignment explanation
Indices: 86966817--86966875 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
86966807 TCCCTGTTGT
86966817 TTTTAATATTGTTCCACTATTGC
1 TTTTAATATTGTTCCACTATTGC
* * * **
86966840 TTTTAATGTTATTTCACTACCGC
1 TTTTAATATTGTTCCACTATTGC
86966863 TTTTAATATTGTT
1 TTTTAATATTGTT
86966876 TGGATACAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.15, G:0.08, T:0.54
Consensus pattern (23 bp):
TTTTAATATTGTTCCACTATTGC
Found at i:86970466 original size:18 final size:18
Alignment explanation
Indices: 86970443--86970508 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
86970433 AAAATGTGAG
* *
86970443 AAATGATGTTCGCATTTT
1 AAATGATGTTCACATTTC
86970461 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
86970479 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
86970497 AAATGATGTTCA
1 AAATGATGTTCA
86970509 AATTGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:86977946 original size:13 final size:13
Alignment explanation
Indices: 86977928--86977988 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
86977918 CTTAAAATTT
*
86977928 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
86977941 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
86977954 TCCACAGCACTTC
1 TCAAAAGCACTTC
86977967 TCAAAAGCACTTC
1 TCAAAAGCACTTC
86977980 TCAAAAGCA
1 TCAAAAGCA
86977989 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:86978696 original size:21 final size:21
Alignment explanation
Indices: 86978672--86978712 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
86978662 GAACCAAACC
*
86978672 CTAAAACAACCTAAACCGACA
1 CTAAAACAACCTAAAACGACA
* *
86978693 CTAATACAATCTAAAACGAC
1 CTAAAACAACCTAAAACGAC
86978713 CCAAACCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.29, G:0.05, T:0.15
Consensus pattern (21 bp):
CTAAAACAACCTAAAACGACA
Found at i:86979894 original size:14 final size:14
Alignment explanation
Indices: 86979863--86979929 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
86979853 GTTTGCAGGT
* * *
86979863 AAAATGTTTTCCGG
1 AAAATGATTTCTGA
86979877 AAAATGATTTCTGA
1 AAAATGATTTCTGA
* *
86979891 AAAATAATTTATTGA
1 AAAATGATTT-CTGA
*
86979906 AAAATGATTTCTGG
1 AAAATGATTTCTGA
86979920 AAAATGATTT
1 AAAATGATTT
86979930 ACTTTTCTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 32 0.73
15 12 0.27
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:86987519 original size:20 final size:20
Alignment explanation
Indices: 86987479--86987519 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
86987469 CCAACCGGTA
***
86987479 CCATAAAACCGACAGTGGTT
1 CCATAAAACCGACACCAGTT
86987499 CCATAAAACCGACACCAGTT
1 CCATAAAACCGACACCAGTT
86987519 C
1 C
86987520 AACTAGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.17
Consensus pattern (20 bp):
CCATAAAACCGACACCAGTT
Found at i:86990786 original size:22 final size:22
Alignment explanation
Indices: 86990716--86990799 Score: 62
Period size: 22 Copynumber: 3.7 Consensus size: 22
86990706 ATATGTGAAT
* *
86990716 TTATAAATTTATTTAATAAAATA
1 TTATAAATAT-TTTAATAAATTA
* **
86990739 TTAAAATGTATATTTTAATATTTTA
1 TTATAA---ATATTTTAATAAATTA
86990764 TTATAAATATTTTAATAAATTA
1 TTATAAATATTTTAATAAATTA
* *
86990786 -TATAATTAATTTAA
1 TTATAAATATTTTAA
86990800 ATTATTTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
21 12 0.25
22 14 0.29
23 5 0.10
25 14 0.29
26 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TTATAAATATTTTAATAAATTA
Found at i:86995300 original size:29 final size:30
Alignment explanation
Indices: 86995268--86995326 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
86995258 TTATGAATAA
*
86995268 AATTATAC-AAAATCAAAATTTATATATAT
1 AATTACACGAAAATCAAAATTTATATATAT
* *
86995297 AATTACACGTTAAATCATAATTTATATATA
1 AATTACACG-AAAATCAAAATTTATATATA
86995327 ATTTTAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (30 bp):
AATTACACGAAAATCAAAATTTATATATAT
Found at i:86997898 original size:129 final size:127
Alignment explanation
Indices: 86997711--86997972 Score: 357
Period size: 130 Copynumber: 2.0 Consensus size: 127
86997701 TCTCGGATTC
*
86997711 CCAAACGTTGAACATTGCCTTGTTTTAGAATTTAGAAAACATGAGTGAAATGCTAAAGGAATATT
1 CCAAACGTTGAACATTGCCTTGTTTTAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATT
* * *
86997776 CGATTA-TTTGAACAAACGGGAAATTACAACCCAGCACAATAGGGTACGATTCCCCGAATTT
66 CGATCATTTTGAACAAACGAGAAATTACAACCCAGCACAATAGGGCACGATTCCCCGAATTT
* ** *
86997837 CCAAAC-TTCGAACGTTGCCTTCGTTTTAAAGAATTTTTAAAACATGAGTGAAATTCCAAAGGAA
1 CCAAACGTT-GAACATTGCCTT-GTTTT--AGAATTTAGAAAACATGAGTGAAATGCCAAAGGAA
* * **
86997901 TATTCGATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCTTGAATT
62 TATTCGATCATTTTGAACAAACGAGAAATTACAACCCAGCACAATAGGGCACGATTCCCCGAATT
86997966 T
127 T
*
86997967 CTAAAC
1 CCAAAC
86997973 ATCAAACATC
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
125 2 0.02
126 17 0.14
127 5 0.04
129 40 0.34
130 54 0.46
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (127 bp):
CCAAACGTTGAACATTGCCTTGTTTTAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATT
CGATCATTTTGAACAAACGAGAAATTACAACCCAGCACAATAGGGCACGATTCCCCGAATTT
Found at i:86997993 original size:130 final size:129
Alignment explanation
Indices: 86997721--86998007 Score: 350
Period size: 130 Copynumber: 2.3 Consensus size: 129
86997711 CCAAACGTTG
* * *
86997721 AACATTGCC-TTGTTTT--AGAATTTAGAAAACATGAGTGAAATGCTAAAGGAATATTCGATTAT
1 AACATCGCCTTTGTTTTAAAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTCGATCAT
* * * *
86997783 TTGAACAAACGGGAAATTACAACCCAGCACAATAGGGTACGATTCCCCGAATTTCCAAACTTCG
66 TTGAACAAACGAGAAATTACAACCCAGCACAATAGGGCACGATTCCCCGAATTTCCAAACATCA
* * * ** *
86997847 AACGTTGCCTTCGTTTTAAAGAATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATCAT
1 AACATCGCCTTTGTTTTAAAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTCGATCA-
* * ** *
86997912 TTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCTTGAATTTCTAAACATCA
65 TTTGAACAAACGAGAAATTACAACCCAGCACAATAGGGCACGATTCCCCGAATTTCCAAACATCA
* *
86997977 AACATCGCTTTTGTTTT-AAG-GTTTAGAAAAC
1 AACATCGCCTTTGTTTTAAAGAATTTAGAAAAC
86998008 GCGAACGAAA
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
126 8 0.06
127 6 0.04
128 8 0.06
129 43 0.32
130 69 0.51
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (129 bp):
AACATCGCCTTTGTTTTAAAGAATTTAGAAAACATGAGTGAAATGCCAAAGGAATATTCGATCAT
TTGAACAAACGAGAAATTACAACCCAGCACAATAGGGCACGATTCCCCGAATTTCCAAACATCA
Found at i:86998857 original size:64 final size:64
Alignment explanation
Indices: 86998784--86998994 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
86998774 CTGGGCCAGA
*
86998784 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
86998848 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
86998910 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
86998921 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
86998985 GCCCATTTCA
1 GCCCATTTCA
86998995 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:86998996 original size:137 final size:137
Alignment explanation
Indices: 86998750--86999036 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
86998740 TATTGGGCCT
**
86998750 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
86998815 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
86998880 CATATGC
131 CATATGC
86998887 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
86998952 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
86999017 CATATGC
131 CATATGC
86999024 AAGCCCATTTGGG
1 AAGCCCATTTGGG
86999037 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:87000855 original size:26 final size:26
Alignment explanation
Indices: 87000819--87000928 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
87000809 CATGTAATTC
87000819 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
87000845 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
87000871 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
87000897 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
87000923 TTATCA
1 TTATCA
87000929 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87002180 original size:3 final size:3
Alignment explanation
Indices: 87002172--87002207 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
87002162 TATGTTGCTC
87002172 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
87002208 GTAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:87002297 original size:3 final size:3
Alignment explanation
Indices: 87002286--87002422 Score: 83
Period size: 3 Copynumber: 46.7 Consensus size: 3
87002276 TGATGATAGC
* * *
87002286 AAT AGT AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * *
87002330 AAT ACGTT AAT AAG AAT AAT AAT AGT -AT ATT AAT AAT AAC AAT AAT
1 AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
87002376 AGA- AGGT AAT GAT AA- AAT AAT AA- AA- AAT AAT AAT AAT AAT AA-
1 A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
87002418 AAT AA
1 AAT AA
87002423 AGAATAGTGC
Statistics
Matches: 103, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
2 12 0.12
3 86 0.83
4 3 0.03
5 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:87002342 original size:20 final size:20
Alignment explanation
Indices: 87002316--87002413 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
87002306 AAAGTAGAAA
87002316 ATAATAATAATAATAATACGT
1 ATAATAATAATAATAATA-GT
*
87002337 -TAATAAGAATAATAATAGT
1 ATAATAATAATAATAATAGT
* * *
87002356 ATATTAATAATAACAATAAT
1 ATAATAATAATAATAATAGT
* * *
87002376 AGAAGGTAATGATAA-AATAAT
1 ATAA--TAATAATAATAATAGT
*
87002397 A-AAAAATAATAATAATA
1 ATAATAATAATAATAATA
87002414 ATAAAATAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.11
19 6 0.10
20 35 0.56
21 7 0.11
22 8 0.13
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAATAATAGT
Found at i:87002470 original size:14 final size:15
Alignment explanation
Indices: 87002451--87002484 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
87002441 ACGTAAATGG
87002451 TAATAGAAA-AGCAA
1 TAATAGAAACAGCAA
*
87002465 TAATAGAAACAGTAA
1 TAATAGAAACAGCAA
87002480 TAATA
1 TAATA
87002485 ATAAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (15 bp):
TAATAGAAACAGCAA
Found at i:87002493 original size:15 final size:15
Alignment explanation
Indices: 87002457--87002503 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
87002447 ATGGTAATAG
*
87002457 AAAAGCAATAATAGA-
1 AAAAGTAATAATA-AT
*
87002472 AACAGTAATAATAAT
1 AAAAGTAATAATAAT
*
87002487 AAAAGTAATAGTAAT
1 AAAAGTAATAATAAT
87002502 AA
1 AA
87002504 TAATAGTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 1 0.04
15 26 0.96
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.21
Consensus pattern (15 bp):
AAAAGTAATAATAAT
Found at i:87002507 original size:12 final size:12
Alignment explanation
Indices: 87002477--87002518 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
87002467 ATAGAAACAG
*
87002477 TAATAATAATAA
1 TAATAATAGTAA
87002489 -AAGTAATAGTAA
1 TAA-TAATAGTAA
*
87002501 TAATAATAGTGA
1 TAATAATAGTAA
87002513 TAATAA
1 TAATAA
87002519 AAATCATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (12 bp):
TAATAATAGTAA
Found at i:87002516 original size:15 final size:15
Alignment explanation
Indices: 87002498--87002536 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
87002488 AAAGTAATAG
87002498 TAATAATAAT-AGTGA
1 TAATAATAATCA-TGA
*
87002513 TAATAAAAATCATGA
1 TAATAATAATCATGA
87002528 TAATAATAA
1 TAATAATAA
87002537 ATATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (15 bp):
TAATAATAATCATGA
Found at i:87004796 original size:40 final size:40
Alignment explanation
Indices: 87004752--87004879 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
87004742 GTTTGAAAAG
*
87004752 AAAACGGCACTATAAATTA-AGCATTAGCGGCGCTTTCCT-A
1 AAAACGCCACTATAAA-TAGAGCATTAGCGGCGCTTT-CTAA
* * *
87004792 AAAACATCC-CTATAGATAGAGCATTAGCGGCGCTTTTTAA
1 AAAAC-GCCACTATAAATAGAGCATTAGCGGCGCTTTCTAA
** * * * *
87004832 AAAACGCCACTATAGGTCGACCATTAGCGACGCTTTTTAA
1 AAAACGCCACTATAAATAGAGCATTAGCGGCGCTTTCTAA
87004872 AAAACGCC
1 AAAACGCC
87004880 GCAAAAAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
39 5 0.07
40 69 0.92
41 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (40 bp):
AAAACGCCACTATAAATAGAGCATTAGCGGCGCTTTCTAA
Found at i:87004983 original size:40 final size:40
Alignment explanation
Indices: 87004928--87005021 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 40
87004918 GCTATAGCGA
* * * * *
87004928 CGCTTTCTAAAAAATGCCGCTATAGATATAGCATTAGTGG
1 CGCTTTTTTAAAAATGCCGCTATAGATAGACCATTAGAGG
* *
87004968 CGCTTTTTTAAAAATGCCGCTATAGGTCGACCATTAGAGG
1 CGCTTTTTTAAAAATGCCGCTATAGATAGACCATTAGAGG
*
87005008 CGGTTTTTTAAAAA
1 CGCTTTTTTAAAAA
87005022 ATGCTGCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (40 bp):
CGCTTTTTTAAAAATGCCGCTATAGATAGACCATTAGAGG
Found at i:87005107 original size:156 final size:145
Alignment explanation
Indices: 87004776--87005184 Score: 439
Period size: 156 Copynumber: 2.7 Consensus size: 145
87004766 AATTAAGCAT
* * *
87004776 TAGCGGCGCTTTCCT-AAAAACATCC-CTATAGATAGAGCATTAGCGGCGCTTTTTAAAAAACGC
1 TAGCGACGCTTT-CTAAAAAAC-GCCACTATAGATA-AGCATTAGTGGCGCTTTTTAAAAAACGC
* * * *
87004839 CACTATAGGTCGACCATTAGCGACGCTTTTTAAAAAACGCCGCAAAAAAATAAACGTTGTTTTAT
63 CGCTATAGGTCGACCATTAGCGGCGTTTTTTAAAAAACGCCGCAAAAAAATAAACGTCGTTTTAT
*
87004904 GCTTACCTTTAGTGGCTA
128 GCTAACCTTTAGTGGCTA
* * * *
87004922 TAGCGACGCTTTCTAAAAAATGCCGCTATAGATATAGCATTAGTGGCGCTTTTTTAAAAATGCCG
1 TAGCGACGCTTTCTAAAAAACGCCACTATAGATA-AGCATTAGTGGCGCTTTTTAAAAAACGCCG
* * *
87004987 CTATAGGTCGACCATTAGAGGCGGTTTTTTAAAAAATGCTGCAAAAAAACTAAACACAACGACGT
65 CTATAGGTCGACCATTAGCGGC-GTTTTTTAAAAAACGCCGCAAAAAAA-T------AA--ACGT
*
87005052 CGTTTTATGCTAACCTTTAGTGGCTT
120 CGTTTTATGCTAACCTTTAGTGGCTA
*
87005078 TAGC-ATCGCTTTAC-GAAAAACGCCACTATAGATCAAGCATTAGTGGCGCTTTTTAAAAAACGC
1 TAGCGA-CGCTTT-CTAAAAAACGCCACTATAGAT-AAGCATTAGTGGCGCTTTTTAAAAAACGC
* * * *
87005141 TGCTATATGTCGACCATTAGCGGCACTTTTTTGAAAAACGCCGC
63 CGCTATAGGTCGACCATTAGCGGC-GTTTTTTAAAAAACGCCGC
87005185 TGTAGATCGA
Statistics
Matches: 219, Mismatches: 29, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
145 4 0.02
146 71 0.32
147 23 0.11
148 1 0.00
154 2 0.01
155 1 0.00
156 115 0.53
157 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (145 bp):
TAGCGACGCTTTCTAAAAAACGCCACTATAGATAAGCATTAGTGGCGCTTTTTAAAAAACGCCGC
TATAGGTCGACCATTAGCGGCGTTTTTTAAAAAACGCCGCAAAAAAATAAACGTCGTTTTATGCT
AACCTTTAGTGGCTA
Found at i:87005139 original size:40 final size:40
Alignment explanation
Indices: 87005093--87005214 Score: 140
Period size: 41 Copynumber: 3.0 Consensus size: 40
87005083 TCGCTTTACG
* *
87005093 AAAAACGCCACTATAGATCAAGCATTAGTGGCGCTTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTA
* * * * *
87005133 AAAAACGCTGCTATATG-TCGACCATTAGCGGCACTTTTTTG
1 AAAAACGCCGCTATA-GATCGAGCATTAGTGGCGC-TTTTTA
*
87005174 AAAAACGCCGCTGTAGATCGAGCATTAGTGGCG-TTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTA
87005213 AA
1 AA
87005215 GAAAACCCCG
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
39 7 0.11
40 27 0.41
41 32 0.48
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTA
Found at i:87005635 original size:13 final size:13
Alignment explanation
Indices: 87005619--87005655 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
87005609 TTAAAGTTTA
87005619 AGGGGTTAGGGTT
1 AGGGGTTAGGGTT
87005632 AGGGGTTAGGGTT
1 AGGGGTTAGGGTT
* *
87005645 AAGGTTTAGGG
1 AGGGGTTAGGG
87005656 GTCAAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.51, T:0.30
Consensus pattern (13 bp):
AGGGGTTAGGGTT
Found at i:87005706 original size:13 final size:13
Alignment explanation
Indices: 87005688--87005721 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
87005678 TTTTGAGTGG
87005688 AAGGTTTATGTTT
1 AAGGTTTATGTTT
*
87005701 AAGGTTTTTGTTT
1 AAGGTTTATGTTT
*
87005714 AGGGTTTA
1 AAGGTTTA
87005722 AGGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (13 bp):
AAGGTTTATGTTT
Found at i:87005758 original size:18 final size:19
Alignment explanation
Indices: 87005711--87005758 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
87005701 AAGGTTTTTG
*
87005711 TTTAGGGTTTA-AGGATAT
1 TTTAGGGTTTAGAGGATAC
87005729 TTTAAGGG-TTAGAGG-TAC
1 TTT-AGGGTTTAGAGGATAC
87005747 TTTAGGGTTTAG
1 TTTAGGGTTTAG
87005759 TGTTTAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.15
18 15 0.58
19 7 0.27
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.42
Consensus pattern (19 bp):
TTTAGGGTTTAGAGGATAC
Found at i:87005763 original size:7 final size:7
Alignment explanation
Indices: 87005747--87005794 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
87005737 TTAGAGGTAC
87005747 TTTAGGG
1 TTTAGGG
*
87005754 TTTAGTG
1 TTTAGGG
*
87005761 TTTAAGG
1 TTTAGGG
*
87005768 TATAGGG
1 TTTAGGG
87005775 TTTAGAGG
1 TTTAG-GG
87005783 TTTAGGG
1 TTTAGGG
87005790 TTTAG
1 TTTAG
87005795 ATTAATTAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:87006726 original size:85 final size:84
Alignment explanation
Indices: 87006637--87006791 Score: 222
Period size: 84 Copynumber: 1.8 Consensus size: 84
87006627 TTTATTTGCA
* * *
87006637 AAACGCCGCAAAAAAATATTATAATTTAACT-AAAACGACATTGTTTTAATTTGAGATTTAGGGG
1 AAACGCCG-AAAAAAACATTATAATTTAA-TAAAAACGACATGGTTTTAATTGGAGATTTAGGGG
87006701 CATTAGCGGCGTTTTATAAAT
64 CATTAGCGGCGTTTTATAAAT
* * * *
87006722 AAACGCCGTAAAAAGCATTATAGTTTAATAAAAACGACGTGGTTTTAATTGGAGATTTAGGGGCA
1 AAACGCCGAAAAAAACATTATAATTTAATAAAAACGACATGGTTTTAATTGGAGATTTAGGGGCA
87006787 TTAGC
66 TTAGC
87006792 AAAAACGCCG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 1 0.02
84 53 0.85
85 8 0.13
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (84 bp):
AAACGCCGAAAAAAACATTATAATTTAATAAAAACGACATGGTTTTAATTGGAGATTTAGGGGCA
TTAGCGGCGTTTTATAAAT
Found at i:87006856 original size:72 final size:71
Alignment explanation
Indices: 87006722--87006861 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 71
87006712 TTTTATAAAT
*
87006722 AAACGCCGTAAAAAGCATTATAGTTTAATAAAAACGACGTGGTTTTAATTGGAGATTTAGGGGCA
1 AAACGCCGTAAAAAGCATAATAGTTTAATAAAAACGACGTGGTTTTAATTGGAGATTTAGGGG-A
87006787 TTAGCAA
65 TTAGCAA
* * *
87006794 AAACGCCGTAAAAATCATAATAGTTTACT-AAAAC-ATCGTTGTTTTAATTGGAGATTTAAGGGG
1 AAACGCCGTAAAAAGCATAATAGTTTAATAAAAACGA-CGTGGTTTTAATTGGAGATTT-AGGGG
87006857 ATTAG
64 ATTAG
87006862 TGGCGCTATG
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
70 1 0.02
71 30 0.48
72 31 0.50
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.30
Consensus pattern (71 bp):
AAACGCCGTAAAAAGCATAATAGTTTAATAAAAACGACGTGGTTTTAATTGGAGATTTAGGGGAT
TAGCAA
Found at i:87009140 original size:27 final size:27
Alignment explanation
Indices: 87009087--87009146 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
87009077 ATTTTGTTTC
* * *
87009087 CAAATTATTTTTAAATTTTTTGCTTTT
1 CAAAATATTTTTAAATTATATGCTTTT
*
87009114 GAAAATATTTTTAAATATATATG-TTTT
1 CAAAATATTTTTAAAT-TATATGCTTTT
87009141 CAAAAT
1 CAAAAT
87009147 TATGTGCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (27 bp):
CAAAATATTTTTAAATTATATGCTTTT
Found at i:87009888 original size:9 final size:9
Alignment explanation
Indices: 87009874--87010090 Score: 93
Period size: 9 Copynumber: 24.8 Consensus size: 9
87009864 CTAGCAACTC
87009874 ACATAATTT
1 ACATAATTT
87009883 ACATAATTT
1 ACATAATTT
87009892 ACATAA--T
1 ACATAATTT
*
87009899 ACATAACTT
1 ACATAATTT
87009908 ACATAATTT
1 ACATAATTT
*
87009917 --A-AAGTT
1 ACATAATTT
87009923 -CA-AATTT
1 ACATAATTT
**
87009930 -CATAACCT
1 ACATAATTT
*
87009938 ATATAATTT
1 ACATAATTT
*
87009947 ACATAACTT
1 ACATAATTT
87009956 ACATAA--T
1 ACATAATTT
* * *
87009963 ACTTAACTA
1 ACATAATTT
87009972 ACATAATTT
1 ACATAATTT
*
87009981 AAAGATCAAATTT
1 --ACAT--AATTT
*
87009994 -CATAAATT
1 ACATAATTT
*
87010002 ACATAAATT
1 ACATAATTT
*
87010011 ACATAACTT
1 ACATAATTT
87010020 ACATAA--T
1 ACATAATTT
*
87010027 ACATAACTT
1 ACATAATTT
*
87010036 AAATAATTT
1 ACATAATTT
*
87010045 AAAGATCAAATTT
1 --ACAT--AATTT
*
87010058 -CATAACTT
1 ACATAATTT
*
87010066 ACACAATTT
1 ACATAATTT
*
87010075 ACATAACTT
1 ACATAATTT
87010084 ACATAAT
1 ACATAAT
87010091 ACATAAATAT
Statistics
Matches: 160, Mismatches: 29, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
6 4 0.03
7 28 0.17
8 11 0.07
9 97 0.61
10 4 0.03
11 6 0.04
13 10 0.06
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (9 bp):
ACATAATTT
Found at i:87009903 original size:16 final size:16
Alignment explanation
Indices: 87009882--87010123 Score: 97
Period size: 16 Copynumber: 15.0 Consensus size: 16
87009872 TCACATAATT
*
87009882 TACATAATTTACATAA
1 TACATAACTTACATAA
87009898 TACATAACTTACATAA
1 TACATAACTTACATAA
** *
87009914 TTTA-AAGTT-CA-AA
1 TACATAACTTACATAA
* * *
87009927 TTTCATAACCTATATAA
1 -TACATAACTTACATAA
87009944 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
* *
87009962 TACTTAACTAACATAA
1 TACATAACTTACATAA
** **
87009978 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
* *
87009991 TTTCATAAATTACATAAA
1 -TACATAACTTACAT-AA
87010009 TTACATAACTTACATAA
1 -TACATAACTTACATAA
*
87010026 TACATAACTTAAATAA
1 TACATAACTTACATAA
** **
87010042 TTTA-AAGAT-CA-AA
1 TACATAACTTACATAA
* *
87010055 TTTCATAACTTACACAA
1 -TACATAACTTACATAA
87010072 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
* * *
87010090 TACATAAATATATATCA
1 TACATAACT-TACATAA
87010107 TATCATAACTTACATAA
1 TA-CATAACTTACATAA
87010124 CTTAATTATA
Statistics
Matches: 168, Mismatches: 41, Indels: 33
0.69 0.17 0.14
Matches are distributed among these distances:
13 6 0.04
14 14 0.08
15 18 0.11
16 62 0.37
17 18 0.11
18 50 0.30
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:87009944 original size:64 final size:64
Alignment explanation
Indices: 87009869--87010096 Score: 357
Period size: 64 Copynumber: 3.6 Consensus size: 64
87009859 GTTCACTAGC
* * *
87009869 AACTCACATAATTTACATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCAT
1 AACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCAT
* * * *
87009933 AACCTATATAATTTACATAACTTACATAATACTTAACTAACATAATTTAAAGATCAAATTTCAT
1 AACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCAT
* * *
87009997 AAATTACATAAATTACATAACTTACATAATACATAACTTAAATAATTTAAAGATCAAATTTCAT
1 AACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCAT
*
87010061 AACTTACACAATTTACATAACTTACATAATACATAA
1 AACTTACATAATTTACATAACTTACATAATACATAA
87010097 ATATATATCA
Statistics
Matches: 147, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 147 1.00
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.35
Consensus pattern (64 bp):
AACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCAT
Found at i:87019870 original size:13 final size:14
Alignment explanation
Indices: 87019854--87019882 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87019844 TTATACATAT
87019854 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
87019867 TTATAATGGTTTAA
1 TTATAATGGTTTAA
87019881 TT
1 TT
87019883 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:87020320 original size:21 final size:21
Alignment explanation
Indices: 87020295--87020346 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
87020285 TGGAGCGGAA
*
87020295 GCAGCAGCGAGGGAGGCAGTG
1 GCAGCAGCGAGGGAGGCAGAG
87020316 GCAGCAGCGAGGGAGGCAGAG
1 GCAGCAGCGAGGGAGGCAGAG
*
87020337 GCAGTAGCGA
1 GCAGCAGCGA
87020347 TGGCAGCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.50, T:0.04
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGAG
Found at i:87020784 original size:43 final size:43
Alignment explanation
Indices: 87020736--87020845 Score: 157
Period size: 43 Copynumber: 2.5 Consensus size: 43
87020726 GTGGAGGAAG
* *
87020736 CGCCGCTAAAAGTCATGGCTTTTAGCGGCGCTTATCCCACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTATCCCACAAA
* * *
87020779 CGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTTTCCTACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTATCCCACAAA
*
87020822 GGCCGCTAAAAGCCATGATCTTTT
1 CGCCGCTAAAAGCCATGA-CTTTT
87020846 GTGACATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 55 0.92
44 5 0.08
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTATCCCACAAA
Found at i:87024181 original size:40 final size:40
Alignment explanation
Indices: 87024136--87024265 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
87024126 CGGAATATAA
87024136 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** *
87024176 CCGGATAGAATGACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87024216 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
87024256 CCGGATATAA
1 CCGGATATAA
87024266 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87024286 original size:80 final size:80
Alignment explanation
Indices: 87024152--87024301 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
87024142 ATAACCACGT
* * *
87024152 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAACGCCTTCGGGGCTTAGCC
87024217 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
87024232 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACAAACGCCTTCGGGGCTTAGC
87024296 CCGGAT
65 CCGGAT
87024302 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:87029249 original size:39 final size:39
Alignment explanation
Indices: 87029205--87029282 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
87029195 GACTGAGTAC
* *
87029205 GAGCGATGTATTCGCTTTGAGGATGGCTTCAGGGATAAT
1 GAGCGATGTATTCGCTTCGAGGATGGCCTCAGGGATAAT
*
87029244 GAGCGATGTGTTCGCTTCGAGGATGGCCTCAGGGATAAT
1 GAGCGATGTATTCGCTTCGAGGATGGCCTCAGGGATAAT
87029283 CTGAGGGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (39 bp):
GAGCGATGTATTCGCTTCGAGGATGGCCTCAGGGATAAT
Found at i:87034729 original size:3 final size:3
Alignment explanation
Indices: 87034715--87034747 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
87034705 TTCTTAGATT
87034715 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
87034748 TGATTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:87036211 original size:29 final size:27
Alignment explanation
Indices: 87036151--87036243 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 27
87036141 ATGCCTTATT
*
87036151 GGTGTGTTTGGGAGGATATGTTATACC
1 GGTGTGTTTGGGAGGATATATTATACC
* **
87036178 GGTGTGTTTGGGAGGCTATATTATATT
1 GGTGTGTTTGGGAGGATATATTATACC
* *
87036205 GGTGTGTTAT-AGAGGATTTATATTATTCC
1 GGTGTGTT-TGGGAGGA--TATATTATACC
87036234 GGGTGTGTTT
1 -GGTGTGTTT
87036244 AGGTTGGATA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
27 35 0.66
28 1 0.02
29 9 0.17
30 8 0.15
ACGTcount: A:0.18, C:0.05, G:0.33, T:0.43
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATATTATACC
Found at i:87047357 original size:55 final size:53
Alignment explanation
Indices: 87047250--87047456 Score: 211
Period size: 55 Copynumber: 3.8 Consensus size: 53
87047240 TTAGGGTTTG
* * * * *
87047250 AGGATACTATGTAAGACTATGCCAGGGCATGGCAATTGGTAAGGTTTC-TAAGGCA
1 AGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCA
* * *
87047305 AGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-A
* * * * *
87047361 AGG-TCCCATGTAAGACCATGCCAAGGCATGGTATTGGTGAGTTCATAAGGCA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCA
* *
87047413 AGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
87047457 TCAAAAGGAT
Statistics
Matches: 124, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 6 0.05
53 42 0.34
54 8 0.06
55 64 0.52
56 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (53 bp):
AGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCA
Found at i:87047455 original size:108 final size:110
Alignment explanation
Indices: 87047258--87047456 Score: 287
Period size: 108 Copynumber: 1.8 Consensus size: 110
87047248 TGAGGATACT
* * *
87047258 ATGTAAGACTATGCCAGGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
*
87047323 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCC
66 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCC
* * *
87047368 ATGTAAGACCATGCCAAGGCATGG-TATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGAC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGAC
* *
87047430 CATGTCGAGACATGGCAATGGTAAGTT
65 CATGTCAAGACATGGCAATGATAAGTT
87047457 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 7 0.09
110 22 0.28
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCC
Found at i:87047598 original size:23 final size:23
Alignment explanation
Indices: 87047572--87047627 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
87047562 AAGGTAAGGT
87047572 AAGGTAAGACGAGTTATACTAAA
1 AAGGTAAGACGAGTTATACTAAA
*
87047595 AAGGTAAGACGAGTTATATTAAA
1 AAGGTAAGACGAGTTATACTAAA
*
87047618 ATGGTAAGAC
1 AAGGTAAGAC
87047628 AAGGTAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.46, C:0.07, G:0.23, T:0.23
Consensus pattern (23 bp):
AAGGTAAGACGAGTTATACTAAA
Found at i:87047719 original size:16 final size:16
Alignment explanation
Indices: 87047698--87047728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87047688 ATAAATTTGA
87047698 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
87047714 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
87047729 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:87050318 original size:93 final size:89
Alignment explanation
Indices: 87050081--87050334 Score: 231
Period size: 93 Copynumber: 2.7 Consensus size: 89
87050071 TTGCCGATGC
* * * *
87050081 CATGTCCCAGACATGGTCTTATACTAGCTCTCATATATGTATGCCGATGCATATCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTC---TCTGGATGCCGATGCATGTCCCAGACATGT
* * *
87050146 CTTACACTAGCACAACTCTTAGCCGATG
62 CTTACACTAGCACAAATCATAGCCGAAG
* * * * *
87050174 CATGTCCCAGACAAGTCTCACACTGGCTATCTCTGTCGAGGCCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTAGCTCTCTCTG--GATGCCGATGCATGTCCCAGACATGTCT
* * * *
87050239 TACTCTGGCACTCATAAT-ATCGCTGAAG
64 TACACTAGCA--CA-AATCATAGCCGAAG
* *
87050267 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGCCGATGCCATGTCCCAGATATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-TCTGGATGCCGATG-CATGTCCCAGACAT-GTC
87050332 TTA
63 TTA
87050335 TACTGGCGCA
Statistics
Matches: 130, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
89 3 0.02
91 33 0.25
92 22 0.17
93 60 0.46
94 12 0.09
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (89 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCTCTGGATGCCGATGCATGTCCCAGACATGTCTTA
CACTAGCACAAATCATAGCCGAAG
Found at i:87053976 original size:15 final size:16
Alignment explanation
Indices: 87053951--87053980 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
87053941 CGGAATAGAA
87053951 ATGGAATTTTGTTACT
1 ATGGAATTTTGTTACT
87053967 ATGG-ATTTTGTTAC
1 ATGGAATTTTGTTAC
87053981 GGGATTGCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (16 bp):
ATGGAATTTTGTTACT
Found at i:87055505 original size:2 final size:2
Alignment explanation
Indices: 87055498--87055525 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87055488 ACATGTAAAA
87055498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87055526 TTGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87055854 original size:17 final size:17
Alignment explanation
Indices: 87055834--87055869 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
87055824 AAAAGAAAGT
87055834 AAAAGAA-AGAAGAACAA
1 AAAAGAACAG-AGAACAA
87055851 AAAAGAACAGAGAACAA
1 AAAAGAACAGAGAACAA
87055868 AA
1 AA
87055870 CGAAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.75, C:0.08, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAACAGAGAACAA
Found at i:87056793 original size:27 final size:27
Alignment explanation
Indices: 87056763--87056814 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
87056753 ATGCCTTATT
* *
87056763 GGTGTGTTTGGCAGGATATGTTATACC
1 GGTGTGCTTGGCAGGATATATTATACC
* *
87056790 GGTGTGCTTGGGAGGCTATATTATA
1 GGTGTGCTTGGCAGGATATATTATA
87056815 TTGGCGTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.35, T:0.37
Consensus pattern (27 bp):
GGTGTGCTTGGCAGGATATATTATACC
Found at i:87057338 original size:2 final size:2
Alignment explanation
Indices: 87057331--87057366 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
87057321 GAGTCATGTG
87057331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87057367 AAAGTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87068257 original size:24 final size:25
Alignment explanation
Indices: 87068194--87068257 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 25
87068184 TATTGATTCT
* * *
87068194 TAGCTCGTATGAGCTTACCGTTATT
1 TAGCTCGAAAGAGCTTACCGTTATA
* * *
87068219 TCATCTCGGAGGAGCTTACCGTT-TA
1 T-AGCTCGAAAGAGCTTACCGTTATA
87068244 TAGCTCGAAAGAGC
1 TAGCTCGAAAGAGC
87068258 ATACATGTAC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 10 0.32
25 3 0.10
26 18 0.58
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (25 bp):
TAGCTCGAAAGAGCTTACCGTTATA
Found at i:87072997 original size:24 final size:23
Alignment explanation
Indices: 87072965--87073038 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 23
87072955 CATATAGTCT
87072965 AATTATATCAATATCTATTTCATA
1 AATTATATCAATATC-ATTTCATA
*
87072989 AATTATATCAATAACCATTTCATA
1 AATTATATCAAT-ATCATTTCATA
*
87073013 CATTATATCAATAATCATTTCATA
1 AATTATATCAAT-ATCATTTCATA
87073037 AA
1 AA
87073039 ACCATGTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 43 0.96
25 2 0.04
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTATATCAATATCATTTCATA
Found at i:87073481 original size:29 final size:29
Alignment explanation
Indices: 87073449--87073530 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
87073439 AAAATAATCA
87073449 TTATTCACAATTCACATTTCAATTTCAAT
1 TTATTCACAATTCACATTTCAATTTCAAT
* *
87073478 TTATTTACTATTCACATTTCAATTTCAAT
1 TTATTCACAATTCACATTTCAATTTCAAT
*
87073507 TTATTCACTAA-TAACATTTCAATT
1 TTATTCAC-AATTCACATTTCAATT
87073531 CAAATAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 46 0.98
30 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (29 bp):
TTATTCACAATTCACATTTCAATTTCAAT
Found at i:87073550 original size:23 final size:21
Alignment explanation
Indices: 87073516--87073560 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
87073506 TTTATTCACT
87073516 AATAACATTTCAATTCAAATA
1 AATAACATTTCAATTCAAATA
*
87073537 AATAATCATATTCAATTCCAATA
1 AATAA-CAT-TTCAATTCAAATA
87073560 A
1 A
87073561 CCATATACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 3 0.14
23 13 0.62
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAACATTTCAATTCAAATA
Found at i:87073629 original size:14 final size:16
Alignment explanation
Indices: 87073612--87073644 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
87073602 ATCATATCAA
87073612 TTACTTACC-T-CATT
1 TTACTTACCATGCATT
87073626 TTACTTACCATGCATT
1 TTACTTACCATGCATT
87073642 TTA
1 TTA
87073645 ATTAAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.48
Consensus pattern (16 bp):
TTACTTACCATGCATT
Found at i:87074339 original size:5 final size:5
Alignment explanation
Indices: 87074331--87074420 Score: 180
Period size: 5 Copynumber: 18.0 Consensus size: 5
87074321 GTTTATTAGT
87074331 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
87074381 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
87074421 ATATACTTTA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 85 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:87074679 original size:13 final size:14
Alignment explanation
Indices: 87074661--87074689 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
87074651 AACTAACTTC
87074661 ATAAATATTT-TTA
1 ATAAATATTTATTA
87074674 ATAAATATTTATTA
1 ATAAATATTTATTA
87074688 AT
1 AT
87074690 CCATTTTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTATTA
Found at i:87076209 original size:2 final size:2
Alignment explanation
Indices: 87076202--87076231 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87076192 GCTCTTGCAC
87076202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87076232 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87077143 original size:40 final size:40
Alignment explanation
Indices: 87077060--87077205 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
87077050 TCGAATGATG
* ** *
87077060 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
87077100 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
87077140 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
87077181 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87077206 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87077212 original size:80 final size:80
Alignment explanation
Indices: 87077060--87077228 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
87077050 TCGAATGATG
* * *
87077060 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGCGACTATAACCGGACTAAGATCCAAAGGCATTT
**
87077125 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* ** * *
87077140 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCAAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGCGACTATAACCGGACTAAGAT-CCAAAGGCAT
*
87077203 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
87077220 TCC-GGTTAA
1 TCCGGGTTAA
87077229 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 9 0.12
80 59 0.79
81 7 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGCGACTATAACCGGACTAAGATCCAAAGGCATTT
GAACGAGTAGCTAAA
Found at i:87082725 original size:26 final size:26
Alignment explanation
Indices: 87082696--87082751 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
87082686 TGGTACAAAT
87082696 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87082722 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87082748 TGAT
1 TGAT
87082752 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87084476 original size:29 final size:29
Alignment explanation
Indices: 87084442--87084516 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
87084432 TACTCGATTT
* *
87084442 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATGCCATTCAAGCC
* * * *
87084471 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCCATTCAAGCC
87084500 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
87084517 ATATTTCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCCATTCAAGCC
Found at i:87084533 original size:29 final size:29
Alignment explanation
Indices: 87084501--87084573 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
87084491 CTTCGAGCTC
87084501 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87084530 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87084559 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
87084574 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:87092357 original size:29 final size:29
Alignment explanation
Indices: 87092323--87092454 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
87092313 TACTCGATTT
** * *
87092323 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
87092352 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
87092381 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
87092410 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
87092439 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
87092455 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:87095368 original size:27 final size:27
Alignment explanation
Indices: 87095328--87095468 Score: 155
Period size: 27 Copynumber: 5.2 Consensus size: 27
87095318 AGGAAGCGTC
*
87095328 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
87095355 CTGGTGGCTCTGCCAC-ATATATCT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
* * *
87095382 TTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
87095409 CTGGTGGCTCTGCCA-TATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
87095436 CTGATGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
87095463 CTGGTG
1 CTGGTG
87095469 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:87095411 original size:54 final size:53
Alignment explanation
Indices: 87095328--87095468 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
87095318 AGGAAGCGTC
87095328 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* * *
87095382 TTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* * *
87095436 CTGATGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
87095469 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 7 0.09
54 71 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:87100930 original size:29 final size:29
Alignment explanation
Indices: 87100895--87100965 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
87100885 GAGAGAATGA
* *
87100895 CACTAAGTGTGCGGGCTTAAAATGCATGG
1 CACTAAGTGTGCGAGCTTAAAATACATGG
* *
87100924 CACTAAGTGTGCGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGAGCTTAAAATACATGG
87100953 CACTAAGTGTGCG
1 CACTAAGTGTGCG
87100966 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (29 bp):
CACTAAGTGTGCGAGCTTAAAATACATGG
Found at i:87103426 original size:31 final size:31
Alignment explanation
Indices: 87103388--87103446 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
87103378 ATGATTTTAG
87103388 CAGGTAGCAGAAGCTACCACTTTTCACTGAT
1 CAGGTAGCAGAAGCTACCACTTTTCACTGAT
*
87103419 CAGGTAGCTGAAGCTACCACTTTTCACT
1 CAGGTAGCAGAAGCTACCACTTTTCACT
87103447 TGTCATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
CAGGTAGCAGAAGCTACCACTTTTCACTGAT
Found at i:87106341 original size:21 final size:21
Alignment explanation
Indices: 87106286--87106337 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
87106276 CGCTTGGAGT
*
87106286 ACTCTTTTCGATATTACTCTA
1 ACTCTTTTCAATATTACTCTA
* *
87106307 ACTTTTTTCAATATTATTCTA
1 ACTCTTTTCAATATTACTCTA
87106328 A-TCTTTTCAA
1 ACTCTTTTCAA
87106338 ATATGGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (21 bp):
ACTCTTTTCAATATTACTCTA
Found at i:87110594 original size:58 final size:57
Alignment explanation
Indices: 87110504--87110668 Score: 234
Period size: 51 Copynumber: 3.0 Consensus size: 57
87110494 ACTTCTGATC
* *
87110504 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGA-AAGTGACA
87110562 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC------AGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAAAGTGACA
* *
87110613 AGGGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGA-AAGTGA
87110669 TAAATGTGAT
Statistics
Matches: 96, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
51 49 0.51
58 47 0.49
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (57 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAAAGTGACA
Found at i:87114664 original size:13 final size:13
Alignment explanation
Indices: 87114646--87114671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87114636 AATATTGCAT
87114646 GAAAATTTTTATC
1 GAAAATTTTTATC
87114659 GAAAATTTTTATC
1 GAAAATTTTTATC
87114672 AATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GAAAATTTTTATC
Found at i:87125067 original size:40 final size:41
Alignment explanation
Indices: 87125021--87125264 Score: 313
Period size: 40 Copynumber: 6.1 Consensus size: 41
87125011 TCGGCTTTAA
* *
87125021 CCGGATA-TAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATTAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
87125061 CCGGATA-TAGT-AGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATTAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
87125101 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATTAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
87125141 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATTAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* * *
87125181 CC-GAAATTTGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATTAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
87125221 CCAGA-ATTAGGCACTAGCACAAATGCTTTCAGGACTTAGC
1 CCGGATATTAGTCACTCGCACAAATGCCTTCGGGACTTAGC
87125261 CCGG
1 CCGG
87125265 TTATCATCCA
Statistics
Matches: 187, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 4 0.02
40 180 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
CCGGATATTAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:87128067 original size:33 final size:33
Alignment explanation
Indices: 87128030--87128152 Score: 117
Period size: 33 Copynumber: 3.8 Consensus size: 33
87128020 TACCCAAGTG
* * *
87128030 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
* * *
87128063 GTA-CACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
* * * *
87128095 ATACCA-TAAGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTACACTTTGTGT
*
87128128 GTACCACTTGAAAAGG-AATGTACAC
1 GTACCACTTGAAAAGGTAAGGTACAC
87128153 CTCAAGTGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
32 35 0.47
33 38 0.51
34 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:87135656 original size:32 final size:33
Alignment explanation
Indices: 87135609--87135722 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
87135599 TACCCAAGTG
*
87135609 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
* *
87135642 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
* * ** * * *
87135674 ATACCA-TATGAAAAGGAAAGATATACTTTATGT
1 GTACAACT-TGAAAAGGTTAGGTACACTTTGTGT
* *
87135707 GTACCACTTGGAAAGG
1 GTACAACTTGAAAAGG
87135723 AATTTACACC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 29 0.43
33 37 0.55
34 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.32
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
Found at i:87135723 original size:33 final size:33
Alignment explanation
Indices: 87135633--87135724 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
87135623 GGTTATGTAC
** *
87135633 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGATAT
* *
87135665 ACTTTGTGTATACCA-TATGAAAAGGAAAGATAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGATAT
*
87135698 ACTTTATGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
87135725 TTTACACCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
32 12 0.24
33 36 0.73
34 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGATAT
Found at i:87137167 original size:6 final size:6
Alignment explanation
Indices: 87137158--87137199 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
87137148 AAAGAAAAAC
*
87137158 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAG ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
87137200 GGACTCAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (6 bp):
ATAAAT
Found at i:87144111 original size:46 final size:46
Alignment explanation
Indices: 87144044--87144218 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
87144034 TGTAACCCGC
* * *
87144044 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTAT
* *
87144090 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTA--T
* * * * *
87144136 ACATCTCA-TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTAT
* *
87144183 CCATAAATGAATTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
87144219 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 5 0.05
45 4 0.04
46 61 0.58
47 29 0.27
48 3 0.03
49 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTAT
Found at i:87144160 original size:93 final size:93
Alignment explanation
Indices: 87144052--87144222 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
87144042 GCCCATAAGC
* * *
87144052 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
87144117 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
* * * *
87144145 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAATGAATTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
87144210 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87144223 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:87153000 original size:27 final size:28
Alignment explanation
Indices: 87152970--87153069 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
87152960 ATAGTGAGTC
87152970 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
87152997 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
87153025 CGCACACTTAGTGCTGTACAAATTAAAAACC
1 CGCACACTTAGTGCTATA-AAA-T-CAAACT
87153056 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87153070 CATTCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
30 1 0.02
31 18 0.29
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:87161014 original size:27 final size:28
Alignment explanation
Indices: 87160984--87161083 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
87160974 ATAGTGAGTC
87160984 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
87161011 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
87161039 CGCACACTTAGTGCTGTACAAATTAAAAACC
1 CGCACACTTAGTGCTATA-AAA-T-CAAACT
87161070 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87161084 CATTCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
30 1 0.02
31 18 0.29
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:87165301 original size:41 final size:42
Alignment explanation
Indices: 87165201--87165365 Score: 260
Period size: 42 Copynumber: 4.0 Consensus size: 42
87165191 GACCATGGCA
87165201 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
1 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
*
87165243 ATATGTGATTACGTGTAAGACTATAGCTGGGCTATGGCATCG
1 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
*
87165285 -TATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCG
1 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
* * * * *
87165326 ATATGTGAATATGTGTAAGACCATAGTTAGACTATGGCAT
1 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCAT
87165366 TAGAAAATGA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 39 0.35
42 74 0.65
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (42 bp):
ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
Found at i:87165342 original size:83 final size:83
Alignment explanation
Indices: 87165202--87165365 Score: 265
Period size: 83 Copynumber: 2.0 Consensus size: 83
87165192 ACCATGGCAA
* * *
87165202 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATTACGTGTAAGACTAT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCGATATGTGAATACGTGTAAGACCAT
* *
87165267 AGCTGGGCTATGGCATCG
66 AGCTAGACTATGGCATCG
*
87165285 TATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCGATATGTGAATATGTGTAAGACCAT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCGATATGTGAATACGTGTAAGACCAT
*
87165350 AGTTAGACTATGGCAT
66 AGCTAGACTATGGCAT
87165366 TAGAAAATGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (83 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCGATATGTGAATACGTGTAAGACCAT
AGCTAGACTATGGCATCG
Found at i:87166401 original size:29 final size:29
Alignment explanation
Indices: 87166369--87166447 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
87166359 AAAATAATCA
87166369 TTATTCACTATTCACATTTCAATTTCAAT
1 TTATTCACTATTCACATTTCAATTTCAAT
*
87166398 TTATTTACTATTCACATTTCAATTTCAAT
1 TTATTCACTATTCACATTTCAATTTCAAT
*
87166427 TTATTCATTATTCACATTTCA
1 TTATTCACTATTCACATTTCA
87166448 GTAAGTGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATTCACTATTCACATTTCAATTTCAAT
Found at i:87168628 original size:17 final size:17
Alignment explanation
Indices: 87168606--87168645 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
87168596 GTAGTATGTT
87168606 AGCCGAGTTGCAAGTTA
1 AGCCGAGTTGCAAGTTA
*
87168623 AGCCGAGTTGTAAGTTA
1 AGCCGAGTTGCAAGTTA
87168640 AGCCGA
1 AGCCGA
87168646 CTTGGATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (17 bp):
AGCCGAGTTGCAAGTTA
Found at i:87175387 original size:5 final size:5
Alignment explanation
Indices: 87175377--87175416 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
87175367 CTCCGAAAAT
87175377 TTTTA TTTTA TTTTA --TTA TTTTA TTATT- TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TT
87175417 GTTTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
3 3 0.10
4 2 0.06
5 24 0.77
6 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:87175397 original size:8 final size:8
Alignment explanation
Indices: 87175384--87175421 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
87175374 AATTTTTATT
87175384 TTATTTTA
1 TTATTTTA
87175392 TTATTTTA
1 TTATTTTA
87175400 TTATTTT-
1 TTATTTTA
87175407 TTATTTTA
1 TTATTTTA
*
87175415 TTGTTTT
1 TTATTTT
87175422 TTAAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (8 bp):
TTATTTTA
Found at i:87175412 original size:15 final size:14
Alignment explanation
Indices: 87175376--87175424 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
87175366 GCTCCGAAAA
87175376 TTTTTATTTTA-TT
1 TTTTTATTTTATTT
*
87175389 TTATTATTTTATTAT
1 TTTTTATTTTATT-T
87175404 TTTTTATTTTATTGT
1 TTTTTATTTTATT-T
87175419 TTTTTA
1 TTTTTA
87175425 AAGAAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
13 10 0.32
14 1 0.03
15 20 0.65
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:87176289 original size:27 final size:23
Alignment explanation
Indices: 87176235--87176322 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
87176225 ATACACGGAT
*
87176235 TCCAACCAAACACACCGGAATAA
1 TCCAACCAAACACACCAGAATAA
*
87176258 TCCAACCAAACACACCAGAATGA
1 TCCAACCAAACACACCAGAATAA
** *
87176281 TCCTCCCAAACACACCATAATAA
1 TCCAACCAAACACACCAGAATAA
* *
87176304 TCTACCCAAACACACCAGA
1 TCCAACCAAACACACCAGA
87176323 TTGGCACTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.45, C:0.38, G:0.06, T:0.11
Consensus pattern (23 bp):
TCCAACCAAACACACCAGAATAA
Found at i:87177468 original size:3 final size:3
Alignment explanation
Indices: 87177460--87177514 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
87177450 ATTTCATTAT
*
87177460 ATA ATA AT- ATA ATTA AT- ATGA ATT ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
87177505 ATA ATA ATA A
1 ATA ATA ATA A
87177515 ATAAACAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.80
4 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:87177675 original size:18 final size:18
Alignment explanation
Indices: 87177647--87177695 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
87177637 AAATTATTCA
87177647 ATAATTTAATAATATA-AT
1 ATAA-TTAATAATATATAT
87177665 ATCAATTAATATATATATAT
1 AT-AATTAATA-ATATATAT
87177685 ATAA-TAATAAT
1 ATAATTAATAAT
87177696 CTAAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 2 0.07
18 13 0.46
19 9 0.32
20 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATTAATAATATATAT
Found at i:87178531 original size:18 final size:18
Alignment explanation
Indices: 87178508--87178542 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
87178498 ACAATGTCAA
87178508 AATGATTTTGGGTTCCTG
1 AATGATTTTGGGTTCCTG
87178526 AATGATTTTGGGTTCCT
1 AATGATTTTGGGTTCCT
87178543 TATTCTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.46
Consensus pattern (18 bp):
AATGATTTTGGGTTCCTG
Found at i:87181769 original size:2 final size:2
Alignment explanation
Indices: 87181762--87181809 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
87181752 ATGGCATCTT
87181762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
87181804 TT TA TA
1 TA TA TA
87181810 GTCTTTTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87183357 original size:4 final size:4
Alignment explanation
Indices: 87183350--87183388 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
87183340 CTAATATATA
* *
87183350 TATG TATG TATG TATG TATG TATG TATC TATG CATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
87183389 AGATCTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:87186071 original size:31 final size:31
Alignment explanation
Indices: 87186028--87186091 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
87186018 CATATCAGAC
87186028 TCACACTCCACTAACTTTTCCGAAGGGGCTT
1 TCACACTCCACTAACTTTTCCGAAGGGGCTT
*
87186059 TCACGCTCCACTAACTTTTCCGAAGGGGCTT
1 TCACACTCCACTAACTTTTCCGAAGGGGCTT
87186090 TC
1 TC
87186092 GTAACATTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.30
Consensus pattern (31 bp):
TCACACTCCACTAACTTTTCCGAAGGGGCTT
Found at i:87186826 original size:48 final size:48
Alignment explanation
Indices: 87186760--87186853 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
87186750 GGTTGTTGGA
* * * *
87186760 TCCCCGCTTCGCATCTCGTGGTCTCTCATTGCCACTTGTGCTATCAAT
1 TCCCCACTCCGCAACTCGTGGTCTCTCATTGCCACTTGTGCAATCAAT
*
87186808 TCCCCACTCCGCAACTCGTGGTTTCTCATTGCCACTTGTGCAATCA
1 TCCCCACTCCGCAACTCGTGGTCTCTCATTGCCACTTGTGCAATCA
87186854 GTACTGTGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.15, C:0.36, G:0.16, T:0.33
Consensus pattern (48 bp):
TCCCCACTCCGCAACTCGTGGTCTCTCATTGCCACTTGTGCAATCAAT
Found at i:87192544 original size:12 final size:13
Alignment explanation
Indices: 87192522--87192565 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
87192512 TGAGAAAGGG
87192522 AAAAAATCAAACT
1 AAAAAATCAAACT
*
87192535 AAAAAA-CAAA-A
1 AAAAAATCAAACT
87192546 AAAAAATCAAACT
1 AAAAAATCAAACT
87192559 AATAAAA
1 AA-AAAA
87192566 GATTTGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 6 0.23
12 8 0.31
13 8 0.31
14 4 0.15
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (13 bp):
AAAAAATCAAACT
Found at i:87199606 original size:22 final size:21
Alignment explanation
Indices: 87199581--87199623 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
87199571 TTGGATGGGG
87199581 GAGT-AAAAGGATGGAAAGAGTA
1 GAGTGAAAA-GATGGAAA-AGTA
*
87199603 GAGTGGAAAGATGGAAAAGTA
1 GAGTGAAAAGATGGAAAAGTA
87199624 ATAAATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.49, C:0.00, G:0.37, T:0.14
Consensus pattern (21 bp):
GAGTGAAAAGATGGAAAAGTA
Found at i:87200147 original size:21 final size:21
Alignment explanation
Indices: 87200122--87200161 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
87200112 AAGCGGAAGC
*
87200122 AGCAGCGAGGGAAGTAGAGAA
1 AGCAGCAAGGGAAGTAGAGAA
*
87200143 AGCAGCAAGGGTAGTAGAG
1 AGCAGCAAGGGAAGTAGAG
87200162 GCAACAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.42, T:0.07
Consensus pattern (21 bp):
AGCAGCAAGGGAAGTAGAGAA
Found at i:87205216 original size:37 final size:37
Alignment explanation
Indices: 87205175--87205286 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
87205165 TGTTAATTTC
*
87205175 AAGACTTATGTAATTTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
87205212 AAGACTTATGTAATGTTTTTAATTATGTTGTGATTCG
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
87205249 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
87205286 A
1 A
87205287 TACTTTAATT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:87205239 original size:17 final size:17
Alignment explanation
Indices: 87205180--87205277 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
87205170 ATTTCAAGAC
*
87205180 TTATGTAATTTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
87205197 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
87205216 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
** ***
87205234 TTATGTTGTGATTCGAAGA
1 TTATGTAATG-TTTTTA-A
87205253 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
87205271 TTATGTA
1 TTATGTA
87205278 GTGATTCAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 23 0.41
18 8 0.14
19 8 0.14
20 17 0.30
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:87209934 original size:73 final size:72
Alignment explanation
Indices: 87209809--87210174 Score: 292
Period size: 73 Copynumber: 5.0 Consensus size: 72
87209799 CATTATACGT
* * ** *
87209809 GTTTATCACAATCTTTTTAAGGTTACTTTAGATGGGTTTATTTTAACCTTTTTTAAAGGTTG-TA
1 GTTTATCCCAA-CTTTTTAAGGTTACTTTAGACGGGTTTATCCTAACTTTTTTTAAAGGTTGCT-
87209873 TTAGACAAG
64 TTAGACAAG
* * * * * *
87209882 ATTTATCCCAAAATTTTTAAGGTTACTTTAAACGGGTGTATTCTAACTTTTTTTAAAAGTTGCTT
1 GTTTATCCC-AACTTTTTAAGGTTACTTTAGACGGGTTTATCCTAACTTTTTTTAAAGGTTGCTT
* *
87209947 AAGATAAG
65 TAGACAAG
* * * *
87209955 GTTTATCCCAACTTTGTTAATGTT-GTCTTAGACGGGTTTATCCCAATTTTTTTTAAAGGTTGCT
1 GTTTATCCCAACTTT-TTAAGGTTACT-TTAGACGGGTTTATCCTAACTTTTTTTAAAGGTTGCT
*
87210019 TTAGACATG
64 TTAGACAAG
* * * ** * * *
87210028 GTCTATCTCAACTTGTTTAAGGTTGCTTTAGATAGGTCTATCCTGACCTTTTTTTATAGGTTG-T
1 GTTTATCCCAACTT-TTTAAGGTTACTTTAGACGGGTTTATCCT-AACTTTTTTTAAAGGTTGCT
87210092 CTTAGACAAG
64 -TTAGACAAG
* * * * * * *
87210102 GTTTATCCCAACCTTTTTAAGATT-GTCTTAGACGGCTCTATCCCAA-TCATTTTTAAAAGTTGC
1 GTTTATCCCAA-CTTTTTAAGGTTACT-TTAGACGGGTTTATCCTAACT-TTTTTTAAAGGTTGC
*
87210165 CTTAGACAAG
63 TTTAGACAAG
87210175 AACTATAACA
Statistics
Matches: 232, Mismatches: 49, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
72 7 0.03
73 164 0.71
74 58 0.25
75 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (72 bp):
GTTTATCCCAACTTTTTAAGGTTACTTTAGACGGGTTTATCCTAACTTTTTTTAAAGGTTGCTTT
AGACAAG
Found at i:87210144 original size:147 final size:146
Alignment explanation
Indices: 87209928--87210263 Score: 371
Period size: 147 Copynumber: 2.3 Consensus size: 146
87209918 TGTATTCTAA
* * *
87209928 CTTTTTTTAAAAGTTG-CTTAAGATAAGGTTTATCCCAACTTTGTTAATGTTGTCTTAGACGGGT
1 CTTTTTTT-AAGGTTGTCTT-AGACAAGGTTTATCCCAACTTT-TTAATGTTGTCTTAGACGGCT
* ** * * * ** ** *
87209992 TTATCCCAATTTTTTTTAAAGGTTGCTTTAGACATGGTCTATCTCAA-CTTGTTTAAGGTTGCTT
63 CTATCCCAATCATTTTTAAAAGTTGCCTTAGACAAGAACTATAACAACCTT-TTTAAGGTTGCCT
* * **
87210056 TAGA-TAGGTCTATCCTGAC
127 TAGACAAAGTCTATCCCAAC
87210075 CTTTTTTTATAGGTTGTCTTAGACAAGGTTTATCCCAACCTTTTTAA-GATTGTCTTAGACGGCT
1 CTTTTTTTA-AGGTTGTCTTAGACAAGGTTTATCCCAA-CTTTTTAATG-TTGTCTTAGACGGCT
87210139 CTATCCCAATCATTTTTAAAAGTTGCCTTAGACAAGAACTATAACAACCTTTTTAAGGTTGCCTT
63 CTATCCCAATCATTTTTAAAAGTTGCCTTAGACAAGAACTATAACAACCTTTTTAAGGTTGCCTT
87210204 AGACAAAGTCTATCCCAAC
128 AGACAAAGTCTATCCCAAC
* *
87210223 C--TTTTTAAGGTTGTCTTAGACGA-GTCTATCCCAATCTTTTT
1 CTTTTTTTAAGGTTGTCTTAGACAAGGTTTATCCCAA-CTTTTT
87210264 TAAAGGTTGG
Statistics
Matches: 162, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
144 16 0.10
145 15 0.09
146 8 0.05
147 101 0.62
148 22 0.14
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (146 bp):
CTTTTTTTAAGGTTGTCTTAGACAAGGTTTATCCCAACTTTTTAATGTTGTCTTAGACGGCTCTA
TCCCAATCATTTTTAAAAGTTGCCTTAGACAAGAACTATAACAACCTTTTTAAGGTTGCCTTAGA
CAAAGTCTATCCCAAC
Found at i:87210155 original size:36 final size:35
Alignment explanation
Indices: 87209953--87210272 Score: 229
Period size: 36 Copynumber: 8.8 Consensus size: 35
87209943 GCTTAAGATA
* *
87209953 AGGTTTATCCCAA-CTTTGTTAATGTTGTCTTAGAC
1 AGGTCTATCCCAACCTTT-TTAAGGTTGTCTTAGAC
* * **
87209988 GGGTTTATCCCAATTTTTTTTAAAGGTTG-CTTTAGAC
1 AGGTCTATCCCAA-CCTTTTT-AAGGTTGTC-TTAGAC
* *
87210025 ATGGTCTATCTCAA-CTTGTTTAAGGTTG-CTTTAGAT
1 A-GGTCTATCCCAACCTT-TTTAAGGTTGTC-TTAGAC
**
87210061 AGGTCTATCCTGACCTTTTTTTATAGGTTGTCTTAGAC
1 AGGTCTATCCCAACC--TTTTTA-AGGTTGTCTTAGAC
* *
87210099 AAGGTTTATCCCAACCTTTTTAAGATTGTCTTAGAC
1 -AGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAC
* * *
87210135 -GGCTCTATCCCAATCATTTTTAAAAGTTGCCTTAGAC
1 AGG-TCTATCCCAA-CCTTTTT-AAGGTTGTCTTAGAC
** ** *
87210172 AAGAACTATAACAACCTTTTTAAGGTTGCCTTAGAC
1 -AGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAC
*
87210208 AAAGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAC
1 -AGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAC
*
87210244 -GAGTCTATCCCAATCTTTTTTAAAGGTTG
1 AG-GTCTATCCCAA-CCTTTTT-AAGGTTG
87210273 GCCTTGACTA
Statistics
Matches: 230, Mismatches: 35, Indels: 38
0.76 0.12 0.13
Matches are distributed among these distances:
34 2 0.01
35 41 0.18
36 90 0.39
37 53 0.23
38 30 0.13
39 14 0.06
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (35 bp):
AGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAC
Found at i:87210218 original size:109 final size:111
Alignment explanation
Indices: 87210078--87210277 Score: 316
Period size: 109 Copynumber: 1.8 Consensus size: 111
87210068 TCCTGACCTT
* * *
87210078 TTTTTATAGGTTGTCTTAGACAAGGTTTATCCCAACCTTTTTAAGATTGTCTTAGACG-GCTCTA
1 TTTTTATAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGATTGTCTTAGACGAG-TCTA
87210142 TCCCAATCATTTTTAAAAGTT-GCCTTAGACAAGAACTATAACAACC
65 TCCCAATCATTTTTAAAAGTTGGCCTTAGACAAGAACTATAACAACC
*
87210188 TTTTTA-AGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACGAGTCTAT
1 TTTTTATAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGATTGTCTTAGACGAGTCTAT
* *
87210252 CCCAATCTTTTTTAAAGGTTGGCCTT
66 CCCAATCATTTTTAAAAGTTGGCCTT
87210278 GACTAGGTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
109 70 0.85
110 12 0.15
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (111 bp):
TTTTTATAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGATTGTCTTAGACGAGTCTAT
CCCAATCATTTTTAAAAGTTGGCCTTAGACAAGAACTATAACAACC
Found at i:87210270 original size:73 final size:71
Alignment explanation
Indices: 87209958--87210277 Score: 218
Period size: 73 Copynumber: 4.4 Consensus size: 71
87209948 AGATAAGGTT
* * * * * **
87209958 TATCCCAA-CTTTGTTAATGTTGTCTTAGACGGGTTTATCCCAATTTTTTTTAAAGGTTG-CTTT
1 TATCCCAACCTTT-TTAAGGTTGCCTTAGACAGCTCTATCCCAATCATTTTT-AAGGTTGTC-TT
*
87210021 AGACATGGTC
63 AGACA-AGTC
* * * * ** * *
87210031 TATCTCAA-CTTGTTTAAGGTTGCTTTAGATAGGTCTATCCTGACCTTTTTTTATAGGTTGTCTT
1 TATCCCAACCTT-TTTAAGGTTGCCTTAGACAGCTCTATCCCAATC-ATTTTTA-AGGTTGTCTT
*
87210095 AGACAAGGTT
63 AGACAA-GTC
* * * * *
87210105 TATCCCAACCTTTTTAAGATTGTCTTAGACGGCTCTATCCCAATCATTTTTAAAAGTTGCCTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAGCTCTATCCCAATCATTTTT-AAGGTTGTCTTAG
*
87210170 ACAAGAAC
65 ACAAG-TC
** *
87210178 TATAACAACCTTTTTAAGGTTGCCTTAGACAAAG-TCTATCCCAA-CCTTTTTAAGGTTGTCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAC--AGCTCTATCCCAATCATTTTTAAGGTTGTCTTA
*
87210241 GACGAGTC
64 GACAAGTC
*
87210249 TATCCCAATCTTTTTTAAAGGTTGGCCTT
1 TATCCCAA-CCTTTTT-AAGGTT-GCCTT
87210278 GACTAGGTAA
Statistics
Matches: 193, Mismatches: 41, Indels: 25
0.75 0.16 0.10
Matches are distributed among these distances:
71 7 0.04
72 22 0.11
73 90 0.47
74 69 0.36
75 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (71 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGACAGCTCTATCCCAATCATTTTTAAGGTTGTCTTAGA
CAAGTC
Found at i:87213590 original size:4 final size:4
Alignment explanation
Indices: 87213581--87213616 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
87213571 TATGATTTAA
* *
87213581 AAAT AAAT AAAT ATAT AAAT AAAT AAAT TAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
87213617 TAAAGTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:87214231 original size:22 final size:22
Alignment explanation
Indices: 87214189--87214231 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
87214179 TAATTGGAAT
*
87214189 TTGAGTAGAAATAAAGTATAAA
1 TTGAGTAGAAATAAAGAATAAA
*
87214211 TTGAGATAGAAA-AATGAATAA
1 TTGAG-TAGAAATAAAGAATAA
87214232 GTTTTGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (22 bp):
TTGAGTAGAAATAAAGAATAAA
Found at i:87218503 original size:23 final size:23
Alignment explanation
Indices: 87218468--87218516 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
87218458 CCGCGATTCG
**
87218468 TTATATCGGTGCCTTTGTGCATT
1 TTATATCAATGCCTTTGTGCATT
*
87218491 TTATATCAATGCCTTTGTGCTTT
1 TTATATCAATGCCTTTGTGCATT
87218514 TTA
1 TTA
87218517 GGTAAGGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (23 bp):
TTATATCAATGCCTTTGTGCATT
Found at i:87219568 original size:15 final size:17
Alignment explanation
Indices: 87219543--87219574 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
87219533 TGGGTAGGAC
87219543 CTGTATATTGTA-TGAT
1 CTGTATATTGTACTGAT
87219559 CTGT-TATTGTACTGAT
1 CTGTATATTGTACTGAT
87219575 TATTGTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.50
Consensus pattern (17 bp):
CTGTATATTGTACTGAT
Found at i:87222422 original size:57 final size:57
Alignment explanation
Indices: 87222353--87222462 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
87222343 AGCCTGAACA
* * *
87222353 GGTGATCTAAATATTAGCCCTCTCGAAAAATACTGTGTAATGGATTTAGCCCGGATG
1 GGTGATCCAAATATTAGCCCTCCCGAAAAATACTATGTAATGGATTTAGCCCGGATG
*
87222410 GGTGATCCAAATATTAGCCCTCCCGAAGAATACTATGTAATGGATTTAGCCCG
1 GGTGATCCAAATATTAGCCCTCCCGAAAAATACTATGTAATGGATTTAGCCCG
87222463 AACGAGTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (57 bp):
GGTGATCCAAATATTAGCCCTCCCGAAAAATACTATGTAATGGATTTAGCCCGGATG
Found at i:87222475 original size:57 final size:57
Alignment explanation
Indices: 87222361--87222476 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
87222351 CAGGTGATCT
* * * * * *
87222361 AAATATTAGCCCTCTCGAAAAATACTGTGTAATGGATTTAGCCCGGATGGGTGATCC
1 AAATATTAGCCCTCCCGAAAAATACTATGTAATGGATTTAGCCCGAACGAGTAATCC
*
87222418 AAATATTAGCCCTCCCGAAGAATACTATGTAATGGATTTAGCCCGAACGAGTAATCC
1 AAATATTAGCCCTCCCGAAAAATACTATGTAATGGATTTAGCCCGAACGAGTAATCC
87222475 AA
1 AA
87222477 TCTGAGCTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (57 bp):
AAATATTAGCCCTCCCGAAAAATACTATGTAATGGATTTAGCCCGAACGAGTAATCC
Found at i:87224381 original size:40 final size:40
Alignment explanation
Indices: 87224307--87224553 Score: 277
Period size: 40 Copynumber: 6.2 Consensus size: 40
87224297 CCTTCGGAGT
** * *
87224307 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
87224346 TTAGCCCGGTTGTAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
87224386 TTAGCCC-AATATAATAACTCGCACAAATGCCTTCGGGAT
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
87224425 TTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
87224465 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
** * *
87224505 TTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
87224545 TTAGCCCGG
1 TTAGCCCGG
87224554 TTATCATCCG
Statistics
Matches: 179, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 40 0.22
40 139 0.78
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:87224429 original size:79 final size:80
Alignment explanation
Indices: 87224330--87224514 Score: 264
Period size: 79 Copynumber: 2.3 Consensus size: 80
87224320 GCCACTAGCT
* * * * *
87224330 CAAATGCCTTCGGGACTTAGCCCGGTTGTAGTAACTTGCACAAATGCCTTCGGGACTTAGCCC-A
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGA
87224394 ATATAATAACTCGCA
66 ATATAATAACTCGCA
* * *
87224409 CAAATGCCTTCGGGATTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGA
* *
87224474 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
87224489 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
87224515 ATTAGCCACT
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 56 0.60
80 37 0.40
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGA
ATATAATAACTCGCA
Found at i:87232048 original size:37 final size:37
Alignment explanation
Indices: 87231995--87232067 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
87231985 CCATCAGGAA
87231995 GATAGATCTATCGAACTAACTTGCCCTACATTCGCTG
1 GATAGATCTATCGAACTAACTTGCCCTACATTCGCTG
* *
87232032 GATAGATCTATTGAACTAACTTTCCCTACATTCGCT
1 GATAGATCTATCGAACTAACTTGCCCTACATTCGCT
87232068 ACTCAACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (37 bp):
GATAGATCTATCGAACTAACTTGCCCTACATTCGCTG
Found at i:87232371 original size:27 final size:28
Alignment explanation
Indices: 87232327--87232379 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
87232317 TGTATGAAGC
*
87232327 ATAGCCCTGACGGACTTCTGCATACAAT
1 ATAGCCCTGACGGACTTCTACATACAAT
*
87232355 ATAGTCCTG-CGGACTTCTACATACA
1 ATAGCCCTGACGGACTTCTACATACA
87232380 TGAATGTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (28 bp):
ATAGCCCTGACGGACTTCTACATACAAT
Done.