Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 404 of 433
Found at i:125143574 original size:34 final size:35
Alignment explanation
Indices: 125143508--125143574 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
125143498 TGTAATTTAT
* **
125143508 ATTTTTTTATTTTAATTTATATTTATTTTTTTTCA
1 ATTTTTTTATTTTAATTTACATTTATAATTTTTCA
125143543 ATTTTTTATATTTT-ATTT-CATTTATAATTTTT
1 ATTTTTT-TATTTTAATTTACATTTATAATTTTT
125143575 TGCACTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 11 0.39
35 11 0.39
36 6 0.21
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (35 bp):
ATTTTTTTATTTTAATTTACATTTATAATTTTTCA
Found at i:125143574 original size:36 final size:35
Alignment explanation
Indices: 125143508--125143575 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
125143498 TGTAATTTAT
*
125143508 ATTTTTTTATTTTAATTTATATTTATTTTTTTTCA
1 ATTTTTTTATTTTAATTTATATTTAATTTTTTTCA
125143543 ATTTTTTATATTTT-ATTTCAT-TTATAATTTTTT
1 ATTTTTT-TATTTTAATTT-ATATT-TAATTTTTT
125143576 GCACTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 13 0.45
36 16 0.55
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (35 bp):
ATTTTTTTATTTTAATTTATATTTAATTTTTTTCA
Found at i:125143595 original size:60 final size:57
Alignment explanation
Indices: 125143478--125143605 Score: 143
Period size: 60 Copynumber: 2.2 Consensus size: 57
125143468 TTTTTCATAA
* *
125143478 TTTTACAATTTTTTATTTTTTGTAATTTATATTTTTTTATTTTAATTTATATTTATTT
1 TTTTACAATTTTTTATTTTTTGTAATTTATATTTTTTCACTTTAATTTATA-TTATTT
* * *
125143536 TTTTTCAATTTTTTATATTTTATTTCATTTATAATTTTTTGCACTTTAATTTATA-TATTT
1 TTTTACAATTTTTTAT-TTTT-TGTAATTTAT-ATTTTTT-CACTTTAATTTATATTATTT
*
125143596 TTATA-AATTT
1 TTTTACAATTT
125143606 ATAAATTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
58 15 0.25
59 9 0.15
60 16 0.27
61 7 0.12
62 12 0.20
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (57 bp):
TTTTACAATTTTTTATTTTTTGTAATTTATATTTTTTCACTTTAATTTATATTATTT
Found at i:125147041 original size:26 final size:24
Alignment explanation
Indices: 125147010--125147058 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
125147000 AATAAAAAAT
**
125147010 TTTAAAATTATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
125147036 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
125147059 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:125147078 original size:21 final size:20
Alignment explanation
Indices: 125147037--125147084 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
125147027 TCAAATATAT
* *
125147037 TTAAAAACATAAAAACAAATA
1 TTAAAAAAATAAAAA-TAATA
125147058 TTAAAACAAATAAAAATAATA
1 TTAAAA-AAATAAAAATAATA
*
125147079 CTAAAA
1 TTAAAA
125147085 TAATTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAAAAATAAAAATAATA
Found at i:125148915 original size:136 final size:137
Alignment explanation
Indices: 125148671--125148956 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
125148661 TATTGGGCCT
** * *
125148671 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
125148736 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
125148800 CATATAC
131 CATATAC
125148807 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
125148872 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
*
125148937 CATATGC
131 CATATAC
125148944 AAGCCCATTTGGG
1 AAGCCCATTTGGG
125148957 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 121 0.85
137 21 0.15
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATAC
Found at i:125149292 original size:12 final size:12
Alignment explanation
Indices: 125149275--125149299 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
125149265 AATTTTCCAC
125149275 TTTAAAGGTATT
1 TTTAAAGGTATT
125149287 TTTAAAGGTATT
1 TTTAAAGGTATT
125149299 T
1 T
125149300 CAGTAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTAAAGGTATT
Found at i:125150787 original size:26 final size:26
Alignment explanation
Indices: 125150751--125150886 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
125150741 CATGATATTC
125150751 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
125150777 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125150803 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125150829 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125150855 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125150881 TTATCA
1 TTATCA
125150887 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:125154817 original size:135 final size:136
Alignment explanation
Indices: 125154575--125154858 Score: 518
Period size: 135 Copynumber: 2.1 Consensus size: 136
125154565 CATTGGGCCT
**
125154575 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
125154640 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
125154704 ATATGC
131 ATATGC
125154710 AAGCCCATTTGGGTAACAGTGGTACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
*
125154774 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
125154839 CATATGC
130 CATATGC
125154846 AAGCCCATTTGGG
1 AAGCCCATTTGGG
125154859 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 11 0.08
135 111 0.77
136 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:125155199 original size:17 final size:17
Alignment explanation
Indices: 125155179--125155212 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
125155169 TTCCACTTTA
125155179 AAGGTATTTCAGTAATT
1 AAGGTATTTCAGTAATT
125155196 AAGGTATTTCAGTAATT
1 AAGGTATTTCAGTAATT
125155213 TATCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
AAGGTATTTCAGTAATT
Found at i:125156715 original size:26 final size:26
Alignment explanation
Indices: 125156657--125156791 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
125156647 CATGATATTC
125156657 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
125156682 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125156708 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125156734 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125156760 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125156786 TTATCA
1 TTATCA
125156792 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 22 0.21
26 81 0.79
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:125156755 original size:52 final size:52
Alignment explanation
Indices: 125156657--125156791 Score: 254
Period size: 52 Copynumber: 2.6 Consensus size: 52
125156647 CATGATATTC
*
125156657 TTATCATGAAACATTTACCTAACC-ATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
125156708 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
125156760 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
125156792 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
51 23 0.28
52 59 0.72
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:125158814 original size:45 final size:45
Alignment explanation
Indices: 125158777--125158874 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
125158767 ACAATAACAA
* *
125158777 TAACAGTATTCAACACATAAAGTG-CTGAATCTGTAACAGTAACGG
1 TAACAGTATTCAACACACAAAGTGTC-GAATCGGTAACAGTAACGG
*
125158822 TAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAACGG
1 TAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACGG
125158867 TAACAGTA
1 TAACAGTA
125158875 ACAGTAGTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
TAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACGG
Found at i:125158869 original size:12 final size:12
Alignment explanation
Indices: 125158852--125158876 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
125158842 AGTGTCGAAT
125158852 CGGTAACAGTAA
1 CGGTAACAGTAA
125158864 CGGTAACAGTAA
1 CGGTAACAGTAA
125158876 C
1 C
125158877 AGTAGTCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:125159948 original size:20 final size:21
Alignment explanation
Indices: 125159915--125159958 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
125159905 TTCTGTTTCT
*
125159915 TTTCTGTTTGTTTT-GCTTTG
1 TTTCTGTTTATTTTAGCTTTG
* *
125159935 TTTCTTTTTATTTTAGTTTTG
1 TTTCTGTTTATTTTAGCTTTG
125159956 TTT
1 TTT
125159959 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.05, C:0.07, G:0.14, T:0.75
Consensus pattern (21 bp):
TTTCTGTTTATTTTAGCTTTG
Found at i:125160141 original size:22 final size:25
Alignment explanation
Indices: 125160096--125160142 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
125160086 ATTCTTTAAT
*
125160096 ATAATAATATAATATCAATTAAATA
1 ATAATAATATAATATCAATCAAATA
125160121 ATAATAATA-AATAT-AA-CAAATA
1 ATAATAATATAATATCAATCAAATA
125160143 TCTATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 2 0.10
24 5 0.24
25 9 0.43
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
ATAATAATATAATATCAATCAAATA
Found at i:125160591 original size:2 final size:2
Alignment explanation
Indices: 125160584--125160614 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
125160574 ACATAACATA
*
125160584 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
125160615 AATAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:125166102 original size:40 final size:40
Alignment explanation
Indices: 125166056--125166303 Score: 313
Period size: 40 Copynumber: 6.2 Consensus size: 40
125166046 TGAATGATTC
* * *
125166056 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
125166096 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
125166136 CCGGGCTAAGATCTGAAGGCATTTGTGCGAGTTGCTATACC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATA-T
*
125166177 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
125166217 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
125166257 CCGGG-TTAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
125166296 CC-GGCTAA
1 CCGGGCTAA
125166304 ATTCCGAAGA
Statistics
Matches: 183, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
38 2 0.01
39 31 0.17
40 113 0.62
41 37 0.20
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:125166197 original size:81 final size:80
Alignment explanation
Indices: 125166056--125166303 Score: 340
Period size: 81 Copynumber: 3.1 Consensus size: 80
125166046 TGAATGATTC
* * * * * *
125166056 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCATTT
125166120 GTGCGAGTTGTTATAT
65 GTGCGAGTTGTTATAT
* *
125166136 CCGGGCTAAGATCTGAAGGCATTTGTGCGAGTTGCTATACCCCGGGTTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CCCGGGTTAAGACCCGAAGGCATTT
125166201 GTGCGAGTTGTTATAT
65 GTGCGAGTTGTTATAT
* *
125166217 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTT-AGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTG
** *
125166281 TGCTTGTGGTTATAT
66 TGCGAGTTGTTATAT
125166296 CC-GGCTAA
1 CCGGGCTAA
125166304 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
78 5 0.03
79 30 0.20
80 38 0.25
81 77 0.51
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTG
TGCGAGTTGTTATAT
Found at i:125174338 original size:40 final size:40
Alignment explanation
Indices: 125174292--125174540 Score: 322
Period size: 40 Copynumber: 6.2 Consensus size: 40
125174282 TGAATGATTC
* * * *
125174292 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
125174332 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
125174372 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTGCTATACC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATA-T
*
125174413 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
125174453 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
125174493 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
125174533 CC-GGCTAA
1 CCGGGCTAA
125174541 ATTCTGAAGA
Statistics
Matches: 187, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 144 0.77
41 38 0.20
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:125174435 original size:81 final size:80
Alignment explanation
Indices: 125174292--125174540 Score: 351
Period size: 81 Copynumber: 3.1 Consensus size: 80
125174282 TGAATGATTC
* * * * *
125174292 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTCTAT--CCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT--TGCTATACCCGGGTTAAGACCCGAAGGCATT
125174355 TGTGCGAGTTGTTATAT
64 TGTGCGAGTTGTTATAT
*
125174372 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTGCTATACCCCGGGTTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CCCGGGTTAAGACCCGAAGGCATTT
125174437 GTGCGAGTTGTTATAT
65 GTGCGAGTTGTTATAT
* *
125174453 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTG
** *
125174518 TGCTTGTGGTTATAT
66 TGCGAGTTGTTATAT
125174533 CC-GGCTAA
1 CCGGGCTAA
125174541 ATTCTGAAGA
Statistics
Matches: 153, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
78 5 0.03
79 5 0.03
80 67 0.44
81 76 0.50
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTG
TGCGAGTTGTTATAT
Found at i:125174509 original size:121 final size:121
Alignment explanation
Indices: 125174291--125174520 Score: 345
Period size: 121 Copynumber: 1.9 Consensus size: 121
125174281 TTGAATGATT
* * *
125174291 CCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTCTATCCGGGCTAAGACCCGAAGGCATTT
1 CCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTT
* * * *
125174356 GTGCGAGTTGTTATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAC
66 GTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGCTATAC
* * *
125174412 CCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGTTAAGACCCGAAGGCATT
1 CCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATT
*
125174476 TGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
65 TGTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGC
125174521 TTGTGGTTAT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
121 95 0.98
122 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (121 bp):
CCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGCTATAC
Found at i:125179798 original size:3 final size:3
Alignment explanation
Indices: 125179764--125179855 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
125179754 TTATGTATAA
* * *
125179764 TAT TAT TTT TAAT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
125179806 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125179852 TAT T
1 TAT T
125179856 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.78
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:125179862 original size:9 final size:8
Alignment explanation
Indices: 125179824--125179882 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 8
125179814 TCTTCGTATT
125179824 TTATTATTA
1 TTATTA-TA
125179833 TTATTAGTA
1 TTATTA-TA
125179842 TTATTATCA
1 TTATTAT-A
125179851 TTATTCATA
1 TTATT-ATA
**
125179860 TTAGCATA
1 TTATTATA
125179868 -TA-TATA
1 TTATTATA
125179874 TTATTATA
1 TTATTATA
125179882 T
1 T
125179883 ATATATATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
6 3 0.07
7 4 0.10
8 9 0.21
9 24 0.57
10 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:125179957 original size:21 final size:21
Alignment explanation
Indices: 125179930--125179982 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
125179920 CTATTATATG
125179930 TATTATTATCTTATTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
125179954 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
125179974 TCATTATTA
1 T-ATTATTA
125179983 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:125179981 original size:33 final size:33
Alignment explanation
Indices: 125179914--125179978 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
125179904 AGTATTATCT
* *
125179914 TTTTTACTATTATATGTATTATTATCTTATTTA
1 TTTTCACTATTATATGTATTATTATCTCATTTA
*
125179947 TTTTCACTATTATTAT-TATTATTTTCATCATT
1 TTTTCACTATTA-TATGTATTATTATC-TCATT
125179979 ATTACACGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (33 bp):
TTTTCACTATTATATGTATTATTATCTCATTTA
Found at i:125181862 original size:79 final size:80
Alignment explanation
Indices: 125181731--125181878 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 80
125181721 TATTCGGATG
* * *
125181731 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCAAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCAAAGGCA
125181795 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
125181810 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCAAAGGC
125181874 ATTTG
65 ATTTG
125181879 AGCAAGTAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 2 0.03
79 47 0.76
80 13 0.21
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCAAAGGCA
TTTGTGCGAGTTACT
Found at i:125181900 original size:79 final size:79
Alignment explanation
Indices: 125181731--125181911 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 79
125181721 TATTCGGATG
* * *
125181731 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCAAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCAT
* *
125181796 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
* *
125181810 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCAAAGGC
125181874 ATTTGAGCAAG-TAGCT
64 ATTTGAGCAAGTTA-CT
* * *
125181890 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
125181912 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
78 2 0.02
79 63 0.71
80 24 0.27
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCAT
TTGAGCAAGTTACT
Found at i:125181911 original size:39 final size:40
Alignment explanation
Indices: 125181731--125181878 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
125181721 TATTCGGATG
* * *
125181731 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
125181771 A-ATTCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
125181810 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
125181850 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
125181879 AGCAAGTAGC
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
39 33 0.34
40 65 0.66
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:125185674 original size:13 final size:14
Alignment explanation
Indices: 125185656--125185689 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
125185646 AAATGAAGAA
125185656 AATAAAAGGA-ATG
1 AATAAAAGGAGATG
125185669 AAT-AAAGGAGATG
1 AATAAAAGGAGATG
125185682 AATAAAAG
1 AATAAAAG
125185690 AAGGGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 9 0.47
14 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (14 bp):
AATAAAAGGAGATG
Found at i:125185846 original size:20 final size:20
Alignment explanation
Indices: 125185821--125185871 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 20
125185811 TATTTATGTT
125185821 TTTAATATTTATTTAAAAAA
1 TTTAATATTTATTTAAAAAA
* *
125185841 TTT-A-ATTT-TTTAATAAT
1 TTTAATATTTATTTAAAAAA
125185858 TTTAATAATTTATT
1 TTTAAT-ATTTATT
125185872 CCATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 1 0.04
20 7 0.28
21 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAATATTTATTTAAAAAA
Found at i:125185867 original size:25 final size:25
Alignment explanation
Indices: 125185792--125185869 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 25
125185782 TACGATTTTT
125185792 ATTTTTT-ATAA-TTTATATATATTT-
1 ATTTTTTAATAATTTTA-ATA-ATTTA
* *
125185816 ATGTTTTTAATATTTATTTAAAAAATTTA
1 AT-TTTTTAATA---ATTTTAATAATTTA
125185845 ATTTTTTAATAATTTTAATAATTTA
1 ATTTTTTAATAATTTTAATAATTTA
125185870 TTCCATTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 3 0.07
28 13 0.30
29 5 0.12
30 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTTTTTAATAATTTTAATAATTTA
Found at i:125186050 original size:17 final size:17
Alignment explanation
Indices: 125186028--125186061 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
125186018 TAACTTTAAC
125186028 AATT-AAATGGTTTAATA
1 AATTAAAAT-GTTTAATA
125186045 AATTAAAATGTTTAATA
1 AATTAAAATGTTTAATA
125186062 GCTCAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
AATTAAAATGTTTAATA
Found at i:125187470 original size:15 final size:15
Alignment explanation
Indices: 125187450--125187479 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
125187440 TTTAATCTTT
*
125187450 TATAAATTATAAAAA
1 TATAAACTATAAAAA
125187465 TATAAACTATAAAAA
1 TATAAACTATAAAAA
125187480 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:125189091 original size:79 final size:80
Alignment explanation
Indices: 125188996--125189147 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 80
125188986 TAATCTCAAT
*
125188996 AAAGGACTTTATAAATAACATAGATAAATATTTAATCAAGAAATTAAC-TCCGTCACT-GTATTA
1 AAAGGACTTTATAAATAACATAGATAAATATTTAACCAAGAAATTAACTTCC-TCACTAG-ATTA
125189059 ACCGAGAAATGTCAGTA
64 ACCGAGAAATGTCAGTA
** * *
125189076 AAAGG-CTTTATAAATAGTATAGATAAATATTTAACCAAGATATTAACTTTCTCACTAGATTAAC
1 AAAGGACTTTATAAATAACATAGATAAATATTTAACCAAGAAATTAACTTCCTCACTAGATTAAC
125189140 CGAGAAAT
66 CGAGAAAT
125189148 ATAAAATCCC
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
79 57 0.88
80 8 0.12
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (80 bp):
AAAGGACTTTATAAATAACATAGATAAATATTTAACCAAGAAATTAACTTCCTCACTAGATTAAC
CGAGAAATGTCAGTA
Found at i:125193645 original size:6 final size:6
Alignment explanation
Indices: 125193629--125193902 Score: 143
Period size: 6 Copynumber: 45.7 Consensus size: 6
125193619 ACTCTCCTCG
* * * * * * *
125193629 TTCTCA ATCTCT TTCTCA TTCTTA TTCTTA TTCTCA CTCACA CTCTCA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * * * *
125193677 CTCTCA CTCTCA CTCTCA CTCTCA CTCTCA TTCTCA TTCTCA CTCTCA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * * * * *
125193725 TTCTCA TTCTCG CTCACA CTCTCA CTCTCA CTCTCA TTCTCA TTCTGA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * * * * * * * *
125193773 TTCTCG CTCACG CTCTCA CTCTCA CTCTCA CTCTCA TTCTCA TTTTGA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * * * * * * * * *
125193821 TTCTCG CTCACG CTCTCA TTCTCA CTCTCA CTCTCA CTCACA CTCTTA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * *
125193869 TTCTCA ATCTCA TTTTCA CTCTCA TTCTTA TTCT
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCT
125193903 TGCTCACACT
Statistics
Matches: 219, Mismatches: 49, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 219 1.00
ACGTcount: A:0.17, C:0.39, G:0.03, T:0.42
Consensus pattern (6 bp):
TTCTCA
Found at i:125193675 original size:12 final size:12
Alignment explanation
Indices: 125193660--125193892 Score: 205
Period size: 12 Copynumber: 19.4 Consensus size: 12
125193650 TTATTCTTAT
*
125193660 TCTCACTCACAC
1 TCTCACTCTCAC
125193672 TCTCACTCTCAC
1 TCTCACTCTCAC
125193684 TCTCACTCTCAC
1 TCTCACTCTCAC
*
125193696 TCTCACTCTCAT
1 TCTCACTCTCAC
*
125193708 TCTCATTCTCAC
1 TCTCACTCTCAC
* *
125193720 TCTCATTCTCAT
1 TCTCACTCTCAC
* *
125193732 TCTCGCTCACAC
1 TCTCACTCTCAC
125193744 TCTCACTCTCAC
1 TCTCACTCTCAC
* *
125193756 TCTCATTCTCAT
1 TCTCACTCTCAC
* * *
125193768 TCTGATTCTCGC
1 TCTCACTCTCAC
* *
125193780 TCACGCTCTCAC
1 TCTCACTCTCAC
125193792 TCTCACTCTCAC
1 TCTCACTCTCAC
* *
125193804 TCTCATTCTCAT
1 TCTCACTCTCAC
* * * *
125193816 TTTGATTCTCGC
1 TCTCACTCTCAC
* * *
125193828 TCACGCTCTCAT
1 TCTCACTCTCAC
125193840 TCTCACTCTCAC
1 TCTCACTCTCAC
*
125193852 TCTCACTCACAC
1 TCTCACTCTCAC
* * *
125193864 TCTTATTCTCAA
1 TCTCACTCTCAC
* *
125193876 TCTCATTTTCAC
1 TCTCACTCTCAC
125193888 TCTCA
1 TCTCA
125193893 TTCTTATTCT
Statistics
Matches: 174, Mismatches: 47, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 174 1.00
ACGTcount: A:0.17, C:0.42, G:0.03, T:0.38
Consensus pattern (12 bp):
TCTCACTCTCAC
Found at i:125193710 original size:48 final size:48
Alignment explanation
Indices: 125193572--125193922 Score: 225
Period size: 48 Copynumber: 7.2 Consensus size: 48
125193562 CTTGTCGTGT
* * * * * **
125193572 CTCTCATTCTCATTCTCACTCACACTCTCATTCTTATTTTTGCTCACA
1 CTCTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
* * ** * * * *
125193620 CTCTCCTCGTTCTCAATCTCTTTCTCATTCTTATTCTTATTCTCACTCACA
1 --CT-CTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
* * *
125193671 CTCTCACTCTCACTCTCACTCTCACTCTCACTCTCATTCTCATTCTCA
1 CTCTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
* * * * * *
125193719 CTCTCATTCTCATTCTCGCTCACACTCTCACTCTCACTCTCATTCTCA
1 CTCTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
* * * * * * * *
125193767 TTCTGATTCTCGCTCACGCTCTCACTCTCACTCTCACTCTCATTCTCA
1 CTCTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
* * * * * * * *
125193815 TTTTGATTCTCGCTCACGCTCTCATTCTCACTCTCACTCTCACTCACA
1 CTCTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
* * * * * * **
125193863 CTCTTATTCTCAATCTCATTTTCACTCTCATTCTTATTCTTGCTCACA
1 CTCTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
* *
125193911 CTTTCACTCTCA
1 CTCTCATTCTCA
125193923 TTGTGATTCT
Statistics
Matches: 246, Mismatches: 54, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
48 206 0.84
49 2 0.01
50 2 0.01
51 36 0.15
ACGTcount: A:0.17, C:0.39, G:0.03, T:0.41
Consensus pattern (48 bp):
CTCTCATTCTCACTCTCACTCTCACTCTCACTCTCATTCTCACTCACA
Found at i:125193893 original size:12 final size:12
Alignment explanation
Indices: 125193629--125193896 Score: 194
Period size: 12 Copynumber: 22.3 Consensus size: 12
125193619 ACTCTCCTCG
* *
125193629 TTCTCAATCTCT
1 TTCTCACTCTCA
* *
125193641 TTCTCATTCTTA
1 TTCTCACTCTCA
* *
125193653 TTCTTATTCTCA
1 TTCTCACTCTCA
* *
125193665 CTCACACTCTCA
1 TTCTCACTCTCA
*
125193677 CTCTCACTCTCA
1 TTCTCACTCTCA
*
125193689 CTCTCACTCTCA
1 TTCTCACTCTCA
* *
125193701 CTCTCATTCTCA
1 TTCTCACTCTCA
125193713 TTCTCACTCTCA
1 TTCTCACTCTCA
* *
125193725 TTCTCATTCTCG
1 TTCTCACTCTCA
* *
125193737 CTCACACTCTCA
1 TTCTCACTCTCA
*
125193749 CTCTCACTCTCA
1 TTCTCACTCTCA
* *
125193761 TTCTCATTCTGA
1 TTCTCACTCTCA
* * *
125193773 TTCTCGCTCACG
1 TTCTCACTCTCA
*
125193785 CTCTCACTCTCA
1 TTCTCACTCTCA
*
125193797 CTCTCACTCTCA
1 TTCTCACTCTCA
* * *
125193809 TTCTCATTTTGA
1 TTCTCACTCTCA
* * *
125193821 TTCTCGCTCACG
1 TTCTCACTCTCA
* *
125193833 CTCTCATTCTCA
1 TTCTCACTCTCA
*
125193845 CTCTCACTCTCA
1 TTCTCACTCTCA
* * *
125193857 CTCACACTCTTA
1 TTCTCACTCTCA
*
125193869 TTCTCAATCTCA
1 TTCTCACTCTCA
*
125193881 TTTTCACTCTCA
1 TTCTCACTCTCA
125193893 TTCT
1 TTCT
125193897 TATTCTTGCT
Statistics
Matches: 199, Mismatches: 57, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 199 1.00
ACGTcount: A:0.17, C:0.40, G:0.03, T:0.41
Consensus pattern (12 bp):
TTCTCACTCTCA
Found at i:125193923 original size:42 final size:42
Alignment explanation
Indices: 125193723--125193924 Score: 181
Period size: 42 Copynumber: 4.8 Consensus size: 42
125193713 TTCTCACTCT
* *
125193723 CATTCTCATTCTCGCTCACACTCTCACTCTCACTCTCATTCT
1 CATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCT
* * *
125193765 CATTCTGATTCTCGCTCACGCTCTCACTCTCACTCTCACTCT
1 CATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCT
* * * * * *
125193807 CATTCTCATT-TTGATTCTCGCTCACGCTCTCATTCTCACTCT
1 CATTCTCATTCTCG-CTCACACTCTCACTCTCATTCTCACTCT
* * * * ** * * *
125193849 CACTCTCACTCACACTCTTATTCTCAATCTCATTTTCACTCT
1 CATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCT
* * *
125193891 CATTCTTATTCTTGCTCACACTTTCACTCTCATT
1 CATTCTCATTCTCGCTCACACTCTCACTCTCATT
125193925 GTGATTCTTG
Statistics
Matches: 124, Mismatches: 34, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
41 2 0.02
42 122 0.98
ACGTcount: A:0.17, C:0.39, G:0.04, T:0.41
Consensus pattern (42 bp):
CATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCT
Found at i:125193932 original size:30 final size:30
Alignment explanation
Indices: 125193882--125193945 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
125193872 TCAATCTCAT
*
125193882 TTTCACTCTCATTCTTATTCTTGCTCACAC
1 TTTCACTCTCATTCTGATTCTTGCTCACAC
*
125193912 TTTCACTCTCATTGTGATTCTTGCTCACAC
1 TTTCACTCTCATTCTGATTCTTGCTCACAC
125193942 TTTC
1 TTTC
125193946 CTCGTTCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.16, C:0.31, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTCACTCTCATTCTGATTCTTGCTCACAC
Found at i:125194039 original size:17 final size:17
Alignment explanation
Indices: 125194007--125194039 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
125193997 AAGGAGATGA
125194007 TAGAAATGAATGAAAAG
1 TAGAAATGAATGAAAAG
125194024 TAGAAGATGAAT-AAAA
1 TAGAA-ATGAATGAAAA
125194040 CAAAGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (17 bp):
TAGAAATGAATGAAAAG
Found at i:125194375 original size:2 final size:2
Alignment explanation
Indices: 125194363--125194405 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
125194353 AAAGATGACA
125194363 AT AT AT CAT AT AT 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 AT AT AT AT AT AT
125194406 GCCATTTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125194862 original size:21 final size:21
Alignment explanation
Indices: 125194838--125194906 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
125194828 TAACTTAATT
125194838 ATTTTAAATATTTTATTAACA
1 ATTTTAAATATTTTATTAACA
** *
125194859 ATTTTATGCT-TTTTA-TAATA
1 ATTTTA-AATATTTTATTAACA
* *
125194879 TTTTTGTAA-ATTTTATTAACA
1 ATTTT-AAATATTTTATTAACA
125194900 ATTTTAA
1 ATTTTAA
125194907 TAATTTTCTA
Statistics
Matches: 34, Mismatches: 10, Indels: 9
0.64 0.19 0.17
Matches are distributed among these distances:
20 14 0.41
21 19 0.56
22 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTTAAATATTTTATTAACA
Found at i:125194933 original size:20 final size:20
Alignment explanation
Indices: 125194899--125194952 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
125194889 TTTTATTAAC
* *
125194899 AATTTT-AATAATTTTCTAT
1 AATTTTAAATATTTTTCCAT
*
125194918 ATTTTTAAATATTTTTCCAT
1 AATTTTAAATATTTTTCCAT
125194938 AATTTTAAA-ATTTTT
1 AATTTTAAATATTTTT
125194953 ATTTTTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTAAATATTTTTCCAT
Found at i:125195059 original size:18 final size:19
Alignment explanation
Indices: 125195011--125195134 Score: 58
Period size: 19 Copynumber: 6.5 Consensus size: 19
125195001 TCTTTTTCAA
*
125195011 TTTTTAATAATTTATATAT
1 TTTTTTATAATTTATATAT
* *
125195030 TTTATT-TCATTTATAT-T
1 TTTTTTATAATTTATATAT
* * *
125195047 TTTTTTATAATTTTTTTCAC
1 TTTTTTATAATTTATAT-AT
* *
125195067 TTTTATAT-ATTTATATAAA
1 TTTTTTATAATTTATAT-AT
* *
125195086 TATTTT-TAATTTTTATAT
1 TTTTTTATAATTTATATAT
* * * *
125195104 ATTTGTATTATTTGTATTAT
1 TTTTTTATAATTTATA-TAT
125195124 TTTTATTATAA
1 TTTT-TTATAA
125195135 AATATCATAT
Statistics
Matches: 73, Mismatches: 25, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
17 6 0.08
18 21 0.29
19 29 0.40
20 13 0.18
21 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTATAATTTATATAT
Found at i:125195130 original size:9 final size:9
Alignment explanation
Indices: 125195086--125195132 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
125195076 TTTATATAAA
125195086 TATTTTTA-
1 TATTTTTAT
125195094 -ATTTTTAT
1 TATTTTTAT
*
125195102 ATATTTGTAT
1 -TATTTTTAT
*
125195112 TATTTGTAT
1 TATTTTTAT
125195121 TATTTTTAT
1 TATTTTTAT
125195130 TAT
1 TAT
125195133 AAAATATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 7 0.21
9 20 0.59
10 7 0.21
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (9 bp):
TATTTTTAT
Found at i:125196043 original size:40 final size:40
Alignment explanation
Indices: 125195999--125196114 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
125195989 TTAACTTAAT
** *
125195999 TATTTTAAATATTTTATT-ATCAATTTTTTTCTTTTTATAA
1 TATTTTAAATATTTTATTAAT-AATTTTAATATTTTTATAA
* *
125196039 TATTTTGTAA-ATTTTATTAATAATTTTAATATTTTTCTAA
1 TATTTT-AAATATTTTATTAATAATTTTAATATTTTTATAA
*
125196079 -ATTTTAAATATTTT-TTCATAATTTTACA-ATTTTTAT
1 TATTTTAAATATTTTATTAATAATTTTA-ATATTTTTAT
125196115 TTTTTGTAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
38 20 0.31
39 11 0.17
40 29 0.45
41 4 0.06
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (40 bp):
TATTTTAAATATTTTATTAATAATTTTAATATTTTTATAA
Found at i:125196072 original size:20 final size:19
Alignment explanation
Indices: 125195994--125196104 Score: 68
Period size: 20 Copynumber: 5.6 Consensus size: 19
125195984 TGATATTAAC
*
125195994 TTAATTATTTTAAATATTTT
1 TTAATAATTTT-AATATTTT
** *
125196014 ATT-ATCAATTTTTTTCTTTT
1 -TTAAT-AATTTTAATATTTT
*
125196034 TATAATATTTTGTAA-ATTTT
1 T-TAATAATTT-TAATATTTT
125196054 ATTAATAATTTTAATATTTT
1 -TTAATAATTTTAATATTTT
125196074 TCT-A-AATTTTAAATATTTT
1 T-TAATAATTTT-AATATTTT
*
125196093 TTCATAATTTTA
1 TTAATAATTTTA
125196105 CAATTTTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
18 7 0.10
19 17 0.24
20 36 0.51
21 11 0.15
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
TTAATAATTTTAATATTTT
Found at i:125196112 original size:20 final size:19
Alignment explanation
Indices: 125196046--125196112 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
125196036 TAATATTTTG
* *
125196046 TAAATTTTATTAATAATTT
1 TAAATTTTTTTCATAATTT
*
125196065 T-AATATTTTTC-TAAATTT
1 TAAATTTTTTTCAT-AATTT
125196083 TAAATATTTTTTCATAATTT
1 TAAAT-TTTTTTCATAATTT
125196103 TACAATTTTT
1 TA-AATTTTT
125196113 ATTTTTTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 1 0.03
18 13 0.33
19 4 0.10
20 17 0.44
21 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAATTTTTTTCATAATTT
Found at i:125196245 original size:8 final size:8
Alignment explanation
Indices: 125196229--125196299 Score: 56
Period size: 8 Copynumber: 8.2 Consensus size: 8
125196219 TTTTTTGTAC
125196229 TTTTATATA
1 TTTT-TATA
125196238 TTTTTATAAA
1 TTTTTAT--A
*
125196248 TTTATAATA
1 TTT-TTATA
125196257 TTTTTA-A
1 TTTTTATA
125196264 TTTGTATATA
1 TTT-T-TATA
125196274 TTTTTAT-
1 TTTTTATA
125196281 TATTTTATA
1 T-TTTTATA
125196290 TTTTTATA
1 TTTTTATA
125196298 TT
1 TT
125196300 ATTTTTAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
7 5 0.10
8 24 0.46
9 12 0.23
10 8 0.15
11 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (8 bp):
TTTTTATA
Found at i:125196292 original size:26 final size:26
Alignment explanation
Indices: 125196234--125196310 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 26
125196224 TGTACTTTTA
* *
125196234 TATATTTTTATAAATTTATAATATTT
1 TATATTTTTATATATTTTTAATATTT
* *
125196260 T-TAATTTGTATATATTTTTATTATTT
1 TAT-ATTTTTATATATTTTTAATATTT
125196286 TATATTTTTATATTATTTTTAATAT
1 TATATTTTTATA-TATTTTTAATAT
125196311 AAAATATCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
25 1 0.02
26 29 0.69
27 12 0.29
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (26 bp):
TATATTTTTATATATTTTTAATATTT
Found at i:125196299 original size:18 final size:17
Alignment explanation
Indices: 125196234--125196304 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
125196224 TGTACTTTTA
*
125196234 TATATTTTTATAAATTT
1 TATATTTTTATATATTT
125196251 ATAATATTTTTA-AT-TTGT
1 -T-ATATTTTTATATATT-T
125196269 ATATATTTTTAT-TATTT
1 -TATATTTTTATATATTT
125196286 TATATTTTTATATTATTT
1 TATATTTTTATA-TATTT
125196304 T
1 T
125196305 TAATATAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
16 11 0.24
17 13 0.28
18 13 0.28
19 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (17 bp):
TATATTTTTATATATTT
Found at i:125198271 original size:24 final size:25
Alignment explanation
Indices: 125198225--125198271 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
125198215 AATAGTCATG
* *
125198225 AACTTAGAAAATAAATAATAAAACA
1 AACTTAGAAAACAAATAAAAAAACA
*
125198250 AACTT-GAAAACAAGTAAAAAAA
1 AACTTAGAAAACAAATAAAAAAA
125198272 ATGTCATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.68, C:0.09, G:0.06, T:0.17
Consensus pattern (25 bp):
AACTTAGAAAACAAATAAAAAAACA
Found at i:125198464 original size:12 final size:12
Alignment explanation
Indices: 125198447--125198481 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
125198437 CAACTCGCCC
125198447 ATATTAATTTTT
1 ATATTAATTTTT
125198459 ATATT-ATTTTT
1 ATATTAATTTTT
125198470 ATA-TAATTTTT
1 ATATTAATTTTT
125198481 A
1 A
125198482 AATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 16 0.73
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:125198637 original size:30 final size:30
Alignment explanation
Indices: 125198603--125198665 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
125198593 ACTTAACAAG
*
125198603 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
125198633 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
125198663 CAA
1 CAA
125198666 TAAAATAAAT
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:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:125198720 original size:22 final size:22
Alignment explanation
Indices: 125198695--125198736 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
125198685 TATCCAAACA
125198695 ATAACAATAAAATAGTAGCAGC
1 ATAACAATAAAATAGTAGCAGC
* * *
125198717 ATAATAGTAAAATGGTAGCA
1 ATAACAATAAAATAGTAGCA
125198737 AAATAGGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAGC
Found at i:125203624 original size:7 final size:7
Alignment explanation
Indices: 125203614--125203639 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
125203604 TGGCTCCGGG
125203614 CTCCCCT
1 CTCCCCT
125203621 CTCCCCT
1 CTCCCCT
125203628 CTCCCCT
1 CTCCCCT
125203635 CTCCC
1 CTCCC
125203640 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (7 bp):
CTCCCCT
Found at i:125204096 original size:3 final size:3
Alignment explanation
Indices: 125204090--125204170 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
125204080 TTCTTTAGTT
* * *
125204090 TTA TTA TTT TTA TAA TT- TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
125204137 TTA TTA GTA TTA TTA CTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
125204171 GTATATACTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
2 2 0.03
3 61 0.92
4 3 0.05
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:125204904 original size:26 final size:26
Alignment explanation
Indices: 125204875--125204982 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
125204865 TGGTACAAAT
*
125204875 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
125204901 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125204927 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
125204953 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125204979 TGAT
1 TGAT
125204983 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:125206489 original size:26 final size:26
Alignment explanation
Indices: 125206460--125206512 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
125206450 TTTACAGTTT
125206460 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
125206486 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
125206512 T
1 T
125206513 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:125207873 original size:24 final size:22
Alignment explanation
Indices: 125207837--125207891 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
125207827 ATTATGTATG
** *
125207837 TATATATCGTGTAAATGTTTTAA
1 TATATATTATGTAAACGTTTT-A
*
125207860 TATTATATTATGTATACGTTTTA
1 TA-TATATTATGTAAACGTTTTA
125207883 TATATATTA
1 TATATATTA
125207892 CGAACATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 7 0.26
23 5 0.19
24 15 0.56
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.53
Consensus pattern (22 bp):
TATATATTATGTAAACGTTTTA
Found at i:125220207 original size:87 final size:88
Alignment explanation
Indices: 125220057--125220411 Score: 504
Period size: 87 Copynumber: 4.0 Consensus size: 88
125220047 TTCTGTTTTC
* *
125220057 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
*
125220122 CG-TTCTTCAATTTATGTTTCAA
66 TGCTTCTTCAATTTATGTTTCAA
125220144 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTACTTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTTCAATTT
*
125220208 CTG-TTTTTCAATTTATGCTTTTC-A
65 CTGCTTCTTCAATTTATG--TTTCAA
* *
125220232 AAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
* *
125220297 TGTTTCTGGTTTTCAACTTATATTTTTCAA
66 TG---CT--TCTTCAA-TT-TATGTTTCAA
125220327 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
*
125220392 TGCTT-TTCAATTTCTGTTTC
66 TGCTTCTTCAATTTATGTTTC
125220412 TCAATTTCTG
Statistics
Matches: 244, Mismatches: 11, Indels: 26
0.87 0.04 0.09
Matches are distributed among these distances:
87 82 0.34
88 67 0.27
89 9 0.04
90 1 0.00
92 3 0.01
94 11 0.05
95 68 0.28
96 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
TGCTTCTTCAATTTATGTTTCAA
Found at i:125220373 original size:95 final size:94
Alignment explanation
Indices: 125220127--125220639 Score: 565
Period size: 88 Copynumber: 5.6 Consensus size: 94
125220117 ATTTCCGTTC
125220127 TTCAATTTATG--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
*
125220190 CTGAGGTACTTTT-AA------TTTCTGTTT
65 CTGAGGTA-TTTTCAATTTTTGTTTCTGGTT
*
125220214 TTCAATTTATGCTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
125220279 TGAGGTATTTTCAATTTTTGTTTCTGGTT
66 TGAGGTATTTTCAATTTTTGTTTCTGGTT
* **
125220308 TTCAACTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
* *
125220373 CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTT
65 CTGAGGTATTTTCAATTTTTG--TTTC----T-GGTT
* * **
125220410 TCTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 T-TCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC-
**
125220474 TGCTGAGGTATTTTCAATTAATG--T-T--TT
64 -GCTGAGGTATTTTCAATTTTTGTTTCTGGTT
* *
125220501 TTCAATTTATGCTTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
*
125220565 TGAGATATTTTCAATTTTTG---C---TT
66 TGAGGTATTTTCAATTTTTGTTTCTGGTT
*
125220588 TACAAATTT-TGCTTTTC--AAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTC-AATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
125220640 TTTAATTTCT
Statistics
Matches: 378, Mismatches: 26, Indels: 46
0.84 0.06 0.10
Matches are distributed among these distances:
85 30 0.08
86 4 0.01
87 27 0.07
88 80 0.21
89 4 0.01
90 55 0.15
91 3 0.01
94 23 0.06
95 66 0.17
97 4 0.01
99 1 0.00
101 44 0.12
102 4 0.01
103 33 0.09
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (94 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
TGAGGTATTTTCAATTTTTGTTTCTGGTT
Found at i:125220429 original size:14 final size:14
Alignment explanation
Indices: 125220381--125220429 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
125220371 CGCTGAGGTA
*
125220381 TTTTCAATTTCTGC
1 TTTTCAATTTCTGT
125220395 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
125220409 TTCTCAATTTCTGT
1 TTTTCAATTTCTGT
125220423 TTTTCAA
1 TTTTCAA
125220430 AAATCAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.16, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:125220547 original size:90 final size:86
Alignment explanation
Indices: 125220395--125220639 Score: 316
Period size: 90 Copynumber: 2.8 Consensus size: 86
125220385 CAATTTCTGC
* * *
125220395 TTTTCAATTTCTGTTTCTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTATGTTTTTCAATTT-TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
125220460 AGCCTC-GGCTCACATGCTGAGGTA
65 AGCCTCAGG-GCAC--GCTGAGATA
* *
125220484 TTTTCAATTAATGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTT
1 TTTTCAATTTATG-TTTTTCAATTT-TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
125220549 GAGCCTCAGGGCACGCTGAGATA
64 GAGCCTCAGGGCACGCTGAGATA
* * *
125220572 TTTTCAATTTTTGCTTTACAAATTTTGCTTTTC-AAAA-CAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTATGTTTTTC-AATTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
125220635 AGCCT
65 AGCCT
125220640 TTTAATTTCT
Statistics
Matches: 140, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
85 30 0.21
86 4 0.03
87 12 0.09
88 24 0.17
89 11 0.08
90 57 0.41
91 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (86 bp):
TTTTCAATTTATGTTTTTCAATTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGGCACGCTGAGATA
Found at i:125220563 original size:191 final size:193
Alignment explanation
Indices: 125220198--125220588 Score: 567
Period size: 191 Copynumber: 2.0 Consensus size: 193
125220188 CGCTGAGGTA
*
125220198 CTTTTAATTTCTGTTTTTCAATTTATGCTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTT
1 CTTTTAATTTCTGTTTCTCAATTTATGCTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTT
* ** *
125220263 GAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTTTCTGGTTTTCAACTTATATTTTTCAAA
66 GAGCCTCGGCGCACGCTGAGGTATTTTCAATTAATG-TTCT-GTTTTCAACTTATACTTTTC-AA
* *
125220328 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCT
128 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTTCT
125220393 G
193 G
* *
125220394 CTTTTCAATTTCTGTTTCTCAATTTCTGTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGT
1 CTTTT-AATTTCTGTTTCTCAATTTATGCTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGT
* * *
125220458 TGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTAATG-T-T-TTTTCAATTTATGCTTTTC-A
65 TGAGCCTCGGCGCAC--GCTGAGGTATTTTCAATTAATGTTCTGTTTTCAACTTATACTTTTCAA
* *
125220519 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTTTT
128 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTTCT
125220584 G
193 G
125220585 CTTT
1 CTTT
125220589 ACAAATTTTG
Statistics
Matches: 178, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
191 67 0.38
193 16 0.09
195 1 0.01
196 44 0.25
197 30 0.17
198 20 0.11
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (193 bp):
CTTTTAATTTCTGTTTCTCAATTTATGCTTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCGGCGCACGCTGAGGTATTTTCAATTAATGTTCTGTTTTCAACTTATACTTTTCAAAAA
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTTCTG
Found at i:125220627 original size:175 final size:174
Alignment explanation
Indices: 125220052--125220639 Score: 683
Period size: 175 Copynumber: 3.2 Consensus size: 174
125220042 TTTATTTCTG
125220052 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACA-GCTGAGGTATTTTC
** *
125220116 AATTTCCG-TTCTTCAATTTATG-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64 AATTTATGTTTTTTCAATTTATGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
125220179 CTCGGGGCACGCTGAGGTACTTTT-AATTTCTGTTTTTCAATTTATGC
128 CTCGGGGCACGCTGAGGTA-TTTTCAATTTCTGCTTTACAATTTATGC
125220226 TTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC-GCTGAGGTATTTT
1 TTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCACAGCTGAGGTATTTT
*
125220290 CAATTTTTGTTTCTGGTTTTCAACTTATAT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
63 CAATTTATG--T-T--TTTTCAA-TT-TATGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTG
125220354 AGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTCTCAATTT
120 AGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGC-TTT--A-----------CAATTT
* *
125220419 CTGT
171 ATGC
125220423 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACA-GCTGAGGTATTTT
* *
125220488 CAATTAATGTTTTTTCAATTTATGCTTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAG
63 CAATTTATGTTTTTTCAATTTATG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
125220552 CCTCAGGGCACGCTGAGATATTTTCAATTTTTGCTTTACAAATTT-TGC
127 CCTCGGGGCACGCTGAGGTATTTTCAATTTCTGCTTTAC-AATTTATGC
125220600 TTTTC-AAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
125220640 TTTAATTTCT
Statistics
Matches: 365, Mismatches: 15, Indels: 67
0.82 0.03 0.15
Matches are distributed among these distances:
174 10 0.03
175 84 0.23
176 6 0.02
177 10 0.03
178 5 0.01
179 1 0.00
181 6 0.02
182 6 0.02
183 71 0.19
184 3 0.01
188 1 0.00
190 3 0.01
191 67 0.18
192 2 0.01
193 12 0.03
194 2 0.01
195 1 0.00
196 37 0.10
197 18 0.05
198 20 0.05
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (174 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACAGCTGAGGTATTTTCAA
TTTATGTTTTTTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
GGGGCACGCTGAGGTATTTTCAATTTCTGCTTTACAATTTATGC
Found at i:125220803 original size:88 final size:87
Alignment explanation
Indices: 125220646--125220883 Score: 259
Period size: 88 Copynumber: 2.7 Consensus size: 87
125220636 GCCTTTTAAT
* *
125220646 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTTACATGTCGAGG
1 TTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTCACATGTCGAGC
* * *
125220711 TATTTTCAAAATT-TGTTTTTCAAG
65 TATTTTC-AATTTCTGTTTCT-AAA
* * * *
125220735 TTCTGTTTTCAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGTG-CTGAG
1 TTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-TCACATGTC-GAG
125220798 CTATTTTCAATTTCTGTTTCTAAA
64 CTATTTTCAATTTCTGTTTCTAAA
* * * *
125220822 TGTCTGTTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTGA-ACTCAGGATCACATGTC
1 T-TCTGTTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-TCACATGTC
125220884 AAGTAAAGAA
Statistics
Matches: 124, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
87 10 0.08
88 74 0.60
89 39 0.31
90 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
TTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTCACATGTCGAGCT
ATTTTCAATTTCTGTTTCTAAA
Found at i:125221973 original size:8 final size:9
Alignment explanation
Indices: 125221950--125221984 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
125221940 ATATTTTTAA
125221950 AAAAAAATATT
1 AAAAAAA-A-T
125221961 AAAAAAAAT
1 AAAAAAAAT
125221970 AAAAAAAAT
1 AAAAAAAAT
125221979 AAAAAA
1 AAAAAA
125221985 TTTTACCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.67
10 1 0.04
11 7 0.29
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:125222079 original size:7 final size:7
Alignment explanation
Indices: 125222069--125222094 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
125222059 TGGCTCCGGG
125222069 CTCCCCT
1 CTCCCCT
125222076 CTCCCCT
1 CTCCCCT
125222083 CTCCCCT
1 CTCCCCT
125222090 CTCCC
1 CTCCC
125222095 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (7 bp):
CTCCCCT
Found at i:125222548 original size:3 final size:3
Alignment explanation
Indices: 125222542--125222613 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
125222532 TTCTTTAGTT
* * * *
125222542 TTA TTA TTT TTA TAA TT- TTA TCA TTA TTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
125222589 TTA TTA CTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA
125222614 GTATATACTC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:125229938 original size:29 final size:27
Alignment explanation
Indices: 125229880--125229939 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
125229870 TGTATATATA
*
125229880 TATATAATAATTTAAAATAAAAAGATG
1 TATATAATAATTTAAAATAAAAAGACG
*
125229907 TATATAA-AGATTTCAAAATAAATAATACG
1 TATATAATA-ATTT-AAAATAAA-AAGACG
125229936 TATA
1 TATA
125229940 ATAGTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 11 0.39
28 8 0.29
29 8 0.29
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (27 bp):
TATATAATAATTTAAAATAAAAAGACG
Found at i:125230020 original size:3 final size:3
Alignment explanation
Indices: 125230012--125230041 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
125230002 TATGTTCAAA
125230012 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
125230042 GTAAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:125230131 original size:3 final size:3
Alignment explanation
Indices: 125230120--125230368 Score: 149
Period size: 3 Copynumber: 83.3 Consensus size: 3
125230110 TGATGATAGC
* * *
125230120 AAT ACT 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
* *
125230164 AAT AAT AAT AAT ACATT AAT AAGT -AT AAT AAT AGT -AT ATT AAT AAT
1 AAT AAT AAT AAT A-A-T AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
125230210 AAC AAT AAT AGAA AAT AAT GAT AA- AAT AAT AAT AAT AAT AA- ACT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
125230254 AAGG AAT AAT AAT AAT ACT AAC AAT AAT -AT AAAT AAT AAT AAA AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * ** * * *
125230300 AAC AAG AGA- AAT AGC AAC AAT AAT AGT AAT AA- AAG AAT AA- AAGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
**
125230344 AAT AAT AAT AAT AGC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
125230369 GAATTAACAA
Statistics
Matches: 188, Mismatches: 39, Indels: 38
0.71 0.15 0.14
Matches are distributed among these distances:
2 15 0.08
3 158 0.84
4 13 0.07
5 2 0.01
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:125230390 original size:17 final size:19
Alignment explanation
Indices: 125230358--125230411 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 19
125230348 ATAATAATAG
*
125230358 CAATAATAATAGAATTAA-
1 CAATAATAATAAAATTAAT
125230376 CAATAA-AATAAAATTAAT
1 CAATAATAATAAAATTAAT
125230394 CAATTTTAATAATAAAAT
1 CAA---TAATAATAAAAT
125230412 AGAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.33
18 9 0.30
21 3 0.10
22 8 0.27
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (19 bp):
CAATAATAATAAAATTAAT
Found at i:125231024 original size:2 final size:2
Alignment explanation
Indices: 125230975--125231014 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
125230965 TTTTTACTCT
125230975 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
125231015 CACGTATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125233345 original size:30 final size:31
Alignment explanation
Indices: 125233292--125233349 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
125233282 ATAATATAAC
*
125233292 TATTTTTATATTGAAATTTAAAAAAAAAAGT
1 TATTTCTATATTGAAATTTAAAAAAAAAAGT
125233323 TATTTCTATATTGAAA-TTAAAAAAAAA
1 TATTTCTATATTGAAATTTAAAAAAAAA
125233350 TTAAACTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (31 bp):
TATTTCTATATTGAAATTTAAAAAAAAAAGT
Found at i:125236678 original size:26 final size:26
Alignment explanation
Indices: 125236642--125236777 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
125236632 ACATGAATTC
125236642 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
125236668 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125236694 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125236720 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125236746 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125236772 TTATCA
1 TTATCA
125236778 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:125240889 original size:25 final size:27
Alignment explanation
Indices: 125240852--125240904 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
125240842 TCAAACATGC
125240852 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
125240878 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
125240904 A
1 A
125240905 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:125248632 original size:40 final size:40
Alignment explanation
Indices: 125248587--125248753 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
125248577 CGGAATATAA
125248587 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
125248627 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
125248667 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
125248707 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
125248746 CCGGATAT
1 CCGGATAT
125248754 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:125249597 original size:17 final size:19
Alignment explanation
Indices: 125249574--125249619 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
125249564 AAGAAGCATG
125249574 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
125249592 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
125249610 AATCATGCTC
1 AATCATGCTC
125249620 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:125255638 original size:23 final size:23
Alignment explanation
Indices: 125255612--125255685 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
125255602 TAAATTTTAA
*
125255612 ATTTTGAATTATTTAGTAATAAT
1 ATTTAGAATTATTTAGTAATAAT
*
125255635 ATTTAGAATTATTTAATAATAAT
1 ATTTAGAATTATTTAGTAATAAT
* * *
125255658 ATTTAGGATTATTTAGTGATACT
1 ATTTAGAATTATTTAGTAATAAT
125255681 ATTTA
1 ATTTA
125255686 AGAAAAATCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTAATAAT
Found at i:125255639 original size:13 final size:13
Alignment explanation
Indices: 125255621--125255663 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
125255611 AATTTTGAAT
125255621 TATTTAGTAATAA
1 TATTTAGTAATAA
125255634 TATTTAG-AAT--
1 TATTTAGTAATAA
*
125255644 TATTTAATAATAA
1 TATTTAGTAATAA
125255657 TATTTAG
1 TATTTAG
125255664 GATTATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:125257944 original size:40 final size:40
Alignment explanation
Indices: 125257878--125258044 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
125257868 AAATTGAATG
* * *
125257878 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
125257917 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
125257957 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
125257997 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
125258037 ATATCCGG
1 ATATCCGG
125258045 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:125265046 original size:17 final size:18
Alignment explanation
Indices: 125265004--125265052 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
125264994 AGTTGAAAAG
125265004 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
125265023 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
125265040 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
125265053 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:125265938 original size:40 final size:40
Alignment explanation
Indices: 125265872--125266022 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
125265862 AAATTGAATG
* * *
125265872 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
125265911 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
125265951 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
125265991 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
125266023 ACTGATTATA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:125268047 original size:13 final size:13
Alignment explanation
Indices: 125268029--125268071 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
125268019 TAGATTTTTC
125268029 CTAAATATTATCA
1 CTAAATATTATCA
*
125268042 CTAAATA--GTC-
1 CTAAATATTATCA
125268052 CTAAATATTATCA
1 CTAAATATTATCA
125268065 CTAAATA
1 CTAAATA
125268072 ATTCTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:125268053 original size:23 final size:23
Alignment explanation
Indices: 125268027--125268103 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
125268017 GTTAGATTTT
*
125268027 TCCTAAATATTATCACTAAATAG
1 TCCTAAATATTATCACTAAATAA
125268050 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
* * * *
125268073 TTCTAAATATCATTACCAAATAA
1 TCCTAAATATTATCACTAAATAA
*
125268096 TTCTAAAT
1 TCCTAAAT
125268104 TTAAAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:125284293 original size:10 final size:10
Alignment explanation
Indices: 125284278--125284307 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
125284268 TATATATTTA
125284278 AAAATAATAT
1 AAAATAATAT
125284288 AAAATAATAT
1 AAAATAATAT
125284298 AAAATTAATA
1 AAAA-TAATA
125284308 CAGCAGGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATAATAT
Found at i:125286515 original size:17 final size:17
Alignment explanation
Indices: 125286493--125286528 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
125286483 ATATTGTATA
125286493 AATTTTATT-TTATTGTT
1 AATTTTATTATTATT-TT
125286510 AATTTTATTATTATTTT
1 AATTTTATTATTATTTT
125286527 AA
1 AA
125286529 AAGGCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
AATTTTATTATTATTTT
Found at i:125288826 original size:72 final size:73
Alignment explanation
Indices: 125288688--125288877 Score: 190
Period size: 72 Copynumber: 2.6 Consensus size: 73
125288678 AACCTGTAAT
* * * *
125288688 TCAGTGAATTAGATTGATCATTGATTCTTTATTCTGTTAATCAATAGAGGATAATTGGTAAACTG
1 TCAGTGAATTAGATAGATCATTGAGTCTTTATTCTGTTAATCAATAGAAGATAATTGATAAACTG
*
125288753 TAATTAAA
66 TAATCAAA
* ** * **
125288761 TC-GATGAATTAGATAAGATCATT-AGT-TTTATTCTTTTAATCAATAGAATTTGATTGATAGTC
1 TCAG-TGAATTAGAT-AGATCATTGAGTCTTTATTCTGTTAATCAATAGAAGATAATTGATAAAC
125288823 TGTAATCAAA
64 TGTAATCAAA
* * * *
125288833 TCAGTGAATTGGATTGATCATTGATTTCTTTTTTCTGTTAA-CAAT
1 TCAGTGAATTAGATAGATCATTGA-GTCTTTATTCTGTTAATCAAT
125288878 TCTATGATTA
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
71 7 0.07
72 50 0.53
73 20 0.21
74 18 0.19
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (73 bp):
TCAGTGAATTAGATAGATCATTGAGTCTTTATTCTGTTAATCAATAGAAGATAATTGATAAACTG
TAATCAAA
Found at i:125294223 original size:245 final size:245
Alignment explanation
Indices: 125293781--125294270 Score: 953
Period size: 245 Copynumber: 2.0 Consensus size: 245
125293771 TAGTAGCCAT
*
125293781 GTCCAATCCATGTCTCTTTGTAGGTATAGGATATGAGGATATGATCCTTCATCGACCTTCCAAAA
1 GTCCAATCCATGTCTCGTTGTAGGTATAGGATATGAGGATATGATCCTTCATCGACCTTCCAAAA
125293846 TTATGGAAATCTTGAAAAATAATTGATGACACCATATTCCCCTATAACCAACTCATATCAGAGTC
66 TTATGGAAATCTTGAAAAATAATTGATGACACCATATTCCCCTATAACCAACTCATATCAGAGTC
* *
125293911 CAAGTAACATAGCCCTTAATGATGCCATGCCTTTTCTGATCTTCTTTCTCCCCCGTAGATTATTT
131 CAAGTAACATAGCCCTTAATGATGCCATGCCTTTTCTGATCTTCTTTCTCCCCCATAGATGATTT
125293976 TGTTTTGAGTTCTTATAGTTTTCTGGAACTGGTTTCTTTTATGCTAAACA
196 TGTTTTGAGTTCTTATAGTTTTCTGGAACTGGTTTCTTTTATGCTAAACA
125294026 GTCCAATCCATGTCTCGTTGTAGGTATAGGATATGAGGATATGATCCTTCATCGACCTTCCAAAA
1 GTCCAATCCATGTCTCGTTGTAGGTATAGGATATGAGGATATGATCCTTCATCGACCTTCCAAAA
125294091 TTATGGAAATCTTGAAAAATAATTGATGACACCATATTCCCCTATAACCAACTCATATCAGAGTC
66 TTATGGAAATCTTGAAAAATAATTGATGACACCATATTCCCCTATAACCAACTCATATCAGAGTC
125294156 CAAGTAACATAGCCCTTAATGATGCCATGCCTTTTCTGATCTTCTTTCTCCCCCATAGATGATTT
131 CAAGTAACATAGCCCTTAATGATGCCATGCCTTTTCTGATCTTCTTTCTCCCCCATAGATGATTT
125294221 TGTTTTGAGTTCTTATAGTTTTCTGGAACTGGTTTCTTTTATGCTAAACA
196 TGTTTTGAGTTCTTATAGTTTTCTGGAACTGGTTTCTTTTATGCTAAACA
125294271 TTCAAATCAT
Statistics
Matches: 242, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
245 242 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (245 bp):
GTCCAATCCATGTCTCGTTGTAGGTATAGGATATGAGGATATGATCCTTCATCGACCTTCCAAAA
TTATGGAAATCTTGAAAAATAATTGATGACACCATATTCCCCTATAACCAACTCATATCAGAGTC
CAAGTAACATAGCCCTTAATGATGCCATGCCTTTTCTGATCTTCTTTCTCCCCCATAGATGATTT
TGTTTTGAGTTCTTATAGTTTTCTGGAACTGGTTTCTTTTATGCTAAACA
Found at i:125296084 original size:18 final size:19
Alignment explanation
Indices: 125296060--125296102 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
125296050 TTTAAATTTT
*
125296060 AAAAATGTAAA-TTTGTTA
1 AAAAATGTAAACTTTATTA
*
125296078 TAAAATGTAAACTTTATTA
1 AAAAATGTAAACTTTATTA
125296097 AAAAAT
1 AAAAAT
125296103 TCTATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (19 bp):
AAAAATGTAAACTTTATTA
Found at i:125296794 original size:23 final size:23
Alignment explanation
Indices: 125296749--125296802 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
125296739 GCTAGTAAAT
*
125296749 TTAATAAATAAATATTAATTATA
1 TTAATAAATAAATATTAAATATA
*
125296772 TTAATAATTAAAT-TTAAA-ATA
1 TTAATAAATAAATATTAAATATA
125296793 -TAA-AAATAAA
1 TTAATAAATAAA
125296803 AAATAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 6 0.21
20 3 0.11
21 3 0.11
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TTAATAAATAAATATTAAATATA
Found at i:125297036 original size:2 final size:2
Alignment explanation
Indices: 125297031--125297064 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
125297021 ATATTAAATA
125297031 AT AT 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 AT AT
125297065 TCTTAGAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125298608 original size:27 final size:27
Alignment explanation
Indices: 125298577--125298630 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
125298567 TTAGAGGGGA
125298577 TAGCTAGTAGCTTTAAGCATTTGTATT
1 TAGCTAGTAGCTTTAAGCATTTGTATT
125298604 TAGCTAGTAGCTTTAAGCATTTGTATT
1 TAGCTAGTAGCTTTAAGCATTTGTATT
125298631 CTGAGAGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (27 bp):
TAGCTAGTAGCTTTAAGCATTTGTATT
Found at i:125299488 original size:31 final size:30
Alignment explanation
Indices: 125299447--125299506 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
125299437 TATAAAATAA
*
125299447 TTATTAAATTATTCTAAAGTTTTTATTTAAG
1 TTATTAAATTATTCAAAAGTTTTT-TTTAAG
*
125299478 TTATTTAATTATTCAAAAGTTTTTTTTAA
1 TTATTAAATTATTCAAAAGTTTTTTTTAA
125299507 AACTATTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (30 bp):
TTATTAAATTATTCAAAAGTTTTTTTTAAG
Found at i:125303265 original size:12 final size:13
Alignment explanation
Indices: 125303248--125303280 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
125303238 GAAAGAAATA
125303248 AAAGGA-ATGAAT
1 AAAGGAGATGAAT
125303260 AAAGGAGATGAAT
1 AAAGGAGATGAAT
125303273 AAAAGGAG
1 -AAAGGAG
125303281 GGATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 6 0.32
14 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.30, T:0.12
Consensus pattern (13 bp):
AAAGGAGATGAAT
Found at i:125303279 original size:14 final size:14
Alignment explanation
Indices: 125303244--125303280 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
125303234 AAATGAAAGA
125303244 AATAAAAGGA-ATG
1 AATAAAAGGAGATG
125303257 AAT-AAAGGAGATG
1 AATAAAAGGAGATG
125303270 AATAAAAGGAG
1 AATAAAAGGAG
125303281 GGATAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 9 0.41
14 7 0.32
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.14
Consensus pattern (14 bp):
AATAAAAGGAGATG
Found at i:125305386 original size:14 final size:14
Alignment explanation
Indices: 125305351--125305387 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
125305341 AAATGAAGGA
*
125305351 AATAATAGGA-ATG
1 AATAAAAGGAGATG
125305364 AAT-AAAGGAGATG
1 AATAAAAGGAGATG
125305377 AATAAAAGGAG
1 AATAAAAGGAG
125305388 GGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.24
13 9 0.43
14 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (14 bp):
AATAAAAGGAGATG
Found at i:125307009 original size:15 final size:16
Alignment explanation
Indices: 125306989--125307042 Score: 76
Period size: 15 Copynumber: 3.5 Consensus size: 16
125306979 TATTTTTTTC
125306989 TATTA-TCATTGCTAT
1 TATTATTCATTGCTAT
125307004 TATTATTC-TTGCTAT
1 TATTATTCATTGCTAT
* *
125307019 TATTATTTATTGTTAT
1 TATTATTCATTGCTAT
125307035 TATTATTC
1 TATTATTC
125307043 CTATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 19 0.56
16 15 0.44
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTATTCATTGCTAT
Found at i:125307051 original size:15 final size:15
Alignment explanation
Indices: 125306989--125307057 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
125306979 TATTTTTTTC
*
125306989 TATTATCATTGCTAT
1 TATTATTATTGCTAT
*
125307004 TATTATTCTTGCTAT
1 TATTATTATTGCTAT
125307019 TATTATTTATTG---T
1 TATTA-TTATTGCTAT
*
125307032 TATTATTATTCCTAT
1 TATTATTATTGCTAT
*
125307047 TATTAATATTG
1 TATTATTATTG
125307058 TGTTTTGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
12 5 0.11
13 6 0.14
15 28 0.64
16 5 0.11
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (15 bp):
TATTATTATTGCTAT
Found at i:125307051 original size:31 final size:31
Alignment explanation
Indices: 125306996--125307056 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
125306986 TTCTATTATC
* * *
125306996 ATTGCTATTATTATTCTTGCTATTATTATTT
1 ATTGCTATTATTATTCCTACTATTAATATTT
* *
125307027 ATTGTTATTATTATTCCTATTATTAATATT
1 ATTGCTATTATTATTCCTACTATTAATATT
125307057 GTGTTTTGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (31 bp):
ATTGCTATTATTATTCCTACTATTAATATTT
Found at i:125307148 original size:3 final size:3
Alignment explanation
Indices: 125307140--125307220 Score: 153
Period size: 3 Copynumber: 26.7 Consensus size: 3
125307130 ATATATTTAC
125307140 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125307188 TAT TAT TAT TAT TAT TAT TAT TAT CTAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TA
125307221 GTAGTACTAG
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 74 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:125307349 original size:23 final size:24
Alignment explanation
Indices: 125307323--125307388 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 24
125307313 TTATCTCTAA
125307323 TATATGTATATATTGTATAT-GTT
1 TATATGTATATATTGTATATAGTT
* *
125307346 TATA--TATATATTATATATATTT
1 TATATGTATATATTGTATATAGTT
* *
125307368 TTTATGTTATTTATTGTATAT
1 TATATG-TATATATTGTATAT
125307389 TTCTTTACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 13 0.38
22 5 0.15
23 4 0.12
25 12 0.35
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (24 bp):
TATATGTATATATTGTATATAGTT
Found at i:125307520 original size:2 final size:2
Alignment explanation
Indices: 125307513--125307539 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
125307503 AATGCACGTG
125307513 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
125307540 CTTTTAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125319039 original size:42 final size:43
Alignment explanation
Indices: 125318980--125319088 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 43
125318970 AAAGAAAATC
**
125318980 AAGATAAAAACGTGAAAAGGGCATCTT-A-AAAAAAAAGAGATT
1 AAGATAAAAACCCGAAAAGGGCATCTTGATAAAAAAAAG-GATT
* * * * * *
125319022 AAGGTGAAAACCCGAAAATGGCGTCTTGATTAACACAAAGGATT
1 AAGATAAAAACCCGAAAAGGGCATCTTGA-TAAAAAAAAGGATT
125319066 AAGATAAAAACCCG-AAAGGGCAT
1 AAGATAAAAACCCGAAAAGGGCAT
125319089 TCTAATGAAG
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
42 21 0.40
43 8 0.15
44 16 0.31
45 7 0.13
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.17
Consensus pattern (43 bp):
AAGATAAAAACCCGAAAAGGGCATCTTGATAAAAAAAAGGATT
Found at i:125321902 original size:3 final size:3
Alignment explanation
Indices: 125321894--125322153 Score: 170
Period size: 3 Copynumber: 85.0 Consensus size: 3
125321884 TTTCATTACT
*
125321894 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
125321942 TCTA TTA TCA TTG CTA TTA TTA TTC TTG CTA TTA TTA TTTA TTG TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * * * ** *
125321989 TTA TTA TTC CTA TTA TTA ATA TTG TGTT TTG CCA TTTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA TTA
* * * * ** * *
125322036 TTA -TG TTA -TA TTTA GTTT TTT TTA TGTC TCG TTT TCTA CTA TTA -TA
1 TTA TTA TTA TTA -TTA -TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA
125322082 TGTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
125322127 TTA TTA TTA TTA TTA -TA TCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA
125322154 GTAGTACTAG
Statistics
Matches: 199, Mismatches: 44, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
2 9 0.05
3 170 0.85
4 20 0.10
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:125322282 original size:23 final size:24
Alignment explanation
Indices: 125322256--125322321 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 24
125322246 TTATCTCTAA
125322256 TATATGTATATATTGTATAT-GTT
1 TATATGTATATATTGTATATAGTT
* *
125322279 TATA--TATATATTATATATATTT
1 TATATGTATATATTGTATATAGTT
* *
125322301 TTTATGTTATTTATTGTATAT
1 TATATG-TATATATTGTATAT
125322322 TTCTTTACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 13 0.38
22 5 0.15
23 4 0.12
25 12 0.35
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (24 bp):
TATATGTATATATTGTATATAGTT
Found at i:125325194 original size:6 final size:6
Alignment explanation
Indices: 125325183--125325223 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
125325173 CATTAAGTCA
* * *
125325183 TTCCCT TTCCCT TTCCCT TTCCCC TTCCCG TTCCCG TTCCC
1 TTCCCT TTCCCT TTCCCT TTCCCT TTCCCT TTCCCT TTCCC
125325224 AATCCCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.54, G:0.05, T:0.41
Consensus pattern (6 bp):
TTCCCT
Found at i:125326472 original size:26 final size:26
Alignment explanation
Indices: 125326443--125326524 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
125326433 TGATACAAAT
125326443 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
125326469 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125326495 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125326521 TGAT
1 TGAT
125326525 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:125334813 original size:21 final size:21
Alignment explanation
Indices: 125334738--125334803 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
125334728 GTCTTGAATT
125334738 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
125334759 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
125334784 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
125334804 TAGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:125336380 original size:15 final size:14
Alignment explanation
Indices: 125336347--125336413 Score: 107
Period size: 14 Copynumber: 4.7 Consensus size: 14
125336337 CCAGAAAAGT
125336347 AAATCATTTTCCAG
1 AAATCATTTTCCAG
125336361 AAATCATTTTCCAGG
1 AAATCATTTTCCA-G
125336376 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
125336390 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
125336404 AAAACATTTT
1 AAATCATTTT
125336414 ACCTGCAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
14 36 0.72
15 14 0.28
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:125336380 original size:29 final size:28
Alignment explanation
Indices: 125336347--125336413 Score: 116
Period size: 29 Copynumber: 2.4 Consensus size: 28
125336337 CCAGAAAAGT
125336347 AAATCATTTTCCAGAAATCATTTTCCAGG
1 AAATCATTTTCCAGAAATCATTTTCC-GG
125336376 AAATCATTTTCCAGAAATCATTTTCCGG
1 AAATCATTTTCCAGAAATCATTTTCCGG
*
125336404 AAAACATTTT
1 AAATCATTTT
125336414 ACCTGCAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 11 0.30
29 26 0.70
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (28 bp):
AAATCATTTTCCAGAAATCATTTTCCGG
Found at i:125339277 original size:33 final size:33
Alignment explanation
Indices: 125339240--125339306 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
125339230 TAAAATTGAG
*
125339240 AAAGAAAATATCTTCTCTAATTTCTGAAAATAA
1 AAAGAAAATATCTTCTCTAATTTCGGAAAATAA
125339273 AAAGAAAATATCTTCTCTAATTTCGGAAAATAA
1 AAAGAAAATATCTTCTCTAATTTCGGAAAATAA
125339306 A
1 A
125339307 TTAAACGTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.31
Consensus pattern (33 bp):
AAAGAAAATATCTTCTCTAATTTCGGAAAATAA
Found at i:125342845 original size:40 final size:42
Alignment explanation
Indices: 125342755--125342845 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 42
125342745 TATTAATAAC
* *
125342755 TTAATTATTTTATTAACAAATTTATGCTTTTTACAATAGTTT
1 TTAAATATTTTATTAACAAATTTATACTTTTTACAATAGTTT
* *
125342797 TT-AA-ATTTTATTAACAAGTTTAATAC-TTTT-CTATA-TTT
1 TTAAATATTTTATTAACAAATTT-ATACTTTTTACAATAGTTT
125342835 TTAAATATTTT
1 TTAAATATTTT
125342846 TCATAATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
38 5 0.12
39 6 0.14
40 25 0.60
41 4 0.10
42 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (42 bp):
TTAAATATTTTATTAACAAATTTATACTTTTTACAATAGTTT
Found at i:125342846 original size:20 final size:20
Alignment explanation
Indices: 125342818--125342865 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
125342808 TAACAAGTTT
* *
125342818 AATACTTTTCTATATTTTTA-
1 AATATTTTTC-ATAATTTTAC
125342838 AATATTTTTCATAATTTTAC
1 AATATTTTTCATAATTTTAC
125342858 AAT-TTTTT
1 AATATTTTT
125342866 TTGTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (20 bp):
AATATTTTTCATAATTTTAC
Found at i:125342866 original size:20 final size:20
Alignment explanation
Indices: 125342818--125342884 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
125342808 TAACAAGTTT
* *
125342818 AATACTTTTCTATATTTTTA
1 AATATTTTTCTATAATTTTA
125342838 AATATTTTTC-ATAATTTTA
1 AATATTTTTCTATAATTTTA
* *
125342857 CAAT-TTTTTTTGTAATTTATA
1 -AATATTTTTCTATAATTT-TA
*
125342878 TATATTT
1 AATATTT
125342885 ATGTTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 13 0.34
20 20 0.53
21 5 0.13
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (20 bp):
AATATTTTTCTATAATTTTA
Found at i:125343112 original size:16 final size:17
Alignment explanation
Indices: 125343077--125343115 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
125343067 TCTTTTTAAC
125343077 TTTAA-AAATTAAATAG
1 TTTAATAAATTAAATAG
*
125343093 TTTAATAAATTAAA-AT
1 TTTAATAAATTAAATAG
125343109 TTTAATA
1 TTTAATA
125343116 TTCAGTAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAATAAATTAAATAG
Done.