Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 165 of 292
Found at i:48970683 original size:20 final size:20
Alignment explanation
Indices: 48970658--48970717 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
48970648 TATGATTACC
48970658 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
48970678 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
48970698 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
48970718 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:48970792 original size:25 final size:25
Alignment explanation
Indices: 48970760--48970807 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48970750 ATACATAAAC
* * *
48970760 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
48970785 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
48970808 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:48970999 original size:24 final size:24
Alignment explanation
Indices: 48970953--48971072 Score: 163
Period size: 24 Copynumber: 5.0 Consensus size: 24
48970943 GCTTTATCAT
*
48970953 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
48970978 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
*
48971002 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
48971026 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
48971050 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48971073 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.02
24 73 0.83
25 13 0.15
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48971148 original size:20 final size:20
Alignment explanation
Indices: 48971123--48971182 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
48971113 TATGATTACC
48971123 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
48971143 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
48971163 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
48971183 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:48971270 original size:24 final size:25
Alignment explanation
Indices: 48971225--48971271 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
48971215 ATACATAAAC
* *
48971225 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACGGTCATTTTTA
48971250 CCTAGGGG-AAAACGGTCATTTT
1 CCTAGGGGTAAAACGGTCATTTT
48971272 CATATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (25 bp):
CCTAGGGGTAAAACGGTCATTTTTA
Found at i:48975763 original size:31 final size:31
Alignment explanation
Indices: 48975725--48975788 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
48975715 CCTTTTCATA
48975725 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
48975756 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
48975787 TT
1 TT
48975789 ACTGTAAACG
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:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:48976044 original size:24 final size:24
Alignment explanation
Indices: 48975980--48976121 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
48975970 GCTTTATCAT
*
48975980 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
48976005 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
48976028 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
48976051 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
48976075 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
48976099 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48976122 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 40 0.36
24 63 0.57
25 8 0.07
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48976069 original size:47 final size:48
Alignment explanation
Indices: 48975980--48976120 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
48975970 GCTTTATCAT
*
48975980 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
48976028 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
48976075 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
48976121 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 12 0.14
47 41 0.47
48 34 0.39
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:48976095 original size:71 final size:71
Alignment explanation
Indices: 48975979--48976121 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
48975969 TGCTTTATCA
*
48975979 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
48976044 CCCTTT
66 CCCTTT
* **
48976050 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCAATAACTGGGGCATA
48976113 AGCCCTTT
64 AGCCCTTT
48976121 T
1 T
48976122 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 21 0.32
71 45 0.68
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:48976197 original size:20 final size:20
Alignment explanation
Indices: 48976172--48976231 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
48976162 TATGATTACC
48976172 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
48976192 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
48976212 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
48976232 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:48981165 original size:46 final size:44
Alignment explanation
Indices: 48981095--48981214 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 44
48981085 GATCGGAATG
* * * *
48981095 TGCCATGGTGTCTTTCAACCATGGTCTTATTCATTTTCCG-TCATGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATT--TCTT-CGATCATGA
48981141 TGCCATAGTGTCTTTCAACTATGGTCTTATTTCTTCGATTCATGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTTCTTCGA-TCATGA
* * *
48981186 TGTCATAGCGTCTTTCAAATATGGTCTTA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA
48981215 CTCGAGAGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
43 2 0.03
44 3 0.05
45 31 0.48
46 29 0.45
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (44 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTTCTTCGATCATGA
Found at i:48981258 original size:90 final size:89
Alignment explanation
Indices: 48981141--48981355 Score: 220
Period size: 90 Copynumber: 2.4 Consensus size: 89
48981131 TCCGTCATGT
* * * * * *
48981141 TGCCATAGTGTCTTTCAACTATGGTCTTATTTC-TTCG-ATTCATGATGTCATAGCGTCTTTCAA
1 TGCCATAATGTCTTTCATC-ATGGTCTTA-CTCGTTAGAATT-ATGATGCCATAACGTCTTTC-A
*
48981204 AT-ATGGTCTTACTCGAGAGAATCGTGA
62 ATCATGATCTTACTCGAGAGAATCGTGA
* *
48981231 TGCCATAATGTCTTTCATTCATGGTCTTACTCGTTAGAATTTTGATGCCATAACGTCTTTCAGTC
1 TGCCATAATGTCTTTCA-TCATGGTCTTACTCGTTAGAATTATGATGCCATAACGTCTTTCAATC
***
48981296 ATGATCTTACTCGTTTGAATCGTGA
65 ATGATCTTACTCGAGAGAATCGTGA
* * *
48981321 TGCCATAACGTCTTTTAGTCATGGCCTTACTCGTT
1 TGCCATAATGTCTTTCA-TCATGGTCTTACTCGTT
48981356 TGCGTGTGGT
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
89 4 0.04
90 97 0.92
91 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (89 bp):
TGCCATAATGTCTTTCATCATGGTCTTACTCGTTAGAATTATGATGCCATAACGTCTTTCAATCA
TGATCTTACTCGAGAGAATCGTGA
Found at i:48981356 original size:45 final size:45
Alignment explanation
Indices: 48981183--48981357 Score: 208
Period size: 45 Copynumber: 3.9 Consensus size: 45
48981173 CTTCGATTCA
* * * ***
48981183 TGATGTCATAGCGTCTTTCAAAT-ATGGTCTTACTCGAGAGAATCG
1 TGATGCCATAACGTCTTTC-AGTCATGGTCTTACTCGTTTGAATCG
* * * **
48981228 TGATGCCATAATGTCTTTCATTCATGGTCTTACTCGTTAGAATTT
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGTTTGAATCG
*
48981273 TGATGCCATAACGTCTTTCAGTCATGATCTTACTCGTTTGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGTTTGAATCG
* *
48981318 TGATGCCATAACGTCTTTTAGTCATGGCCTTACTCGTTTG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGTTTG
48981358 CGTGTGGTGC
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 2 0.02
45 110 0.98
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGTTTGAATCG
Found at i:48981439 original size:15 final size:15
Alignment explanation
Indices: 48981419--48981452 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48981409 CCAATAAGCT
48981419 CAATTA-ATATATAAA
1 CAATTATATAT-TAAA
48981434 CAATTATATATTAAA
1 CAATTATATATTAAA
48981449 CAAT
1 CAAT
48981453 CAAAAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (15 bp):
CAATTATATATTAAA
Found at i:48986184 original size:30 final size:30
Alignment explanation
Indices: 48986126--48986184 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
48986116 TTTACGAGCC
* *
48986126 TAAGGGCAAAACTGTAATTTTGTAAAAGTT
1 TAAGGGCAAAACGGTAATTTTGCAAAAGTT
* *
48986156 TAAGGGCAAAACGGTCATTTTGCCAAAGT
1 TAAGGGCAAAACGGTAATTTTGCAAAAGT
48986185 AGGAATTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (30 bp):
TAAGGGCAAAACGGTAATTTTGCAAAAGTT
Found at i:48986585 original size:48 final size:48
Alignment explanation
Indices: 48986501--48986790 Score: 321
Period size: 48 Copynumber: 6.0 Consensus size: 48
48986491 ATACTAGGGT
* * * *
48986501 TATGTGAGCCAGTGTAAGACCATGTTTGGAAAATGGCATCGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
* *
48986549 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
* * * **
48986597 TATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
* * * *
48986645 TATGAGAGCTAGTGTAAGACCATCTCTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
* * * * ** * *
48986693 CATGTGGGCTAGTGTAAGACTATGTTTGGAACATGAAATCGACACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCG--A
* *
48986743 TATGAAAGCTAGTGTAAGACCATGTCT-GAGACATGGCATCGGCATCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGGCATCGA
48986791 CATCTTACCC
Statistics
Matches: 195, Mismatches: 44, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
48 158 0.81
49 2 0.01
50 35 0.18
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
Found at i:48986665 original size:96 final size:96
Alignment explanation
Indices: 48986501--48986782 Score: 377
Period size: 96 Copynumber: 2.9 Consensus size: 96
48986491 ATACTAGGGT
* *
48986501 TATGTGAGCCAGTGTAAGACCATGTTTGGAAAATGGCATCGGCATTGATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
*
48986566 GACCATGTTTGGAACATGGCATCAGCCTCGA
66 GACCATGTCTGGAACATGGCATCAGCCTCGA
*
48986597 TATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* * *
48986662 GACCATCTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTCTGGAACATGGCATCAGCCTCGA
* * * * ** * ** *
48986693 CATGTGGGCTAGTGTAAGACTATGTTTGGAACATGAAATCGACACCGATATATGAAAGCTAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAGAGCTAGTGT
48986758 AAGACCATGTCT-GAGACATGGCATC
64 AAGACCATGTCTGGA-ACATGGCATC
48986783 GGCATCGACA
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 125 0.77
97 1 0.01
98 37 0.23
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGAACATGGCATCAGCCTCGA
Found at i:48995856 original size:15 final size:14
Alignment explanation
Indices: 48995819--48995846 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48995809 ATTCCACCCC
48995819 AAATCAGATATAGA
1 AAATCAGATATAGA
48995833 AAATCAGATATAGA
1 AAATCAGATATAGA
48995847 TTCATCAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
AAATCAGATATAGA
Found at i:48997499 original size:22 final size:21
Alignment explanation
Indices: 48997474--48997520 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
48997464 CACATGCCCA
*
48997474 TGTGGTCTAAATGACACACTCG
1 TGTGGT-TAAATAACACACTCG
**
48997496 TGT-GTTCCATAACACACTCG
1 TGTGGTTAAATAACACACTCG
48997516 TGTGG
1 TGTGG
48997521 GCACACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 15 0.71
21 3 0.14
22 3 0.14
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
TGTGGTTAAATAACACACTCG
Found at i:48998540 original size:18 final size:17
Alignment explanation
Indices: 48998494--48998540 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
48998484 GTAGTAATCA
48998494 GTTATTCAGTAACGATC
1 GTTATTCAGTAACGATC
*
48998511 GTTGATTTAGTAAC-AGTC
1 GTT-ATTCAGTAACGA-TC
48998529 GGTTATTCAGTA
1 -GTTATTCAGTA
48998541 GCGGTCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.16
18 18 0.72
19 3 0.12
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (17 bp):
GTTATTCAGTAACGATC
Found at i:48999930 original size:2 final size:2
Alignment explanation
Indices: 48999923--48999952 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48999913 TTTCATTTAC
48999923 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
48999953 ATAACTTAAT
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):
TA
Found at i:48999966 original size:11 final size:12
Alignment explanation
Indices: 48999947--48999980 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
48999937 TATATATATA
48999947 TATATAATAACT
1 TATATAATAACT
48999959 TA-ATAATATACT
1 TATATAATA-ACT
48999971 TATATAATAA
1 TATATAATAA
48999981 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:49005618 original size:24 final size:24
Alignment explanation
Indices: 49005591--49005643 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
49005581 AAAACATAAT
49005591 TTATAGGGAAAGTCTTTAAAATCA
1 TTATAGGGAAAGTCTTTAAAATCA
**
49005615 TTATATTGAAAGTCTTTAAAATCA
1 TTATAGGGAAAGTCTTTAAAATCA
49005639 TTATA
1 TTATA
49005644 TTTTGGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (24 bp):
TTATAGGGAAAGTCTTTAAAATCA
Found at i:49005644 original size:24 final size:24
Alignment explanation
Indices: 49005598--49005645 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
49005588 AATTTATAGG
49005598 GAAAGTCTTTAAAATCATTATATT
1 GAAAGTCTTTAAAATCATTATATT
49005622 GAAAGTCTTTAAAATCATTATATT
1 GAAAGTCTTTAAAATCATTATATT
49005646 TTGGAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (24 bp):
GAAAGTCTTTAAAATCATTATATT
Found at i:49006825 original size:21 final size:21
Alignment explanation
Indices: 49006799--49006839 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
49006789 AATGCTTCGG
49006799 AGACCACCAATACCTAAAAAT
1 AGACCACCAATACCTAAAAAT
*
49006820 AGACCACTAATACCTAAAAA
1 AGACCACCAATACCTAAAAA
49006840 CAGAATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.27, G:0.05, T:0.15
Consensus pattern (21 bp):
AGACCACCAATACCTAAAAAT
Found at i:49016925 original size:17 final size:17
Alignment explanation
Indices: 49016903--49016937 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
49016893 AACCAGCAGG
49016903 ATAATTTTTTTCTCAAA
1 ATAATTTTTTTCTCAAA
49016920 ATAATTTTTTTCTCAAA
1 ATAATTTTTTTCTCAAA
49016937 A
1 A
49016938 CTTTCACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
ATAATTTTTTTCTCAAA
Found at i:49019991 original size:47 final size:47
Alignment explanation
Indices: 49019937--49020131 Score: 275
Period size: 47 Copynumber: 4.1 Consensus size: 47
49019927 TTAGGATTTT
*
49019937 ATGTGATGAATGTGAATC-TGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAA-CATGTATATATGAGATAAGGCCGAATGGCCA
* *
49019984 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATA--TGAGATAAGGCCGAATGGCCA
*
49020035 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
* * *
49020082 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
49020129 ATG
1 ATG
49020132 CGAAATGTGT
Statistics
Matches: 134, Mismatches: 9, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
46 1 0.01
47 84 0.63
49 11 0.08
51 38 0.28
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
Found at i:49020041 original size:98 final size:94
Alignment explanation
Indices: 49019937--49020131 Score: 302
Period size: 98 Copynumber: 2.0 Consensus size: 94
49019927 TTAGGATTTT
*
49019937 ATGTGATGAATGTGAATC-TGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAA-CATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAAC
*
49020001 CTGTATATATATGTGTGATAAGGCCGAATGGCCA
65 ATG--TATATATGTG-G-TAAGGCCGAATGGCCA
*
49020035 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
49020100 TGTATATATGTGGTAAGGCCGAATGGCTA
66 TGTATATATGTGGTAAGGCCGAATGGCCA
49020129 ATG
1 ATG
49020132 CGAAATGTGT
Statistics
Matches: 92, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
94 18 0.20
95 1 0.01
96 10 0.11
97 1 0.01
98 62 0.67
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGTATATATGTGGTAAGGCCGAATGGCCA
Found at i:49020241 original size:46 final size:46
Alignment explanation
Indices: 49020105--49020241 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
49020095 GAACATGTAT
* *
49020105 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
49020151 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
49020197 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
49020242 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:49038172 original size:16 final size:17
Alignment explanation
Indices: 49038146--49038177 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49038136 ACTCATTTTC
49038146 CATCATCAAGCATTCAA
1 CATCATCAAGCATTCAA
49038163 CATC-TCAAGCATTCA
1 CATCATCAAGCATTCA
49038178 TCAATGGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (17 bp):
CATCATCAAGCATTCAA
Found at i:49043577 original size:27 final size:27
Alignment explanation
Indices: 49043547--49043638 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
49043537 ATTACCAAAG
* * *
49043547 TACCTTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTATCATTT
* * *
49043574 TACCTTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAAAATTATCATTT
49043601 TACCCTC-AGTTTATAAAATTATCATTT
1 TACCCTCGA-TTTATAAAATTATCATTT
49043628 TACCCTCGATT
1 TACCCTCGATT
49043639 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTATCATTT
Found at i:49043592 original size:54 final size:54
Alignment explanation
Indices: 49043534--49043638 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
49043524 CTCGACTTGT
* * * *
49043534 AAAATTACCAAAGTACCTTC-GATTTATAGAATTATCGTTTTACCTTCGATTTAC
1 AAAATTACCAAAGTACCCTCAG-TTTATAAAATTATCATTTTACCCTCGATTTAC
***
49043588 AAAATTACCATTTTACCCTCAGTTTATAAAATTATCATTTTACCCTCGATT
1 AAAATTACCAAAGTACCCTCAGTTTATAAAATTATCATTTTACCCTCGATT
49043639 GTGAAATTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 42 0.98
55 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCAGTTTATAAAATTATCATTTTACCCTCGATTTAC
Found at i:49043660 original size:27 final size:26
Alignment explanation
Indices: 49043637--49043766 Score: 109
Period size: 27 Copynumber: 4.8 Consensus size: 26
49043627 TTACCCTCGA
**
49043637 TTGTGAAATTACTGAAATACCCCTGT
1 TTGTGAAATTACCAAAATACCCCTGT
**
49043663 AGGAT-AGAATTACCAAAATACCCCTAGT
1 TTG-TGA-AATTACCAAAATACCCCT-GT
* * *
49043691 TTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCT-GT
** *
49043718 TTGTGAAATTACCAAAATACCTTTAAT
1 TTGTGAAATTACCAAAATACCCCT-GT
*
49043745 TTGTAAAATTACCAAAATACCC
1 TTGTGAAATTACCAAAATACCC
49043767 TTAATTTACA
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
26 2 0.02
27 77 0.93
28 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (26 bp):
TTGTGAAATTACCAAAATACCCCTGT
Found at i:49043711 original size:54 final size:54
Alignment explanation
Indices: 49043637--49043766 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
49043627 TTACCCTCGA
* * *
49043637 TTGTGAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTGGTAGG-TGA-AATTACCAAAATACCCCTAAT
* ** **
49043691 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTACCAAAATACCTTTAAT
1 TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
*
49043745 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCGAAATACCC
49043767 TTAATTTACA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 60 0.94
55 4 0.06
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCCTAAT
Found at i:49043770 original size:27 final size:27
Alignment explanation
Indices: 49043670--49043795 Score: 139
Period size: 27 Copynumber: 4.7 Consensus size: 27
49043660 TGTAGGATAG
* *
49043670 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
* ** *
49043697 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTAATTTGTAA
*
49043724 AATTACCAAAATACCTTTAATTTGTAA
1 AATTACCAAAATACCCTTAATTTGTAA
**
49043751 AATTACCAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTTAATTTGTAA
49043778 AATTA-CAGAAATACCCTT
1 AATTACCA-AAATACCCTT
49043796 GACTTTCTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.02
27 82 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAATTTGTAA
Found at i:49043781 original size:54 final size:54
Alignment explanation
Indices: 49043670--49043879 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 54
49043660 TGTAGGATAG
* * ***
49043670 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACC-CTTGGTTTACAA
* * **
49043724 AATTACCAAAATACCTTTAATTTGTAAAATTACCAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAA
* * * *
49043778 AATTA-CAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAATACCCTTGGTTTACAA
** * * * *
49043834 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTG
49043880 TAGGATGAAA
Statistics
Matches: 123, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
53 3 0.02
54 71 0.58
55 11 0.09
56 38 0.31
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAA
Found at i:49043844 original size:27 final size:27
Alignment explanation
Indices: 49043749--49043856 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
49043739 TTTAATTTGT
** **
49043749 AAAATTACCAAAATACCCTTAATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
49043776 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
49043803 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
49043832 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
49043857 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:49043973 original size:27 final size:26
Alignment explanation
Indices: 49043910--49043973 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
49043900 ACCCCTAATA
*
49043910 GGTAAAAAGACCGTAAAGCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCTGTAG
* *
49043936 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCC-TGTAG
49043963 GGTAAAATGAC
1 GGTAAAATGAC
49043974 GAATATGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (26 bp):
GGTAAAATGACCGTAAAGCCCTGTAG
Found at i:49044823 original size:25 final size:25
Alignment explanation
Indices: 49044786--49044854 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
49044776 GGAAGTGCTA
*
49044786 AAAGGGCTCTGCCCCAGTTTATCAG
1 AAAGGGCTTTGCCCCAGTTTATCAG
49044811 AAAGGGCTTTGCCCCAGTTTATCAG
1 AAAGGGCTTTGCCCCAGTTTATCAG
* *
49044836 AAAGGGCTTTACCCTAGTT
1 AAAGGGCTTTGCCCCAGTT
49044855 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:49045111 original size:31 final size:31
Alignment explanation
Indices: 49045076--49045153 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
49045066 ATTTACAGTG
*
49045076 AAGGCTTCGTCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAA
49045107 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAA
49045138 AAGGCTTCGGCCCAGT
1 AAGGCTTCGGCCCAGT
49045154 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAA
Found at i:49055591 original size:28 final size:28
Alignment explanation
Indices: 49055509--49055600 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 28
49055499 GCCATGAAGG
*
49055509 CGTTCCTTTCTAGAGATTGACACAAA-A
1 CGTTCCTTTCTAGAGATTGCCACAAAGA
* * **
49055536 GGCTATTC-TTC-AGAG-TGTGCCATGAAGA
1 CG-T-TCCTTTCTAGAGAT-TGCCACAAAGA
49055564 CGTTCCTTTCTAGAGATTGCCACAAAGAA
1 CGTTCCTTTCTAGAGATTGCCACAAAG-A
*
49055593 TGTTCCTT
1 CGTTCCTT
49055601 AGAATGTGCC
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
26 3 0.06
27 15 0.32
28 18 0.38
29 11 0.23
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (28 bp):
CGTTCCTTTCTAGAGATTGCCACAAAGA
Found at i:49055653 original size:54 final size:54
Alignment explanation
Indices: 49055474--49055655 Score: 222
Period size: 54 Copynumber: 3.4 Consensus size: 54
49055464 TCACATTGCA
*
49055474 CCACAAAGGCTATTCCTTAGAGTGCGCCATGAAGGCGTTCCTTTCTAGAGATTG
1 CCACAAAGGCTATTCCTTAGAGTGTGCCATGAAGGCGTTCCTTTCTAGAGATTG
* *
49055528 ACACAAAAGGCTATT-CTTCAGAGTGTGCCATGAAGACGTTCCTTTCTAGAGATTG
1 CCAC-AAAGGCTATTCCTT-AGAGTGTGCCATGAAGGCGTTCCTTTCTAGAGATTG
** * * * * * * *
49055583 CCACAAAGAATGTTCCTTAGAATGTGCCACGAAGGCATTCTTTTCCAGAGATTT
1 CCACAAAGGCTATTCCTTAGAGTGTGCCATGAAGGCGTTCCTTTCTAGAGATTG
*
49055637 CCACAATGGCTATTCCTTA
1 CCACAAAGGCTATTCCTTA
49055656 TTTTAGTGTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
54 57 0.53
55 50 0.47
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (54 bp):
CCACAAAGGCTATTCCTTAGAGTGTGCCATGAAGGCGTTCCTTTCTAGAGATTG
Found at i:49057645 original size:10 final size:10
Alignment explanation
Indices: 49057627--49057656 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
49057617 ATCCTATTTT
*
49057627 CACATGCATA
1 CACAAGCATA
49057637 CACAAGCATA
1 CACAAGCATA
49057647 CACAAGCATA
1 CACAAGCATA
49057657 AATGCCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.30, G:0.10, T:0.13
Consensus pattern (10 bp):
CACAAGCATA
Found at i:49058533 original size:23 final size:23
Alignment explanation
Indices: 49058507--49058569 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
49058497 TCTATTGAGT
49058507 TGAAACGATAAGCTCTA-ACGAGC
1 TGAAAC-ATAAGCTCTATACGAGC
* *
49058530 TGAATCAATAAGCTC-ATTCGAGC
1 TGAAAC-ATAAGCTCTATACGAGC
49058553 TGAGAACAGTAAGCTCT
1 TGA-AACA-TAAGCTCT
49058570 TACAAGTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 1 0.03
23 22 0.69
24 9 0.28
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (23 bp):
TGAAACATAAGCTCTATACGAGC
Found at i:49061869 original size:21 final size:18
Alignment explanation
Indices: 49061828--49061864 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
49061818 ATAGTATTAA
*
49061828 TTTTATAATTCATGTTAG
1 TTTTACAATTCATGTTAG
49061846 TTTTACAATTCATGTTAG
1 TTTTACAATTCATGTTAG
49061864 T
1 T
49061865 AGTTTACGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTTACAATTCATGTTAG
Found at i:49062359 original size:24 final size:24
Alignment explanation
Indices: 49062332--49062407 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
49062322 ACCCCTTAAA
49062332 CCACTTCCAACACTACCTCCACCT
1 CCACTTCCAACACTACCTCCACCT
* * * *
49062356 CCACCCTT-TAA-ACTACCGCCAGCA
1 CCA--CTTCCAACACTACCTCCACCT
* **
49062380 CTACCCCCAACACTACCTCCACCT
1 CCACTTCCAACACTACCTCCACCT
49062404 CCAC
1 CCAC
49062408 CAACAGCAGC
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
22 1 0.03
23 2 0.06
24 28 0.78
25 2 0.06
26 3 0.08
ACGTcount: A:0.26, C:0.54, G:0.03, T:0.17
Consensus pattern (24 bp):
CCACTTCCAACACTACCTCCACCT
Found at i:49062382 original size:36 final size:36
Alignment explanation
Indices: 49062313--49062384 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
49062303 TACCTCCATA
**
49062313 TCCACCTCCACCCCTTAAACCACTTCCAACACTACC
1 TCCACCTCCACCCCTTAAACCACCGCCAACACTACC
* * *
49062349 TCCACCTCCACCCTTTAAACTACCGCCAGCACTACC
1 TCCACCTCCACCCCTTAAACCACCGCCAACACTACC
49062385 CCCAACACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.26, C:0.51, G:0.03, T:0.19
Consensus pattern (36 bp):
TCCACCTCCACCCCTTAAACCACCGCCAACACTACC
Found at i:49062467 original size:66 final size:66
Alignment explanation
Indices: 49062376--49062540 Score: 258
Period size: 66 Copynumber: 2.5 Consensus size: 66
49062366 AACTACCGCC
* * * * *
49062376 AGCACTACCCCCAACACTACCTCCACCTCCACCAACAGCAGCACCACGTCCACCAAGGGAACCGG
1 AGCACTACCTCCAAAACTGCTTCCACCTCCACCAACAGCAGCACCACGTCCACCAACGGAACCGG
49062441 T
66 T
* * *
49062442 AGCACTACCTCCAATACTGCTTCCACCTCCACCAACGGTAGCACCACGTCCACCAACGGAACCGG
1 AGCACTACCTCCAAAACTGCTTCCACCTCCACCAACAGCAGCACCACGTCCACCAACGGAACCGG
49062507 T
66 T
49062508 AGCACTACCTCCAAAACTGCTTCCACCTCCACC
1 AGCACTACCTCCAAAACTGCTTCCACCTCCACC
49062541 TCCACCTCTA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 91 1.00
ACGTcount: A:0.28, C:0.45, G:0.13, T:0.13
Consensus pattern (66 bp):
AGCACTACCTCCAAAACTGCTTCCACCTCCACCAACAGCAGCACCACGTCCACCAACGGAACCGG
T
Found at i:49062554 original size:30 final size:30
Alignment explanation
Indices: 49062514--49062571 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
49062504 CGGTAGCACT
*
49062514 ACCTCCAAAACTGCTTCCACCTCCACCTCC
1 ACCTCCAAAACTACTTCCACCTCCACCTCC
*
49062544 ACCTCTAAAACTACTTCCACCTCCACCT
1 ACCTCCAAAACTACTTCCACCTCCACCT
49062572 ATTAAACTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.50, G:0.02, T:0.22
Consensus pattern (30 bp):
ACCTCCAAAACTACTTCCACCTCCACCTCC
Found at i:49062562 original size:24 final size:24
Alignment explanation
Indices: 49062532--49062612 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
49062522 AACTGCTTCC
*
49062532 ACCTCCACCTCCACCTCTAAAACT
1 ACCTCCACCTCCACCTCTTAAACT
* *
49062556 ACTTCCACCTCCACCTATTAAACT
1 ACCTCCACCTCCACCTCTTAAACT
* *
49062580 GCCTCCTCCTCCACCTCTTAAACT
1 ACCTCCACCTCCACCTCTTAAACT
49062604 ACCTCCACC
1 ACCTCCACC
49062613 AATGCCACCT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.25, C:0.49, G:0.01, T:0.25
Consensus pattern (24 bp):
ACCTCCACCTCCACCTCTTAAACT
Found at i:49062728 original size:57 final size:57
Alignment explanation
Indices: 49062651--49062782 Score: 174
Period size: 57 Copynumber: 2.3 Consensus size: 57
49062641 CGAGCAGCTA
* * ** * *
49062651 CATCAGAAGCAACTTGTGAAGCTGCTTTACGAAAACCAGATTGGGCAGCAGCTGTTC
1 CATCAGCAGCAGCTTGTGAAGCTGCTTTACGAAAACCAGAACGGACAGCAGCTGCTC
* *
49062708 CATCAGCAGCAGCTTGTGAAGCTGCTTTATGAAAAGCAGAACGGACAGCAGCTGCTC
1 CATCAGCAGCAGCTTGTGAAGCTGCTTTACGAAAACCAGAACGGACAGCAGCTGCTC
* *
49062765 TATCAGCAGCAGCATGTG
1 CATCAGCAGCAGCTTGTG
49062783 CAATTGCTCC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (57 bp):
CATCAGCAGCAGCTTGTGAAGCTGCTTTACGAAAACCAGAACGGACAGCAGCTGCTC
Found at i:49062797 original size:3 final size:3
Alignment explanation
Indices: 49062791--49062817 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
49062781 TGCAATTGCT
49062791 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
49062818 TTATGTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:49065099 original size:16 final size:16
Alignment explanation
Indices: 49065078--49065109 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49065068 TCAATTAATC
*
49065078 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
49065094 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
49065110 CAACCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:49069212 original size:42 final size:44
Alignment explanation
Indices: 49069104--49069223 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 44
49069094 TCGTACAATG
* * * *
49069104 CCAACGTCCCAGA-TGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACATCCCAGACAGTGGTCTTACATGAAATCAAATATCGATA
***
49069147 CCAGTGTCCCAGACAG-GGTCTTACATGAAATCAAATAT-GATA
1 CCAACATCCCAGACAGTGGTCTTACATGAAATCAAATATCGATA
*
49069189 CCAACATCCCA-AGC-GTGGTCTTACACGTAAATCAA
1 CCAACATCCCAGA-CAGTGGTCTTACATG-AAATCAA
49069224 CCAACGTCCC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 22 0.34
43 39 0.61
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (44 bp):
CCAACATCCCAGACAGTGGTCTTACATGAAATCAAATATCGATA
Found at i:49076806 original size:43 final size:43
Alignment explanation
Indices: 49076738--49076910 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
49076728 AAAGCTCGTA
* *
49076738 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGGGGTCTTACATGAAATCAAATAT
*
49076781 CAATGCC-ACTGTCCCAGATGGGGTCTTACATGAAATCAAATAT
1 CAATGCCAAC-GTCCCAGACGGGGTCTTACATGAAATCAAATAT
* * ** * *
49076824 -GATGCCAACGTCCCAAACATGGTCTTACACGTAAATCATAA-GT
1 CAATGCCAACGTCCCAGACGGGGTCTTACATG-AAATCA-AATAT
* * * * * *
49076867 CGATGCAAACGTCCCTA-ACGTGGTCTTACACGAAAACACATAT
1 CAATGCCAACGTCCC-AGACGGGGTCTTACATGAAATCAAATAT
49076910 C
1 C
49076911 GGATCCTATG
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
42 25 0.23
43 53 0.49
44 29 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGGGGTCTTACATGAAATCAAATAT
Found at i:49078998 original size:50 final size:51
Alignment explanation
Indices: 49078905--49079033 Score: 145
Period size: 50 Copynumber: 2.5 Consensus size: 51
49078895 TAAAATGGCT
* * * *
49078905 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GG
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAGATAGC
* * * *
49078955 TTAGGTCGCATGTGTAGTACTAAGTGCAAGCTATTATGCGTACCCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAGATAGC
* *
49079006 TTCA-ATCACATGTGTGGTACTAAGTGCA
1 TT-AGGTCACATGTGTAGTACTAAGTGCA
49079034 TGCCAATATG
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 41 0.62
51 24 0.36
52 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAGATAGC
Found at i:49079032 original size:51 final size:51
Alignment explanation
Indices: 49078963--49079078 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
49078953 GGTTAGGTCG
* * * ***
49078963 CATGTGTAGTACTAAGTGCAAGCTATTATGCGTACCCGATAGCTTCAATCA
1 CATGTGTGGTACTAAGTGCAAGCCAATATGCGTAAAAGATAGCTTCAATCA
* * * *
49079014 CATGTGTGGTACTAAGTGCATGCCAATATGTGTAAAAGATAGCTTTATTCA
1 CATGTGTGGTACTAAGTGCAAGCCAATATGCGTAAAAGATAGCTTCAATCA
*
49079065 CAAGTGTGGTACTA
1 CATGTGTGGTACTA
49079079 TGTGAAGGTC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAAGCCAATATGCGTAAAAGATAGCTTCAATCA
Found at i:49083880 original size:33 final size:33
Alignment explanation
Indices: 49083838--49083900 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
49083828 TATGAATTTT
*
49083838 GCTTTTCTTGATCTATGTAATCAAAATTAATTC
1 GCTTTTCTTGATATATGTAATCAAAATTAATTC
49083871 GCTTTTCTTGATATATGTAATCAAAATTAA
1 GCTTTTCTTGATATATGTAATCAAAATTAA
49083901 ATTATTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (33 bp):
GCTTTTCTTGATATATGTAATCAAAATTAATTC
Found at i:49086910 original size:32 final size:32
Alignment explanation
Indices: 49086848--49086910 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
49086838 CATGTGAGCC
* * *
49086848 ACACGGACTAGGCCAGGTAGGTCGTGTGGGCT
1 ACACGGACTAGGCCAAGTAGGTCATATGGGCT
* *
49086880 ACACGGACTGGGCCAAGTATGTCATATGGGC
1 ACACGGACTAGGCCAAGTAGGTCATATGGGC
49086911 CACAAGAGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.19
Consensus pattern (32 bp):
ACACGGACTAGGCCAAGTAGGTCATATGGGCT
Found at i:49091451 original size:13 final size:13
Alignment explanation
Indices: 49091433--49091464 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
49091423 TGGTAGTGAT
49091433 ATTGGCCATTTGA
1 ATTGGCCATTTGA
49091446 ATTGGCCATTTGA
1 ATTGGCCATTTGA
49091459 ATTGGC
1 ATTGGC
49091465 TTGTAAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.38
Consensus pattern (13 bp):
ATTGGCCATTTGA
Found at i:49096357 original size:18 final size:18
Alignment explanation
Indices: 49096334--49096391 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
49096324 AGGAACACTA
49096334 CATTTTTATTAATTTATC
1 CATTTTTATTAATTTATC
*
49096352 CATTTTTA--ACA-CTA--
1 CATTTTTATTA-ATTTATC
49096366 CATTTTTATTAATTTATC
1 CATTTTTATTAATTTATC
49096384 CATTTTTA
1 CATTTTTA
49096392 CTTTTATTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 8 0.25
15 1 0.03
16 6 0.19
17 1 0.03
18 16 0.50
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (18 bp):
CATTTTTATTAATTTATC
Found at i:49096368 original size:32 final size:32
Alignment explanation
Indices: 49096327--49096391 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
49096317 AGATATTAGG
49096327 AACACTACATTTTTATTAATTTATCCATTTTT
1 AACACTACATTTTTATTAATTTATCCATTTTT
49096359 AACACTACATTTTTATTAATTTATCCATTTTT
1 AACACTACATTTTTATTAATTTATCCATTTTT
49096391 A
1 A
49096392 CTTTTATTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.52
Consensus pattern (32 bp):
AACACTACATTTTTATTAATTTATCCATTTTT
Found at i:49104530 original size:30 final size:30
Alignment explanation
Indices: 49104456--49104538 Score: 112
Period size: 33 Copynumber: 2.7 Consensus size: 30
49104446 ATTCATTTTA
*
49104456 AACTAATTAGAAGGTTTTTTAACTAAATTT
1 AACTAATTAGAAGGTTTTTTAACTAAATTG
* *
49104486 AACAAATCATTAGAAGGTTTTTTAACTCAATTG
1 AAC---TAATTAGAAGGTTTTTTAACTAAATTG
49104519 AACTAATTAGAAGGTTTTTT
1 AACTAATTAGAAGGTTTTTT
49104539 TAAGCTCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 19 0.41
33 27 0.59
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (30 bp):
AACTAATTAGAAGGTTTTTTAACTAAATTG
Found at i:49108032 original size:25 final size:25
Alignment explanation
Indices: 49107982--49108033 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
49107972 TAGTGCATTA
**
49107982 TAAGTGTTTTTGAAAGTGAAATGTG
1 TAAGTGTTTTCAAAAGTGAAATGTG
49108007 TAAGTGTTTTCAATAAGTGAAAGTGTG
1 TAAGTGTTTTCAA-AAGTGAAA-TGTG
49108034 CATAAAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 11 0.48
26 8 0.35
27 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (25 bp):
TAAGTGTTTTCAAAAGTGAAATGTG
Found at i:49109978 original size:99 final size:97
Alignment explanation
Indices: 49109794--49109980 Score: 218
Period size: 99 Copynumber: 1.9 Consensus size: 97
49109784 TTTGTTTAAC
* * * * * *
49109794 CTCACTTGGGAACTTGGACTTTCACAATGCATCAAAAAGACCCTTAAACTTTTTCAAAAAATGCA
1 CTCAATTGGGAACTTGAACTTTCAAAATGCATAAAAAAGACCCTTAAAATTTTTCAAAAAAAGCA
49109859 ATTAAGTCCTTGCTTTCTTTTTTTTTTTTTTGCA
66 ATTAAGTCCTTGC--TCTTTTTTTTTTTTTTGCA
* *
49109893 CTCAATTGGGCACTTGAACTTTCAAAATGCATAAAAAAG-GCCTTCAAAATTTTTCAAAAAAAAA
1 CTCAATTGGGAACTTGAACTTTCAAAATGCATAAAAAAGACCCTT-AAAATTTTTC---AAAAAA
49109957 AGCAATTAAG-CCTCTGC-CTTTTTT
62 AGCAATTAAGTCCT-TGCTCTTTTTT
49109981 GCACTCAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
98 4 0.05
99 50 0.67
101 3 0.04
102 18 0.24
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (97 bp):
CTCAATTGGGAACTTGAACTTTCAAAATGCATAAAAAAGACCCTTAAAATTTTTCAAAAAAAGCA
ATTAAGTCCTTGCTCTTTTTTTTTTTTTTGCA
Found at i:49110101 original size:19 final size:19
Alignment explanation
Indices: 49110077--49110223 Score: 59
Period size: 19 Copynumber: 7.2 Consensus size: 19
49110067 AATGGTAATA
49110077 AAAAATTAATAAAATTTAT
1 AAAAATTAATAAAATTTAT
* *
49110096 AAAAA-TATTAAATTTTAAT
1 AAAAATTAATAAAATTT-AT
49110115 AAAAATATAAAAATATTTAAATTTTATT
1 AAAAAT-T---AATA---AAA-TTTA-T
* * * *
49110143 TAAAATTAGTACAAAATTAC
1 AAAAATTAATA-AAATTTAT
49110163 AAAAATCATAA-AAAATTTAT
1 AAAAAT--TAATAAAATTTAT
*
49110183 AAAAATT-ATAAAGTTTTAT
1 AAAAATTAATAAA-ATTTAT
*
49110202 AAAAA-TCATAAAATTTTAT
1 AAAAATTAATAAAA-TTTAT
49110221 AAA
1 AAA
49110224 GTCGTAAGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 34
0.66 0.10 0.23
Matches are distributed among these distances:
17 1 0.01
18 14 0.15
19 35 0.36
20 17 0.18
21 5 0.05
22 5 0.05
24 6 0.06
27 4 0.04
28 9 0.09
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAAATTAATAAAATTTAT
Found at i:49110107 original size:18 final size:19
Alignment explanation
Indices: 49110072--49110128 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
49110062 TAAAAAATGG
*
49110072 TAATAAAAAATTAATAAAATT
1 TAAT-AAAAA-TATTAAAATT
*
49110093 T-ATAAAAATATTAAATTT
1 TAATAAAAATATTAAAATT
*
49110111 TAATAAAAATATAAAAAT
1 TAATAAAAATATTAAAAT
49110129 ATTTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.29
19 19 0.61
20 2 0.06
21 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAAAAATATTAAAATT
Found at i:49110118 original size:28 final size:29
Alignment explanation
Indices: 49110082--49110149 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
49110072 TAATAAAAAA
49110082 TTAATAAAATTTATAAAAATA-TTAAATT
1 TTAATAAAATTTATAAAAATATTTAAATT
*
49110110 TTAATAAAA-ATATAAAAATATTTAAATT
1 TTAATAAAATTTATAAAAATATTTAAATT
*
49110138 TTATTTAAAATT
1 TTA-ATAAAATT
49110150 AGTACAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.29
28 19 0.56
29 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAATAAAATTTATAAAAATATTTAAATT
Found at i:49110175 original size:9 final size:9
Alignment explanation
Indices: 49110077--49110214 Score: 64
Period size: 10 Copynumber: 14.4 Consensus size: 9
49110067 AATGGTAATA
49110077 AAAAATTAAT
1 AAAAATT-AT
*
49110087 AAAATTTAT
1 AAAAATTAT
49110096 AAAAA-TATT
1 AAAAATTA-T
**
49110105 AAATTTTAAT
1 AAAAATT-AT
49110115 AAAAA-TAT
1 AAAAATTAT
*
49110123 AAAAATATTT
1 AAAAAT-TAT
**
49110133 AAATTTTATT
1 AAAAATTA-T
*
49110143 TAAAATTAGT
1 AAAAATTA-T
*
49110153 ACAAAATTAC
1 A-AAAATTAT
*
49110163 AAAAATCAT
1 AAAAATTAT
49110172 AAAAAATTTAT
1 -AAAAA-TTAT
49110183 AAAAATTAT
1 AAAAATTAT
**
49110192 AAAGTTTTAT
1 AAA-AATTAT
*
49110202 AAAAATCAT
1 AAAAATTAT
49110211 AAAA
1 AAAA
49110215 TTTTATAAAG
Statistics
Matches: 94, Mismatches: 24, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
8 9 0.10
9 32 0.34
10 42 0.45
11 11 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:49110186 original size:10 final size:10
Alignment explanation
Indices: 49110173--49110223 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
49110163 AAAAATCATA
49110173 AAAAATTTAT
1 AAAAATTTAT
49110183 AAAAA-TTAT
1 AAAAATTTAT
**
49110192 AAAGTTTTAT
1 AAAAATTTAT
*
49110202 AAAAA-TCAT
1 AAAAATTTAT
*
49110211 AAAATTTTAT
1 AAAAATTTAT
49110221 AAA
1 AAA
49110224 GTCGTAAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:49110205 original size:29 final size:27
Alignment explanation
Indices: 49110085--49110223 Score: 93
Period size: 28 Copynumber: 4.9 Consensus size: 27
49110075 TAAAAAATTA
*
49110085 ATAAAATTTATAAAAA-TATTAAATTTT
1 ATAAAAATTATAAAAATTA-TAAATTTT
*
49110112 AATAAAAA-TATAAAAATATTTAAATTTT
1 -ATAAAAATTATAAAAAT-TATAAATTTT
* * ** *
49110140 ATTTAAAATTAGTACAAAATTACAAAAATC
1 A-TAAAAATTA-TA-AAAATTATAAATTTT
49110170 ATAAAAAATTTATAAAAATTATAAAGTTTT
1 AT-AAAAA-TTATAAAAATTATAAA-TTTT
* *
49110200 ATAAAAATCATAAAATTTTATAAA
1 ATAAAAATTATAAAA-ATTATAAA
49110224 GTCGTAAGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
27 9 0.10
28 26 0.30
29 26 0.30
30 17 0.20
31 8 0.09
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (27 bp):
ATAAAAATTATAAAAATTATAAATTTT
Found at i:49110519 original size:11 final size:10
Alignment explanation
Indices: 49110476--49110580 Score: 63
Period size: 10 Copynumber: 10.2 Consensus size: 10
49110466 CATATTATGA
*
49110476 TTTTTATAAA
1 TTTTTATAAT
*
49110486 TTTTTACAAT
1 TTTTTATAAT
49110496 TTTTTATAAT
1 TTTTTATAAT
*
49110506 TTTTTATTA-
1 TTTTTATAAT
49110515 TTTTTATAACTT
1 TTTTTATAA--T
*
49110527 ATTTTTAATAAA
1 -TTTTT-ATAAT
**
49110539 AATTTA-ATAT
1 TTTTTATA-AT
*
49110549 TTTTTAT-AG
1 TTTTTATAAT
*
49110558 TTTTTATATT
1 TTTTTATAAT
49110568 TTTATTATAAT
1 TTT-TTATAAT
49110579 TT
1 TT
49110581 AATAATTTTA
Statistics
Matches: 71, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
9 17 0.24
10 34 0.48
11 11 0.15
13 5 0.07
14 4 0.06
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:49110569 original size:8 final size:8
Alignment explanation
Indices: 49110549--49110623 Score: 51
Period size: 9 Copynumber: 8.4 Consensus size: 8
49110539 AATTTAATAT
49110549 TTTTTATA
1 TTTTTATA
49110557 GTTTTTATA
1 -TTTTTATA
49110566 TTTTTATTA
1 TTTTTA-TA
*
49110575 TAATTTAATAA
1 T--TTTTAT-A
*
49110586 TTTTAATAA
1 TTTTTAT-A
49110595 TTTTTATTGA
1 TTTTTA-T-A
*
49110605 TTTTTATT
1 TTTTTATA
49110613 TTTTTATA
1 TTTTTATA
49110621 TTT
1 TTT
49110624 ATTTGCCACA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
8 16 0.29
9 25 0.45
10 9 0.16
11 6 0.11
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (8 bp):
TTTTTATA
Found at i:49110583 original size:37 final size:39
Alignment explanation
Indices: 49110539--49110612 Score: 107
Period size: 37 Copynumber: 1.9 Consensus size: 39
49110529 TTTTAATAAA
* * *
49110539 AATTTAATATTTTTTATAGTTTTTA-T-ATTTTTATTAT
1 AATTTAATAATTTTAATAATTTTTATTGATTTTTATTAT
49110576 AATTTAATAATTTTAATAATTTTTATTGATTTTTATT
1 AATTTAATAATTTTAATAATTTTTATTGATTTTTATT
49110613 TTTTTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 22 0.69
38 1 0.03
39 9 0.28
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (39 bp):
AATTTAATAATTTTAATAATTTTTATTGATTTTTATTAT
Found at i:49110880 original size:90 final size:89
Alignment explanation
Indices: 49110760--49111011 Score: 310
Period size: 91 Copynumber: 2.8 Consensus size: 89
49110750 TTTTTTTTTT
* * * *
49110760 TGCA-TTTGATAGTTCAAGTAACCAATTGAGTGCAAAAAAAAAATCAGAGACTTGATTACTTTTT
1 TGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAATCAG-GGCTTAATTACTTTTT
49110824 TTGAAAAGTTTGAGGGTCTTTTTAA
65 TTGAAAAGTTTGAGGGTCTTTTTAA
* * *
49110849 TGCATTTTGAAAGCTCAAGTACCCAATTGAGTGCAAAAAAAAAAAGCAAGGGGCTTAATT-GTTT
1 TGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC-AAAAAAAAAATC-A-GGGCTTAATTACTTT
*** *
49110913 TTTTTTTAAGTTTGAGGGTCTTTTTTA
63 TTTTGAAAAGTTTGAGGGTCTTTTTAA
** * *
49110940 TATATTTTGAAAGTTTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATTACTTTTT
1 TGCATTTTGAAAG-TTCAAGTACCCAATTGAGTGCAAAAAAAAAATCAGGGCTTAATTACTTTTT
49111005 TTGAAAA
65 TTGAAAA
49111012 AGTTACAAGA
Statistics
Matches: 136, Mismatches: 21, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
89 14 0.10
90 36 0.26
91 57 0.42
92 28 0.21
93 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (89 bp):
TGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAATCAGGGCTTAATTACTTTTTT
TGAAAAGTTTGAGGGTCTTTTTAA
Found at i:49111015 original size:91 final size:89
Alignment explanation
Indices: 49110764--49111011 Score: 309
Period size: 90 Copynumber: 2.7 Consensus size: 89
49110754 TTTTTTTGCA
* * * * * *
49110764 TTTGATAGTTCAAGTAACCAATTGAGTGCAAAAAAAAAATCAGAGACTTGATTACTTTTTTTGAA
1 TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAG-GGCTTAATTACTTTTTTTGAA
*
49110829 AAGTTTGAGGGTCTTTTTAATGCAT
65 AAGTTTGAGGGTCTTTTTAATACAT
* * * *
49110854 TTTGAAAGCTCAAGTACCCAATTGAGTGCAAAAAAAAAAAGCAAGGGGCTTAATT-GTTTTTTTT
1 TTTGAAAGTTCAAGTACCCAATTGAGTGC--AAAAAAAAAGTAA-GGGCTTAATTACTTTTTTTG
** * *
49110918 TTAAGTTTGAGGGTCTTTTTTATATAT
63 AAAAGTTTGAGGGTCTTTTTAATACAT
49110945 TTTGAAAGTTTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATTACTTTTTTTGAA
1 TTTGAAAG-TTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATTACTTTTTTTGAA
49111010 AA
65 AA
49111012 AGTTACAAGA
Statistics
Matches: 132, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
89 10 0.08
90 47 0.36
91 37 0.28
92 37 0.28
93 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (89 bp):
TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATTACTTTTTTTGAAA
AGTTTGAGGGTCTTTTTAATACAT
Found at i:49111701 original size:6 final size:6
Alignment explanation
Indices: 49111692--49111720 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49111682 ATAATCAGGA
49111692 ACAGAT ACAGAT ACAGAT ACAGAT ACAGA
1 ACAGAT ACAGAT ACAGAT ACAGAT ACAGA
49111721 ATCATGTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (6 bp):
ACAGAT
Found at i:49122443 original size:19 final size:19
Alignment explanation
Indices: 49122419--49122457 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
49122409 ATTACAAACA
* *
49122419 AATTAAATTTAAAAATATC
1 AATTAAATATAAAAAAATC
49122438 AATTAAATATAAAAAAATC
1 AATTAAATATAAAAAAATC
49122457 A
1 A
49122458 TAACTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAAATATAAAAAAATC
Found at i:49123754 original size:15 final size:15
Alignment explanation
Indices: 49123734--49123786 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
49123724 TAATACAAAC
49123734 TATTTATTATTAATA
1 TATTTATTATTAATA
*
49123749 TATTTATAATTGTAATAAA
1 TATTTATTA-T-TAAT--A
*
49123768 TATTTATTATTAAAA
1 TATTTATTATTAATA
49123783 TATT
1 TATT
49123787 AATATTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 13 0.42
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTTATTATTAATA
Found at i:49123913 original size:18 final size:18
Alignment explanation
Indices: 49123887--49123921 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49123877 AACTTATTAT
49123887 ATAACTAAATATAAATAA
1 ATAACTAAATATAAATAA
* *
49123905 ATAATTAAATATTAATA
1 ATAACTAAATATAAATA
49123922 TTTATGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTAAATATAAATAA
Found at i:49125824 original size:20 final size:20
Alignment explanation
Indices: 49125775--49125813 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49125765 TGTAGCGAGA
*
49125775 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
49125795 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
49125814 AGTATTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:49126667 original size:2 final size:2
Alignment explanation
Indices: 49126660--49126694 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
49126650 TTACCATCTC
* *
49126660 AT AT AT AT AT AT AT AT AG AG AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49126695 CACACTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:49135335 original size:35 final size:34
Alignment explanation
Indices: 49135286--49135354 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
49135276 ATATTATAAA
49135286 TTTTATAAAATTATATTATAAAAATAAT-TTATTTT
1 TTTTATAAAATTATA--ATAAAAATAATATTATTTT
* * *
49135321 TTTTGTAAATTTATAATAAAAATTATATTATTTT
1 TTTTATAAAATTATAATAAAAATAATATTATTTT
49135355 AGAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 10 0.33
34 7 0.23
35 13 0.43
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (34 bp):
TTTTATAAAATTATAATAAAAATAATATTATTTT
Found at i:49142151 original size:33 final size:33
Alignment explanation
Indices: 49142105--49142167 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
49142095 TATTGCCATA
49142105 TGAATAGGCCATCTACAAATACTTCAGATAAGT
1 TGAATAGGCCATCTACAAATACTTCAGATAAGT
*
49142138 TGAATAGGTCATCTACAAATACTTCAGATA
1 TGAATAGGCCATCTACAAATACTTCAGATA
49142168 GGCAAGCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
TGAATAGGCCATCTACAAATACTTCAGATAAGT
Found at i:49148896 original size:6 final size:6
Alignment explanation
Indices: 49148885--49148910 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49148875 AGGGAGCGGA
49148885 ATGTCC ATGTCC ATGTCC ATGTCC AT
1 ATGTCC ATGTCC ATGTCC ATGTCC AT
49148911 AGGAAGGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (6 bp):
ATGTCC
Found at i:49150933 original size:23 final size:24
Alignment explanation
Indices: 49150907--49150955 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
49150897 AAACAAAAAG
49150907 AATAAAAACATTTTAAA-TTTTAA
1 AATAAAAACATTTTAAATTTTTAA
**
49150930 AATAAAATTATTTTAAATTTTTAA
1 AATAAAAACATTTTAAATTTTTAA
49150954 AA
1 AA
49150956 AATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAAAAACATTTTAAATTTTTAA
Found at i:49153094 original size:69 final size:68
Alignment explanation
Indices: 49152985--49153141 Score: 183
Period size: 69 Copynumber: 2.3 Consensus size: 68
49152975 AATTTTTTAT
** *
49152985 ATTTCATTAAAAATTTGTTTTAATCTCATATTGACAAGAGAATAC-TCTCATAGTACACTTATTC
1 ATTTCATTAAAAATTAATTTTAATCTCATATTAACAAGAGAATACTTCT-ATAGTACACTTATTC
*
49153049 ATTA
65 ACTA
* * * ** *
49153053 TTTTTATTAAAAAGTTAATTTTAATCAT-ATATTAACTAGAGAATACTTCTATAGTTTACTTCTT
1 ATTTCATTAAAAA-TTAATTTTAATC-TCATATTAACAAGAGAATACTTCTATAGTACACTTATT
49153117 CACTA
64 CACTA
49153122 ATTTCATTAAAAATTAATTT
1 ATTTCATTAAAAATTAATTT
49153142 AATTCTTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
68 18 0.24
69 52 0.70
70 4 0.05
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (68 bp):
ATTTCATTAAAAATTAATTTTAATCTCATATTAACAAGAGAATACTTCTATAGTACACTTATTCA
CTA
Found at i:49153901 original size:89 final size:91
Alignment explanation
Indices: 49153672--49153907 Score: 239
Period size: 89 Copynumber: 2.6 Consensus size: 91
49153662 GGTAGTTTTT
* * * *
49153672 TTTACGATTTTAATTAGAAAGTTAATTTTAATCCCACA-TTAGCTAGAGGCACTCACTTATATCA
1 TTTACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTTA-CTAGA-G-AATCACTTATATCA
* * * *
49153736 CATTTACTTTATAAATAAGTGACAATTTG
63 CATTTACCTTATAAATAAATGACAAATTC
* * * * * * * *
49153765 TTCATTATTTTCACTAAAAAGTTAATTTTAGTACCTCATTGACTAGAGAAT-A-TTTTCATCA-A
1 TTTACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTTACTAGAGAATCACTTAT-ATCACA
*
49153827 TTTACCTTATAAATAAATGATAAATTC
65 TTTACCTTATAAATAAATGACAAATTC
*
49153854 TTTACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTTATTAGAGAA-CACT
1 TTTACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTTACTAGAGAATCACT
49153908 CTTATAGTTC
Statistics
Matches: 114, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
89 69 0.61
90 6 0.05
91 2 0.02
92 1 0.01
93 34 0.30
94 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (91 bp):
TTTACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTTACTAGAGAATCACTTATATCACAT
TTACCTTATAAATAAATGACAAATTC
Found at i:49153943 original size:66 final size:66
Alignment explanation
Indices: 49153861--49153987 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
49153851 TTCTTTACTA
* * * *
49153861 TTTTCATTAAAAAGTTAATTTTAATCCCACATTTATTAGAGAACACTCTTATAGTTCACTTCATT
1 TTTTCATTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCTTATAGCTCACTTCATT
49153926 G
66 G
* * * *
49153927 TTTTTATTAAAAAGTTAATTTTAATTCCATATTAACTAGAAAATACTCTTATAGCTCACTT
1 TTTTCATTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCTTATAGCTCACTT
49153988 ATTTCATTAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.43
Consensus pattern (66 bp):
TTTTCATTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCTTATAGCTCACTTCATT
G
Found at i:49155225 original size:9 final size:9
Alignment explanation
Indices: 49155211--49155258 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
49155201 TTATTTAACA
49155211 AACACATGT
1 AACACATGT
*
49155220 AACACA-CT
1 AACACATGT
49155228 AACACAT-T
1 AACACATGT
49155236 AAACACATGT
1 -AACACATGT
49155246 AACACATGT
1 AACACATGT
49155255 AACA
1 AACA
49155259 ATAAATTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
8 8 0.23
9 26 0.74
10 1 0.03
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (9 bp):
AACACATGT
Found at i:49162084 original size:67 final size:69
Alignment explanation
Indices: 49161967--49162133 Score: 169
Period size: 67 Copynumber: 2.4 Consensus size: 69
49161957 CCTCCCATTT
* * * ** * *
49161967 ACTATTTTTCATTAAAAAGTTTATTTTAATCCCACATTGACTAGCGAATACTTTTATAACTCACT
1 ACTA-TTTTCATT-AAAAGTTAATTTCAATCCCACATTAACTAGAAAATACTCTCATAACTCACT
49162032 TC-TTC
64 TCTTTC
* * * *
49162037 ATTATTTTCATT-AAAGTTAATTTCAATCTCACATTAATTAGAAAATACTCTCATATCTCACTTC
1 ACTATTTTCATTAAAAGTTAATTTCAATCCCACATTAACTAGAAAATACTCTCATAACTCACTTC
49162101 TTTC
66 TTTC
* * *
49162105 ACTATTTCCACTAAAATTTAATTT-AATCC
1 ACTATTTTCATTAAAAGTTAATTTCAATCC
49162134 TATATTGGTT
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
67 42 0.53
68 16 0.20
69 18 0.23
70 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.43
Consensus pattern (69 bp):
ACTATTTTCATTAAAAGTTAATTTCAATCCCACATTAACTAGAAAATACTCTCATAACTCACTTC
TTTC
Found at i:49164122 original size:44 final size:45
Alignment explanation
Indices: 49164057--49164184 Score: 186
Period size: 45 Copynumber: 2.9 Consensus size: 45
49164047 CGTGCTTTCA
* *
49164057 CATGATGCCATAACATCTTTCAGTTATGGTCTTACTTAT-TTTAT
1 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATCTTTAT
* * * * *
49164101 CTTGATGCCATAGCATCTTTCAACTGTGGCCTTACTCATCTTTAT
1 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATCTTTAT
49164146 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCAT
1 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCAT
49164185 ATTGGCATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 32 0.45
45 39 0.55
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATCTTTAT
Found at i:49165585 original size:5 final size:5
Alignment explanation
Indices: 49165575--49165601 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
49165565 ATATATATTT
49165575 TTGTC TTGTC TTGTC TTGTC TTGTC TT
1 TTGTC TTGTC TTGTC TTGTC TTGTC TT
49165602 TTTCCTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.19, T:0.63
Consensus pattern (5 bp):
TTGTC
Found at i:49170096 original size:23 final size:21
Alignment explanation
Indices: 49170070--49170118 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
49170060 TAATATTGTG
*
49170070 AAAATAAATTTATATTATTTTAT
1 AAAATAAATTT-T-TTACTTTAT
* *
49170093 AAAAGATATTTTTTACTTTAT
1 AAAATAAATTTTTTACTTTAT
49170114 AAAAT
1 AAAAT
49170119 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 12 0.55
22 1 0.05
23 9 0.41
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAATAAATTTTTTACTTTAT
Found at i:49177676 original size:20 final size:20
Alignment explanation
Indices: 49177651--49177699 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
49177641 TTTGTATAGT
*
49177651 TGTTCTGTTATGAAGTTAAA
1 TGTTCTGTTATAAAGTTAAA
*
49177671 TGTTCTGTTGTAAAGTTAAA
1 TGTTCTGTTATAAAGTTAAA
49177691 TGTTCTGTT
1 TGTTCTGTT
49177700 TTGCTTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.49
Consensus pattern (20 bp):
TGTTCTGTTATAAAGTTAAA
Found at i:49180887 original size:5 final size:5
Alignment explanation
Indices: 49180877--49180906 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
49180867 TTAGTTAATA
49180877 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
49180907 TTTAAGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:49181790 original size:26 final size:27
Alignment explanation
Indices: 49181748--49181812 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 27
49181738 CTTGAATAGT
*
49181748 AGGCCTTGAG-CTGGTGTTTATTTAGC
1 AGGCCTTGAGTCTAGTGTTTATTTAGC
49181774 AGGCCTTGAGTC-AGTGTTTATTTAGC
1 AGGCCTTGAGTCTAGTGTTTATTTAGC
**
49181800 AGGATTTGAGTCT
1 AGGCCTTGAGTCT
49181813 GTGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 33 0.97
27 1 0.03
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.38
Consensus pattern (27 bp):
AGGCCTTGAGTCTAGTGTTTATTTAGC
Found at i:49181821 original size:26 final size:26
Alignment explanation
Indices: 49181766--49181823 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
49181756 AGCTGGTGTT
* **
49181766 TATTTAGCAGGCCTTGAGTCAGTGTT
1 TATTTAGCAGGACTTGAGTCAGTGAA
* *
49181792 TATTTAGCAGGATTTGAGTCTGTGAA
1 TATTTAGCAGGACTTGAGTCAGTGAA
49181818 TATTTA
1 TATTTA
49181824 ACAAGTACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (26 bp):
TATTTAGCAGGACTTGAGTCAGTGAA
Found at i:49196866 original size:30 final size:30
Alignment explanation
Indices: 49196832--49196891 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
49196822 ACTTAACAAG
49196832 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
49196862 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
49196892 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:49197591 original size:33 final size:32
Alignment explanation
Indices: 49197552--49197619 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
49197542 TACTCCTACA
*
49197552 AAGTCTAAATTAAAATCATCCAATAATTAATAC
1 AAGTCTAAATTAAAATCATCCAATAA-AAATAC
49197585 AAGTCTAAATTAAAATCATCCAATAAAAATAC
1 AAGTCTAAATTAAAATCATCCAATAAAAATAC
49197617 AAG
1 AAG
49197620 CCTCTTCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.26
Consensus pattern (32 bp):
AAGTCTAAATTAAAATCATCCAATAAAAATAC
Found at i:49199062 original size:23 final size:23
Alignment explanation
Indices: 49199035--49199111 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
49199025 GATAGTTTTA
49199035 TGATTGAAATTTGAGTAAAATAT
1 TGATTGAAATTTGAGTAAAATAT
* * * ** *
49199058 TGATTTAAATTAGAGGGATAGTTTT
1 TGATTGAAATTTGA-GTA-AAATAT
*
49199083 ATGATTGAAATTTGAGTAAAATAG
1 -TGATTGAAATTTGAGTAAAATAT
49199107 TGATT
1 TGATT
49199112 ATGTCGTTGG
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
23 17 0.45
24 4 0.11
25 5 0.13
26 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.40
Consensus pattern (23 bp):
TGATTGAAATTTGAGTAAAATAT
Found at i:49199070 original size:49 final size:49
Alignment explanation
Indices: 49199013--49199111 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
49199003 TGAAGTTAGA
*
49199013 TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATATTGAT
1 TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
*
49199062 TTAAATTAGAGGGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
1 TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
49199111 T
1 T
49199112 ATGTCGTTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.40
Consensus pattern (49 bp):
TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
Found at i:49199088 original size:26 final size:26
Alignment explanation
Indices: 49199011--49199094 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 26
49199001 AATGAAGTTA
*
49199011 GATT-AAATTAGAGCGATAGTTTTAT
1 GATTGAAATTAGAGGGATAGTTTTAT
* * ** *
49199036 GATTGAAATTTGA-GTA-AAATAT-T
1 GATTGAAATTAGAGGGATAGTTTTAT
*
49199059 GATTTAAATTAGAGGGATAGTTTTAT
1 GATTGAAATTAGAGGGATAGTTTTAT
49199085 GATTGAAATT
1 GATTGAAATT
49199095 TGAGTAAAAT
Statistics
Matches: 42, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
23 12 0.29
24 5 0.12
25 8 0.19
26 17 0.40
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.40
Consensus pattern (26 bp):
GATTGAAATTAGAGGGATAGTTTTAT
Found at i:49205240 original size:40 final size:40
Alignment explanation
Indices: 49205195--49205362 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
49205185 CGGAATATAA
49205195 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
49205235 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49205275 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
49205315 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
49205355 CCGGATAT
1 CCGGATAT
49205363 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49205345 original size:80 final size:80
Alignment explanation
Indices: 49205211--49205360 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
49205201 ATAACCACGT
* *
49205211 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
49205276 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
49205291 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
49205354 CCCGGAT
64 CCCGGAT
49205361 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:49213243 original size:40 final size:40
Alignment explanation
Indices: 49213198--49213365 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
49213188 CGGAATATAA
49213198 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
49213238 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49213278 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
49213318 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
49213358 CCGGATAT
1 CCGGATAT
49213366 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49213348 original size:80 final size:80
Alignment explanation
Indices: 49213214--49213363 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
49213204 ATAACCACGT
* *
49213214 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
49213279 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
49213294 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
49213357 CCCGGAT
64 CCCGGAT
49213364 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:49218703 original size:23 final size:24
Alignment explanation
Indices: 49218647--49218709 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
49218637 TCATTAACAT
*
49218647 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* * **
49218671 TGTTCATGAACTTGTTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
49218694 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
49218710 TGATTAAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:49218716 original size:23 final size:23
Alignment explanation
Indices: 49218647--49218716 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
49218637 TCATTAACAT
* *
49218647 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* * *
49218671 TGTTCATGAACTTGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
49218694 TGTTCGTGAACATGTTTGATTAA
1 TGTTCGTGAACATGTTCGATTAA
49218717 GTTAAATGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:49219565 original size:25 final size:23
Alignment explanation
Indices: 49219500--49219566 Score: 57
Period size: 25 Copynumber: 2.9 Consensus size: 23
49219490 GGTTTCTTTA
* *
49219500 TTTA-AAATAATAATAATAATTT
1 TTTATAAATAAAAATAAAAATTT
* *
49219522 TTTTTAAA-AAAATTGAAAAATATT
1 TTTATAAATAAAAAT-AAAAAT-TT
49219546 TTTGATAAATAAAAATAAAAA
1 TTT-ATAAATAAAAATAAAAA
49219567 ACTTGTTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 7 0.21
23 8 0.24
24 5 0.15
25 9 0.26
26 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (23 bp):
TTTATAAATAAAAATAAAAATTT
Found at i:49225003 original size:35 final size:33
Alignment explanation
Indices: 49224902--49225009 Score: 146
Period size: 34 Copynumber: 3.2 Consensus size: 33
49224892 AGGTTTAAAT
* *
49224902 TTTTTAAAAAAATTAATTTAAATTAGGTTTTAAGAG
1 TTTTTAAGAAAATTAA-TTAAATTAGGGTTT-AG-G
49224938 -TTTTAAGAAAATTAATTAAATTAGGGTTTAGTG
1 TTTTTAAGAAAATTAATTAAATTAGGGTTTAG-G
49224971 TTTTTAAGAAAATTAATTAAAATTAGGGTTTAGG
1 TTTTTAAGAAAATTAATT-AAATTAGGGTTTAGG
49225005 TTTTT
1 TTTTT
49225010 TTTAAATAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
33 3 0.04
34 36 0.54
35 28 0.42
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTTTAAGAAAATTAATTAAATTAGGGTTTAGG
Found at i:49225010 original size:35 final size:34
Alignment explanation
Indices: 49224885--49225010 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 34
49224875 TTTAAAAAAA
* * *
49224885 TAAATTAAGGTTTAAATTTTTTAAAAAAATTAATT
1 TAAATTAGGGTTTAAGTTTTTTAAGAAAATTAA-T
* **
49224920 TAAATTAGGTTTTAAGAGTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAAGTTTTTTAAGAAAATTAAT
49224954 TAAATTAGGGTTT-AGTGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAAGT-TTTTTAAGAAAATTAAT
*
49224988 TAAAATTAGGGTTTAGGTTTTTT
1 T-AAATTAGGGTTTAAGTTTTTT
49225011 TTAAATAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
33 2 0.03
34 30 0.38
35 44 0.56
36 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (34 bp):
TAAATTAGGGTTTAAGTTTTTTAAGAAAATTAAT
Found at i:49230444 original size:28 final size:28
Alignment explanation
Indices: 49230390--49230446 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
49230380 GCATAAGTTT
* * *
49230390 ATATATATTATGAATTTTTAAAGTTAAA
1 ATATATATTATGAATATTAAAAATTAAA
49230418 ATATATATTAT-AATATTAAAATATTAAA
1 ATATATATTATGAATATTAAAA-ATTAAA
49230446 A
1 A
49230447 GTTAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATGAATATTAAAAATTAAA
Found at i:49230517 original size:17 final size:17
Alignment explanation
Indices: 49230495--49230530 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
49230485 ACAATTAAAT
49230495 AAAAGAAAAAGAATAGA
1 AAAAGAAAAAGAATAGA
*
49230512 AAAAGAAAGAGAATAGA
1 AAAAGAAAAAGAATAGA
49230529 AA
1 AA
49230531 CGAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAGAATAGA
Found at i:49231560 original size:41 final size:42
Alignment explanation
Indices: 49231471--49231581 Score: 140
Period size: 41 Copynumber: 2.7 Consensus size: 42
49231461 ATTTGTACAT
* *
49231471 TAGCGGCGTTT-TAG-CAAAAACGCCGCT-AAAAGCAGAGCAA
1 TAGCGGCGTTTATGGTC-AAAACGCCGCTAAAAACCAGAGCAA
* *
49231511 TAGCGGCGTTTTTGGT-AAAATGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTATGGTCAAAACGCCGCTAAAAACCAGAGCAA
*
49231552 TAGTGGCGTTTATGGTCAAAACGCCGCTAA
1 TAGCGGCGTTTATGGTCAAAACGCCGCTAA
49231582 CAGTCATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 21 0.34
41 28 0.46
42 12 0.20
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (42 bp):
TAGCGGCGTTTATGGTCAAAACGCCGCTAAAAACCAGAGCAA
Found at i:49231641 original size:37 final size:36
Alignment explanation
Indices: 49231600--49231682 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 36
49231590 TAACCCCTAA
* *
49231600 AACCCTAAACCCCCAAAAATCATAAACACTAATCTAT
1 AACCCTAAA-CCCCAAAAACCATAAACACTAAACTAT
*
49231637 AACCCTTAAACCCTAAAAACCATAAACACTAAACTAT
1 AACCC-TAAACCCCAAAAACCATAAACACTAAACTAT
49231674 AACCCTAAA
1 AACCCTAAA
49231683 ATCTTAAACC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 4 0.10
37 34 0.81
38 4 0.10
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (36 bp):
AACCCTAAACCCCAAAAACCATAAACACTAAACTAT
Found at i:49231816 original size:7 final size:7
Alignment explanation
Indices: 49231805--49231861 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
49231795 TTTATTTTGG
*
49231805 GGTTTAG
1 GGTTTAA
49231812 GGTTTAA
1 GGTTTAA
**
49231819 TATTTAA
1 GGTTTAA
*
49231826 GGTTTAT
1 GGTTTAA
*
49231833 GGTTTAG
1 GGTTTAA
*
49231840 GGTTTTAT
1 GG-TTTAA
49231848 GGTTTAA
1 GGTTTAA
49231855 GGTTTAA
1 GGTTTAA
49231862 TGGCCATGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (7 bp):
GGTTTAA
Found at i:49231848 original size:15 final size:15
Alignment explanation
Indices: 49231805--49231864 Score: 70
Period size: 14 Copynumber: 4.1 Consensus size: 15
49231795 TTTATTTTGG
*
49231805 GGTTTAGGGTTTAAT
1 GGTTTAAGGTTTAAT
*
49231820 -ATTTAAGGTTT-AT
1 GGTTTAAGGTTTAAT
* *
49231833 GGTTTAGGGTTTTAT
1 GGTTTAAGGTTTAAT
49231848 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTAAT
49231863 GG
1 GG
49231865 CCATGGGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 2 0.05
14 18 0.49
15 17 0.46
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (15 bp):
GGTTTAAGGTTTAAT
Found at i:49249644 original size:6 final size:6
Alignment explanation
Indices: 49249604--49249657 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
49249594 ATTTAATCTA
* *
49249604 ATTTTT ATTATTT A-TTTT AGTTTTG ATTCTAT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATT-TTT ATTTTT A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
49249654 ATTT
1 ATTT
49249658 GATAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 24 0.60
7 12 0.30
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:49255593 original size:162 final size:162
Alignment explanation
Indices: 49255272--49255660 Score: 441
Period size: 161 Copynumber: 2.4 Consensus size: 162
49255262 TATTTATGGT
* *
49255272 AGTATTCTC-AAGTTAATGTAGGATTAAAATTAACTTTTTAATAAAAATAGTGAAGAAATTGACG
1 AGTATTCTCTAA-TCAATGTAGGATTAAAATTAACTTTTTAATAAAAATAGTGAAGAAATTGACA
* * * * * * *
49255336 CTTATTTATACGATAAGTGTGAGCATGAAAGTGTTCTCAAGCCAAGGTGGGATTAAAATTAACTT
65 CTTATTAATAAGATAAATGTGAGCATCAAAGTGTTCTCAAGCCAAGATAGGATTAAAAGTAACTT
*
49255401 TTTAATGAAAATAGTGAAGAAATGAACTATG-G
130 TTTAATGAAAATAGTGAAGAAATGAACTATGAA
* * * * * **
49255433 AGTATTTTTTAGTCAATGTTGGATTAAAATTAACTTTTTAATAAAAATGGTGAAGAAATTTCCAC
1 AGTATTCTCTAATCAATGTAGGATTAAAATTAACTTTTTAATAAAAATAGTGAAGAAATTGACAC
* * *
49255498 TTATTAATAAGATAAATGTGAG-ATACAAGAGTGTTCTCTAGTCAATATAGGATTAAAAGTAA-T
66 TTATTAATAAGATAAATGTGAGCAT-CAA-AGTGTTCTCAAGCCAAGATAGGATTAAAAGTAACT
*
49255561 TCTTTAATGAAAAT-G-GAGGATAAGTGAACTATGAA
129 T-TTTAATGAAAATAGTGAAGA-AA-TGAACTATGAA
* * * *
49255596 AGTATTCTCTAATTAATGTAGGATTAAAGA-TAACATTTTAGTAAAAATAATGAAGAAATTGACA
1 AGTATTCTCTAATCAATGTAGGATTAAA-ATTAACTTTTTAATAAAAATAGTGAAGAAATTGACA
49255660 C
65 C
49255661 ATTAAAAATA
Statistics
Matches: 188, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
160 6 0.03
161 80 0.43
162 49 0.26
163 52 0.28
164 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.33
Consensus pattern (162 bp):
AGTATTCTCTAATCAATGTAGGATTAAAATTAACTTTTTAATAAAAATAGTGAAGAAATTGACAC
TTATTAATAAGATAAATGTGAGCATCAAAGTGTTCTCAAGCCAAGATAGGATTAAAAGTAACTTT
TTAATGAAAATAGTGAAGAAATGAACTATGAA
Done.