Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 49 of 125
Found at i:15066937 original size:2 final size:2
Alignment explanation
Indices: 15066930--15067066 Score: 274
Period size: 2 Copynumber: 68.5 Consensus size: 2
15066920 GTGTGCATGT
15066930 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15066972 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15067014 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15067056 GA GA GA GA GA G
1 GA GA GA GA GA G
15067067 GGAGGGTGTA
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 135 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15070229 original size:5 final size:5
Alignment explanation
Indices: 15070219--15070243 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15070209 ATATCTTATA
15070219 TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT
15070244 ATGTAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:15074986 original size:4 final size:4
Alignment explanation
Indices: 15074979--15075010 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
15074969 AATAAATATT
15074979 ATTA ATTA ATTAA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATT-A ATTA ATTA ATTA ATTA ATT
15075011 TTTCAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:15080934 original size:20 final size:20
Alignment explanation
Indices: 15080909--15080948 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15080899 GCTCTATGAG
15080909 ATATAGGATCTAGCATCAAT
1 ATATAGGATCTAGCATCAAT
15080929 ATATAGGATCTAGCATCAAT
1 ATATAGGATCTAGCATCAAT
15080949 CTTATGCCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
ATATAGGATCTAGCATCAAT
Found at i:15089628 original size:30 final size:30
Alignment explanation
Indices: 15089586--15089659 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
15089576 ACGCTCAGGG
15089586 CACAC-ACTCATGTGGGCTAGCT-GTGAGTGA
1 CACACGAC-CATGTGGG-TAGCTCGTGAGTGA
* * *
15089616 CACACGCCCATGTGGGTTGGTCGTGAGTGA
1 CACACGACCATGTGGGTAGCTCGTGAGTGA
15089646 CACACGACCATGTG
1 CACACGACCATGTG
15089660 ACAGACGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 3 0.08
30 34 0.89
31 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.22
Consensus pattern (30 bp):
CACACGACCATGTGGGTAGCTCGTGAGTGA
Found at i:15100872 original size:29 final size:30
Alignment explanation
Indices: 15100850--15100917 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
15100840 AAAAATGAAC
*
15100850 TTTTAGAGAA-TTTA-GGGTTAAAATATAA
1 TTTTAGAAAATTTTAGGGGTTAAAATATAA
* **
15100878 TTTTGGAAAATTTTAGGGGTTAAAAGGTAA
1 TTTTAGAAAATTTTAGGGGTTAAAATATAA
15100908 TTTTATGAAA
1 TTTTA-GAAA
15100918 GCTTGGGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 8 0.25
29 4 0.12
30 16 0.50
31 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (30 bp):
TTTTAGAAAATTTTAGGGGTTAAAATATAA
Found at i:15100960 original size:29 final size:28
Alignment explanation
Indices: 15100923--15101139 Score: 141
Period size: 30 Copynumber: 7.4 Consensus size: 28
15100913 TGAAAGCTTG
* * * *
15100923 GGGTTAAAATGAGATTTAAGGAAGGTTTA
1 GGGTCAAAATGTGATTT-TGGAAGATTTA
* *
15100952 GGATCAAAACGTGATTTTGGGAA-ATTTA
1 GGGTCAAAATGTGATTTT-GGAAGATTTA
*
15100980 GGGTCAAAATGTGATTTTGGAAATGATTAA
1 GGGTCAAAATGTGATTTTGG-AA-GATTTA
* * *
15101010 GGGTGAAAATGGGATTTTGGAAAGGTTTGA
1 GGGTCAAAATGTGATTTTGG-AAGATTT-A
* *
15101040 GGATCAAAATGTGATTTTATGGAAGTTTTA
1 GGGTCAAAATGTGA-TTT-TGGAAGATTTA
* * *
15101070 GGGTTAAAATGTAATTTT-AAAGAAGTTTA
1 GGGTCAAAATGTGATTTTGGAAG-A-TTTA
* * *
15101099 GGGGTTAAAATGTAATTTTGGAAAAATTTA
1 -GGGTCAAAATGTGATTTTGG-AAGATTTA
15101129 GGGGTCAAAAT
1 -GGGTCAAAAT
15101140 ACAATTTTAG
Statistics
Matches: 151, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
27 5 0.03
28 23 0.15
29 27 0.18
30 81 0.54
31 10 0.07
32 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (28 bp):
GGGTCAAAATGTGATTTTGGAAGATTTA
Found at i:15101109 original size:60 final size:61
Alignment explanation
Indices: 15101045--15101179 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 61
15101035 TTTGAGGATC
** * ** *
15101045 AAAATGTGATTTTATGG-AAGTTTTA-GGGTTAAAATGTAATTTTAAAGAAGTTTAGGGGTT
1 AAAATGTGATTTT-TGGAAAAATTTAGGGGTCAAAATACAATTTTAAAGAAGTTTAAGGGTT
* *
15101105 AAAATGT-AATTTTGGAAAAATTTAGGGGTCAAAATACAATTTTAGAGAAGTTTAAGGGTT
1 AAAATGTGATTTTTGGAAAAATTTAGGGGTCAAAATACAATTTTAAAGAAGTTTAAGGGTT
* *
15101165 AAGATATGATTTTTG
1 AAAATGTGATTTTTG
15101180 AAACGTTCGA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
58 3 0.05
59 10 0.16
60 42 0.69
61 6 0.10
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (61 bp):
AAAATGTGATTTTTGGAAAAATTTAGGGGTCAAAATACAATTTTAAAGAAGTTTAAGGGTT
Found at i:15102688 original size:15 final size:16
Alignment explanation
Indices: 15102657--15102690 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15102647 GGTCATGTAA
15102657 TTGGGCTTGTCTGGGT
1 TTGGGCTTGTCTGGGT
*
15102673 TTGGGTTTGT-TGGGT
1 TTGGGCTTGTCTGGGT
15102688 TTG
1 TTG
15102691 TAATTGGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.06, G:0.44, T:0.50
Consensus pattern (16 bp):
TTGGGCTTGTCTGGGT
Found at i:15103494 original size:160 final size:160
Alignment explanation
Indices: 15103214--15103562 Score: 529
Period size: 160 Copynumber: 2.2 Consensus size: 160
15103204 TTACTTCAAC
* * * *
15103214 CCACTTCACTGTATCTCATCAAGAAGATGGGATTTGAAGTCTCATTCATATTGAGCTTTGTTTCG
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGATTTGAAGTCTCATTCATATTAAGCTTCGTTTCA
* * * * *
15103279 CTGATTTGGTATACTTCTCTGTATCTCATCAGGAAGATAACTGTTTCATTGATTTAATCTACCTC
66 CTGATTTGGTAGACTTCTCTGTATCTCATCAGGAAGATAACCGCTTCAATGATTTAATCCACCTC
*
15103344 TCTATATCTCATCAAG-AAGACGGATTTGGT
131 TCTATATCTCAT-AAGAAAGACAGATTTGGT
* *
15103374 CCACTTCTCTGTATCTCATCAGGAAGATGGGATTTGAAGTCTCATTCGTATTAAGCTTCGTTTCA
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGATTTGAAGTCTCATTCATATTAAGCTTCGTTTCA
* * * *
15103439 TTGATTTGGTAGACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCAATGATTTAATCCGCTTC
66 CTGATTTGGTAGACTTCTCTGTATCTCATCAGGAAGATAACCGCTTCAATGATTTAATCCACCTC
*
15103504 TCTGTATCTCATAAGAAAGACAGATTTGGT
131 TCTATATCTCATAAGAAAGACAGATTTGGT
15103534 CCACTTCTCTGTATCTCATCAAGAAGATG
1 CCACTTCTCTGTATCTCATCAAGAAGATG
15103563 ACCACTTTAT
Statistics
Matches: 170, Mismatches: 18, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
159 3 0.02
160 167 0.98
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (160 bp):
CCACTTCTCTGTATCTCATCAAGAAGATGGGATTTGAAGTCTCATTCATATTAAGCTTCGTTTCA
CTGATTTGGTAGACTTCTCTGTATCTCATCAGGAAGATAACCGCTTCAATGATTTAATCCACCTC
TCTATATCTCATAAGAAAGACAGATTTGGT
Found at i:15103553 original size:85 final size:85
Alignment explanation
Indices: 15103441--15103600 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
15103431 TCGTTTCATT
* * * * *
15103441 GATTTGGTAGACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCAATGATTTAATCCGCTTCTC
1 GATTTGGTACACTTCTCTGTATCTCATCAAGAAGATGACCACTTCAATGATTTAATCCACTTCCC
15103506 TGTATCTCATAAGAAAGACA
66 TGTATCTCATAAGAAAGACA
* * * * *
15103526 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGATCCACTTCCC
1 GATTTGGTACACTTCTCTGTATCTCATCAAGAAGATGACCACTTCAATGATTTAATCCACTTCCC
15103591 TGTATCTCAT
66 TGTATCTCAT
15103601 CAGGAAGATG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (85 bp):
GATTTGGTACACTTCTCTGTATCTCATCAAGAAGATGACCACTTCAATGATTTAATCCACTTCCC
TGTATCTCATAAGAAAGACA
Found at i:15103686 original size:209 final size:208
Alignment explanation
Indices: 15103368--15103786 Score: 615
Period size: 209 Copynumber: 2.0 Consensus size: 208
15103358 AGAAGACGGA
* * *
15103368 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGGGATTTGAAGTCTCATTCGTATTAAGCTTC
1 TTTGATCCACTTCCCTGTATCTCATCAGGAAGATGGGATTTAAAGTCTCATTCGTATTAAGCTTC
* * *
15103433 GTTTCATTGATTTGGTAGACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCAATGATTTAATC
66 GCTTCATTGATTTGGTAGACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCAATGATTTAATC
* *
15103498 CGCTTCTCTGTATCTCATAAGAAAGACAGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATG
131 CACTTCTCTGTATCTCATAAGAAAGACAGATTTGGTCCACTTCTCTGCATCTCATCAAGAAGATG
15103563 ACCACTTTATTGC
196 ACCACTTTATTGC
* *
15103576 TTTGATCCACTTCCCTGTATCTCATCAGGAAGATGGGTGTTTAAAGTCTCATTCGTATTGAGCTT
1 TTTGATCCACTTCCCTGTATCTCATCAGGAAGATGGG-ATTTAAAGTCTCATTCGTATTAAGCTT
* * * *
15103641 CGCTTCGTTGATTTGGTTTG-CTTCTTTGTATCTCATCAAGAAGATGACCGCCTCATTGATTTAA
65 CGCTTCATTGATTTGG-TAGACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCAATGATTTAA
* * * * ** * *
15103705 TCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCGTTTCTCTGCATTTCGTCAAGAAGA
129 TCCACTTCTCTGTATCTCATAAGAAAGACAGATTTGGTCCACTTCTCTGCATCTCATCAAGAAGA
15103770 TGACCACTTTATTGC
194 TGACCACTTTATTGC
15103785 TT
1 TT
15103787 CGGATGACTG
Statistics
Matches: 187, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
208 35 0.19
209 150 0.80
210 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (208 bp):
TTTGATCCACTTCCCTGTATCTCATCAGGAAGATGGGATTTAAAGTCTCATTCGTATTAAGCTTC
GCTTCATTGATTTGGTAGACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCAATGATTTAATC
CACTTCTCTGTATCTCATAAGAAAGACAGATTTGGTCCACTTCTCTGCATCTCATCAAGAAGATG
ACCACTTTATTGC
Found at i:15104001 original size:50 final size:49
Alignment explanation
Indices: 15103931--15104089 Score: 151
Period size: 50 Copynumber: 3.2 Consensus size: 49
15103921 CGTCGTTACG
* * * *
15103931 GCCTCAATCC-TTCCCATCATATCTTCTAAAGTATCGGGTTCGCCATTGCA
1 GCCTCAA-CCTTTCTCATCATATCTT-TAAGGTACCGGGTTCGCCGTTGCA
* * ** *
15103981 GCCTCAACCTTTC-CTTTCATATCTTTATGGTACCGGGTTCGTTGTTACA
1 GCCTCAACCTTTCTC-ATCATATCTTTAAGGTACCGGGTTCGCCGTTGCA
* * * *
15104030 GCCTAAACCTTTCTCATCACATTTTTTAAGGTACCGGGTTCGCCGTTGCG
1 GCCTCAACCTTTCTCATCATA-TCTTTAAGGTACCGGGTTCGCCGTTGCA
15104080 GCCTCAACCT
1 GCCTCAACCT
15104090 AGGTTCGTCG
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
49 36 0.41
50 51 0.59
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (49 bp):
GCCTCAACCTTTCTCATCATATCTTTAAGGTACCGGGTTCGCCGTTGCA
Found at i:15104048 original size:99 final size:99
Alignment explanation
Indices: 15103862--15104089 Score: 260
Period size: 99 Copynumber: 2.3 Consensus size: 99
15103852 TTTTCTTAAG
* * * *
15103862 GTATTGGGTTCGTCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGATGCTAGATTCGTCGT
1 GTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGATACCAGATTCGTCGT
* * *
15103927 TACGGCCTCAATCCTTCCCATCATATCTTCTAAA
66 TACAGCCTCAAACCTTCCCATCACATCTTCTAAA
* * * * * * *
15103961 GTATCGGGTTCGCCATTGCAGCCTCAACCTTTCCTTTCATATCTTTATGGTACCGGGTTCGTTGT
1 GTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGATACCAGATTCGTCGT
* * * *
15104026 TACAGCCT-AAACCTTTCTCATCACATTTTTTAAG
66 TACAGCCTCAAACC-TTCCCATCACATCTTCTAAA
* *
15104060 GTACCGGGTTCGCCGTTGCGGCCTCAACCT
1 GTATCGGGTTCGCCATTGCGGCCTCAACCT
15104090 AGGTTCGTCG
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 4 0.04
99 103 0.96
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.36
Consensus pattern (99 bp):
GTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGATACCAGATTCGTCGT
TACAGCCTCAAACCTTCCCATCACATCTTCTAAA
Found at i:15104101 original size:25 final size:25
Alignment explanation
Indices: 15104066--15104114 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15104056 TAAGGTACCG
15104066 GGTTCGCCGTTGCGGCCTCAACCTA
1 GGTTCGCCGTTGCGGCCTCAACCTA
* *
15104091 GGTTCGTCGTTGTGGCCTCAACCT
1 GGTTCGCCGTTGCGGCCTCAACCT
15104115 TTCCCTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.10, C:0.33, G:0.29, T:0.29
Consensus pattern (25 bp):
GGTTCGCCGTTGCGGCCTCAACCTA
Found at i:15104163 original size:49 final size:48
Alignment explanation
Indices: 15104104--15104426 Score: 299
Period size: 49 Copynumber: 6.6 Consensus size: 48
15104094 TCGTCGTTGT
* *
15104104 GGCCTCAACCTTTCCCTTTAAATATTCATGGTACCGGGTTCACCGTTGC
1 GGCCTCAACCTTTCCCTTCAAAT-TTCATGGTACCGGGTTCACCATTGC
* * * * **
15104153 GTCCTCAACCTTTTCCATCACATTTCATGGTACCGAATTCACCATTGC
1 GGCCTCAACCTTTCCCTTCAAATTTCATGGTACCGGGTTCACCATTGC
* * * * * * *
15104201 AGCCTCAATCTTTCCCATCACATATTTTGA-GGTACTGGGTTCGCCATTAC
1 GGCCTCAACCTTTCCCTTCA-A-A-TTTCATGGTACCGGGTTCACCATTGC
* * * *
15104251 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACAGGATTCGCCGTTGC
1 GGCCTCAACCTTTCCCTTCAAAT-TTCATGGTACCGGGTTCACCATTGC
* * * **
15104300 GGCCTCAATCTTTCCCATCATATTTC-TGAGGTACCGGGTTCACCATCAC
1 GGCCTCAACCTTTCCCTTCAAATTTCAT--GGTACCGGGTTCACCATTGC
* * *
15104349 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGT
1 GGCCTCAACCTTTCCCTTCAAAT-TTCATGGTACCGGGTTCACCATTGC
*
15104398 GGCCTCAACCTTTCCCTTCATATCTTCAT
1 GGCCTCAACCTTTCCCTTCAAAT-TTCAT
15104427 AGTTTCTCAA
Statistics
Matches: 220, Mismatches: 45, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.01
48 45 0.20
49 132 0.60
50 36 0.16
51 5 0.02
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (48 bp):
GGCCTCAACCTTTCCCTTCAAATTTCATGGTACCGGGTTCACCATTGC
Found at i:15104332 original size:98 final size:97
Alignment explanation
Indices: 15104133--15104420 Score: 371
Period size: 98 Copynumber: 2.9 Consensus size: 97
15104123 AAATATTCAT
* ** * * * * * * *
15104133 GGTACCGGGTTCACCGTTGCGTCCTCAACCTTTTCCATCACAT-TTCATGGTACCGAATTCACCA
1 GGTACCGGGTTCACCATCACGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGATTCGCCG
*
15104197 TTGCAGCCTCAATCTTTCCCATCACATATTTTGA
66 TTGCGGCCTCAATCTTTCCCAT--CATATTTTGA
* * * *
15104231 GGTACTGGGTTCGCCATTACGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACAGGATTCGCCG
1 GGTACCGGGTTCACCATCACGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGATTCGCCG
15104296 TTGCGGCCTCAATCTTTCCCATCATATTTCTGA
66 TTGCGGCCTCAATCTTTCCCATCATATTT-TGA
*
15104329 GGTACCGGGTTCACCATCACGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCG
1 GGTACCGGGTTCACCATCACGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGATTCGCCG
* * *
15104394 TTGTGGCCTCAACCTTTCCCTTCATAT
66 TTGCGGCCTCAATCTTTCCCATCATAT
15104421 CTTCATAGTT
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
97 7 0.04
98 122 0.73
99 38 0.23
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (97 bp):
GGTACCGGGTTCACCATCACGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGATTCGCCG
TTGCGGCCTCAATCTTTCCCATCATATTTTGA
Found at i:15104382 original size:147 final size:147
Alignment explanation
Indices: 15104104--15104426 Score: 391
Period size: 147 Copynumber: 2.2 Consensus size: 147
15104094 TCGTCGTTGT
* * * * * *
15104104 GGCCTCAACCTTTCCCTTTAAATATTCATGGTACCGGGTTCACCGTTGCGTCCTCAACCTTTTCC
1 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACAGGATTCACCGTTGCGGCCTCAACCTTTCCC
** * * *
15104169 ATCACATTTCATGGTACCGAATTCACCATTGCAGCCTCAATCTTTCCCATCACATATTTTGAGGT
66 ATCACATTTCATGGTACCGAATTCACCATCACAGCCTCAACCTTTCCCATCACATATCTTCAGGT
*
15104234 ACTGGGTTCGCCATTAC
131 ACCGGGTTCGCCATTAC
* *
15104251 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACAGGATTCGCCGTTGCGGCCTCAATCTTTCCC
1 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACAGGATTCACCGTTGCGGCCTCAACCTTTCCC
* ** * *
15104316 ATCATATTTC-TGAGGTACCGGGTTCACCATCACGGCCTCAACCTTTCCCTTCA-A-ATCTTCAT
66 ATCACATTTCAT--GGTACCGAATTCACCATCACAGCCTCAACCTTTCCCATCACATATCTTCA-
* **
15104378 GGTACCGGGTTCGCCGTTGT
128 GGTACCGGGTTCGCCATTAC
*
15104398 GGCCTCAACCTTTCCCTTCATATCTTCAT
1 GGCCTCAACCTTTCCCTTCAAATCTTCAT
15104427 AGTTTCTCAA
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
146 6 0.04
147 111 0.74
148 33 0.22
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (147 bp):
GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACAGGATTCACCGTTGCGGCCTCAACCTTTCCC
ATCACATTTCATGGTACCGAATTCACCATCACAGCCTCAACCTTTCCCATCACATATCTTCAGGT
ACCGGGTTCGCCATTAC
Found at i:15111182 original size:60 final size:60
Alignment explanation
Indices: 15111020--15111254 Score: 219
Period size: 59 Copynumber: 4.0 Consensus size: 60
15111010 GTTAAAATGT
* * * * * **
15111020 GATTTT-GAGGAAGTTT-GGGGTTAAAATGTAATTTTGGAAAAGATT-GAGGGTGAAAATGG
1 GATTTTAGA-GAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAG-GGGTCAAAATAC
* * * * * * *
15111079 GATTTTGGAAAAGTATAA-GGTGAAAATGTGATTTAAGAAAAGTTTAGGTGTCAAAATAC
1 GATTTTAGAGAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATAC
*
15111138 GATTTTAGTGAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATAC
1 GATTTTAGAGAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATAC
* * * ** * *
15111198 AATTCTAAAGAAGTTTGGGGGTC-AAATGTGATTTTTGAAAAGTTTAGGGGTCAAAAT
1 GATTTTAGAGAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAAT
15111255 GAAATTTTGG
Statistics
Matches: 144, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
59 87 0.60
60 57 0.40
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.32
Consensus pattern (60 bp):
GATTTTAGAGAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATAC
Found at i:15111190 original size:30 final size:30
Alignment explanation
Indices: 15110897--15111262 Score: 193
Period size: 30 Copynumber: 12.4 Consensus size: 30
15110887 AAAGGGCTCA
* *
15110897 AAAAT-TAAGTTTTAGAGAA-TTTA-GGGTT
1 AAAATGTAA-TTTTAGAAAAGTTTAGGGGTC
* * *
15110925 AAAATGTAATTTTAGAAGAA--TTCGAGGATT
1 AAAATGTAATTTTAGAA-AAGTTTAG-GGGTC
* * *
15110955 AAAAGGCAATTTTATG-AAAGTTT-GGGGTT
1 AAAATGTAATTTTA-GAAAAGTTTAGGGGTC
** * * * *
15110984 AAAATGGGATTTTAGGAAGGTTTA-TGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* * *
15111013 AAAATGTGATTTT-GAGGAAGTTT-GGGGTT
1 AAAATGTAATTTTAGA-AAAGTTTAGGGGTC
* * *
15111042 AAAATGTAATTTTGGAAAAGATT-GAGGGTG
1 AAAATGTAATTTTAGAAAAGTTTAG-GGGTC
** * * * *
15111072 AAAATGGGATTTTGGAAAAGTATA-AGGTG
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* * *
15111101 AAAATGTGATTTAAGAAAAGTTTAGGTGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
*** ** *
15111131 AAAATACGATTTTAGTGAAGTTTAAGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
15111161 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
** * *
15111191 AAAATACAATTCTA-AAGAAGTTTGGGGGTC
1 AAAATGTAATTTTAGAA-AAGTTTAGGGGTC
* *
15111221 -AAATGTGATTTTTGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
*
15111250 AAAATGAAATTTT
1 AAAATGTAATTTT
15111263 GGAACAAAAT
Statistics
Matches: 263, Mismatches: 57, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
28 16 0.06
29 117 0.44
30 127 0.48
31 3 0.01
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTC
Found at i:15117439 original size:26 final size:27
Alignment explanation
Indices: 15117410--15117513 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
15117400 AACTTTTGTA
* *
15117410 ACAAAGAC-ATTCCTTCATATTTCTCC
1 ACAAAGACTACTCTTTCATATTTCTCC
* *
15117436 ACAAAGGCTACTCTTTCATATTTCGCC
1 ACAAAGACTACTCTTTCATATTTCTCC
* * *
15117463 A-AAAGGCTACTCTTTCATATTTCACT
1 ACAAAGACTACTCTTTCATATTTCTCC
*
15117489 AAAAAGACTACTCTTTCATATTTCT
1 ACAAAGACTACTCTTTCATATTTCT
15117514 GGCGAGTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 31 0.46
27 37 0.54
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.37
Consensus pattern (27 bp):
ACAAAGACTACTCTTTCATATTTCTCC
Found at i:15117455 original size:27 final size:26
Alignment explanation
Indices: 15117423--15117513 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 26
15117413 AAGACATTCC
15117423 TTCATATTTCTCCACAAAGGCTACTCT
1 TTCATATTTCTCCA-AAAGGCTACTCT
*
15117450 TTCATATTTCGCCAAAAGGCTACTCT
1 TTCATATTTCTCCAAAAGGCTACTCT
* * *
15117476 TTCATATTTCACTAAAAAGACTACTCT
1 TTCATATTTCTC-CAAAAGGCTACTCT
15117503 TTCATATTTCT
1 TTCATATTTCT
15117514 GGCGAGTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 23 0.40
27 35 0.60
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.40
Consensus pattern (26 bp):
TTCATATTTCTCCAAAAGGCTACTCT
Found at i:15119083 original size:50 final size:50
Alignment explanation
Indices: 15119021--15119219 Score: 202
Period size: 50 Copynumber: 4.0 Consensus size: 50
15119011 TCACACATAC
* * **
15119021 GAACAGAGTCTACCTTAAGTTGCAAGGTTGGTTTGTTAAACAGAAAACAT
1 GAACAGAGTCTACCTTAGGTTGCAAGATTGGTTCATTAAACAGAAAACAT
* * * ** *
15119071 GAATAGAGTCTACCTTAGGTTGGAAGATCGGTTCAATT-AGTAGAAAACAC
1 GAACAGAGTCTACCTTAGGTTGCAAGATTGGTTC-ATTAAACAGAAAACAT
* * * * * *
15119121 GAACCGGGTCTGCCTTAGGTCGCAAGACTGGTTCATTAAATAGAAAACAT
1 GAACAGAGTCTACCTTAGGTTGCAAGATTGGTTCATTAAACAGAAAACAT
* * * *
15119171 GAACAGAGTCTGCCTTAGGTAGCAAGATTGGTTCGTTAAACATAAAACA
1 GAACAGAGTCTACCTTAGGTTGCAAGATTGGTTCATTAAACAGAAAACA
15119220 CAAAGTCTGC
Statistics
Matches: 120, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.03
50 115 0.96
51 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
GAACAGAGTCTACCTTAGGTTGCAAGATTGGTTCATTAAACAGAAAACAT
Found at i:15119264 original size:46 final size:46
Alignment explanation
Indices: 15119128--15119266 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 46
15119118 CACGAACCGG
* * * *
15119128 GTCTGCCTTAGGTCGCAAGACTGGTTCATTAAATAGAAAACATGAACAGA
1 GTCTGCCTTAGGTCACAAGATTGGTTGATTAAATAGAAAAC----ACAAA
* *
15119178 GTCTGCCTTAGGT-AGCAAGATTGGTTCG-TTAAACATAAAACACAAA
1 GTCTGCCTTAGGTCA-CAAGATTGGTT-GATTAAATAGAAAACACAAA
*
15119224 GTCTGCCTTAGGTCACAAGATTGGCTTGATT-AGTAGAAAACAC
1 GTCTGCCTTAGGTCACAAGATTGG-TTGATTAAATAGAAAACAC
15119267 GAATAGGGTC
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
46 36 0.48
47 5 0.07
50 34 0.45
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (46 bp):
GTCTGCCTTAGGTCACAAGATTGGTTGATTAAATAGAAAACACAAA
Found at i:15119294 original size:146 final size:149
Alignment explanation
Indices: 15119021--15119294 Score: 340
Period size: 146 Copynumber: 1.9 Consensus size: 149
15119011 TCACACATAC
* * *
15119021 GAACAGAGTCTACCTTAAGTTGCAAGGTTGGTTTGTTAAACAGAAAACATGAATAGAGTCTACCT
1 GAACAGAGTCTACCTTAAGTAGCAAGATTGGTTCGTTAAACAGAAAACA-GAATAGAGTCTACCT
*** * *
15119086 TAGGTTGGAAGATCGGTTCAATTAGTAGAAAACACGAACCGGGTCTGCCTTAGGTCGCAAGACTG
65 TAGGTCACAAGATCGGTTCAATTAGTAGAAAACACGAACAGGGTCTGCCTTAGGTCGAAAGACTG
15119151 GTTCATTAAATAGAAAACAT
130 GTTCATTAAATAGAAAACAT
* * * * *
15119171 GAACAGAGTCTGCCTTAGGTAGCAAGATTGGTTCGTTAAACATAAAACA-CA-A-AGTCTGCCTT
1 GAACAGAGTCTACCTTAAGTAGCAAGATTGGTTCGTTAAACAGAAAACAGAATAGAGTCTACCTT
* * * * *
15119233 AGGTCACAAGATTGGCTT-GATTAGTAGAAAACACGAATAGGGTCTGCTTTAGGTTGAAAGAC
66 AGGTCACAAGATCGG-TTCAATTAGTAGAAAACACGAACAGGGTCTGCCTTAGGTCGAAAGAC
15119295 CAATTTGGTT
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
146 58 0.55
147 3 0.03
148 1 0.01
150 43 0.41
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (149 bp):
GAACAGAGTCTACCTTAAGTAGCAAGATTGGTTCGTTAAACAGAAAACAGAATAGAGTCTACCTT
AGGTCACAAGATCGGTTCAATTAGTAGAAAACACGAACAGGGTCTGCCTTAGGTCGAAAGACTGG
TTCATTAAATAGAAAACAT
Found at i:15137981 original size:18 final size:18
Alignment explanation
Indices: 15137958--15137993 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15137948 TTTTTCGAAT
15137958 TTCGAAT-AACTCGAATAA
1 TTCGAATAAACT-GAATAA
15137976 TTCGAATAAACTGAATAA
1 TTCGAATAAACTGAATAA
15137994 AACTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (18 bp):
TTCGAATAAACTGAATAA
Found at i:15138176 original size:34 final size:34
Alignment explanation
Indices: 15138133--15138205 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
15138123 AAACTAAACT
* *
15138133 CAAATATTTTTAGCTTTTTACCTTTCATCTTACC
1 CAAATATTTTTAACTTTTTACCTTTCACCTTACC
* * *
15138167 CAAATATTTTTAATTTTTTACTTTTTACCTTACC
1 CAAATATTTTTAACTTTTTACCTTTCACCTTACC
15138201 CAAAT
1 CAAAT
15138206 GTTGTTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.01, T:0.51
Consensus pattern (34 bp):
CAAATATTTTTAACTTTTTACCTTTCACCTTACC
Found at i:15139580 original size:33 final size:34
Alignment explanation
Indices: 15139521--15139602 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 34
15139511 GTTTCTGATG
* * *
15139521 TGTTTTTTACTG-CTTTGATTGTTGTTTTGGTGT
1 TGTTTTTTACTGTTTTTGATTGCTGTTTTGGTGC
15139554 TGTTTTTTACTGTTTTTG-TTGCTGTTTTGGTGC
1 TGTTTTTTACTGTTTTTGATTGCTGTTTTGGTGC
* *
15139587 TATTTTTTATTGTTTT
1 TGTTTTTTACTGTTTT
15139603 GGTGATGCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 39 0.91
34 4 0.09
ACGTcount: A:0.06, C:0.06, G:0.21, T:0.67
Consensus pattern (34 bp):
TGTTTTTTACTGTTTTTGATTGCTGTTTTGGTGC
Found at i:15139615 original size:33 final size:32
Alignment explanation
Indices: 15139543--15139634 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
15139533 CTTTGATTGT
* * * *
15139543 TGTTTTGGTGTTGTTTTTTACTGTTTTTGTTGC
1 TGTTTTGGTGTTATTTTTTATTG-TTTTGGTGA
*
15139576 TGTTTTGGTGCTATTTTTTATTGTTTTGGTGA
1 TGTTTTGGTGTTATTTTTTATTGTTTTGGTGA
* *
15139608 TGCTTTTGCTGTTA-TTTTTGTTGTTTT
1 TG-TTTTGGTGTTATTTTTTATTGTTTT
15139635 TGTTGTTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
32 21 0.42
33 29 0.58
ACGTcount: A:0.05, C:0.05, G:0.23, T:0.66
Consensus pattern (32 bp):
TGTTTTGGTGTTATTTTTTATTGTTTTGGTGA
Found at i:15139634 original size:9 final size:9
Alignment explanation
Indices: 15139617--15139677 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
15139607 ATGCTTTTGC
*
15139617 TGTTATTTT
1 TGTTGTTTT
15139626 TGTTGTTTT
1 TGTTGTTTT
*
15139635 TGTTGTTAT
1 TGTTGTTTT
**
15139644 T-TTGTTGC
1 TGTTGTTTT
*
15139652 TGTT-TTGAT
1 TGTTGTT-TT
15139661 TGTTGTTTT
1 TGTTGTTTT
15139670 TGTTGTTT
1 TGTTGTTT
15139678 GGATATTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 8 0.19
9 32 0.76
10 2 0.05
ACGTcount: A:0.05, C:0.02, G:0.21, T:0.72
Consensus pattern (9 bp):
TGTTGTTTT
Found at i:15139640 original size:12 final size:12
Alignment explanation
Indices: 15139625--15139676 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
15139615 GCTGTTATTT
15139625 TTGTTGTTTTTG
1 TTGTTGTTTTTG
*
15139637 TTGTT-ATTTTG
1 TTGTTGTTTTTG
*
15139648 TTGCTG-TTTTG
1 TTGTTGTTTTTG
15139659 ATTGTTGTTTTTG
1 -TTGTTGTTTTTG
15139672 TTGTT
1 TTGTT
15139677 TGGATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 14 0.41
12 15 0.44
13 5 0.15
ACGTcount: A:0.04, C:0.02, G:0.23, T:0.71
Consensus pattern (12 bp):
TTGTTGTTTTTG
Found at i:15144036 original size:16 final size:16
Alignment explanation
Indices: 15144015--15144045 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15144005 ATAATGTGAA
15144015 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
15144031 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
15144046 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:15144958 original size:37 final size:37
Alignment explanation
Indices: 15144930--15145019 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
15144920 AATTGAAGAA
* *
15144930 TACTTATGTAGCGACAGTTTTGGATGCAATCTGGAAG
1 TACTCATGCAGCGACAGTTTTGGATGCAATCTGGAAG
* ** *
15144967 TACTCATGCGGCGACAGTTTTGGGCGCAATCTAGAAG
1 TACTCATGCAGCGACAGTTTTGGATGCAATCTGGAAG
* *
15145004 TGCTCATGCAACGACA
1 TACTCATGCAGCGACA
15145020 TTAGTAGTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (37 bp):
TACTCATGCAGCGACAGTTTTGGATGCAATCTGGAAG
Found at i:15150007 original size:18 final size:18
Alignment explanation
Indices: 15149984--15150022 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15149974 GCAAAAAAAA
15149984 TTTGCTTT-TCTCTTCTTC
1 TTTGCTTTCT-TCTTCTTC
*
15150002 TTTGCTTTCTTTTTCTTC
1 TTTGCTTTCTTCTTCTTC
15150020 TTT
1 TTT
15150023 TCTATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTGCTTTCTTCTTCTTC
Found at i:15150650 original size:18 final size:17
Alignment explanation
Indices: 15150612--15150655 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15150602 AAATGTACTA
*
15150612 ACAAATAAAATACAGTG
1 ACAAATAAAATACAATG
*
15150629 ACAAATAATAATGCAATG
1 ACAAATAA-AATACAATG
*
15150647 ACAACTAAA
1 ACAAATAAA
15150656 TGATATGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (17 bp):
ACAAATAAAATACAATG
Found at i:15169878 original size:20 final size:19
Alignment explanation
Indices: 15169821--15169992 Score: 116
Period size: 20 Copynumber: 8.6 Consensus size: 19
15169811 AATTGTTACA
*
15169821 AAATTTTGTAAATCATTAG
1 AAATTTGGTAAATCATTAG
* *
15169840 AAATATTGGGGAAGT-ATTAG
1 AAAT-TT-GGTAAATCATTAG
*
15169860 AAATATTGGTAAATCATTAA
1 AAAT-TTGGTAAATCATTAG
15169880 AAATTATGGTAAATCATTAG
1 AAATT-TGGTAAATCATTAG
* * *
15169900 ATAATTTGATAAATCCTTAA
1 A-AATTTGGTAAATCATTAG
*
15169920 AAATTTTGTTAAAGTC-TTAG
1 AAA-TTTGGTAAA-TCATTAG
* * *
15169940 AGATTTAGTTAAAGT-GTTAG
1 AAATTT-GGTAAA-TCATTAG
15169960 AAATTTTGGTAAATCATTAG
1 AAA-TTTGGTAAATCATTAG
*
15169980 ATATTTTGGTAAA
1 A-AATTTGGTAAA
15169993 GACAAATGAA
Statistics
Matches: 124, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
19 16 0.13
20 94 0.76
21 14 0.11
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (19 bp):
AAATTTGGTAAATCATTAG
Found at i:15169899 original size:40 final size:39
Alignment explanation
Indices: 15169821--15169992 Score: 134
Period size: 40 Copynumber: 4.3 Consensus size: 39
15169811 AATTGTTACA
* * * * *
15169821 AAATTTTGTAAATCATTAGAAATATTGGGGAAGT-ATTAG
1 AAATTTGGTAAATCATTAAAAAT-TTTGGTAAATCATTAG
*
15169860 AAATATTGGTAAATCATTAAAAATTATGGTAAATCATTAG
1 AAAT-TTGGTAAATCATTAAAAATTTTGGTAAATCATTAG
* * *
15169900 ATAATTTGATAAATCCTTAAAAATTTTGTTAAAGTC-TTAG
1 A-AATTTGGTAAATCATTAAAAATTTTGGTAAA-TCATTAG
* * * *
15169940 AGATTTAGTTAAAGT-GTTAGAAATTTTGGTAAATCATTAG
1 AAATTT-GGTAAA-TCATTAAAAATTTTGGTAAATCATTAG
*
15169980 ATATTTTGGTAAA
1 A-AATTTGGTAAA
15169993 GACAAATGAA
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
39 16 0.15
40 82 0.77
41 9 0.08
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (39 bp):
AAATTTGGTAAATCATTAAAAATTTTGGTAAATCATTAG
Found at i:15169906 original size:80 final size:80
Alignment explanation
Indices: 15169822--15169992 Score: 170
Period size: 80 Copynumber: 2.1 Consensus size: 80
15169812 ATTGTTACAA
* *
15169822 AATTTTGTAAATCATTAGAAATATTGGGGAAGTATTAGAAATATT-GGTAAA-TCATTAAAAATT
1 AATTTTGTAAATCATTAAAAATATTGGGAAAGTATTAGAAAT-TTAGGTAAAGT-ATTAAAAATT
15169885 ATGGTAAATCATTAGAT
64 ATGGTAAATCATTAGAT
* * ** * * * * * *
15169902 AA-TTTGATAAATCCTTAAAAATTTTGTTAAAGTCTTAGAGATTTAGTTAAAGTGTTAGAAATTT
1 AATTTTG-TAAATCATTAAAAATATTGGGAAAGTATTAGAAATTTAGGTAAAGTATTAAAAATTA
15169966 TGGTAAATCATTAGAT
65 TGGTAAATCATTAGAT
15169982 -ATTTTGGTAAA
1 AATTTT-GTAAA
15169993 GACAAATGAA
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
79 7 0.09
80 65 0.88
81 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (80 bp):
AATTTTGTAAATCATTAAAAATATTGGGAAAGTATTAGAAATTTAGGTAAAGTATTAAAAATTAT
GGTAAATCATTAGAT
Found at i:15171572 original size:27 final size:27
Alignment explanation
Indices: 15171502--15171592 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
15171492 TACAACAAGT
* *
15171502 TCTGAAGGAACAGTAAGAATGGTGAAT
1 TCTGAAGGAACAGTAAGTATGGTGAAC
* *
15171529 TCTGAAAGAATAGTAAGTATGGTGAAC
1 TCTGAAGGAACAGTAAGTATGGTGAAC
**
15171556 TCTGAAGGAAC-GATAAGTATAATGAAC
1 TCTGAAGGAACAG-TAAGTATGGTGAAC
15171583 AT-TGAAGGAA
1 -TCTGAAGGAA
15171593 AGGCCCTTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.26, T:0.23
Consensus pattern (27 bp):
TCTGAAGGAACAGTAAGTATGGTGAAC
Found at i:15172767 original size:20 final size:20
Alignment explanation
Indices: 15172697--15172809 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
15172687 AAAGCCTCAT
* **
15172697 AAATATTGGTAATTCGATAG
1 AAATATTGGTAAATCCTTAG
*
15172717 AAATTTTGGTAAA-CCATT--
1 AAATATTGGTAAATCC-TTAG
15172735 AAATATTTGGGTAAATCCTTAG
1 AAATA-TT-GGTAAATCCTTAG
**
15172757 AAATATTGGTAAATTGTTAG
1 AAATATTGGTAAATCCTTAG
** * *
15172777 GTATAGTGGTAAATCCTTAT
1 AAATATTGGTAAATCCTTAG
*
15172797 AAATTTTGGTAAA
1 AAATATTGGTAAA
15172810 ATCTTTGGTA
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
18 4 0.06
19 3 0.04
20 54 0.77
21 4 0.06
22 5 0.07
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (20 bp):
AAATATTGGTAAATCCTTAG
Found at i:15172859 original size:40 final size:40
Alignment explanation
Indices: 15172814--15172929 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 40
15172804 GGTAAAATCT
*
15172814 TTGGT-AAATCAATAGAAATTATGGTAAATTGTTAGATATA
1 TTGGTAAAATCAATAGAAATTATGGT-AATTGTTAAATATA
** * *
15172854 TTGGTAAAATCCCTAG-AATTATTGGTAATTCATTAAATATT
1 TTGGTAAAATCAATAGAAATTA-TGGTAATT-GTTAAATATA
* *
15172895 TTGGTAAAAT-TATAGAAATTTTGGTAATTGTTAAA
1 TTGGTAAAATCAATAGAAATTATGGTAATTGTTAAA
15172930 GCTTAATATA
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
39 5 0.08
40 25 0.40
41 33 0.52
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.41
Consensus pattern (40 bp):
TTGGTAAAATCAATAGAAATTATGGTAATTGTTAAATATA
Found at i:15173057 original size:40 final size:40
Alignment explanation
Indices: 15173013--15173126 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
15173003 GGTAAATCAA
* *
15173013 TAGAAATATTGGTAAATTGTTAGATATTTTAGTGTATCCT
1 TAGAAATATTGGTAAATTGTTAGATATTTTAGTATATACT
* * * *
15173053 TAGAATTATTGGTAAATCGTTAGATATTTTGGTATATATT
1 TAGAAATATTGGTAAATTGTTAGATATTTTAGTATATACT
*
15173093 TAGAAATATTGGTAGATTGTTAGATATTTTAGTA
1 TAGAAATATTGGTAAATTGTTAGATATTTTAGTA
15173127 ATTTGAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (40 bp):
TAGAAATATTGGTAAATTGTTAGATATTTTAGTATATACT
Found at i:15173115 original size:20 final size:20
Alignment explanation
Indices: 15172946--15173116 Score: 96
Period size: 20 Copynumber: 8.6 Consensus size: 20
15172936 TATAAGGTTA
* *
15172946 TAAATT-TTGGAAATATTGA
1 TAAATTGTTAGAAATATTGG
* *
15172965 TAAAATCTTAGAAA-ATTTGG
1 TAAATTGTTAGAAATA-TTGG
* * *
15172985 TAAAGTCTTATAAATATTGG
1 TAAATTGTTAGAAATATTGG
***
15173005 TAAATCAATAGAAATATTGG
1 TAAATTGTTAGAAATATTGG
* * *
15173025 TAAATTGTTAGATATTTTAG
1 TAAATTGTTAGAAATATTGG
** ** *
15173045 TGTATCCTTAGAATTATTGG
1 TAAATTGTTAGAAATATTGG
* * *
15173065 TAAATCGTTAGATATTTTGG
1 TAAATTGTTAGAAATATTGG
*
15173085 TATATAT-TTAGAAATATTGG
1 TAAAT-TGTTAGAAATATTGG
*
15173105 TAGATTGTTAGA
1 TAAATTGTTAGA
15173117 TATTTTAGTA
Statistics
Matches: 112, Mismatches: 35, Indels: 9
0.72 0.22 0.06
Matches are distributed among these distances:
19 7 0.06
20 104 0.93
21 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.42
Consensus pattern (20 bp):
TAAATTGTTAGAAATATTGG
Found at i:15173460 original size:40 final size:40
Alignment explanation
Indices: 15173416--15173491 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
15173406 TCGTATATCT
* *
15173416 TTAGAAATATTGATAAATCATTTGATATTTTGGTAAATTC
1 TTAGAAATATTGATAAATAATTAGATATTTTGGTAAATTC
*
15173456 TTAGAAATTTTGATAAATAATTAGATATTTTGGTAA
1 TTAGAAATATTGATAAATAATTAGATATTTTGGTAA
15173492 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (40 bp):
TTAGAAATATTGATAAATAATTAGATATTTTGGTAAATTC
Found at i:15173465 original size:20 final size:20
Alignment explanation
Indices: 15173416--15173491 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
15173406 TCGTATATCT
* * *
15173416 TTAGAAATATTGATAAATCA
1 TTAGAAATTTTGGTAAATAA
* * **
15173436 TTTGATATTTTGGTAAATTC
1 TTAGAAATTTTGGTAAATAA
*
15173456 TTAGAAATTTTGATAAATAA
1 TTAGAAATTTTGGTAAATAA
*
15173476 TTAGATATTTTGGTAA
1 TTAGAAATTTTGGTAA
15173492 TTTAGTAAAT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAGAAATTTTGGTAAATAA
Found at i:15177152 original size:11 final size:11
Alignment explanation
Indices: 15177136--15177171 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
15177126 GTCACATGGC
15177136 TGACGTGGTAT
1 TGACGTGGTAT
15177147 TGACGTGGTAT
1 TGACGTGGTAT
*
15177158 TGACGTGGCAT
1 TGACGTGGTAT
15177169 TGA
1 TGA
15177172 TGTGAAGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.19, C:0.11, G:0.36, T:0.33
Consensus pattern (11 bp):
TGACGTGGTAT
Found at i:15177359 original size:17 final size:19
Alignment explanation
Indices: 15177337--15177375 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
15177327 GTAAATGGAC
15177337 TTTCAAAA-TTA-ATTTTA
1 TTTCAAAATTTAGATTTTA
15177354 TTTCAAAATTTAGATTTTA
1 TTTCAAAATTTAGATTTTA
15177373 TTT
1 TTT
15177376 GTTTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTCAAAATTTAGATTTTA
Found at i:15177942 original size:49 final size:49
Alignment explanation
Indices: 15177884--15178270 Score: 345
Period size: 49 Copynumber: 7.9 Consensus size: 49
15177874 AGGTGTAAGG
15177884 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
* * * * * * * * *
15177933 TTTGTCGTTGCGGCTTAAATCTTTCCCTTCAT-GCTTCTGAGGT-GTAAGG
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTC-GTGGTACT-AGA
* *
15177982 TTCACCGTTGCGAATTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
* * * * * * *
15178031 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT-GCTTTTGAGGTA-TAGGG
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATC-TTCGTGGTACTA-GA
* * * *
15178080 TTCGTCATTGCGACTTGAACCTTTCCCTTTGTATCTTCGTGGTACTAGA
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
* * * * *
15178129 TTCGTCGTTGCGACTTAAATCTTTCCCTTTAT-GCTTTCGAGGTA-TAAA
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATC-TTCGTGGTACTAGA
* * * *
15178177 GTTCGCCGTTGCTACTTAAACATTTCCCTCTATATCTTCGTGGTACTGGA
1 -TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
* * * * * *
15178227 TTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCATGGTA
1 TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTA
15178271 ATGAAACCTG
Statistics
Matches: 261, Mismatches: 65, Indels: 24
0.75 0.19 0.07
Matches are distributed among these distances:
48 12 0.05
49 238 0.91
50 11 0.04
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.40
Consensus pattern (49 bp):
TTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
Found at i:15178010 original size:98 final size:98
Alignment explanation
Indices: 15177866--15178264 Score: 575
Period size: 98 Copynumber: 4.1 Consensus size: 98
15177856 TTTCCTTTTG
* *
15177866 TGCTCCTGAGGTGTAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTA
1 TGCTTCTGAGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTA
* *
15177931 GATTTGTCGTTGCGGCTTAAATCTTTCCCTTCA
66 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
* * *
15177964 TGCTTCTGAGGTGTAAGGTTCACCGTTGCGAATTAAACCTTTCCCTTTATATCTTCGTGGTACTA
1 TGCTTCTGAGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTA
15178029 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
66 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
* * * * * *
15178062 TGCTTTTGAGGTATAGGGTTCGTCATTGCGACTTGAACCTTTCCCTTTGTATCTTCGTGGTACTA
1 TGCTTCTGAGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTA
* * *
15178127 GATTCGTCGTTGCGACTTAAATCTTTCCCTTTA
66 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
* * * *
15178160 TGCTT-TCGAGGTATAAAGTTCGCCGTTGCTACTTAAACATTTCCCTCTATATCTTCGTGGTACT
1 TGCTTCT-GAGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACT
* *
15178224 GGATTCACCGTTGCGGCTTAAATCTTTCCCTTCA
65 AGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
15178258 TGTCTTC
1 TG-CTTC
15178265 ATGGTAATGA
Statistics
Matches: 267, Mismatches: 31, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
97 1 0.00
98 263 0.99
99 3 0.01
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.39
Consensus pattern (98 bp):
TGCTTCTGAGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTA
GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
Found at i:15178751 original size:18 final size:18
Alignment explanation
Indices: 15178724--15178760 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15178714 AAAAATTCCC
* *
15178724 AAATATTTACAGGGAACA
1 AAATAATTACAAGGAACA
15178742 AAATAATTACAAGGAACA
1 AAATAATTACAAGGAACA
15178760 A
1 A
15178761 TATTGGATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.19
Consensus pattern (18 bp):
AAATAATTACAAGGAACA
Found at i:15181514 original size:6 final size:6
Alignment explanation
Indices: 15181503--15181547 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
15181493 TGATCAAAAT
* * *
15181503 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
15181548 TATGAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (6 bp):
TGAAAG
Found at i:15192612 original size:16 final size:16
Alignment explanation
Indices: 15192591--15192622 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15192581 GTGTCAACAT
15192591 CTTGAGTGAATTTGGG
1 CTTGAGTGAATTTGGG
*
15192607 CTTGAGTGTATTTGGG
1 CTTGAGTGAATTTGGG
15192623 TATTTGACCC
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:0.16, C:0.06, G:0.38, T:0.41
Consensus pattern (16 bp):
CTTGAGTGAATTTGGG
Found at i:15196373 original size:15 final size:15
Alignment explanation
Indices: 15196350--15196390 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
15196340 CTGCACACAG
15196350 CAAGGGAGTTATAGA
1 CAAGGGAGTTATAGA
*
15196365 CAGGGGAGTTATAGA
1 CAAGGGAGTTATAGA
15196380 CAAGGGAGTTA
1 CAAGGGAGTTA
15196391 CAACAACAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.20
Consensus pattern (15 bp):
CAAGGGAGTTATAGA
Found at i:15196478 original size:169 final size:168
Alignment explanation
Indices: 15196199--15196516 Score: 555
Period size: 169 Copynumber: 1.9 Consensus size: 168
15196189 TTCACAGCAA
* *
15196199 GGGAGTTATAGACAAGGGAGTTACAACAACAATCAGCAGTAGAATTATAATCAGAATTCTCAAGT
1 GGGAGTTATAGACAAGGGAGTTACAACAACAATCAGCAGTAGAAATATAATCAAAATTCTCAAGT
*
15196264 ACGTTCGAATCCTGATCAAATGCAGGTCCATAGCCAAATGCAACCACAAGCTAGAATACAACCAT
66 ACGTTCGAATCCTGATCAAATGCAGGTCCATAGCCAAATGCAACCACAAGCTAGAATACAACCAC
*
15196329 AATAGACTGTGCTGCACACAGCAAGGGAGTTATAGACAG
131 AATAGACAGTGCTGC-CACAGCAAGGGAGTTATAGACAG
* *
15196368 GGGAGTTATAGACAAGGGAGTTACAACAACAGTCAGTAGTAGAAATATAATCAAAATTCTCAAGT
1 GGGAGTTATAGACAAGGGAGTTACAACAACAATCAGCAGTAGAAATATAATCAAAATTCTCAAGT
* *
15196433 ACGTTCGAATCCTGATCAAATGCAGGTCCATAGCCAAATGCAACCACAAGCTAGAATGCATCCAC
66 ACGTTCGAATCCTGATCAAATGCAGGTCCATAGCCAAATGCAACCACAAGCTAGAATACAACCAC
15196498 AATAGACAGTGCTGCCACA
131 AATAGACAGTGCTGCCACA
15196517 TATGCAAGGA
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
168 4 0.03
169 137 0.97
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (168 bp):
GGGAGTTATAGACAAGGGAGTTACAACAACAATCAGCAGTAGAAATATAATCAAAATTCTCAAGT
ACGTTCGAATCCTGATCAAATGCAGGTCCATAGCCAAATGCAACCACAAGCTAGAATACAACCAC
AATAGACAGTGCTGCCACAGCAAGGGAGTTATAGACAG
Found at i:15200829 original size:14 final size:14
Alignment explanation
Indices: 15200806--15200843 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15200796 CATTTTTGCA
15200806 TTTCCTTTTATAT-
1 TTTCCTTTTATATG
*
15200819 TTTCACTTTTATTTG
1 TTTC-CTTTTATATG
15200834 TTTCCTTTTA
1 TTTCCTTTTA
15200844 AATTCTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.13, C:0.16, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCCTTTTATATG
Found at i:15203211 original size:17 final size:18
Alignment explanation
Indices: 15203177--15203215 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
15203167 TTTTATTTAG
*
15203177 TTGTCATTGCATTTTCAT
1 TTGTCACTGCATTTTCAT
15203195 TTGTCACTGCA-TTTCAT
1 TTGTCACTGCATTTTCAT
15203212 TTGT
1 TTGT
15203216 TAGTACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (18 bp):
TTGTCACTGCATTTTCAT
Found at i:15203834 original size:15 final size:15
Alignment explanation
Indices: 15203814--15203846 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
15203804 AAATTCACAA
15203814 AAAGAAAGAA-AAAAG
1 AAAG-AAGAAGAAAAG
15203829 AAAGAAGAAGAAAAG
1 AAAGAAGAAGAAAAG
15203844 AAA
1 AAA
15203847 TATATTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAAAG
Found at i:15208617 original size:15 final size:16
Alignment explanation
Indices: 15208594--15208623 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15208584 TTGCAAAAAC
15208594 AAAACAAAATAAAATG
1 AAAACAAAATAAAATG
15208610 AAAA-AAAATAAAAT
1 AAAACAAAATAAAAT
15208624 TAATGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAACAAAATAAAATG
Found at i:15215143 original size:3 final size:3
Alignment explanation
Indices: 15215137--15215162 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15215127 AAGAGAAATA
15215137 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15215163 AATTAACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15219207 original size:23 final size:23
Alignment explanation
Indices: 15219169--15219443 Score: 309
Period size: 23 Copynumber: 12.0 Consensus size: 23
15219159 TTTCACAATT
*
15219169 TCACATTAATATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
* ** *
15219192 TCATATCCATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
15219215 TCACATTTATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
*
15219238 TCACATTAATATTTAAGTATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
15219261 TCACATTAATATTTGAGCACAGA
1 TCACATTAATATTTAAGCATAAA
* *
15219284 TCATATTAATATTTAAACATAAA
1 TCACATTAATATTTAAGCATAAA
*
15219307 TCACATTAATATTTAAACATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
15219330 TCACATTAATACTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
15219353 TCATATTAATATTTAAGCAAAAA
1 TCACATTAATATTTAAGCATAAA
** *
15219376 TCACATTAATGCTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
15219399 TCACATTATTATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
*
15219422 TC-CTATTAATATTTAAGTATAA
1 TCAC-ATTAATATTTAAGCATAA
15219444 GTATAAGAAC
Statistics
Matches: 210, Mismatches: 41, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
22 1 0.00
23 209 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (23 bp):
TCACATTAATATTTAAGCATAAA
Found at i:15223197 original size:137 final size:138
Alignment explanation
Indices: 15222866--15223420 Score: 891
Period size: 137 Copynumber: 4.0 Consensus size: 138
15222856 GTTAGAAAGG
* * *
15222866 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCATTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
*
15222931 TATAACTGTTTATATTAATAAATTAGGTAAAATATATACAATTAATA-TTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
15222995 TATATATT
131 CATATATT
*
15223003 AATTATATTCTTT-CAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * *
15223067 TATAACTGTTTATATTAATAAATTCGGTAAATTATATTCAATTAATATTTTATATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
15223132 CATATATT
131 CATATATT
* * * *
15223140 AATTATATTCTTT-CGAAAGAATATTAATTTCCATGTGTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
15223204 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
15223269 CATATATT
131 CATATATT
* * *
15223277 AATTATATTCTTTCCAAAAGAATATTAATTTTCATATATTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * ** *
15223342 TATAACTATTTATATTAATATATTTTGTAAAAATATATATAATTAATATTTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTCGGT-AAAATATATACAATTAATATTTTGTATGAATCAAAT
15223407 TCATATATT
130 TCATATATT
15223416 AATTA
1 AATTA
15223421 GATCTATGTT
Statistics
Matches: 387, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
136 91 0.24
137 178 0.46
138 69 0.18
139 49 0.13
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:15231118 original size:21 final size:21
Alignment explanation
Indices: 15231089--15231142 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
15231079 TGGGAAAGTT
* *
15231089 CTACTGATACAAGTATGGCTA
1 CTACCGATACAAGTATGACTA
* * *
15231110 CTACCGATACAATTATTACTT
1 CTACCGATACAAGTATGACTA
15231131 CTACCGATACAA
1 CTACCGATACAA
15231143 CAAACTCCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (21 bp):
CTACCGATACAAGTATGACTA
Found at i:15234790 original size:187 final size:188
Alignment explanation
Indices: 15234567--15234943 Score: 720
Period size: 188 Copynumber: 2.0 Consensus size: 188
15234557 TAAAACAAAC
15234567 ACACAAACAAAAAAAAGAACAACCAAACACAATATGAAAAATAAAAATAGCAAGAACAAATCCAA
1 ACACAAACAAAAAAAAGAACAACCAAACACAATATGAAAAATAAAAATAGCAAGAACAAATCCAA
15234632 AAGTAGTTTATAGTTTACAAGTTGTGG-AAAAAATAAAAAAAAAATTAAATGTGAAAGCATGTAA
66 AAGTAGTTTATAGTTTACAAGTTGTGGAAAAAAATAAAAAAAAAATTAAATGTGAAAGCATGTAA
15234696 CTAATCCGAGTCATCAGAGATCAACTCTAGCTCCATAGGGTGCTTCCCTTTTCCTCTT
131 CTAATCCGAGTCATCAGAGATCAACTCTAGCTCCATAGGGTGCTTCCCTTTTCCTCTT
*
15234754 ACACGAACAAAAAAAAGAACAACCAAACACAATATGAAAAATAAAAATAGCAAGAACAAATCCAA
1 ACACAAACAAAAAAAAGAACAACCAAACACAATATGAAAAATAAAAATAGCAAGAACAAATCCAA
**
15234819 AAGTAGTTTATAGTTTACAAGTTGTGGAAAAAAATAAAATTAAAATTAAATGTGAAAGCATGTAA
66 AAGTAGTTTATAGTTTACAAGTTGTGGAAAAAAATAAAAAAAAAATTAAATGTGAAAGCATGTAA
15234884 CTAATCCGAGTCATCAGAGATCAACTCTAGCTCCATAGGGTGCTTCCCTTTTCCTCTT
131 CTAATCCGAGTCATCAGAGATCAACTCTAGCTCCATAGGGTGCTTCCCTTTTCCTCTT
15234942 AC
1 AC
15234944 GCTAAAAAAT
Statistics
Matches: 186, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
187 91 0.49
188 95 0.51
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (188 bp):
ACACAAACAAAAAAAAGAACAACCAAACACAATATGAAAAATAAAAATAGCAAGAACAAATCCAA
AAGTAGTTTATAGTTTACAAGTTGTGGAAAAAAATAAAAAAAAAATTAAATGTGAAAGCATGTAA
CTAATCCGAGTCATCAGAGATCAACTCTAGCTCCATAGGGTGCTTCCCTTTTCCTCTT
Found at i:15239608 original size:27 final size:27
Alignment explanation
Indices: 15239578--15239631 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
15239568 TTTAATATCT
15239578 CGACAAACTACCCCGA-GTTTACTGTCC
1 CGACAAACTA-CCCGATGTTTACTGTCC
**
15239605 CGACGGACTACCCGATGTTTACTGTCC
1 CGACAAACTACCCGATGTTTACTGTCC
15239632 TAGTGGACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (27 bp):
CGACAAACTACCCGATGTTTACTGTCC
Found at i:15259358 original size:15 final size:16
Alignment explanation
Indices: 15259338--15259372 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15259328 TTATTTTAAT
*
15259338 TTTTTATTTATTT-AC
1 TTTTTAGTTATTTCAC
15259353 TTTTTAGTTATTTCAC
1 TTTTTAGTTATTTCAC
15259369 TTTT
1 TTTT
15259373 CGTCGTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTAGTTATTTCAC
Found at i:15267826 original size:4 final size:4
Alignment explanation
Indices: 15267817--15267850 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
15267807 TTCTCAAAGT
*
15267817 ATTA ATTA ATTA ATTA ATTA ATTA TGTTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA -ATTA ATTA A
15267851 ATTATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:15267832 original size:12 final size:13
Alignment explanation
Indices: 15267816--15267855 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
15267806 TTTCTCAAAG
15267816 TATTAATTAATTA
1 TATTAATTAATTA
15267829 -ATTAATTAATTA
1 TATTAATTAATTA
*
15267841 TGTTAATTAAATTA
1 TATTAATT-AATTA
15267855 T
1 T
15267856 TTTCTCAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 12 0.50
13 6 0.25
14 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TATTAATTAATTA
Found at i:15272533 original size:24 final size:25
Alignment explanation
Indices: 15272491--15272541 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
15272481 TTCCGTAAAC
15272491 AAGAACAATAAAATAACTAAAGCCTA
1 AAGAACAATAAAATAACTAAA-CCTA
*
15272517 AAGAA-AAT-AAATGACTAAACCTA
1 AAGAACAATAAAATAACTAAACCTA
15272540 AA
1 AA
15272542 TTACAATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 10 0.42
25 3 0.12
26 5 0.21
ACGTcount: A:0.63, C:0.14, G:0.08, T:0.16
Consensus pattern (25 bp):
AAGAACAATAAAATAACTAAACCTA
Found at i:15280880 original size:22 final size:21
Alignment explanation
Indices: 15280854--15280894 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
15280844 CAAGAATAGT
15280854 AAAAATAACTAAAGCCTAAAGA
1 AAAAATAACTAAA-CCTAAAGA
*
15280876 AAAAATGACTAAACCTAAA
1 AAAAATAACTAAACCTAAA
15280895 TTACAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAAATAACTAAACCTAAAGA
Found at i:15293721 original size:16 final size:16
Alignment explanation
Indices: 15293687--15293741 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
15293677 ACTACAATGC
15293687 AAATGCTAGA-ACAAATA
1 AAATGC-AGAGAC-AATA
15293704 AAATGCAGAGACAATAA
1 AAATGCAGAGACAAT-A
*
15293721 AAATGCA-ATGACAATT
1 AAATGCAGA-GACAATA
15293737 AAATG
1 AAATG
15293742 AAATGCATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 12 0.35
17 22 0.65
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.18
Consensus pattern (16 bp):
AAATGCAGAGACAATA
Found at i:15294161 original size:24 final size:22
Alignment explanation
Indices: 15294131--15294181 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
15294121 CGGGGTAATA
*
15294131 TCTTCTTTTTTTTCTTCCTTCTCT
1 TCTTCTTTCTTTTCTTCC-TC-CT
*
15294155 TCTTC-TTCTTTTCTTTCTCCT
1 TCTTCTTTCTTTTCTTCCTCCT
15294176 TCTTCT
1 TCTTCT
15294182 GCCTTAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 2 0.08
23 10 0.42
24 5 0.21
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TCTTCTTTCTTTTCTTCCTCCT
Found at i:15294172 original size:15 final size:15
Alignment explanation
Indices: 15294131--15294179 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
15294121 CGGGGTAATA
*
15294131 TCTTCTTTTTTTTCT
1 TCTTCTTTTCTTTCT
*
15294146 TC--CTTCTC-TTCT
1 TCTTCTTTTCTTTCT
15294158 TCTTCTTTTCTTTCT
1 TCTTCTTTTCTTTCT
*
15294173 CCTTCTT
1 TCTTCTT
15294180 CTGCCTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 6 0.22
13 4 0.15
14 5 0.19
15 12 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TCTTCTTTTCTTTCT
Found at i:15306468 original size:14 final size:14
Alignment explanation
Indices: 15306449--15306476 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15306439 AGACTCAAAT
15306449 GAAAAGGGAAGGAA
1 GAAAAGGGAAGGAA
15306463 GAAAAGGGAAGGAA
1 GAAAAGGGAAGGAA
15306477 AAAGAAAAAG
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:0.00, G:0.43, T:0.00
Consensus pattern (14 bp):
GAAAAGGGAAGGAA
Found at i:15313753 original size:14 final size:14
Alignment explanation
Indices: 15313734--15313760 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15313724 GCTCAAACGA
15313734 AAAAGGGAAGGAAG
1 AAAAGGGAAGGAAG
15313748 AAAAGGGAAGGAA
1 AAAAGGGAAGGAA
15313761 AACGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AAAAGGGAAGGAAG
Found at i:15314047 original size:38 final size:39
Alignment explanation
Indices: 15313974--15314048 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
15313964 AAGTTAGAAT
*
15313974 TGATAAAGAGATTAAATTGTAAAAGAAGTTATAAGTTTTG
1 TGATAAAGAGATTAAATTG-AAAAGAAATTATAAGTTTTG
* * *
15314014 TGATAGAGGGATTAAATTG-AAAGAAATTTTAAGTT
1 TGATAAAGAGATTAAATTGAAAAGAAATTATAAGTT
15314049 AGGGTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 14 0.45
40 17 0.55
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (39 bp):
TGATAAAGAGATTAAATTGAAAAGAAATTATAAGTTTTG
Found at i:15317878 original size:16 final size:15
Alignment explanation
Indices: 15317841--15317893 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
15317831 CATTTATATA
15317841 TTTCTTTTCTTTTCTCT
1 TTTCTTTTC-TTTCT-T
15317858 TTTCTTCTTCTTTCTT
1 TTTCTT-TTCTTTCTT
*
15317874 TTTCTTATTCATTCATT
1 TTTCTT-TTCTTTC-TT
15317891 TTT
1 TTT
15317894 TTTATAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 13 0.41
17 16 0.50
18 3 0.09
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTTTTCTTTCTT
Found at i:15329307 original size:21 final size:21
Alignment explanation
Indices: 15329270--15329361 Score: 82
Period size: 21 Copynumber: 4.2 Consensus size: 21
15329260 TTGGTTTTAT
15329270 TTTTGTACTATTTTGGTTGCTG
1 TTTT-TACTATTTTGGTTGCTG
* *
15329292 TTTTTGCTATTCTGGTAT--TG
1 TTTTTACTATTTTGGT-TGCTG
15329312 TTTTTTACTATTTTGG-TGCTG
1 -TTTTTACTATTTTGGTTGCTG
*
15329333 TTTTTACTATTATTTTTGTTGCTG
1 TTTTTAC---TATTTTGGTTGCTG
15329357 TTTTT
1 TTTTT
15329362 GTTGCTATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
19 1 0.02
20 9 0.16
21 25 0.44
22 5 0.09
23 7 0.12
24 10 0.18
ACGTcount: A:0.10, C:0.09, G:0.17, T:0.64
Consensus pattern (21 bp):
TTTTTACTATTTTGGTTGCTG
Found at i:15329360 original size:12 final size:12
Alignment explanation
Indices: 15329343--15329376 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
15329333 TTTTTACTAT
15329343 TATTTTTGTTGC
1 TATTTTTGTTGC
*
15329355 TGTTTTTGTTGC
1 TATTTTTGTTGC
15329367 TATTTTTGTT
1 TATTTTTGTT
15329377 ATTTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.06, G:0.18, T:0.71
Consensus pattern (12 bp):
TATTTTTGTTGC
Found at i:15329390 original size:15 final size:16
Alignment explanation
Indices: 15329370--15329399 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15329360 TTGTTGCTAT
15329370 TTTTGTTATT-TTTTG
1 TTTTGTTATTATTTTG
15329385 TTTTGTTATTATTTT
1 TTTTGTTATTATTTT
15329400 TGCTGCTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (16 bp):
TTTTGTTATTATTTTG
Found at i:15329394 original size:24 final size:24
Alignment explanation
Indices: 15329342--15329428 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 24
15329332 GTTTTTACTA
*
15329342 TTATTTTTGTTGCTGTTTTTGTTG
1 TTATTTTTGTTGATGTTTTTGTTG
*
15329366 CTATTTTTGTT-AT-TTTTTGTTTTG
1 TTATTTTTGTTGATGTTTTTG--TTG
*
15329390 TTATTATTT-TTGCTGCTGTTTTGATTG
1 TTATT-TTTGTTGATG-T-TTTTG-TTG
*
15329417 TTATTTTGGTTG
1 TTATTTTTGTTG
15329429 TTTGGATGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
22 6 0.12
23 1 0.02
24 19 0.39
25 4 0.08
26 2 0.04
27 12 0.24
28 5 0.10
ACGTcount: A:0.08, C:0.05, G:0.18, T:0.69
Consensus pattern (24 bp):
TTATTTTTGTTGATGTTTTTGTTG
Found at i:15329454 original size:44 final size:42
Alignment explanation
Indices: 15329372--15329454 Score: 96
Period size: 44 Copynumber: 1.9 Consensus size: 42
15329362 GTTGCTATTT
* * *
15329372 TTGTTATTTTTTGTTTTGTTATTATTTTTGCTGCTGTTTTGA
1 TTGTTATTTTTTGTTTGGATATTATTTTTGATGCTGTTTTGA
*
15329414 TTGTTATTTTGGTTGTTTGGATGTTATTTTT-ATGCGTGTTT
1 TTGTTATTTT--TTGTTTGGATATTATTTTTGATGC-TGTTT
15329455 ACTATTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 10 0.29
43 3 0.09
44 21 0.62
ACGTcount: A:0.10, C:0.04, G:0.20, T:0.66
Consensus pattern (42 bp):
TTGTTATTTTTTGTTTGGATATTATTTTTGATGCTGTTTTGA
Found at i:15329602 original size:12 final size:12
Alignment explanation
Indices: 15329585--15329610 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15329575 AATTTTTTTA
15329585 TTTTTTAATGTT
1 TTTTTTAATGTT
15329597 TTTTTTAATGTT
1 TTTTTTAATGTT
15329609 TT
1 TT
15329611 CAAGTGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTTAATGTT
Found at i:15340375 original size:27 final size:27
Alignment explanation
Indices: 15340325--15340395 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
15340315 AATACACTAG
**
15340325 AAAATGGAAACCTTTGTGGCAATCTAT
1 AAAATGGAAACCTTTGTAACAATCTAT
* * *
15340352 GAAATGGAATCCTTTGTAATAATCTAT
1 AAAATGGAAACCTTTGTAACAATCTAT
*
15340379 AAAAAGGAAAGCCTTTG
1 AAAATGGAAA-CCTTTG
15340396 AGGCACATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 29 0.83
28 6 0.17
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (27 bp):
AAAATGGAAACCTTTGTAACAATCTAT
Found at i:15340505 original size:27 final size:27
Alignment explanation
Indices: 15340482--15340575 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
15340472 CTTTATGGTG
15340482 AACTCTAAAGGAATGGTATGTATGGCA
1 AACTCTAAAGGAATGGTATGTATGGCA
* **
15340509 AACTCTAAAGGAATGGTATGTACGAAA
1 AACTCTAAAGGAATGGTATGTATGGCA
** *
15340536 AACTCTAAAGGAATAATATGTATGGCG
1 AACTCTAAAGGAATGGTATGTATGGCA
* *
15340563 AACTTTGAAGGAA
1 AACTCTAAAGGAA
15340576 AGACTCTGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.24
Consensus pattern (27 bp):
AACTCTAAAGGAATGGTATGTATGGCA
Found at i:15344270 original size:97 final size:97
Alignment explanation
Indices: 15344142--15344331 Score: 380
Period size: 97 Copynumber: 2.0 Consensus size: 97
15344132 AGTATGAACG
15344142 TTATGTGTTGGGTCAAATTCATATCGGATCTGACAAGTTGAAGTATGTTTGAATGGGTGCATTTG
1 TTATGTGTTGGGTCAAATTCATATCGGATCTGACAAGTTGAAGTATGTTTGAATGGGTGCATTTG
15344207 GAAAATATGCTAAGAAATGTGAATGAGTGTGA
66 GAAAATATGCTAAGAAATGTGAATGAGTGTGA
15344239 TTATGTGTTGGGTCAAATTCATATCGGATCTGACAAGTTGAAGTATGTTTGAATGGGTGCATTTG
1 TTATGTGTTGGGTCAAATTCATATCGGATCTGACAAGTTGAAGTATGTTTGAATGGGTGCATTTG
15344304 GAAAATATGCTAAGAAATGTGAATGAGT
66 GAAAATATGCTAAGAAATGTGAATGAGT
15344332 TTGGGTGTTT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (97 bp):
TTATGTGTTGGGTCAAATTCATATCGGATCTGACAAGTTGAAGTATGTTTGAATGGGTGCATTTG
GAAAATATGCTAAGAAATGTGAATGAGTGTGA
Found at i:15355382 original size:21 final size:21
Alignment explanation
Indices: 15355343--15355387 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15355333 TGGTTGTACA
* ** *
15355343 TGATTTTGATGTGGGTGCATT
1 TGATCTTGATGTGAATGCAGT
15355364 TGATCTTGATGTGAATGCAGT
1 TGATCTTGATGTGAATGCAGT
15355385 TGA
1 TGA
15355388 GTACTGTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.31, T:0.42
Consensus pattern (21 bp):
TGATCTTGATGTGAATGCAGT
Found at i:15358950 original size:20 final size:20
Alignment explanation
Indices: 15358922--15358963 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
15358912 AAATATTCTT
15358922 TCACACTAAACACTCCCAAA
1 TCACACTAAACACTCCCAAA
* *
15358942 TCACTCTAAACTCTCCCAAA
1 TCACACTAAACACTCCCAAA
15358962 TC
1 TC
15358964 CCTTCTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.21
Consensus pattern (20 bp):
TCACACTAAACACTCCCAAA
Found at i:15366467 original size:22 final size:23
Alignment explanation
Indices: 15366417--15366464 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15366407 ATAAATTTAT
* * *
15366417 TAAATA-TTAAAATAATATAATA
1 TAAATATTTAAAAAAATAAAAAA
15366439 TAAATATTTAAAAAAATAAAAAA
1 TAAATATTTAAAAAAATAAAAAA
15366462 TAA
1 TAA
15366465 TATGGACGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAATATTTAAAAAAATAAAAAA
Found at i:15369054 original size:2 final size:2
Alignment explanation
Indices: 15369039--15369073 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
15369029 TCATATTCAA
15369039 CT CT -T CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
15369074 GTAGTGAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:15375247 original size:9 final size:9
Alignment explanation
Indices: 15375221--15375674 Score: 79
Period size: 10 Copynumber: 48.4 Consensus size: 9
15375211 ATAATTTTTA
*
15375221 AAAAATTAG
1 AAAAATTAT
15375230 AAAATATTAT
1 AAAA-ATTAT
15375240 AAAAATTATT
1 AAAAATTA-T
15375250 AAAAA-TA-
1 AAAAATTAT
15375257 AAAATATT-T
1 AAAA-ATTAT
*
15375266 AGAAA--AT
1 AAAAATTAT
15375273 -AAAATTGAT
1 AAAAATT-AT
*
15375282 ATAAACTTAT
1 A-AAAATTAT
* *
15375292 AAACATAAT
1 AAAAATTAT
*
15375301 AATAACTTAT
1 AA-AAATTAT
*
15375311 AAATATTA-
1 AAAAATTAT
*
15375319 AAAAATATAA
1 AAAAAT-TAT
15375329 AAAAATCTAGT
1 AAAAAT-TA-T
15375340 --AAATTAT
1 AAAAATTAT
15375347 -AAAATTAAT
1 AAAAATT-AT
15375356 AAAACATGT-T
1 AAAA-AT-TAT
15375366 AAAATATT-T
1 AAAA-ATTAT
*
15375375 AATAATTTAT
1 AA-AAATTAT
**
15375385 AAAAACGAAT
1 AAAAA-TTAT
*
15375395 AAAAATTCTTT
1 AAAAA-T-TAT
**
15375406 AAAACCTAT
1 AAAAATTAT
*
15375415 AAAAATCAT
1 AAAAATTAT
15375424 AAAAA-TATT
1 AAAAATTA-T
**
15375433 AAAAACCATT
1 AAAAATTA-T
**
15375443 AAAAACCAT
1 AAAAATTAT
* *
15375452 TAAAATCAT
1 AAAAATTAT
15375461 AAAAA-TAT
1 AAAAATTAT
* *
15375469 TAAATTTGAT
1 AAAAATT-AT
*
15375479 ATAAACTTAT
1 A-AAAATTAT
*
15375489 -AAATTTAT
1 AAAAATTAT
**
15375497 AAAAAAACCAT
1 --AAAAATTAT
15375508 AAAAATTAT
1 AAAAATTAT
15375517 AATAAATCTA-
1 AA-AAAT-TAT
* *
15375527 ATAAATTTT
1 AAAAATTAT
15375536 AATAAATTATT
1 AA-AAATTA-T
15375547 AAAAA-TATT
1 AAAAATTA-T
*
15375556 TAAAATTAAT
1 AAAAATT-AT
15375566 AAACTATATT-T
1 AAA--A-ATTAT
*
15375577 AAAATTTTAT
1 AAAA-ATTAT
15375587 AAAAACTTAT
1 AAAAA-TTAT
15375597 AAAAATTCAT
1 AAAAATT-AT
*
15375607 AAAAAAT-T
1 AAAAATTAT
*
15375615 ACAAATGATAT
1 AAAAAT--TAT
*
15375626 AAAAATTCTAA
1 AAAAA-T-TAT
15375637 AAAAATTAT
1 AAAAATTAT
*
15375646 TAAAA-TAT
1 AAAAATTAT
15375654 AAAAA-T-T
1 AAAAATTAT
15375661 AAAAATTATT
1 AAAAATTA-T
15375671 AAAA
1 AAAA
15375675 GAAAGTCAAT
Statistics
Matches: 330, Mismatches: 63, Indels: 103
0.67 0.13 0.21
Matches are distributed among these distances:
6 3 0.01
7 12 0.04
8 42 0.13
9 109 0.33
10 114 0.35
11 44 0.13
12 3 0.01
13 3 0.01
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15375259 original size:16 final size:17
Alignment explanation
Indices: 15375238--15375276 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15375228 AGAAAATATT
15375238 ATAAAAAT-TATTA-AAA
1 ATAAAAATAT-TTAGAAA
15375254 ATAAAAATATTTAGAAA
1 ATAAAAATATTTAGAAA
15375271 ATAAAA
1 ATAAAA
15375277 TTGATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
ATAAAAATATTTAGAAA
Found at i:15375641 original size:29 final size:28
Alignment explanation
Indices: 15375594--15375660 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
15375584 TATAAAAACT
15375594 TATAAAAATTCATAAAAAATTA-CAAATGA
1 TATAAAAATTCATAAAAAATTATCAAA--A
*
15375623 TATAAAAATTC-TAAAAAAATTATTAAAA
1 TATAAAAATTCAT-AAAAAATTATCAAAA
15375651 TATAAAAATT
1 TATAAAAATT
15375661 AAAAATTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 12 0.34
29 20 0.57
30 3 0.09
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (28 bp):
TATAAAAATTCATAAAAAATTATCAAAA
Found at i:15375665 original size:8 final size:9
Alignment explanation
Indices: 15375221--15375674 Score: 79
Period size: 9 Copynumber: 48.6 Consensus size: 9
15375211 ATAATTTTTA
*
15375221 AAAAATTAG
1 AAAAATTAT
15375230 AAAATATTAT
1 AAAA-ATTAT
15375240 AAAAATTATT
1 AAAAATTA-T
15375250 AAAAA-TA-
1 AAAAATTAT
15375257 AAAATATT-T
1 AAAA-ATTAT
*
15375266 AGAAA--AT
1 AAAAATTAT
15375273 -AAAATTGAT
1 AAAAATT-AT
*
15375282 ATAAACTTAT
1 A-AAAATTAT
* *
15375292 AAACATAAT
1 AAAAATTAT
*
15375301 AATAACTTAT
1 AA-AAATTAT
*
15375311 AAATATTA-
1 AAAAATTAT
*
15375319 AAAAATATAA
1 AAAAAT-TAT
15375329 AAAAATCTAGT
1 AAAAAT-TA-T
15375340 --AAATTAT
1 AAAAATTAT
15375347 -AAAATTAAT
1 AAAAATT-AT
15375356 AAAACATGT-T
1 AAAA-AT-TAT
15375366 AAAATATT-T
1 AAAA-ATTAT
*
15375375 AATAATTTAT
1 AA-AAATTAT
**
15375385 AAAAACGAAT
1 AAAAA-TTAT
*
15375395 AAAAATTCTTT
1 AAAAA-T-TAT
**
15375406 AAAACCTAT
1 AAAAATTAT
*
15375415 AAAAATCAT
1 AAAAATTAT
15375424 AAAAA-TATT
1 AAAAATTA-T
**
15375433 AAAAACCATT
1 AAAAATTA-T
**
15375443 AAAAACCAT
1 AAAAATTAT
* *
15375452 TAAAATCAT
1 AAAAATTAT
15375461 AAAAA-TAT
1 AAAAATTAT
* *
15375469 TAAATTTGAT
1 AAAAATT-AT
*
15375479 ATAAACTTAT
1 A-AAAATTAT
*
15375489 -AAATTTAT
1 AAAAATTAT
**
15375497 AAAAAAACCAT
1 --AAAAATTAT
15375508 AAAAATTAT
1 AAAAATTAT
15375517 AATAAATCTA-
1 AA-AAAT-TAT
* *
15375527 ATAAATTTT
1 AAAAATTAT
15375536 AATAAATTATT
1 AA-AAATTA-T
15375547 AAAAA-TATT
1 AAAAATTA-T
*
15375556 TAAAATTAAT
1 AAAAATT-AT
15375566 AAACTATATT-T
1 AAA--A-ATTAT
*
15375577 AAAATTTTAT
1 AAAA-ATTAT
15375587 AAAAACTTAT
1 AAAAA-TTAT
15375597 AAAAATTCAT
1 AAAAATT-AT
*
15375607 AAAAAAT-T
1 AAAAATTAT
*
15375615 ACAAATGATAT
1 AAAAAT--TAT
*
15375626 AAAAATTCTAA
1 AAAAA-T-TAT
15375637 AAAAATTAT
1 AAAAATTAT
*
15375646 TAAAA-TAT
1 AAAAATTAT
15375654 AAAAA-T-T
1 AAAAATTAT
15375661 AAAAATTAT
1 AAAAATTAT
*
15375670 TAAAA
1 AAAAA
15375675 GAAAGTCAAT
Statistics
Matches: 330, Mismatches: 64, Indels: 102
0.67 0.13 0.21
Matches are distributed among these distances:
6 3 0.01
7 12 0.04
8 42 0.13
9 114 0.35
10 109 0.33
11 44 0.13
12 3 0.01
13 3 0.01
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15376297 original size:11 final size:11
Alignment explanation
Indices: 15376281--15376307 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15376271 AATATTTTAA
15376281 TTTTTTATGAG
1 TTTTTTATGAG
15376292 TTTTTTATGAG
1 TTTTTTATGAG
15376303 TTTTT
1 TTTTT
15376308 ATAAGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (11 bp):
TTTTTTATGAG
Found at i:15376314 original size:10 final size:10
Alignment explanation
Indices: 15376228--15376340 Score: 52
Period size: 10 Copynumber: 10.9 Consensus size: 10
15376218 GTTGTTCAAA
* *
15376228 TTTTTATGAT
1 TTTTTATAAG
15376238 TTTTTATAA-
1 TTTTTATAAG
15376247 TTTTTATAAG
1 TTTTTATAAG
* *
15376257 TTTATATCAAAT
1 TTTTTAT--AAG
* *
15376269 TTAATATTTTAAT
1 TT--T-TTATAAG
*
15376282 TTTTTATGAG
1 TTTTTATAAG
*
15376292 TTTTTTATGAG
1 -TTTTTATAAG
15376303 TTTTTATAAG
1 TTTTTATAAG
15376313 --TTTATAAG
1 TTTTTATAAG
* *
15376321 AATTTTATACG
1 -TTTTTATAAG
15376332 TTTTTATAA
1 TTTTTATAA
15376341 AATACTAAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
8 8 0.10
9 9 0.11
10 34 0.42
11 18 0.22
12 4 0.05
13 5 0.06
14 1 0.01
15 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (10 bp):
TTTTTATAAG
Found at i:15376395 original size:29 final size:30
Alignment explanation
Indices: 15376358--15376415 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
15376348 AATATGTTTT
15376358 ATTTGTTTTATATTTT-TAAAATTTTATTAG
1 ATTTGTTTTAT-TTTTATAAAATTTTATTAG
**
15376388 ATTT-TTTTATTTTTATAAGTTTTTATTA
1 ATTTGTTTTATTTTTATAAAATTTTATTA
15376416 TTTTCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 17 0.68
30 4 0.16
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (30 bp):
ATTTGTTTTATTTTTATAAAATTTTATTAG
Found at i:15376401 original size:19 final size:19
Alignment explanation
Indices: 15376379--15376419 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15376369 ATTTTTAAAA
*
15376379 TTTTATTAGATTTTT-TTAT
1 TTTTATAAG-TTTTTATTAT
15376398 TTTTATAAGTTTTTATTAT
1 TTTTATAAGTTTTTATTAT
15376417 TTT
1 TTT
15376420 CAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTATAAGTTTTTATTAT
Found at i:15380627 original size:35 final size:35
Alignment explanation
Indices: 15380585--15380653 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
15380575 TCAGAATATT
*
15380585 GCATGCTTAACATGCAAAATAGAATCAAATTTATG
1 GCATGCTTAACATGCAAAACAGAATCAAATTTATG
** *
15380620 GCATGCTTAACATGTGAAACAGAATCAGATTTAT
1 GCATGCTTAACATGCAAAACAGAATCAAATTTAT
15380654 TCATAATCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (35 bp):
GCATGCTTAACATGCAAAACAGAATCAAATTTATG
Found at i:15385098 original size:21 final size:22
Alignment explanation
Indices: 15385072--15385112 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
15385062 CATAACAACT
15385072 TAACAACCTAACAA-CTCCTAC
1 TAACAACCTAACAATCTCCTAC
15385093 TAACAACCTAACAATCTCCT
1 TAACAACCTAACAATCTCCT
15385113 TAGGACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (22 bp):
TAACAACCTAACAATCTCCTAC
Found at i:15385622 original size:39 final size:39
Alignment explanation
Indices: 15385568--15385648 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
15385558 GCATCTTGAC
* * *
15385568 CTAAACGTGAAGTAATAGCCTGAAGTTTTCTCATATTAT
1 CTAAACATGAAGTAATAGCCTAAAGTTTTCTCATATCAT
15385607 CTAAACATGAAGTAATAGCCTAAAGTTTTCTCATATCAT
1 CTAAACATGAAGTAATAGCCTAAAGTTTTCTCATATCAT
15385646 CTA
1 CTA
15385649 GTGATCTAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (39 bp):
CTAAACATGAAGTAATAGCCTAAAGTTTTCTCATATCAT
Found at i:15395881 original size:44 final size:44
Alignment explanation
Indices: 15395832--15395924 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
15395822 TTTTTGGTTT
* *
15395832 AATTAGGATTTAGGATTTTTTAAA-ATAGGGTTTAA-GGTAATTTA
1 AATTAGGATTTAAGATATTTTAAATA-AGGG-TTAAGGGTAATTTA
* *
15395876 AATTAGGGTTTAAGATATTTTAAATAAGGGTTAAGGGTATTTTA
1 AATTAGGATTTAAGATATTTTAAATAAGGGTTAAGGGTAATTTA
15395920 AATTA
1 AATTA
15395925 AGAGTTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 4 0.09
44 38 0.88
45 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (44 bp):
AATTAGGATTTAAGATATTTTAAATAAGGGTTAAGGGTAATTTA
Found at i:15395895 original size:21 final size:22
Alignment explanation
Indices: 15395832--15395924 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
15395822 TTTTTGGTTT
* * *
15395832 AATTAGGATTTAGGATTTTTTA
1 AATTAGGGTTTAAGATATTTTA
* * *
15395854 AAATAGGGTTTAAGGTAATTTA
1 AATTAGGGTTTAAGATATTTTA
15395876 AATTAGGGTTTAAGATATTTTA
1 AATTAGGGTTTAAGATATTTTA
* *
15395898 AATAAGGG-TTAAGGGTATTTTA
1 AATTAGGGTTTAA-GATATTTTA
15395920 AATTA
1 AATTA
15395925 AGAGTTTTGG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
21 4 0.07
22 54 0.93
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (22 bp):
AATTAGGGTTTAAGATATTTTA
Found at i:15396271 original size:29 final size:29
Alignment explanation
Indices: 15396182--15396271 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 29
15396172 ATTTGCTAAG
*
15396182 TGTTGTTTTGGAAAAAATAATTTTGAGAAGA
1 TGTT-TTTT-GAAAAAATAATTTTGACAAGA
* * ** **
15396213 TATGTTTTG-AAAAATAAAATTGACGTGA
1 TGTTTTTTGAAAAAATAATTTTGACAAGA
*
15396241 TGTTTTTTGAAAAAATTATTTTGACAAGA
1 TGTTTTTTGAAAAAATAATTTTGACAAGA
15396270 TG
1 TG
15396272 AGTCTTTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
28 21 0.48
29 17 0.39
30 4 0.09
31 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (29 bp):
TGTTTTTTGAAAAAATAATTTTGACAAGA
Found at i:15401959 original size:18 final size:19
Alignment explanation
Indices: 15401910--15401965 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
15401900 TAGTCACATA
15401910 AAAATTATAAAAAA-ATATT
1 AAAATTATAAAAAATA-ATT
15401929 AAATATTATTAAAAAATAATT
1 AAA-ATTA-TAAAAAATAATT
15401950 -AAATTATAAAAAATAA
1 AAAATTATAAAAAATAA
15401966 AAAATTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 6 0.18
21 10 0.29
22 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTATAAAAAATAATT
Found at i:15401982 original size:25 final size:25
Alignment explanation
Indices: 15401938--15401993 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
15401928 TAAATATTAT
15401938 TAAAAAATAATTAAATTAT-AAAAAA
1 TAAAAAAT-ATTAAATTATAAAAAAA
15401963 TAAAAAAT-TTAAATAATATAAAAAAA
1 TAAAAAATATTAAAT--TATAAAAAAA
15401989 TAAAA
1 TAAAA
15401994 TTAACTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.21
25 11 0.39
26 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAAAAATATTAAATTATAAAAAAA
Found at i:15401983 original size:18 final size:17
Alignment explanation
Indices: 15401909--15401987 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 17
15401899 CTAGTCACAT
15401909 AAAAATTATAAAAAAATA
1 AAAAATTAT-AAAAAATA
*
15401927 TTAAATATTATTAAAAAATA
1 --AAAAATTA-TAAAAAATA
*
15401947 ATTAAATTATAAAAAATA
1 A-AAAATTATAAAAAATA
15401965 AAAAATT-TAAATAATATA
1 AAAAATTATAAA-AA-ATA
15401983 AAAAA
1 AAAAA
15401988 ATAAAATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
16 4 0.08
17 7 0.14
18 19 0.37
19 5 0.10
20 15 0.29
21 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATTATAAAAAATA
Found at i:15401997 original size:23 final size:20
Alignment explanation
Indices: 15401911--15401991 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 20
15401901 AGTCACATAA
15401911 AAAT-TATAAAAAAAT-ATT
1 AAATATATAAAAAAATAATT
*
15401929 AAATATTATTAAAAAATAATT
1 AAATA-TATAAAAAAATAATT
* *
15401950 AAATTATAAAAAATAAAAAATTT
1 AAA-TATATAAAA-AAATAA-TT
15401973 AAATAATATAAAAAAATAA
1 AAAT-ATATAAAAAAATAA
15401992 AATTAACTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.08
20 10 0.20
21 11 0.22
22 13 0.26
23 12 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATATATAAAAAAATAATT
Found at i:15402120 original size:23 final size:22
Alignment explanation
Indices: 15402089--15402133 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15402079 TTTAGAGAAT
* *
15402089 TTTAGAGAGAAATTTGTGTGAAA
1 TTTAAAGAGAAA-TTGAGTGAAA
15402112 TTTAAAGAGAAATTGAGTGAAA
1 TTTAAAGAGAAATTGAGTGAAA
15402134 AAAATAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.31
Consensus pattern (22 bp):
TTTAAAGAGAAATTGAGTGAAA
Found at i:15402283 original size:32 final size:31
Alignment explanation
Indices: 15402219--15402306 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 31
15402209 CGGAAACATA
* * * *
15402219 GGCAAAATCGCTTCCACGTGTACGCTATTTTG
1 GGCAAAA-CGCTTTCACGTGGACACTAATTTG
*
15402251 GGCAAAAGCGCTTTCACATGGACACTAATTTG
1 GGCAAAA-CGCTTTCACGTGGACACTAATTTG
*
15402283 GGTAAAACGCTCTT-ACGTGGACAC
1 GGCAAAACGCT-TTCACGTGGACAC
15402307 GTTTTTGGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 13 0.28
32 34 0.72
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (31 bp):
GGCAAAACGCTTTCACGTGGACACTAATTTG
Found at i:15405009 original size:59 final size:61
Alignment explanation
Indices: 15404880--15405034 Score: 214
Period size: 59 Copynumber: 2.6 Consensus size: 61
15404870 CTCGAGCGGT
** *
15404880 AAAATGGTAATTTTTAAATGTTCG-GGG--AAAAATG-GTAATTTTGGAAAAGTTTAGGGTC
1 AAAATGGTAATTTTTGGATGTTCGAGGGTAAAAAATGTGTAATTTTGG-AAAGTATAGGGTC
* *
15404938 AAAATGGTAATTTTTGGATGTTTGAGGGTAAAAAATGTG-ATTTTTGG-AAGTATAGGGTC
1 AAAATGGTAATTTTTGGATGTTCGAGGGTAAAAAATGTGTAATTTTGGAAAGTATAGGGTC
15404997 AAAATGGTAATTTTTGGATGTTCGAGGGTAAAAAATGT
1 AAAATGGTAATTTTTGGATGTTCGAGGGTAAAAAATGT
15405035 ATGTTTGTAT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
58 21 0.24
59 51 0.59
61 14 0.16
62 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (61 bp):
AAAATGGTAATTTTTGGATGTTCGAGGGTAAAAAATGTGTAATTTTGGAAAGTATAGGGTC
Found at i:15405041 original size:29 final size:30
Alignment explanation
Indices: 15404821--15405070 Score: 143
Period size: 29 Copynumber: 8.5 Consensus size: 30
15404811 ATTTAAGGGT
* * *
15404821 AAAATGGTAAATTTTGAATGCTCGAGGG--A
1 AAAAT-GTAATTTTTGGATGTTCGAGGGTAA
* *
15404850 AAACTGGTAATTTTTGGATGCTCGAGCGGT--
1 AAAAT-GTAATTTTTGGATGTTCGAG-GGTAA
**
15404880 AAAATGGTAATTTTTAAATGTTCG-GGG--A
1 AAAAT-GTAATTTTTGGATGTTCGAGGGTAA
* * *
15404908 AAAATGGTAA-TTTTGGAAAAGTT-TAGGGT-C
1 AAAAT-GTAATTTTTGG--ATGTTCGAGGGTAA
*
15404938 AAAATGGTAATTTTTGGATGTTTGAGGGTAA
1 AAAAT-GTAATTTTTGGATGTTCGAGGGTAA
* * *
15404969 AAAATGTGATTTTTGGAAGTAT--AGGGT-C
1 AAAATGTAATTTTTGGATGT-TCGAGGGTAA
15404997 AAAATGGTAATTTTTGGATGTTCGAGGGTAA
1 AAAAT-GTAATTTTTGGATGTTCGAGGGTAA
* * *
15405028 AAAATGT-ATGTTTGTATGTTCGAGGG-CA
1 AAAATGTAATTTTTGGATGTTCGAGGGTAA
*
15405056 AAATTGTAATTTTTG
1 AAAATGTAATTTTTG
15405071 AGAAGTTTGG
Statistics
Matches: 179, Mismatches: 26, Indels: 32
0.76 0.11 0.14
Matches are distributed among these distances:
27 4 0.02
28 25 0.14
29 76 0.42
30 57 0.32
31 17 0.09
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTTGGATGTTCGAGGGTAA
Found at i:15405097 original size:30 final size:30
Alignment explanation
Indices: 15405062--15405231 Score: 179
Period size: 29 Copynumber: 5.8 Consensus size: 30
15405052 GGCAAAATTG
*
15405062 TAATTTTTGAGAAGTTTGGGGGTCAAAATA
1 TAATTTTTGAGAAGTTTAGGGGTCAAAATA
* * * *
15405092 TAATTTTTAAGAAGTTAAGGGGTTAAAATG
1 TAATTTTTGAGAAGTTTAGGGGTCAAAATA
15405122 TAATTTTTGAGAAGTTT-GGGGTCAAAATA
1 TAATTTTTGAGAAGTTTAGGGGTCAAAATA
* * * *
15405151 T-ATTTTTGGGAAGTTTGGGGGTTAAAATT
1 TAATTTTTGAGAAGTTTAGGGGTCAAAATA
* *
15405180 TAA-TTTGGAAAAGTTTAGGGGT-AAAATA
1 TAATTTTTGAGAAGTTTAGGGGTCAAAATA
* *
15405208 TAA-TTTTGAAAAAGTTTAAGGGTC
1 TAATTTTTG-AGAAGTTTAGGGGTC
15405232 TAACGCGTAA
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
28 26 0.22
29 50 0.43
30 41 0.35
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (30 bp):
TAATTTTTGAGAAGTTTAGGGGTCAAAATA
Found at i:15406927 original size:39 final size:40
Alignment explanation
Indices: 15406873--15407133 Score: 191
Period size: 39 Copynumber: 6.7 Consensus size: 40
15406863 AATAATCGCC
15406873 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATG-
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGA
* *
15406912 ATCTGCCCCAGGCTCGGGGTAAGAGA--T-CGGATAGCTGCA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGAT-GATG-A
* * * * *
15406951 ATATGCCCCAAGCTCGGGCTAAAAGATTTGCTGATGATG-
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGA
* * * * ** * *
15406990 ATCTGCCCTAAGCTTGAGGTAAGAGATCGAATG--GCTGCA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATG-A
* * ** * *
15407029 ATCTACCCTAGGCTCGGGGTAAGAGATCGAATG--GCTGCA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATG-A
* * * *
15407068 ATCTGCACTAGGCTCGGGGTAAAAGATTTACTGGTGATG-
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGA
15407107 ATCTGCCCCAGGCTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
15407134 CAAATCTTCA
Statistics
Matches: 179, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
36 4 0.02
37 7 0.04
39 157 0.88
41 7 0.04
42 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (40 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGA
Found at i:15407044 original size:78 final size:78
Alignment explanation
Indices: 15406873--15407055 Score: 249
Period size: 78 Copynumber: 2.3 Consensus size: 78
15406863 AATAATCGCC
* *
15406873 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGATCTGCCCCAAGCTCGAGGTAAGAGA
*
15406938 TCGGATAGCTGCA
66 TCGAATAGCTGCA
* * * * * * *
15406951 ATATGCCCCAAGCTCGGGCTAAAAGATTTGCTGATGATGATCTGCCCTAAGCTTGAGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGATCTGCCCCAAGCTCGAGGTAAGAGA
*
15407016 TCGAATGGCTGCA
66 TCGAATAGCTGCA
* *
15407029 ATCTACCCTAGGCTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
15407056 CGAATGGCTG
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 88 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGATCTGCCCCAAGCTCGAGGTAAGAGA
TCGAATAGCTGCA
Found at i:15407083 original size:117 final size:117
Alignment explanation
Indices: 15406912--15407134 Score: 311
Period size: 117 Copynumber: 1.9 Consensus size: 117
15406902 ACTGATGATG
* * *
15406912 ATCTGCCCCAGGCTCGGGGTAAGAGATCGGATAGCTGCAATATGCCCCAAGCTCGGGCTAAAAGA
1 ATCTACCCCAGGCTCGGGGTAAGAGATCGAATAGCTGCAATATGCACCAAGCTCGGGCTAAAAGA
* * *
15406977 TTTGCTGATGATGATCTGCCCTAAGCTTGAGGTAAGAGATCGAATGGCTGCA
66 TTTACTGATGATGATCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTGCA
* * * * * *
15407029 ATCTACCCTAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGCACTAGGCTCGGGGTAAAAGA
1 ATCTACCCCAGGCTCGGGGTAAGAGATCGAATAGCTGCAATATGCACCAAGCTCGGGCTAAAAGA
* * *
15407094 TTTACTGGTGATGATCTGCCCCAGGCTCGGGGTAAGAGATC
66 TTTACTGATGATGATCTGCCCCAAGCTCGAGGTAAGAGATC
15407135 AAATCTTCAG
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (117 bp):
ATCTACCCCAGGCTCGGGGTAAGAGATCGAATAGCTGCAATATGCACCAAGCTCGGGCTAAAAGA
TTTACTGATGATGATCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTGCA
Found at i:15407558 original size:99 final size:99
Alignment explanation
Indices: 15407428--15407797 Score: 460
Period size: 99 Copynumber: 3.7 Consensus size: 99
15407418 GCCGTTGTGG
* * * * *
15407428 CCTCAACATTTCCCTTCATATCTTCTAAGGTACCAGGTTCGCCGTTACTGCCTCAACCTTTCCCT
1 CCTCAACCTTTCCCTTCACATCTTCTAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCCCT
*
15407493 TAAAATCTTCATGGTACCGGGTTTGCCATTACGA
66 TAAAATCTTCATGGTATCGGGTTTGCCATTACGA
* * *
15407527 CCTCAACCTTTCCCTTCATATCTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCTT
1 CCTCAACCTTTCCCTTCACATCTTCTAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCCCT
* *
15407592 TAAAATCTTCATGGTATCGGGTTTGCCATTGCGG
66 TAAAATCTTCATGGTATCGGGTTTGCCATTACGA
* * *
15407626 CCTCAACCTTTCCCTTCACAT-TTC-ATGGTACC-GGATTCGCCGTTGCGGCCTCAATCTTTCCC
1 CCTCAACCTTTCCCTTCACATCTTCTAAGGTACCAGG-TTCACCGTTGCGGCCTCAACCTTTCCC
* * * * ** *
15407688 ATGATATCTTC-TGAGGTATCAGGTTCACCGTTACGA
65 TTAAAATCTTCAT--GGTATCGGGTTTGCCATTACGA
* * *
15407724 CCTCAACCTTTCCCGTCACATCTTTTAAGGTACTAGGTTCACCGTTGCGGCCTCAACCTTTCCCT
1 CCTCAACCTTTCCCTTCACATCTTCTAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCCCT
*
15407789 TCAAATCTT
66 TAAAATCTT
15407798 TTGAGGTACC
Statistics
Matches: 232, Mismatches: 33, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
96 2 0.01
97 39 0.17
98 39 0.17
99 112 0.48
100 38 0.16
101 2 0.01
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (99 bp):
CCTCAACCTTTCCCTTCACATCTTCTAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCCCT
TAAAATCTTCATGGTATCGGGTTTGCCATTACGA
Found at i:15407755 original size:197 final size:198
Alignment explanation
Indices: 15407406--15407797 Score: 504
Period size: 197 Copynumber: 2.0 Consensus size: 198
15407396 TGTTTTTTAA
* * *
15407406 GGTACCGGGTTCGCCGTTGTGGCCTCAACATTTCCCTTCATATCTTCTAAGGTACCAGGTTCGCC
1 GGTACCGGGTTCGCCATTGCGGCCTCAACATTTCCCTTCACATCTTCTAAGGTACCAGGTTCGCC
* * * **
15407471 GTTACTGCCTCAACCTTTCCCTTAAAATCTTCATGGTACCGGGTTTGCCATTACGACCTCAACCT
66 GTTACGGCCTCAACCTTTCCCATAAAATCTTCATGGTACCAGGTTCACCATTACGACCTCAACCT
* * *
15407536 TTCCCTTCATATCTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCTTTAAAATCTT
131 TTCCCGTCACATCTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCCTTAAAATCTT
15407601 CAT
196 CAT
* * * *
15407604 GGTATCGGGTTTGCCATTGCGGCCTCAACCTTTCCCTTCACAT-TTC-ATGGTACC-GGATTCGC
1 GGTACCGGGTTCGCCATTGCGGCCTCAACATTTCCCTTCACATCTTCTAAGGTACCAGG-TTCGC
* * * * * *
15407666 CGTTGCGGCCTCAATCTTTCCCATGATATCTTC-TGAGGTATCAGGTTCACCGTTACGACCTCAA
65 CGTTACGGCCTCAACCTTTCCCATAAAATCTTCAT--GGTACCAGGTTCACCATTACGACCTCAA
* * * *
15407730 CCTTTCCCGTCACATCTTTTAAGGTACTAGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAAT
128 CCTTTCCCGTCACATCTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCCTTAAAAT
15407795 CTT
193 CTT
15407798 TTGAGGTACC
Statistics
Matches: 166, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
195 3 0.02
196 39 0.23
197 87 0.52
198 37 0.22
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (198 bp):
GGTACCGGGTTCGCCATTGCGGCCTCAACATTTCCCTTCACATCTTCTAAGGTACCAGGTTCGCC
GTTACGGCCTCAACCTTTCCCATAAAATCTTCATGGTACCAGGTTCACCATTACGACCTCAACCT
TTCCCGTCACATCTTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCCTTAAAATCTT
CAT
Found at i:15407820 original size:50 final size:50
Alignment explanation
Indices: 15407400--15407847 Score: 365
Period size: 50 Copynumber: 9.0 Consensus size: 50
15407390 CCTTCTTGTT
* * * *
15407400 TTTTAAGGTACCGGGTTCGCCGTTGTGGCCTCAACATTTCCCTTCATATC
1 TTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* * * *
15407450 TTCTAAGGTACC-AGGTTCGCCGTTACTGCCTCAACCTTTCCCTTAAAATC
1 TTTTAAGGTACCGA-GTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* * * * * * * *
15407500 -TTCATGGTACCGGGTTTGCCATTACGACCTCAACCTTTCCCTTCATATC
1 TTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* * * * *
15407549 TTCTAAGGTACCAAGTTCACCGTTGCGGCCTCAACCTTTCCTTTAAAATC
1 TTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* * * * * * *
15407599 -TTCATGGTATCGGGTTTGCCATTGCGGCCTCAACCTTTCCCTTCACA--
1 TTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* * * * * *
15407646 TTTCATGGTACCG-GATTCGCCGTTGCGGCCTCAATCTTTCCCATGATATC
1 TTTTAAGGTACCGAG-TTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* * * * * * * *
15407696 TTCTGAGGTATC-AGGTTCACCGTTACGACCTCAACCTTTCCCGTCACATC
1 TTTTAAGGTACCGA-GTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* *
15407746 TTTTAAGGTA-CTAGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAATC
1 TTTTAAGGTACCGA-GTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
* * *
15407796 TTTTGAGGTACCGAGTTCGCCGTTGCGACCTTAATCC-TTCCCTTCAAATC
1 TTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCAAATC
15407846 TT
1 TT
15407848 CATGTTTTTC
Statistics
Matches: 313, Mismatches: 73, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
47 1 0.00
48 38 0.12
49 74 0.24
50 195 0.62
51 5 0.02
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.34
Consensus pattern (50 bp):
TTTTAAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCAAATC
Found at i:15414802 original size:29 final size:29
Alignment explanation
Indices: 15414770--15415074 Score: 189
Period size: 30 Copynumber: 10.3 Consensus size: 29
15414760 AAAATGTGAC
* *
15414770 TTTTGGAAATTTGAGGGCAAAATGGTAAT
1 TTTTGGAAGTTCGAGGGCAAAATGGTAAT
* ** *
15414799 TTTTGGATGCACGAGAGCAAAATGGTAA-
1 TTTTGGAAGTTCGAGGGCAAAATGGTAAT
*
15414827 TTTTGGAAAAGTTTG-GGGCCAAAATGGTAAT
1 TTTTGG--AAGTTCGAGGG-CAAAATGGTAAT
*
15414858 TTTTGGATGTTCGAGGGCAAAAAAT-GTAAT
1 TTTTGGAAGTTCGAGGGC--AAAATGGTAAT
*
15414888 TTTTGGAAGTTCGAGGGTAAAATGGTAAT
1 TTTTGGAAGTTCGAGGGCAAAATGGTAAT
* * * *
15414917 TTTTGGATGTTTGAGGGTAAAAAAT-GTGAT
1 TTTTGGAAGTTCGAGGG--CAAAATGGTAAT
* * * *
15414947 TTTTGGATGTTCAAGGGTAAAAAT-GTAGT
1 TTTTGGAAGTTCGAGGG-CAAAATGGTAAT
* * *
15414976 TTTTGAGAAGTTTGGGGGTCAAAAT-ATAAT
1 TTTTG-GAAGTTCGAGGG-CAAAATGGTAAT
* *
15415006 TTTTGAGAAGTT-AAGGGGTTAAAAT-GTAAT
1 TTTTG-GAAGTTCGA-GGG-CAAAATGGTAAT
*
15415036 TTTTGAGAAGTTAG-GGGTCAAAAT-GTAAT
1 TTTTG-GAAGTTCGAGGG-CAAAATGGTAAT
15415065 TTTTAGGAAG
1 TTTT-GGAAG
15415075 CTCAGGAGTC
Statistics
Matches: 225, Mismatches: 37, Indels: 28
0.78 0.13 0.10
Matches are distributed among these distances:
28 11 0.05
29 86 0.38
30 112 0.50
31 16 0.07
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (29 bp):
TTTTGGAAGTTCGAGGGCAAAATGGTAAT
Found at i:15414910 original size:89 final size:87
Alignment explanation
Indices: 15414782--15415126 Score: 265
Period size: 89 Copynumber: 3.9 Consensus size: 87
15414772 TTGGAAATTT
* * * *
15414782 GAGGGC-AAAATGGTAATTTTTGGATGCACGAGAG-CAAAATGGTAATTTTGGAAAAGTTTGGGG
1 GAGGGCAAAAAT-GTAATTTTTGGAAGCTCGAGGGTCAAAAT-ATAATTTTGGAAAAGTTTGGGG
**
15414845 CCAAAATGGTAATTTTTGGATGTTC
64 AAAAAAT-GTAATTTTTGGATGTTC
* * *
15414870 GAGGGCAAAAAATGTAATTTTTGGAAGTTCGAGGGT-AAAATGGTAATTTTTGG--ATGTTTGAG
1 GAGGGC-AAAAATGTAATTTTTGGAAGCTCGAGGGTCAAAAT-ATAA-TTTTGGAAAAGTTTG-G
*
15414932 GGTAAAAAATGTGATTTTTGGATGTTC
62 GG-AAAAAATGTAATTTTTGGATGTTC
* * * * * * * * *
15414959 AAGGGTAAAAATGTAGTTTTTGAGAAGTTTGGGGGTCAAAATATAATTTTTGAGAAGTTAAGGGG
1 GAGGGCAAAAATGTAATTTTTG-GAAGCTCGAGGGTCAAAATATAATTTTGGAAAAGTT-TGGGG
** * *
15415024 TTAAAATGTAATTTTTGAGAAGTTA
64 AAAAAATGTAATTTTTG-GATGTTC
* *
15415049 G-GGGTC-AAAATGTAATTTTTAGGAAGCTC-AGGAGTCAAAATACAATTTTGGAAAAGTTTAGG
1 GAGGG-CAAAAATGTAATTTTT-GGAAGCTCGAGG-GTCAAAATATAATTTTGGAAAAGTTTGGG
**
15415111 GATCAAATGTAATTTT
63 GAAAAAATGTAATTTT
15415127 GAAAAGTTTT
Statistics
Matches: 207, Mismatches: 35, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
88 50 0.24
89 122 0.59
90 34 0.16
91 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (87 bp):
GAGGGCAAAAATGTAATTTTTGGAAGCTCGAGGGTCAAAATATAATTTTGGAAAAGTTTGGGGAA
AAAATGTAATTTTTGGATGTTC
Done.