Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 48 of 126
Found at i:14234573 original size:22 final size:21
Alignment explanation
Indices: 14234545--14234599 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
14234535 TTATTTATTT
14234545 ATAAATATAAAT-ATAAATATAA
1 ATAAATATAAATGA-AAAT-TAA
* *
14234567 ATAAATACAAATGAAAATTGA
1 ATAAATATAAATGAAAATTAA
14234588 ATAAATAATAAA
1 ATAAAT-ATAAA
14234600 ATTAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.29
22 19 0.68
23 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAAATATAAATGAAAATTAA
Found at i:14234578 original size:6 final size:6
Alignment explanation
Indices: 14234544--14234569 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14234534 ATTATTTATT
14234544 TATAAA TATAAA TATAAA TATAAA TA
1 TATAAA TATAAA TATAAA TATAAA TA
14234570 AATACAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TATAAA
Found at i:14235776 original size:30 final size:30
Alignment explanation
Indices: 14235741--14235836 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
14235731 GCTTTATTTT
* *
14235741 AAAATTAT-ATTTTGATCCTCGAACTTTCCA
1 AAAATTATAATTTT-ACCCTCAAACTTTCCA
* *
14235771 AAAATTCTAATTTTACCCTCAAACTTTTCA
1 AAAATTATAATTTTACCCTCAAACTTTCCA
* * *
14235801 AAAATCCA-AATTTTA-CCTCTACATTTTCCA
1 AAAAT-TATAATTTTACCCTC-AAACTTTCCA
14235831 AAAATT
1 AAAATT
14235837 CAAATTTGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
29 4 0.08
30 44 0.83
31 5 0.09
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAATTATAATTTTACCCTCAAACTTTCCA
Found at i:14235841 original size:30 final size:31
Alignment explanation
Indices: 14235757--14235848 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 31
14235747 ATATTTTGAT
* *
14235757 CCTCGAAC-TTTCCAAAAATTCTAATTTTAC
1 CCTCAAACTTTTCCAAAAATTCAAATTTTAC
*
14235787 CCTCAAACTTTT-CAAAAATCCAAATTTTA-
1 CCTCAAACTTTTCCAAAAATTCAAATTTTAC
* *
14235816 CCTC-TACATTTTCCAAAAATTCAAATTTGAC
1 CCTCAAAC-TTTTCCAAAAATTCAAATTTTAC
14235847 CC
1 CC
14235849 GATTTTAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.04
29 8 0.15
30 37 0.71
31 5 0.10
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (31 bp):
CCTCAAACTTTTCCAAAAATTCAAATTTTAC
Found at i:14238262 original size:59 final size:58
Alignment explanation
Indices: 14238025--14238372 Score: 317
Period size: 58 Copynumber: 5.9 Consensus size: 58
14238015 AAAATCAAGA
* * * * * *
14238025 TCAAAAACGGAATTTTTGGACATCCGGGGGCAAAATGGTAATTTTTGAAAGTTTCGA-G
1 TCAAAAATGGAGTTTTTGGACAT-TGAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGG
*
14238083 TTAAAAATGGAGTTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGG
1 TCAAAAATGGAGTTTTTGGACATT-GAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGG
* * * * * * *
14238142 TAAAAAATGGAGTTTTTGGATATTCAGGGTAAAAGGGTAATTGTTGAAAGTTTCGATG
1 TCAAAAATGGAGTTTTTGGACATTGAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGG
* *
14238200 TCAAAAATGGAGTTTTTGGACATCTAAGGGTAAAATGGTAATTTTTGAAAGTTTTGGGG
1 TCAAAAATGGAGTTTTTGGACAT-TGAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGG
* * * * * * **
14238259 TCAAAAGTGGAATTTTTGGA-AGTTTGGGGGGTTAAATGGTCATTTTTGGAAGTTTCAAGG
1 TCAAAAATGGAGTTTTTGGACA--TT-GAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGG
* * * * * *
14238319 TTAAAAATGTAATTTTAGGGA-GTTCGAGGGTAAAAAT-GTAATTTTAGAAAGTTT
1 TCAAAAATGGAGTTTT-TGGACATT-GAGGGT-AAAATGGTAATTTTTGAAAGTTT
14238373 AGGGACCTTT
Statistics
Matches: 239, Mismatches: 43, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
58 100 0.42
59 92 0.38
60 44 0.18
61 3 0.01
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (58 bp):
TCAAAAATGGAGTTTTTGGACATTGAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGG
Found at i:14239499 original size:15 final size:16
Alignment explanation
Indices: 14239481--14239514 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
14239471 ATTATTATGG
14239481 TTATTAATAATA-TTA
1 TTATTAATAATATTTA
14239496 TTATTAATAATATTTA
1 TTATTAATAATATTTA
14239512 TTA
1 TTA
14239515 GGTTATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTAATAATATTTA
Found at i:14240313 original size:18 final size:18
Alignment explanation
Indices: 14240280--14240315 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14240270 TAAATTCAAT
*
14240280 TTTAAATTTAATCTTTAA
1 TTTAAATTTAAACTTTAA
14240298 TTTAAATTTAAACTTTAA
1 TTTAAATTTAAACTTTAA
14240316 AAGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATTTAAACTTTAA
Found at i:14244499 original size:50 final size:50
Alignment explanation
Indices: 14244379--14244500 Score: 136
Period size: 50 Copynumber: 2.4 Consensus size: 50
14244369 AAAGAATAGG
* * *
14244379 GAATCCTATACCCCTAAAGCTGTAGAGGAACAGATTGAAGCCGCAATGAC
1 GAATCTTATACACCTAAAGCTGTAGAGGAACAGATTGAAGCCGCAAGGAC
* * ** * **
14244429 AAATCTCATACACCTAAAGCTGTAGAGGGGCAGATTGAAGTCGCAAGGGT
1 GAATCTTATACACCTAAAGCTGTAGAGGAACAGATTGAAGCCGCAAGGAC
* *
14244479 GAATCTTATACTCCTGAAGCTG
1 GAATCTTATACACCTAAAGCTG
14244501 AAATGGAGCG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (50 bp):
GAATCTTATACACCTAAAGCTGTAGAGGAACAGATTGAAGCCGCAAGGAC
Found at i:14244612 original size:40 final size:40
Alignment explanation
Indices: 14244525--14244771 Score: 231
Period size: 40 Copynumber: 6.3 Consensus size: 40
14244515 TACAACCCTA
*
14244525 AATCTTTTACCCTAATCAGAGGGCAGATT---GACCATCC
1 AATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* * *
14244562 AATCTTTTACCCTACCCAGAGGGCAGATTTAAGACCATCT
1 AATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* * * *
14244602 AATCTCTTACCCCAATCATG-GGGCAGATTGAAGACCATTC
1 AATCTTTTACCCTAACCA-GAGGGCAGATTGAAGACCATCC
* * *
14244642 AATCTTTTA-CCTCGACCATG-GGGCAAATTGAAG-CAATCC
1 AATCTTTTACCCT-AACCA-GAGGGCAGATTGAAGACCATCC
* * * *
14244681 AATCTTTTACCCTAACCAGAGGGCAGCTTAAAGATCATCT
1 AATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* * * * *
14244721 GATCTCTTACCCCAACCATAGGGCAGATTGAAG-CAATCC
1 AATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
14244760 AATCTTTTACCC
1 AATCTTTTACCC
14244772 CTAAAGCTAT
Statistics
Matches: 167, Mismatches: 35, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
37 27 0.16
38 1 0.01
39 42 0.25
40 96 0.57
41 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (40 bp):
AATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
Found at i:14246782 original size:60 final size:59
Alignment explanation
Indices: 14246714--14246870 Score: 192
Period size: 59 Copynumber: 2.6 Consensus size: 59
14246704 AAAATTATGT
* * **
14246714 TTTGACCCCTAAACTTTTTAAAAATTCTAATTTTACCCCTAAACTTTCTAAAAATTTAAAA
1 TTTGACCCCTAAACTTTTTAAAAATTCAAATTTGA-CCCTAAACTTTC-AAAAAACTAAAA
**
14246775 TTT-ACCCCTAAA-TTTTTCCAAAAATTCAAATTTGACCCTAAACTTTCAAAAAACTCCAA
1 TTTGACCCCTAAACTTTTT--AAAAATTCAAATTTGACCCTAAACTTTCAAAAAACTAAAA
* *
14246834 TTTGACCCTTAAACTTTCTAAAAATTCAAATTTGACC
1 TTTGACCCCTAAACTTTTTAAAAATTCAAATTTGACC
14246871 TGGTTTTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
59 34 0.40
60 29 0.35
61 21 0.25
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (59 bp):
TTTGACCCCTAAACTTTTTAAAAATTCAAATTTGACCCTAAACTTTCAAAAAACTAAAA
Found at i:14246867 original size:30 final size:30
Alignment explanation
Indices: 14246714--14246870 Score: 192
Period size: 30 Copynumber: 5.2 Consensus size: 30
14246704 AAAATTATGT
* *
14246714 TTTGACCCCTAAACTTTTTAAAAATTCTAA
1 TTTGACCCCTAAACTTTCTAAAAATTCAAA
* *
14246744 TTTTACCCCTAAACTTTCTAAAAATTTAAAA
1 TTTGACCCCTAAACTTTCTAAAAA-TTCAAA
* *
14246775 TTT-ACCCCTAAATTTTTCCAAAAATTCAAA
1 TTTGACCCCTAAA-CTTTCTAAAAATTCAAA
* * *
14246805 TTTGA-CCCTAAACTTTCAAAAAACTCCAA
1 TTTGACCCCTAAACTTTCTAAAAATTCAAA
*
14246834 TTTGACCCTTAAACTTTCTAAAAATTCAAA
1 TTTGACCCCTAAACTTTCTAAAAATTCAAA
14246864 TTTGACC
1 TTTGACC
14246871 TGGTTTTAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
29 18 0.17
30 73 0.68
31 17 0.16
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTCTAAAAATTCAAA
Found at i:14248010 original size:20 final size:20
Alignment explanation
Indices: 14247985--14248055 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
14247975 TGATGATTTT
14247985 AATAATTTTATATTTAAAAA
1 AATAATTTTATATTTAAAAA
** ***
14248005 AATAATTTTA-AAATAATTTT
1 AATAATTTTATATTTAA-AAA
14248025 AATAATTTTATATTTTAAAAA
1 AATAATTTTATA-TTTAAAAA
14248046 AATAATTTTA
1 AATAATTTTA
14248056 AAATTATTTG
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 4 0.11
20 20 0.53
21 11 0.29
22 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATAATTTTATATTTAAAAA
Found at i:14248016 original size:14 final size:14
Alignment explanation
Indices: 14247997--14248058 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
14247987 TAATTTTATA
14247997 TTTAAAAAAATAAT
1 TTTAAAAAAATAAT
14248011 TTT---AAAATAAT
1 TTTAAAAAAATAAT
***
14248022 TTTAATAATTTTATAT
1 TTTAA-AAAAATA-AT
14248038 TTTAAAAAAATAAT
1 TTTAAAAAAATAAT
14248052 TTTAAAA
1 TTTAAAA
14248059 TTATTTGCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
11 11 0.30
14 12 0.32
15 7 0.19
16 7 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAAAAAATAAT
Found at i:14248019 original size:11 final size:11
Alignment explanation
Indices: 14248003--14248034 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14247993 TATATTTAAA
14248003 AAAATAATTTT
1 AAAATAATTTT
14248014 AAAATAATTTT
1 AAAATAATTTT
14248025 --AATAATTTT
1 AAAATAATTTT
14248034 A
1 A
14248035 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:14248024 original size:40 final size:41
Alignment explanation
Indices: 14247980--14248064 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
14247970 GATGATGATG
14247980 ATTTTAATAATTTTATA-TTTAAAAAAATAATTTTAAAATA
1 ATTTTAATAATTTTATATTTTAAAAAAATAATTTTAAAATA
*
14248020 ATTTTAATAATTTTATATTTTAAAAAAATAATTTTAAAATT
1 ATTTTAATAATTTTATATTTTAAAAAAATAATTTTAAAATA
14248061 ATTT
1 ATTT
14248065 GCTGACGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 17 0.40
41 26 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (41 bp):
ATTTTAATAATTTTATATTTTAAAAAAATAATTTTAAAATA
Found at i:14248595 original size:16 final size:16
Alignment explanation
Indices: 14248574--14248610 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
14248564 AAGTACCTCA
14248574 ATTTTACGTGACAATG
1 ATTTTACGTGACAATG
14248590 ATTTTACGTGACAATG
1 ATTTTACGTGACAATG
14248606 ATTTT
1 ATTTT
14248611 TAATTGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (16 bp):
ATTTTACGTGACAATG
Found at i:14249148 original size:12 final size:12
Alignment explanation
Indices: 14249131--14249160 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
14249121 TATGAATTTG
14249131 TGATTTGTTTTA
1 TGATTTGTTTTA
14249143 TGATTTGTTTTA
1 TGATTTGTTTTA
14249155 TGATTT
1 TGATTT
14249161 TATGGCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (12 bp):
TGATTTGTTTTA
Found at i:14251802 original size:24 final size:24
Alignment explanation
Indices: 14251762--14251809 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14251752 CAAGAATATA
*
14251762 AAAGGTTAAAGATGATGGAAGGTT
1 AAAGGTTAAAGATGATGAAAGGTT
*
14251786 AAAGGTTAAGGGA-GATGAAAGGTT
1 AAAGGTTAA-AGATGATGAAAGGTT
14251810 GAACATCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (24 bp):
AAAGGTTAAAGATGATGAAAGGTT
Found at i:14255568 original size:2 final size:2
Alignment explanation
Indices: 14255563--14255588 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14255553 AAGTATTAAC
14255563 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14255589 TATTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14256864 original size:30 final size:30
Alignment explanation
Indices: 14256821--14256932 Score: 88
Period size: 30 Copynumber: 3.8 Consensus size: 30
14256811 ATAGGTCTCT
* * * *
14256821 AAACTGTCCAAAAATTATATTTTGAC-CCC
1 AAACTTTCTAAAAATTACATTTTAACACCC
14256850 AAAACTTTCTAAAAATTACATTTTAACACCC
1 -AAACTTTCTAAAAATTACATTTTAACACCC
* * *
14256881 AAACTTCCTTAAAATTACCATATT-AC-CCTC
1 AAACTTTCTAAAAATTA-CATTTTAACACC-C
* *
14256911 GAACTTTCT-AAAATTCCATTTT
1 AAACTTTCTAAAAATTACATTTT
14256933 GGACCCTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 5 0.07
29 8 0.12
30 47 0.69
31 8 0.12
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
AAACTTTCTAAAAATTACATTTTAACACCC
Found at i:14256952 original size:29 final size:27
Alignment explanation
Indices: 14256915--14257108 Score: 92
Period size: 29 Copynumber: 6.7 Consensus size: 27
14256905 ACCCTCGAAC
* *
14256915 TTTCTAAAATTCCATTTTGGACCCTAA
1 TTTCCAAAATTCCATTTTTGACCCTAA
* * *
14256942 TTTCACCAAAAATTGCA-TTTTG-CTACCGAGC
1 TTT--CC-AAAATTCCATTTTTGAC--CCTA-A
*
14256973 TTTCCAAAATTTCATTTTTGACCCTAA
1 TTTCCAAAATTCCATTTTTGACCCTAA
*
14257000 TTTCACCAAAAATTGCATTTTTG-CCCTTGAA
1 TTT--CC-AAAATTCCATTTTTGACCC-T-AA
* * **
14257031 CTTTCTAAAATTCCATTTTTAACCCCGA
1 -TTTCCAAAATTCCATTTTTGACCCTAA
14257059 TTTCACCAAAATTACCA-TTTT-ACCCCTAAA
1 TTT--CCAAAATT-CCATTTTTGA-CCCT-AA
14257089 CTTTCCAAAATTCCATTTTT
1 -TTTCCAAAATTCCATTTTT
14257109 AAACCTCAAA
Statistics
Matches: 128, Mismatches: 17, Indels: 42
0.68 0.09 0.22
Matches are distributed among these distances:
27 9 0.07
28 17 0.13
29 56 0.44
30 35 0.27
31 8 0.06
32 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (27 bp):
TTTCCAAAATTCCATTTTTGACCCTAA
Found at i:14256954 original size:30 final size:30
Alignment explanation
Indices: 14256920--14257020 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 30
14256910 CGAACTTTCT
*
14256920 AAAATTCCATTTTGGACCCTAATTTCACCA
1 AAAATTGCATTTTGGACCCTAATTTCACCA
* * *
14256950 AAAATTGCATTTTGCTA-CCGAGCTTT--CC-
1 AAAATTGCATTTTG-GACCCTA-ATTTCACCA
* *
14256978 AAAATTTCATTTTTGACCCTAATTTCACCA
1 AAAATTGCATTTTGGACCCTAATTTCACCA
14257008 AAAATTGCATTTT
1 AAAATTGCATTTT
14257021 TGCCCTTGAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
27 4 0.07
28 15 0.27
29 4 0.07
30 28 0.51
31 4 0.07
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAATTGCATTTTGGACCCTAATTTCACCA
Found at i:14257041 original size:59 final size:58
Alignment explanation
Indices: 14256906--14257108 Score: 232
Period size: 58 Copynumber: 3.5 Consensus size: 58
14256896 TACCATATTA
* * *
14256906 CCCTCGAACTTTCTAAAATTCCATTTTGGACCCTAATTTCACCAAAAATTGCATTTTG
1 CCCTTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAAATTGCATTTTG
* *
14256964 CTACC--GAGCTTTCCAAAATTTCATTTTTGACCCTAATTTCACCAAAAATTGCATTTTTG
1 C--CCTTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAAATTGCA-TTTTG
* * ** * *
14257023 CCCTTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTA
1 CCCTTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAAATT-GCATTTTG
* *
14257081 CCCCTAAACTTTCCAAAATTCCATTTTT
1 CCCTTGAACTTTCCAAAATTCCATTTTT
14257109 AAACCTCAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
57 2 0.02
58 80 0.65
59 40 0.32
60 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (58 bp):
CCCTTGAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAAATTGCATTTTG
Found at i:14257109 original size:29 final size:29
Alignment explanation
Indices: 14256972--14257144 Score: 101
Period size: 29 Copynumber: 5.9 Consensus size: 29
14256962 TGCTACCGAG
*
14256972 CTTT-CCAAAATTTCATTTTTGA-CCCTAA
1 CTTTCCCAAAATTCCATTTTT-ACCCCTAA
* * *
14257000 -TTTCACCAAAAATTGCATTTTTGCCCTTGAA
1 CTTTC-CC-AAAATTCCATTTTTACCCCT-AA
* *
14257031 CTTT-CTAAAATTCCATTTTTAACCCC-GA
1 CTTTCCCAAAATTCCATTTTT-ACCCCTAA
14257059 -TTTCACCAAAATTACCA-TTTTACCCCTAAA
1 CTTTC-CCAAAATT-CCATTTTTACCCCT-AA
* *
14257089 CTTT-CCAAAATTCCATTTTTAAACCTCAAA
1 CTTTCCCAAAATTCCATTTTT--ACCCCTAA
* * *
14257119 ATTTCCCAAAATTACATTTTCACCCC
1 CTTTCCCAAAATTCCATTTTTACCCC
14257145 CGAGAGTTAA
Statistics
Matches: 112, Mismatches: 16, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
27 6 0.05
28 9 0.08
29 42 0.38
30 29 0.26
31 23 0.21
32 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
CTTTCCCAAAATTCCATTTTTACCCCTAA
Found at i:14261057 original size:16 final size:16
Alignment explanation
Indices: 14261036--14261122 Score: 61
Period size: 16 Copynumber: 5.4 Consensus size: 16
14261026 GTGTTCATAA
14261036 TCGGGTACCCGTAATT
1 TCGGGTACCCGTAATT
*
14261052 TCGGGTA-CC-TAAAGAT
1 TCGGGTACCCGT-AA-TT
* *
14261068 TCGGGTTCCCGAAATT
1 TCGGGTACCCGTAATT
* *
14261084 TTGGGTACCCGTAATAA
1 TCGGGTACCCGTAAT-T
* * *
14261101 TCTGGTACCCATATTT
1 TCGGGTACCCGTAATT
14261117 TCGGGT
1 TCGGGT
14261123 CACAGGGTAC
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
14 1 0.02
15 4 0.08
16 32 0.62
17 15 0.29
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (16 bp):
TCGGGTACCCGTAATT
Found at i:14261275 original size:21 final size:21
Alignment explanation
Indices: 14261225--14261275 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
14261215 ATAATAGCAT
14261225 AATCCAAATATAAAGTTTAGA
1 AATCCAAATATAAAGTTTAGA
**
14261246 AATTTAAATATAAAGTTT-GTA
1 AATCCAAATATAAAGTTTAG-A
14261267 AATCCAAAT
1 AATCCAAAT
14261276 TACATAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (21 bp):
AATCCAAATATAAAGTTTAGA
Found at i:14263472 original size:20 final size:20
Alignment explanation
Indices: 14263434--14263484 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
14263424 ATTAATTATT
*
14263434 TATAAAATTTAATTAAAATA
1 TATAAAATATAATTAAAATA
* *
14263454 TATAAAATATATTTCAAATA
1 TATAAAATATAATTAAAATA
*
14263474 T-TTAAATATAA
1 TATAAAATATAA
14263485 CTATTAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAAATATAATTAAAATA
Found at i:14264966 original size:26 final size:25
Alignment explanation
Indices: 14264932--14265009 Score: 68
Period size: 27 Copynumber: 3.0 Consensus size: 25
14264922 TGGAAAAATT
14264932 TATA-AAAATCTTAAAAAAATATAA
1 TATATAAAATCTTAAAAAAATATAA
* *
14264956 TATATTAAAATATAGAAAAAAATTATAA
1 TATA-TAAAATCT-TAAAAAAA-TATAA
* * *
14264984 TTTATAAAATCGTAAGAAAATTATAA
1 TATATAAAATCTTAA-AAAAATATAA
14265010 AAAATTGTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 4 0.10
26 13 0.31
27 17 0.40
28 8 0.19
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (25 bp):
TATATAAAATCTTAAAAAAATATAA
Found at i:14265019 original size:21 final size:20
Alignment explanation
Indices: 14264989--14265053 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
14264979 TATAATTTAT
*
14264989 AAAATCGTAAGAAAATTATAA
1 AAAATTGTAA-AAAATTATAA
* *
14265010 AAAATTGTAAAGAA--ATAC
1 AAAATTGTAAAAAATTATAA
14265028 AAAATTCGTAAAATAAATTATAA
1 AAAATT-GT-AAA-AAATTATAA
14265051 AAA
1 AAA
14265054 TGATCGTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 9 0.26
19 2 0.06
20 6 0.18
21 11 0.32
23 6 0.18
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.25
Consensus pattern (20 bp):
AAAATTGTAAAAAATTATAA
Found at i:14265093 original size:13 final size:13
Alignment explanation
Indices: 14265075--14265099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14265065 AAAGAAGCAA
14265075 TTTATAATTTTTT
1 TTTATAATTTTTT
14265088 TTTATAATTTTT
1 TTTATAATTTTT
14265100 CTATAACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATAATTTTTT
Found at i:14265272 original size:9 final size:9
Alignment explanation
Indices: 14265248--14265299 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
14265238 TTTTTATGCA
*
14265248 TTTTATATT
1 TTTTATAAT
14265257 TTGTTATAAT
1 TT-TTATAAT
*
14265267 TTTTATAAAA
1 TTTTAT-AAT
*
14265277 TTTTACAAT
1 TTTTATAAT
*
14265286 ATTTATAAT
1 TTTTATAAT
14265295 TTTTA
1 TTTTA
14265300 ATAAAATTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:14265279 original size:29 final size:28
Alignment explanation
Indices: 14265247--14265383 Score: 123
Period size: 29 Copynumber: 4.7 Consensus size: 28
14265237 TTTTTTATGC
14265247 ATTTTATATTTTGTTATAATTTTTATAAA
1 ATTTTATATTTT-TTATAATTTTTATAAA
* * *
14265276 ATTTTACAATATTTATAATTTTTAATAAA
1 ATTTTATATTTTTTATAATTTTT-ATAAA
*
14265305 ATTTAAATATATTTTTTATATTTTTTATTAAA
1 ATTT---TATATTTTTTATAATTTTTA-TAAA
* * ***
14265337 ATTTAATATTTTTTATAACTTTTATTGG
1 ATTTTATATTTTTTATAATTTTTATAAA
*
14265365 TTTTTAT-TTTTTTATAATT
1 ATTTTATATTTTTTATAATT
14265384 ATTTTTTCAT
Statistics
Matches: 87, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
27 11 0.13
28 17 0.20
29 35 0.40
31 1 0.01
32 23 0.26
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTATATTTTTTATAATTTTTATAAA
Found at i:14265309 original size:28 final size:27
Alignment explanation
Indices: 14265260--14265314 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
14265250 TTATATTTTG
14265260 TTATAATTTTTATAAAATTTTACAATAT
1 TTATAATTTTTATAAAATTTTA-AATAT
14265288 TTATAATTTTTAATAAAA-TTTAAATAT
1 TTATAATTTTT-ATAAAATTTTAAATAT
14265315 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 5 0.19
28 15 0.58
29 6 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATAATTTTTATAAAATTTTAAATAT
Found at i:14267464 original size:3 final size:3
Alignment explanation
Indices: 14267456--14267503 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
14267446 CTAGTATTTA
14267456 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14267504 TATTTTTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14272268 original size:17 final size:16
Alignment explanation
Indices: 14272246--14272296 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
14272236 ATAATTTCGG
14272246 TGAAATAGTTAAATGAA
1 TGAAATAGTTAAAT-AA
*
14272263 TGAAATAATTTAAATAA
1 TGAAAT-AGTTAAATAA
*
14272280 TAAAATAG-TAAA-AA
1 TGAAATAGTTAAATAA
14272294 TGA
1 TGA
14272297 GATATCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 4 0.14
15 4 0.14
16 1 0.03
17 13 0.45
18 7 0.24
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
TGAAATAGTTAAATAA
Found at i:14274008 original size:17 final size:17
Alignment explanation
Indices: 14273966--14274030 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
14273956 GGCCCAACTG
* *
14273966 GATTTTAATTTAAGTTT
1 GATTTAAATTTAAATTT
* *
14273983 GAATTAATTTTAAATTT
1 GATTTAAATTTAAATTT
14274000 -ATTTAAATTTAAATTT
1 GATTTAAATTTAAATTT
*
14274016 GTTTTAAATTTAAAT
1 GATTTAAATTTAAAT
14274031 ACATTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.35
17 26 0.65
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
GATTTAAATTTAAATTT
Found at i:14274014 original size:27 final size:27
Alignment explanation
Indices: 14273973--14274046 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
14273963 CTGGATTTTA
* *
14273973 ATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
**
14274000 ATTTAAATTTAAATTTGTTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
** * *
14274027 AAATACATTTAAAATAATTT
1 ATTTAAATTTAAATTAATTT
14274047 GAAACTTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (27 bp):
ATTTAAATTTAAATTAATTTTAAATTT
Found at i:14274028 original size:33 final size:33
Alignment explanation
Indices: 14273967--14274039 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
14273957 GCCCAACTGG
* * * **
14273967 ATTTTAATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
**
14274000 ATTTAAATTTAAATTTGTTTTAAATTTAAATAC
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
14274033 ATTTAAA
1 ATTTAAA
14274040 ATAATTTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (33 bp):
ATTTAAATTTAAATTTGAATTAAATTTAAATAC
Found at i:14274039 original size:16 final size:16
Alignment explanation
Indices: 14273986--14274039 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
14273976 TAAGTTTGAA
* *
14273986 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
14274002 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
14274019 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
14274035 TTAAA
1 TTAAA
14274040 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:14274814 original size:10 final size:10
Alignment explanation
Indices: 14274799--14274832 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
14274789 AACCAAACTC
*
14274799 ATTAATATTA
1 ATTAATAATA
14274809 ATTAATAATA
1 ATTAATAATA
*
14274819 ATAAATAATA
1 ATTAATAATA
14274829 ATTA
1 ATTA
14274833 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTAATAATA
Found at i:14276314 original size:21 final size:22
Alignment explanation
Indices: 14276290--14276339 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
14276280 AGGACCTCCC
*
14276290 TAGGCAAATGGAGGA-AAAGTA
1 TAGGCAAATGGAGGAGAAAATA
* * *
14276311 TAGGCTATTGGAGGAGAAAATT
1 TAGGCAAATGGAGGAGAAAATA
14276333 TAGGCAA
1 TAGGCAA
14276340 TACAAGGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (22 bp):
TAGGCAAATGGAGGAGAAAATA
Found at i:14284728 original size:17 final size:17
Alignment explanation
Indices: 14284686--14284750 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
14284676 GCCCAACTTG
* *
14284686 GATTTTAATTTAAGTTT
1 GATTTAAATTTAAATTT
* *
14284703 GAATTAATTTTAAATTT
1 GATTTAAATTTAAATTT
14284720 -ATTTAAATTTAAATTT
1 GATTTAAATTTAAATTT
*
14284736 GTTTTAAATTTAAAT
1 GATTTAAATTTAAAT
14284751 ACATTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.35
17 26 0.65
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
GATTTAAATTTAAATTT
Found at i:14284729 original size:33 final size:33
Alignment explanation
Indices: 14284687--14284759 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
14284677 CCCAACTTGG
* * * **
14284687 ATTTTAATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
**
14284720 ATTTAAATTTAAATTTGTTTTAAATTTAAATAC
1 ATTTAAATTTAAATTTGAATTAAATTTAAATAC
14284753 ATTTAAA
1 ATTTAAA
14284760 ATAATTTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (33 bp):
ATTTAAATTTAAATTTGAATTAAATTTAAATAC
Found at i:14284734 original size:27 final size:27
Alignment explanation
Indices: 14284693--14284766 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
14284683 TTGGATTTTA
* *
14284693 ATTTAAGTTTGAATTAATTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
**
14284720 ATTTAAATTTAAATTTGTTTTAAATTT
1 ATTTAAATTTAAATTAATTTTAAATTT
** * *
14284747 AAATACATTTAAAATAATTT
1 ATTTAAATTTAAATTAATTT
14284767 GAAACTTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (27 bp):
ATTTAAATTTAAATTAATTTTAAATTT
Found at i:14284759 original size:16 final size:16
Alignment explanation
Indices: 14284706--14284759 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
14284696 TAAGTTTGAA
* *
14284706 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
14284722 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
14284739 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
14284755 TTAAA
1 TTAAA
14284760 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:14285508 original size:10 final size:10
Alignment explanation
Indices: 14285493--14285526 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
14285483 AACCAAACTC
*
14285493 ATTAATATTA
1 ATTAATAATA
14285503 ATTAATAATA
1 ATTAATAATA
*
14285513 ATAAATAATA
1 ATTAATAATA
14285523 ATTA
1 ATTA
14285527 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTAATAATA
Found at i:14286663 original size:29 final size:28
Alignment explanation
Indices: 14286614--14286831 Score: 137
Period size: 29 Copynumber: 7.5 Consensus size: 28
14286604 CCTGAACTTT
*
14286614 CCAAAATTCTATTTTTAACCCCGATTTCA
1 CCAAAATTCCA-TTTTAACCCCGATTTCA
**
14286643 CCAAAAATTACCATTTT-ACCCTTAAACTTT--
1 CC-AAAATT-CCATTTTAACCC--CGA-TTTCA
*
14286673 CCAAAATTCCATTTTAACCCCGGTTTCA
1 CCAAAATTCCATTTTAACCCCGATTTCA
* *
14286701 CCAAAAATTACCATTTT-ACCCCAAACTTC-
1 CC-AAAATT-CCATTTTAACCCC-GATTTCA
* *
14286730 CCAAACTTCCATTTTTAACCTCGATTTCA
1 CCAAAATTCCA-TTTTAACCCCGATTTCA
*
14286759 CCAAAAATTACCATTTT-ACCTCCAAACTTT--
1 CC-AAAATT-CCATTTTAACC-CC-GA-TTTCA
* *
14286789 CTAAAATTCCATTTTTGACCCCGATTTCA
1 CCAAAATTCCA-TTTTAACCCCGATTTCA
14286818 CCAAAATTCCATTT
1 CCAAAATTCCATTT
14286832 CTACCCTCGG
Statistics
Matches: 147, Mismatches: 19, Indels: 47
0.69 0.09 0.22
Matches are distributed among these distances:
26 3 0.02
27 6 0.04
28 29 0.20
29 60 0.41
30 36 0.24
31 7 0.05
32 6 0.04
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.35
Consensus pattern (28 bp):
CCAAAATTCCATTTTAACCCCGATTTCA
Found at i:14286814 original size:59 final size:58
Alignment explanation
Indices: 14286608--14286837 Score: 340
Period size: 58 Copynumber: 4.0 Consensus size: 58
14286598 CTACTCCCTG
* *
14286608 AACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTTA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC-CA
*
14286667 AACTTTCCAAAATTCCA-TTTTAACCCCGGTTTCACCAAAAATTACCATTTTACCCCA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCA
* * *
14286724 AACTTCCCAAACTTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCTCCA
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC-CCA
* *
14286783 AACTTTCTAAAATTCCATTTTTGACCCCGATTTCACC-AAAATT-CCATTTCTACCC
1 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTT-TACCC
14286838 TCGGAGGTCA
Statistics
Matches: 156, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
57 23 0.15
58 82 0.53
59 51 0.33
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.35
Consensus pattern (58 bp):
AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCA
Found at i:14288659 original size:25 final size:24
Alignment explanation
Indices: 14288624--14288677 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
14288614 TATTAATGAA
14288624 ATAA-TTTATATTAAATTATTAAAT
1 ATAATTTTATATTAAA-TATTAAAT
* *
14288648 ATAATTTTATATTTAATATTTAAT
1 ATAATTTTATATTAAATATTAAAT
14288672 -TAATTT
1 ATAATTT
14288678 ATGCATGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
24 11 0.41
25 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATAATTTTATATTAAATATTAAAT
Found at i:14293986 original size:28 final size:28
Alignment explanation
Indices: 14293946--14294017 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
14293936 ATAACCATTG
14293946 GGTCAACAGGGAGTAAGCATGACCTTTA
1 GGTCAACAGGGAGTAAGCATGACCTTTA
* *
14293974 GGTCAATAGGGAGTATGCATGACCTTTA
1 GGTCAACAGGGAGTAAGCATGACCTTTA
14294002 GGTCAACAGGGAGTAA
1 GGTCAACAGGGAGTAA
14294018 ATCGGATATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (28 bp):
GGTCAACAGGGAGTAAGCATGACCTTTA
Found at i:14304946 original size:38 final size:38
Alignment explanation
Indices: 14304904--14304978 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
14304894 GAGTCTATTC
* *
14304904 AGAATTGCGCCCAGAATTGTCAATGCATGACGATGTCT
1 AGAATTACGCCCAAAATTGTCAATGCATGACGATGTCT
*
14304942 AGAATTACGCCCAAAATTGTCACTGCATGACGATGTC
1 AGAATTACGCCCAAAATTGTCAATGCATGACGATGTC
14304979 CAAAAATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (38 bp):
AGAATTACGCCCAAAATTGTCAATGCATGACGATGTCT
Found at i:14310663 original size:153 final size:152
Alignment explanation
Indices: 14310486--14310808 Score: 422
Period size: 153 Copynumber: 2.1 Consensus size: 152
14310476 CTTGAAATCC
* * * *
14310486 TTTGTATATAAATATATAAGATTGAA-GAGTGTTT-TGAAAGCTCTTGAAAAGGATATCCGATTG
1 TTTGTATATAGATATATAAAATTGAAGGA-TGTTTCGGAAA-CTCTTGAAAAGGATATCCGATTC
* * *
14310549 GCATGAATCACGAAAATCACACTTAACACGTTAAAGCGCGAT-TTTTCGAAGTTTTCACACGA-A
64 ACATGAATCACGAAAATCACACTTAAAACGTTAAAGCGCGATCTTTT-GAAGTTTCCACACGACA
*
14310612 GGACATTG-CCTCGTTTTTAAAAATA
128 GGACATTGCCCTCG-CTTTAAAAATA
* * * *
14310637 TTTGTGATATAGATATATAAAAATTGAAGGATGTTTCGGGAACTTTTGAAGAGGATATTCGATTC
1 TTTGT-ATATAGATATAT-AAAATTGAAGGATGTTTCGGAAACTCTTGAAAAGGATATCCGATTC
*
14310702 ACATGAATTACGAAAATCACACTTAAAACGTTAAAGCGCGATCTTTTGAAGTTTCCACACGACAG
64 ACATGAATCACGAAAATCACACTTAAAACGTTAAAGCGCGATCTTTTGAAGTTTCCACACGACAG
*
14310767 GACATTGCCCTCGCTTTAAAATTA
129 GACATTGCCCTCGCTTTAAAAATA
14310791 TTTGTAATATAGATATAT
1 TTTGT-ATATAGATATAT
14310809 GTTTTGAGAA
Statistics
Matches: 150, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
151 5 0.03
152 11 0.07
153 85 0.57
154 44 0.29
155 5 0.03
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (152 bp):
TTTGTATATAGATATATAAAATTGAAGGATGTTTCGGAAACTCTTGAAAAGGATATCCGATTCAC
ATGAATCACGAAAATCACACTTAAAACGTTAAAGCGCGATCTTTTGAAGTTTCCACACGACAGGA
CATTGCCCTCGCTTTAAAAATA
Found at i:14311410 original size:59 final size:60
Alignment explanation
Indices: 14311321--14311610 Score: 306
Period size: 59 Copynumber: 4.9 Consensus size: 60
14311311 ATTTAGGGTT
* * * * *
14311321 AAAATGGGATTTTAG-AAGATTC-GAGGGTAAAGTGGTAATTTTTGGTGAAACCG-GAATTA
1 AAAATGGAATTTTGGAAAG-TTCAGAGGGTAAAATGGTAATTTTGGGTGAAATCGAG-ATTA
* * *
14311380 AAAATGGAATTTTGGAAAGTTCAGA-GGTAAAATGGTAATTTTCGATGAAATCGAGGTTA
1 AAAATGGAATTTTGGAAAGTTCAGAGGGTAAAATGGTAATTTTGGGTGAAATCGAGATTA
* * ** *
14311439 AAAATTGAATTTTAGAGGGTTC-GAGGGCTAAAATGGTAATTTTGGGTGAAATCGGGATTA
1 AAAATGGAATTTTGGAAAGTTCAGAGGG-TAAAATGGTAATTTTGGGTGAAATCGAGATTA
* * * * * *
14311499 AAAATGAAATTTTGGGAAGTTTAG-GGGTAGATTGGTAATTTTGGGTGAAATCGAGGTTA
1 AAAATGGAATTTTGGAAAGTTCAGAGGGTAAAATGGTAATTTTGGGTGAAATCGAGATTA
* * *
14311558 AAAATGGAATTTTGGAAAGTTTA-AGGGTAGAATGGTAATTTTTGGTGAAATCG
1 AAAATGGAATTTTGGAAAGTTCAGAGGGTAAAATGGTAATTTTGGGTGAAATCG
14311611 GGGTCAAAAT
Statistics
Matches: 194, Mismatches: 30, Indels: 14
0.82 0.13 0.06
Matches are distributed among these distances:
58 2 0.01
59 139 0.72
60 52 0.27
61 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (60 bp):
AAAATGGAATTTTGGAAAGTTCAGAGGGTAAAATGGTAATTTTGGGTGAAATCGAGATTA
Found at i:14311501 original size:30 final size:30
Alignment explanation
Indices: 14311468--14311572 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 30
14311458 TTCGAGGGCT
14311468 AAAATGGTAATTTTGGGTGAAATCGGGATTA
1 AAAATGGTAATTTTGGGTGAAATCGGG-TTA
* * * *
14311499 AAAAT-GAAATTTT-GG-GAAGTTTAGGGGT-
1 AAAATGGTAATTTTGGGTGAA--ATCGGGTTA
* *
14311527 AGATTGGTAATTTTGGGTGAAATCGAGGTTA
1 AAAATGGTAATTTTGGGTGAAATCG-GGTTA
14311558 AAAATGG-AATTTTGG
1 AAAATGGTAATTTTGG
14311573 AAAGTTTAAG
Statistics
Matches: 55, Mismatches: 12, Indels: 15
0.67 0.15 0.18
Matches are distributed among these distances:
28 6 0.11
29 12 0.22
30 24 0.44
31 13 0.24
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTGGGTGAAATCGGGTTA
Found at i:14311535 original size:119 final size:118
Alignment explanation
Indices: 14311317--14311612 Score: 387
Period size: 119 Copynumber: 2.5 Consensus size: 118
14311307 GTAAATTTAG
* * * * *
14311317 GGTT-AAAATGGGATTTTAGAAGATTCGAGGGTAAAGTGGTAATTTTTGGTGAAACCGGAATTAA
1 GGTTAAAAATGGAATTTTAGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGATTAA
*
14311381 AAATGGAATTTTGGAAAGTTCAGAGGTAAAATGGTAATTTTCGATGAAATCGA
66 AAATGAAATTTTGGAAAGTTCAGAGGTAAAATGGTAATTTTCGATGAAATCGA
* * *
14311434 GGTTAAAAATTGAATTTTAGAGGGTTCGAGGGCTAAAATGGTAATTTTGGGTGAAATCGGGATTA
1 GGTTAAAAATGGAATTTTAGAAGGTTCGAGGG-TAAAATGGTAATTTTTGGTGAAATCGGGATTA
* * * * * * *
14311499 AAAATGAAATTTTGGGAAGTTTAGGGGTAGATTGGTAATTTTGGGTGAAATCGA
65 AAAATGAAATTTTGGAAAGTTCAGAGGTAAAATGGTAATTTTCGATGAAATCGA
* * ** *
14311553 GGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAGAATGGTAATTTTTGGTGAAATCGGG
1 GGTTAAAAATGGAATTTTAGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGG
14311613 GTCAAAATGT
Statistics
Matches: 153, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
117 4 0.03
118 49 0.32
119 100 0.65
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (118 bp):
GGTTAAAAATGGAATTTTAGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCGGGATTAA
AAATGAAATTTTGGAAAGTTCAGAGGTAAAATGGTAATTTTCGATGAAATCGA
Found at i:14314241 original size:200 final size:199
Alignment explanation
Indices: 14313892--14314540 Score: 1041
Period size: 200 Copynumber: 3.3 Consensus size: 199
14313882 TTCATTGACC
* * * * *
14313892 TGGTCTTCTTCTCTGTGTCTCATCAGGAAGATGACCGCGATCATCTGTTTTAATTCGCATCTCTG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGC-CTCAT-TGTTTTGATTCGCTTCTCTG
* *
14313957 GATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTAT
64 GATCTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTAT
* * *
14314022 TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGGTGGGTTCGAAGATTGGCTCGTGTTGAGCG
129 TACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCG
14314087 TTGAGT
194 TTGAGT
*
14314093 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCACTTGTTTTGATTCGCTTCTCTGG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCA-TTGTTTTGATTCGCTTCTCTGG
*
14314158 ATCTCCTCAGGAAGATGAAACTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
65 ATCTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
* *
14314223 CCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAATATTGGTTCGTGTTGAGCGT
130 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCGT
14314288 TGAGT
195 TGAGT
* * *
14314293 TGGTATTCTTCTCTGTA--TCATCAGGAAGATGACTGCCTCGCTTGTTTTGATTCGCTTCTCTAG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC-ATTGTTTTGATTCGCTTCTCTGG
* *
14314356 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGTTAACCATTTTATT
65 ATCTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
* * *
14314421 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCAAAGATCGGTTCGTGTTGAGCGC
130 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCGT
14314486 TGAGT
195 TGAGT
*
14314491 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCAATGTTTTG
1 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTG
14314541 TTGAACTACT
Statistics
Matches: 418, Mismatches: 26, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
198 187 0.45
199 7 0.02
200 188 0.45
201 36 0.09
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (199 bp):
TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTGATTCGCTTCTCTGGA
TCTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTA
CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCGTT
GAGT
Found at i:14314428 original size:198 final size:198
Alignment explanation
Indices: 14313892--14314540 Score: 1012
Period size: 198 Copynumber: 3.2 Consensus size: 198
14313882 TTCATTGACC
* * * * * *
14313892 TGGTCTTCTTCTCTGTGTCTCATCAGGAAGATGACCGCGATCATCTGTTTTAATTCGCATCTCTG
1 TGGTATTCTTCTCTGT-ACTCATCAGGAAGATGACCGC-CTCCT-TGTTTTGATTCGCTTCTCTG
* *
14313957 GATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTAT
63 GATCTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTAT
* * *
14314022 TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGGTGGGTTCGAAGATTGGCTCGTGTTGAGCG
128 TACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCG
14314087 TTGAGT
193 TTGAGT
*
14314093 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCACTTGTTTTGATTCGCTTCTCTGG
1 TGGTATTCTTCTCTGTA-CTCATCAGGAAGATGACCGCCTC-CTTGTTTTGATTCGCTTCTCTGG
*
14314158 ATCTCCTCAGGAAGATGAAACTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
64 ATCTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
* *
14314223 CCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAATATTGGTTCGTGTTGAGCGT
129 ACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCGT
14314288 TGAGT
194 TGAGT
* *
14314293 TGGTATTCTTCTCTGTA-TCATCAGGAAGATGACTGCCTCGCTTGTTTTGATTCGCTTCTCTAGA
1 TGGTATTCTTCTCTGTACTCATCAGGAAGATGACCGCCTC-CTTGTTTTGATTCGCTTCTCTGGA
* *
14314357 TCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGTTAACCATTTTATTA
65 TCTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTA
* * *
14314422 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCAAAGATCGGTTCGTGTTGAGCGCT
130 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCGTT
14314487 GAGT
195 GAGT
**
14314491 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCAATGTTTTG
1 TGGTATTCTTCTCTGTA-CTCATCAGGAAGATGACCGCCTCCTTGTTTTG
14314541 TTGAACTACT
Statistics
Matches: 417, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
198 188 0.45
199 7 0.02
200 187 0.45
201 35 0.08
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (198 bp):
TGGTATTCTTCTCTGTACTCATCAGGAAGATGACCGCCTCCTTGTTTTGATTCGCTTCTCTGGAT
CTCCTCAGGAAGATGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTAC
TTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGTTCGTGTTGAGCGTTG
AGT
Found at i:14325187 original size:25 final size:25
Alignment explanation
Indices: 14325149--14325206 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
14325139 AGTGAAAACT
*
14325149 TCACGAAAATAAGGGTACTTTGTAA
1 TCACGAAAACAAGGGTACTTTGTAA
14325174 TCACGAAAACAAGGGTACTTTGTAA
1 TCACGAAAACAAGGGTACTTTGTAA
*
14325199 TCCCGAAA
1 TCACGAAA
14325207 GCGATTCGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (25 bp):
TCACGAAAACAAGGGTACTTTGTAA
Found at i:14326219 original size:151 final size:151
Alignment explanation
Indices: 14326007--14326326 Score: 430
Period size: 151 Copynumber: 2.1 Consensus size: 151
14325997 CTTGAAATCC
* *
14326007 TTTGTATATAAATATATAAAATTGAAGAGTGTTTTGAAAGCTCTTGAAAAGGATATCCGATTGGC
1 TTTGTATATAAATATATAAAATTGAAGAGTGTTTGGAAAGCTCTTGAAAAGGATATCCGATTCGC
* * * *
14326072 ATGAATCATGAAAATCACACTTAACACGTTAAAGCGTGATTTTTCGAAGTTTTCATACGAAAGGA
66 ATGAATCATGAAAATCACACTTAACACGTTAAAGCGCGATCTTTCGAAGTTTCCACACGAAAGGA
*
14326137 CATTGCCTCGTTTTAAAAATA
131 CATTGCCTCGCTTTAAAAATA
* * * * *
14326158 TTTGTGATATATATATA-AAAATTGAAG-GATGTTTCGGGAA-CTTTTGAAGAGGATATTCGATT
1 TTTGT-ATATAAATATATAAAATTGAAGAG-TGTTT-GGAAAGCTCTTGAAAAGGATATCCGATT
* * *
14326220 CGCATGAATTATGAAAATCCCACTTAACACGTTAAAGCGCGATCTTTCGAAGTTTCCACACGACA
63 CGCATGAATCATGAAAATCACACTTAACACGTTAAAGCGCGATCTTTCGAAGTTTCCACACGAAA
*
14326285 GGACATTGCCTCGCTTTAAAATTA
128 GGACATTGCCTCGCTTTAAAAATA
*
14326309 TTTGTAATATAGATATAT
1 TTTGT-ATATAAATATAT
14326327 GTTTTGAGAA
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
150 1 0.01
151 133 0.90
152 13 0.09
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (151 bp):
TTTGTATATAAATATATAAAATTGAAGAGTGTTTGGAAAGCTCTTGAAAAGGATATCCGATTCGC
ATGAATCATGAAAATCACACTTAACACGTTAAAGCGCGATCTTTCGAAGTTTCCACACGAAAGGA
CATTGCCTCGCTTTAAAAATA
Found at i:14326936 original size:59 final size:59
Alignment explanation
Indices: 14326811--14327225 Score: 407
Period size: 59 Copynumber: 7.1 Consensus size: 59
14326801 TTGGATACCG
* * * * * * *
14326811 AGGGGTAAAATAGTAA-TTTTGGGGAAATTTGGGGTTAAAAATAGG-GTTTT-AAAAGATTT
1 AGGGGTAAATTGGTAATTTTTGGTGAAA-TCGAGGTTAAAAAT-GGAATTTTGGAAAG-TTT
* * * * *
14326870 AAGGGTAAAGTGGTAATTTTTGGTGAAAGCGAGATTAAAAATGGAATTTTGGAAAGTTC
1 AGGGGTAAATTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
* * * *
14326929 AGAGGTAAAATGGTAATTTTCGGTGAAATCG-GGTT-AAAAGGGAATTTTGGAAAGTTT
1 AGGGGTAAATTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
* * * ** *
14326986 GGGGGTAGATTGGTAA-TTTTGGGGAAATTAAGGTTAAAAATGGAATTTTTGAAAGTTT
1 AGGGGTAAATTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
14327044 AGGGGTAGATTGGTAATTTTGGGTGAAATCG-GGATTAAAAATGAAATTTTGGAAAGTTT
1 AGGGGTAAATTGGTAATTTTTGGTGAAATCGAGG-TTAAAAATGGAATTTTGGAAAGTTT
* * *
14327103 AGGGGTAGATTGGTAATTTTAGGTGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTT
1 AGGGGTAAATTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
* * * * * *
14327162 AGGGGTAGAA-TGGCAATTTTTGGTGAAATTGGGGTT-AAAATGTAATTTTTGAAAATTT
1 AGGGGTA-AATTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
*
14327220 TGGGGT
1 AGGGGT
14327226 CACAAATATA
Statistics
Matches: 298, Mismatches: 49, Indels: 19
0.81 0.13 0.05
Matches are distributed among these distances:
56 10 0.03
57 36 0.12
58 65 0.22
59 170 0.57
60 17 0.06
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (59 bp):
AGGGGTAAATTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
Found at i:14327003 original size:29 final size:29
Alignment explanation
Indices: 14326971--14327065 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
14326961 GTTAAAAGGG
*
14326971 AATTTTGGAAAGTTTGGGGGTAGATTGGT
1 AATTTTGGAAAGTTTAGGGGTAGATTGGT
* * * *
14327000 AATTTTGGGGAAA--TTAAGGTTAAAAATGG-
1 AATTTT--GGAAAGTTTAGGGGT-AGATTGGT
*
14327029 AATTTTTGAAAGTTTAGGGGTAGATTGGT
1 AATTTTGGAAAGTTTAGGGGTAGATTGGT
14327058 AATTTTGG
1 AATTTTGG
14327066 GTGAAATCGG
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 30 0.61
30 5 0.10
31 5 0.10
ACGTcount: A:0.31, C:0.00, G:0.32, T:0.38
Consensus pattern (29 bp):
AATTTTGGAAAGTTTAGGGGTAGATTGGT
Found at i:14329163 original size:18 final size:18
Alignment explanation
Indices: 14329109--14329171 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
14329099 TTCGATATTG
* *
14329109 ATTTAAATTTTA-ATTAA
1 ATTTAAATTTAACAATAA
*
14329126 ATTTAGATTTAAAGCAATAA
1 ATTTAAATTT-AA-CAATAA
14329146 ATTTAAATTTAACAATAA
1 ATTTAAATTTAACAATAA
14329164 ATTTAAAT
1 ATTTAAAT
14329172 CTATTTAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 9 0.23
18 15 0.38
19 2 0.05
20 13 0.33
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTTAAATTTAACAATAA
Found at i:14331981 original size:30 final size:29
Alignment explanation
Indices: 14331935--14332000 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
14331925 ATTTTCGAGG
*
14331935 AATTTAGGGATCAAAAT-TGAAATTTTTGGAA
1 AATTT-GGGATCAAAATCT--AACTTTTGGAA
*
14331966 AATTTGGGATTAAAATCTAACTTTTGGAA
1 AATTTGGGATCAAAATCTAACTTTTGGAA
14331995 AATTTG
1 AATTTG
14332001 AGGTCGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.50
30 10 0.31
31 6 0.19
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (29 bp):
AATTTGGGATCAAAATCTAACTTTTGGAA
Found at i:14332115 original size:30 final size:30
Alignment explanation
Indices: 14332007--14332264 Score: 269
Period size: 30 Copynumber: 8.8 Consensus size: 30
14331997 TTTGAGGTCG
* * * *
14332007 AAAATGTGATTTTTG-GAAG-TTCAGGGGT
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTT
* * * * *
14332035 AAAATGTGATTTTTG-GAAGTTTGAGGATA
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTT
* * *
14332064 AAAATGTAATTTTTG-GAAGTTTGAGGGTA
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTT
* *
14332093 AAAATGTGATTTTTGAGAAGTTTAAGGG-T
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTT
14332122 ACAAATGTAATTTTTGAAAAGTTTAAGGGTT
1 A-AAATGTAATTTTTGAAAAGTTTAAGGGTT
* *
14332153 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTT
*
14332183 AAAATGTAATTTTAGAAAAGTTT-AGGGTT
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTT
*
14332212 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGAAAAGTTTAAGGGTT
* * *
14332242 AAAATGCAACTTTAGAAAA-TTTA
1 AAAATGTAATTTTTGAAAAGTTTA
14332265 GGTGCAAAAA
Statistics
Matches: 206, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
28 19 0.09
29 78 0.38
30 107 0.52
31 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTTAAGGGTT
Found at i:14332137 original size:59 final size:58
Alignment explanation
Indices: 14331955--14332266 Score: 282
Period size: 59 Copynumber: 5.3 Consensus size: 58
14331945 TCAAAATTGA
* *
14331955 AATTTTTGGAAAA-TTT-GGGATTAAAATCTAACTTTTGGAAAA-TTTGA-GGTCGAAAATGT
1 AATTTTT-GAAAAGTTTAGGG-TTAAAATGTAA-TTTTGGAAAAGTTTAAGGGT--AAAATGT
* * * * * * *
14332014 GATTTTTG-GAAGTTCAGGGGTAAAATGTGATTTTTGG--AAGTTTGAGGATAAAAATGT
1 AATTTTTGAAAAGTTTAGGGTTAAAATGT-AATTTTGGAAAAGTTTAAGGGT-AAAATGT
* * * * *
14332071 AATTTTTG-GAAGTTTGAGGGTAAAAATGTGATTTTTGAGAAGTTTAAGGGTACAAATGT
1 AATTTTTGAAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTA-AAATGT
*
14332130 AATTTTTGAAAAGTTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTTAAAATGT
1 AATTTTTGAAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGG-TAAAATGT
* *
14332190 AATTTTAGAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGC
1 AATTTTTGAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGG-TAAAATGT
* *
14332249 AACTTTAGAAAA-TTTAGG
1 AATTTTTGAAAAGTTTAGG
14332267 TGCAAAAATG
Statistics
Matches: 214, Mismatches: 28, Indels: 23
0.81 0.11 0.09
Matches are distributed among these distances:
56 2 0.01
57 32 0.15
58 36 0.17
59 86 0.40
60 56 0.26
61 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (58 bp):
AATTTTTGAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTAAAATGT
Found at i:14333383 original size:18 final size:17
Alignment explanation
Indices: 14333360--14333410 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
14333350 CGGATTTCTT
14333360 TTATTTCATTTATTAATA
1 TTATTT-ATTTATTAATA
14333378 TTATTTA-TTATT--TA
1 TTATTTATTTATTAATA
*
14333392 TTATGTATTTATTTAATA
1 TTATTTATTTA-TTAATA
14333410 T
1 T
14333411 GTTTTCAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 8 0.29
15 3 0.11
16 7 0.25
17 1 0.04
18 9 0.32
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATTTATTTATTAATA
Found at i:14334551 original size:78 final size:77
Alignment explanation
Indices: 14334465--14335116 Score: 394
Period size: 78 Copynumber: 8.4 Consensus size: 77
14334455 GGACGGTTGC
* * * *
14334465 AATCTGCCCCAAGCTCGAGGTAAGAGATTAGCTGATGGTGATCTACCTCAAGCTCGGGGTAAAAG
1 AATCTGCCCTAGGCTCGGGGTAAGAGATT-GCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAG
14334530 ATCGGATGGCTGT
65 ATCGGATGGCTGT
* *
14334543 AATTTGCCCTAGGCTCGGGGTAAGAAATTGGCTGATGGTGATCTGCC-CAAGGCTCGGGGTAAAA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATT-GCTGATGGTGATCTGCCTCAA-GCTCGGGGTAAAA
* * *
14334607 AATTGGATGGTTGT
64 GATCGGATGGCTGT
* * *
14334621 AATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGTCTCAGGCTCGGGGTAAGAG
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTG-CTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAG
*
14334686 ATCGAATGGCTGT
65 ATCGGATGGCTGT
* * * ** * * * *
14334699 AATCTACCTTAGGCTCGGGGTAAAAGA-T-CAAATGGCTGCAATCTATCC-CAGGCTTGAGGTAA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGCTGATGG-TG--ATCT-GCCTCAAGCTCGGGGTAA
* * * *
14334761 GAGATTGGCT-GATGGT
62 AAGATCGGATGGCT-GT
* * * * ** * * *
14334777 GATTTGCCCTCAGGCTCGGTGTAAAAGA-T-CAAATGGCTGTAATTTGCCT-AGGCTCGAGGTAA
1 AATCTGCCCT-AGGCTCGGGGTAAGAGATTGCTGATGG-TG--ATCTGCCTCAAGCTCGGGGTAA
* ** * *
14334839 GAGATTAG-TTGATAGT
62 AAGATCGGATGGCT-GT
* * * * ** * *
14334855 GATCTGTCTTAGGCTAGGGGTAAGAGATT--AAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGCTGATGG-TG--ATCTGCCTCAAGCTCGGGGTAAA
*** *
14334918 AGATTAAATGGCTGC
63 AGATCGGATGGCTGT
* * * *
14334933 AATCTG-CCTCATGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTTGGGGTAAGA
1 AATCTGCCCT-AGGCTCGGGGTAAGAGATTG-CTGATGGTGATCTGCCTCAAGCTCGGGGTAAAA
*** *
14334997 GATTAAATGGCTGC
64 GATCGGATGGCTGT
* * * * * *
14335011 AATCTACCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTGATCTACC-CTAGGCTCGGGGTAAAA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATT-GCTGATGGTGATCTGCCTC-AAGCTCGGGGTAAAA
** * *
14335075 GATCAAATGGTTGC
64 GATCGGATGGCTGT
14335089 AATCTGCCCTAGGCTCGGGGTAAGAGAT
1 AATCTGCCCTAGGCTCGGGGTAAGAGAT
14335117 CGGAATCTTC
Statistics
Matches: 473, Mismatches: 80, Indels: 42
0.79 0.13 0.07
Matches are distributed among these distances:
75 5 0.01
76 2 0.00
77 41 0.09
78 379 0.80
79 40 0.08
80 2 0.00
81 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (77 bp):
AATCTGCCCTAGGCTCGGGGTAAGAGATTGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGA
TCGGATGGCTGT
Found at i:14334559 original size:39 final size:39
Alignment explanation
Indices: 14334516--14335117 Score: 324
Period size: 39 Copynumber: 15.4 Consensus size: 39
14334506 TCTACCTCAA
* * *
14334516 GCTCGGGGTAAAAGATCGGATGGCTGTAATTTGCCCTAG
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCTAG
* * *
14334555 GCTCGGGGTAAGAAATTGGCTGATGG-TG--ATCTGCCCAAG
1 GCTCGGGGTAAGAGA-T--CAGATGGCTGTAATCTGCCCTAG
* * ** *
14334594 GCTCGGGGTAAAAAATTGGATGGTTGTAATCTGCCCTAG
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCTAG
* *
14334633 GCTCGGGGTAAGAGATTGACTGATGG-TG--ATCTG-TCTCAG
1 GCTCGGGGTAAGAGA-T--CAGATGGCTGTAATCTGCCCT-AG
* *
14334672 GCTCGGGGTAAGAGATC-GAATGGCTGTAATCTACCTTAG
1 GCTCGGGGTAAGAGATCAG-ATGGCTGTAATCTGCCCTAG
* * * *
14334711 GCTCGGGGTAAAAGATCAAATGGCTGCAATCTATCCC-AG
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCT-GCCCTAG
* * * *
14334750 GCTTGAGGTAAGAGATTGGCTGATGG-TG--ATTTGCCCTCAG
1 GCTCGGGGTAAGAGA-T--CAGATGGCTGTAATCTGCCCT-AG
* * * *
14334790 GCTCGGTGTAAAAGATCAAATGGCTGTAATTTG-CCTAG
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCTAG
* * * * * * *
14334828 GCTCGAGGTAAGAGATTAG-TTGATAGTGATCTGTCTTAG
1 GCTCGGGGTAAGAGATCAGATGGCT-GTAATCTGCCCTAG
* * * * *
14334867 GCTAGGGGTAAGAGATTAAATGGCTGCAATCTGCCCCAG
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCTAG
* * * * *
14334906 GCTCGGGGTAAAAGATTAAATGGCTGCAATCTG-CCTCAT
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCT-AG
* * *
14334945 GCTCGGGGTAAGAGATTGACTGATGG-TG--ATCTGCCCCAA
1 GCTCGGGGTAAGAGA-T--CAGATGGCTGTAATCTGCCCTAG
* * * * * * *
14334984 GCTTGGGGTAAGAGATTAAATGGCTGCAATCTACCCCAA
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCTAG
* * * * * *
14335023 GCTCGGGGTAAGAGAT-TGGTTGATGGTGATCTACCCTAG
1 GCTCGGGGTAAGAGATCAGATGGCT-GTAATCTGCCCTAG
* * * *
14335062 GCTCGGGGTAAAAGATCAAATGGTTGCAATCTGCCCTAG
1 GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCTAG
14335101 GCTCGGGGTAAGAGATC
1 GCTCGGGGTAAGAGATC
14335118 GGAATCTTCA
Statistics
Matches: 435, Mismatches: 90, Indels: 76
0.72 0.15 0.13
Matches are distributed among these distances:
35 1 0.00
36 14 0.03
37 14 0.03
38 37 0.09
39 308 0.71
40 33 0.08
41 8 0.02
42 20 0.05
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (39 bp):
GCTCGGGGTAAGAGATCAGATGGCTGTAATCTGCCCTAG
Found at i:14334713 original size:117 final size:116
Alignment explanation
Indices: 14334592--14335116 Score: 400
Period size: 117 Copynumber: 4.5 Consensus size: 116
14334582 GATCTGCCCA
* * *
14334592 AGGCTCGGGGTAAAAAATTGGATGGTTGTAATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGAT
1 AGGCTCGGGGTAAAAGATTAGATGGTTGTAATCTGCCCTAGGCTCGGGGTAAGAGATT-A--AAT
* * * *
14334657 GG-TG-ATCTGTCTCAGGCTCGGGGTAAGAGATCGAATGGCTGTAATCTACCTT
63 GGCTGAATCTGCCCCAGGCTCGGGGTAAAAGATCAAATGGCTGTAATCTACCTT
* * * * * * * **
14334709 AGGCTCGGGGTAAAAGATCAAATGGCTGCAATCTATCCC-AGGCTTGAGGTAAGAGATTGGCTGA
1 AGGCTCGGGGTAAAAGATTAGATGGTTGTAATCT-GCCCTAGGCTCGGGGTAAGAGATT---AAA
* * * *
14334773 TGG-TG-ATTTGCCCTCAGGCTCGGTGTAAAAGATCAAATGGCTGTAATTTGCC-T
62 TGGCTGAATCTGCCC-CAGGCTCGGGGTAAAAGATCAAATGGCTGTAATCTACCTT
* * * * * * * * *
14334826 AGGCTCGAGGTAAGAGATTAGTTGATAGTGATCTGTCTTAGGCTAGGGGTAAGAGATTAAATGGC
1 AGGCTCGGGGTAAAAGATTAGATGGTTGTAATCTGCCCTAGGCTCGGGGTAAGAGATTAAATGGC
* * * *
14334891 TGCAATCTGCCCCAGGCTCGGGGTAAAAGATTAAATGGCTGCAATCTGCCTC
66 TG-AATCTGCCCCAGGCTCGGGGTAAAAGATCAAATGGCTGTAATCTACCTT
* * * * * * * *
14334943 ATGCTCGGGGTAAGAGATT-GACTGATGGTGATCTGCCCCAAGCTTGGGGTAAGAGATTAAATGG
1 AGGCTCGGGGTAAAAGATTAGA-TGGTTGTAATCTGCCCTAGGCTCGGGGTAAGAGATTAAATGG
* * * *** * * * *
14335007 CTGCAATCTACCCCAAGCTCGGGGTAAGAGAT-TGGTTGATGGTGATCTACCCT
65 CTG-AATCTGCCCCAGGCTCGGGGTAAAAGATCAAATGGCT-GTAATCTACCTT
* * *
14335060 AGGCTCGGGGTAAAAGATCAAATGGTTGCAATCTGCCCTAGGCTCGGGGTAAGAGAT
1 AGGCTCGGGGTAAAAGATTAGATGGTTGTAATCTGCCCTAGGCTCGGGGTAAGAGAT
14335117 CGGAATCTTC
Statistics
Matches: 321, Mismatches: 75, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
114 4 0.01
115 2 0.01
116 39 0.12
117 239 0.74
118 37 0.12
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (116 bp):
AGGCTCGGGGTAAAAGATTAGATGGTTGTAATCTGCCCTAGGCTCGGGGTAAGAGATTAAATGGC
TGAATCTGCCCCAGGCTCGGGGTAAAAGATCAAATGGCTGTAATCTACCTT
Found at i:14334762 original size:195 final size:194
Alignment explanation
Indices: 14334505--14335117 Score: 705
Period size: 195 Copynumber: 3.1 Consensus size: 194
14334495 GCTGATGGTG
* * ** * *
14334505 ATCTACCTCAAGCTCGGGGTAAAAGATCGGATGGCTGTAAT-TTGCCCTAGGCTCGGGGTAAGAA
1 ATCTACCCCAGGCTCGGGGTAAAAGATCAAATGGCTGCAATCTT-CCC-AGGCTCGGGGTAAGAG
* ** *
14334569 ATTGGCTGATGGTGATCTGCCCAAGGCTCGGGGTAAAAAATTGGATGGTTGTAATCTGCCCTAGG
64 ATTGGCTGATGGTGATCTGCCCAAGGCTCGGGGTAAAAGATTAAATGGCTGTAATCTGCCCTAGG
* * *
14334634 CTCGGGGTAAGAGATTGACTGATGGTGATCTGTCTCAGGCTCGGGGTAAGAGATCGAATGGCTGT
129 CTCGGGGTAAGAGATTGATTGATGGTGATCTGTCTCAGGCTCGGGGTAAGAGATCAAATGGCTGC
14334699 A
194 A
** * *
14334700 ATCTACCTTAGGCTCGGGGTAAAAGATCAAATGGCTGCAATCTATCCCAGGCTTGAGGTAAGAGA
1 ATCTACCCCAGGCTCGGGGTAAAAGATCAAATGGCTGCAATCT-TCCCAGGCTCGGGGTAAGAGA
* * * * *
14334765 TTGGCTGATGGTGATTTGCCCTCAGGCTCGGTGTAAAAGATCAAATGGCTGTAATTTG-CCTAGG
65 TTGGCTGATGGTGATCTGCCC-AAGGCTCGGGGTAAAAGATTAAATGGCTGTAATCTGCCCTAGG
* * * * *
14334829 CTCGAGGTAAGAGATT-AGTTGATAGTGATCTGTCTTAGGCTAGGGGTAAGAGATTAAATGGCTG
129 CTCGGGGTAAGAGATTGA-TTGATGGTGATCTGTCTCAGGCTCGGGGTAAGAGATCAAATGGCTG
14334893 CA
193 CA
* * * *
14334895 ATCTGCCCCAGGCTCGGGGTAAAAGATTAAATGGCTGCAATCTGCCTCATGCTCGGGGTAAGAGA
1 ATCTACCCCAGGCTCGGGGTAAAAGATCAAATGGCTGCAATCTTCC-CAGGCTCGGGGTAAGAGA
* * * * * * *
14334960 TTGACTGATGGTGATCTGCCCCAA-GCTTGGGGTAAGAGATTAAATGGCTGCAATCTACCCCAAG
65 TTGGCTGATGGTGATCTG-CCCAAGGCTCGGGGTAAAAGATTAAATGGCTGTAATCTGCCCTAGG
* * * * *
14335024 CTCGGGGTAAGAGATTGGTTGATGGTGATCT-ACCCTAGGCTCGGGGTAAAAGATCAAATGGTTG
129 CTCGGGGTAAGAGATTGATTGATGGTGATCTGTCTC-AGGCTCGGGGTAAGAGATCAAATGGCTG
14335088 CA
193 CA
* * *
14335090 ATCTGCCCTAGGCTCGGGGTAAGAGATC
1 ATCTACCCCAGGCTCGGGGTAAAAGATC
14335118 GGAATCTTCA
Statistics
Matches: 351, Mismatches: 58, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
194 30 0.09
195 285 0.81
196 35 0.10
197 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (194 bp):
ATCTACCCCAGGCTCGGGGTAAAAGATCAAATGGCTGCAATCTTCCCAGGCTCGGGGTAAGAGAT
TGGCTGATGGTGATCTGCCCAAGGCTCGGGGTAAAAGATTAAATGGCTGTAATCTGCCCTAGGCT
CGGGGTAAGAGATTGATTGATGGTGATCTGTCTCAGGCTCGGGGTAAGAGATCAAATGGCTGCA
Found at i:14340348 original size:6 final size:6
Alignment explanation
Indices: 14340337--14340367 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14340327 TTGCAACTGT
*
14340337 ACTTGC ACTTGC ACTTGC ACTTGC TCTTGC A
1 ACTTGC ACTTGC ACTTGC ACTTGC ACTTGC A
14340368 TTTCCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (6 bp):
ACTTGC
Found at i:14340349 original size:18 final size:19
Alignment explanation
Indices: 14340326--14340367 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14340316 GCCAAATGGT
*
14340326 CTTGCAAC-TGTACTTGCA
1 CTTGCAACTTGCACTTGCA
*
14340344 CTTGC-ACTTGCACTTGCT
1 CTTGCAACTTGCACTTGCA
14340362 CTTGCA
1 CTTGCA
14340368 TTTCCTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (19 bp):
CTTGCAACTTGCACTTGCA
Found at i:14343077 original size:80 final size:80
Alignment explanation
Indices: 14342944--14343102 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
14342934 TATATGCTGT
14342944 TTAGTTTCTAGAGTAAAGGGTACCCAAACCAGCAGATTCCTCGATCCTCACCCATTACAGGCTCA
1 TTAGTTTCTAGAGTAAAGGGTACCCAAACCAGCAGATTCCTCGATCCTCACCCATTACAGGCTCA
14343009 TACAGATGAGTTCGG
66 TACAGATGAGTTCGG
*
14343024 TTAGTTTCTAGAGTAAAGGGTACCCAAACCAGCAGATTCTTCGATCCTCACCCATTACAGGCTCA
1 TTAGTTTCTAGAGTAAAGGGTACCCAAACCAGCAGATTCCTCGATCCTCACCCATTACAGGCTCA
14343089 TACAGATGAGTTCG
66 TACAGATGAGTTCG
14343103 ATTTAGGGGA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (80 bp):
TTAGTTTCTAGAGTAAAGGGTACCCAAACCAGCAGATTCCTCGATCCTCACCCATTACAGGCTCA
TACAGATGAGTTCGG
Found at i:14344547 original size:31 final size:29
Alignment explanation
Indices: 14344486--14344562 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
14344476 AAAGACGGAG
*
14344486 TTTCGAAGAATTTGGGACGAAAAAGTAAT
1 TTTCGAAGAATTTGGGACGAAAAAGAAAT
* **
14344515 TTTCGAGGAATTTGGAGATCGAAATTGAAATT
1 TTTCGAAGAATTTGG-GA-CGAAAAAGAAA-T
*
14344547 TTTGGAA-AATTTGGGA
1 TTTCGAAGAATTTGGGA
14344563 TTAAAATTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 14 0.36
30 4 0.10
31 15 0.38
32 6 0.15
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (29 bp):
TTTCGAAGAATTTGGGACGAAAAAGAAAT
Found at i:14344597 original size:29 final size:30
Alignment explanation
Indices: 14344523--14344597 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
14344513 ATTTTCGAGG
* *
14344523 AATTTGGAGATCGAAATTGAAATTTTTGGAA
1 AATTTGG-GATCAAAATTGAAACTTTTGGAA
*
14344554 AATTTGGGATTAAAATTG-AACTTTTGGAA
1 AATTTGGGATCAAAATTGAAACTTTTGGAA
14344583 AATTTGAGG-TCAAAA
1 AATTTG-GGATCAAAA
14344598 ATGTGATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 21 0.54
30 11 0.28
31 7 0.18
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (30 bp):
AATTTGGGATCAAAATTGAAACTTTTGGAA
Found at i:14344607 original size:29 final size:29
Alignment explanation
Indices: 14344544--14344722 Score: 147
Period size: 29 Copynumber: 6.2 Consensus size: 29
14344534 CGAAATTGAA
* *
14344544 ATTTTTGGAAAATTTG-GGATTAAAAT-TG
1 ATTTTTGGAAAGTTTGAGG-TAAAAATGTG
* *
14344572 AACTTTTGGAAAATTTGAGGTCAAAAATGTG
1 -ATTTTTGGAAAGTTTGAGGT-AAAAATGTG
* * *
14344603 ATTTTTGGAAAGTTCGGGGTTAAAATGTG
1 ATTTTTGGAAAGTTTGAGGTAAAAATGTG
*
14344632 ATTTTT-GAAAGTTCGAGGGT-AAAATGT-
1 ATTTTTGGAAAGTTTGA-GGTAAAAATGTG
14344659 ATTTTTGG-AAGTTTGAGGGTAAAAATGTG
1 ATTTTTGGAAAGTTTGA-GGTAAAAATGTG
* * * *
14344688 ATTTTTTG-AAGTTTAGGGGTAAAAATATA
1 ATTTTTGGAAAGTTT-GAGGTAAAAATGTG
14344717 ATTTTT
1 ATTTTT
14344723 AAGAAGTTTA
Statistics
Matches: 129, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
27 17 0.13
28 24 0.19
29 62 0.48
30 24 0.19
31 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.40
Consensus pattern (29 bp):
ATTTTTGGAAAGTTTGAGGTAAAAATGTG
Found at i:14344626 original size:59 final size:56
Alignment explanation
Indices: 14344544--14344668 Score: 137
Period size: 59 Copynumber: 2.2 Consensus size: 56
14344534 CGAAATTGAA
* *
14344544 ATTTTTGGAAAATTTGGGATTAAAAT-TGAACTTTTGGAAAATTTGA-GGTCAAAAATGT
1 ATTTTTGGAAAATTCGGGATTAAAATGTG-A-TTTTGGAAAATTCGAGGGT--AAAATGT
* * * *
14344602 GATTTTTGGAAAGTTCGGGGTTAAAATGTGATTTTTGAAAGTTCGAGGGTAAAATGT
1 -ATTTTTGGAAAATTCGGGATTAAAATGTGATTTTGGAAAATTCGAGGGTAAAATGT
14344659 ATTTTTGGAA
1 ATTTTTGGAA
14344669 GTTTGAGGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
56 10 0.17
57 7 0.12
58 12 0.21
59 27 0.47
60 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (56 bp):
ATTTTTGGAAAATTCGGGATTAAAATGTGATTTTGGAAAATTCGAGGGTAAAATGT
Found at i:14344645 original size:28 final size:29
Alignment explanation
Indices: 14344595--14344693 Score: 141
Period size: 28 Copynumber: 3.5 Consensus size: 29
14344585 TTTGAGGTCA
14344595 AAAATGTGATTTTTGGAAAGTTCG-GGGTT
1 AAAATGTGATTTTT-GAAAGTTCGAGGGTT
14344624 AAAATGTGATTTTTGAAAGTTCGAGGG-T
1 AAAATGTGATTTTTGAAAGTTCGAGGGTT
* * *
14344652 AAAATGT-ATTTTTGGAAGTTTGAGGGTA
1 AAAATGTGATTTTTGAAAGTTCGAGGGTT
14344680 AAAATGTGATTTTT
1 AAAATGTGATTTTT
14344694 TGAAGTTTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
27 17 0.27
28 24 0.38
29 23 0.36
ACGTcount: A:0.31, C:0.02, G:0.27, T:0.39
Consensus pattern (29 bp):
AAAATGTGATTTTTGAAAGTTCGAGGGTT
Found at i:14344705 original size:28 final size:28
Alignment explanation
Indices: 14344594--14344804 Score: 149
Period size: 30 Copynumber: 7.2 Consensus size: 28
14344584 ATTTGAGGTC
**
14344594 AAAAATGTGATTTTTGGAAAGTTCGGGGT
1 AAAAATGTGATTTTTGG-AAGTTTAGGGT
* * *
14344623 TAAAATGTGATTTTTGAAAGTTCGAGGGT
1 AAAAATGTGATTTTTGGAAGTT-TAGGGT
14344652 -AAAATGT-ATTTTTGGAAGTTTGAGGGT
1 AAAAATGTGATTTTTGGAAGTTT-AGGGT
*
14344679 AAAAATGTGATTTTTTGAAGTTTAGGGGT
1 AAAAATGTGATTTTTGGAAGTTTA-GGGT
* * *
14344708 AAAAATATAATTTTTAAGAAGTTTAAGGGT
1 AAAAATGTGATTTTT-GGAAGTTT-AGGGT
* * * * *
14344738 AAAACTATAATTTTTGAAAAATTTAAGGGT
1 AAAAATGTGATTTTTG-GAAGTTT-AGGGT
* *
14344768 TAAAATGT-AATTTTGGATAAGTTTAAGGGT
1 AAAAATGTGATTTTTGG--AAGTTT-AGGGT
*
14344798 CAAAATG
1 AAAAATG
14344805 CAATTTTAAA
Statistics
Matches: 151, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
27 17 0.11
28 20 0.13
29 55 0.36
30 58 0.38
31 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (28 bp):
AAAAATGTGATTTTTGGAAGTTTAGGGT
Found at i:14344803 original size:90 final size:89
Alignment explanation
Indices: 14344696--14344910 Score: 243
Period size: 90 Copynumber: 2.4 Consensus size: 89
14344686 TGATTTTTTG
* * *
14344696 AAGTTTAGGGGTAAAAATATAATTTTTAAGAAGTTT-AAGGGTAAAACTATAATTTTTGAAAAAT
1 AAGTTTAGGGGTCAAAATATAATTTTTAAAAAGTTTAAAGGGTAAAA-TATAATTTTAGAAAAAT
** *
14344760 TTAAGGGTTAAAATGTAATTTTGGA
65 TTAAGGGCCAAAATGTAATTTTAGA
* ** * * * *
14344785 TAAGTTTAAGGGTCAAAATGCAATTTTAAAAAAGTTTAAAGGTTAAAATGTAATTTTAGAAAAGT
1 -AAGTTTAGGGGTCAAAATATAATTTTTAAAAAGTTTAAAGGGTAAAATATAATTTTAGAAAAAT
*
14344850 TTAGGGGCCAAAATGTAATTTTAGA
65 TTAAGGGCCAAAATGTAATTTTAGA
* * *
14344875 AAATTGAGGGGTACAAAATATAATTTTTAGAAAGTT
1 AAGTTTAGGGGT-CAAAATATAATTTTTAAAAAGTT
14344911 CAGTGACCTT
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
89 9 0.09
90 84 0.82
91 9 0.09
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (89 bp):
AAGTTTAGGGGTCAAAATATAATTTTTAAAAAGTTTAAAGGGTAAAATATAATTTTAGAAAAATT
TAAGGGCCAAAATGTAATTTTAGA
Found at i:14344872 original size:30 final size:30
Alignment explanation
Indices: 14344619--14344907 Score: 200
Period size: 30 Copynumber: 9.8 Consensus size: 30
14344609 GGAAAGTTCG
* * * **
14344619 GGGTTAAAATGTGATTTTTG-AAAGTTCGA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAA
* * *
14344648 GGGT-AAAATGT-ATTTTTG-GAAGTTTGA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAA
* * * *
14344675 GGGTAAAAATGTGATTTTTTG--AAGTTTAG
1 GGGTCAAAATGT-AATTTTAGAAAAGTTTAA
* * *
14344704 GGGTAAAAATATAATTTTTA-AGAAGTTTAA
1 GGGTCAAAATGTAA-TTTTAGAAAAGTTTAA
* * *
14344734 GGGT-AAAACTATAATTTTTGAAAAATTTAA
1 GGGTCAAAA-TGTAATTTTAGAAAAGTTTAA
* * *
14344764 GGGTTAAAATGTAATTTTGGATAAGTTTAA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAA
* *
14344794 GGGTCAAAATGCAATTTTAAAAAAGTTTAA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAA
* * *
14344824 AGGTTAAAATGTAATTTTAGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAA
* * *
14344854 GGGCCAAAATGTAATTTTAGAAAA-TTGAG
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAA
*
14344883 GGGTACAAAATATAATTTTTAGAAA
1 GGGT-CAAAATGTAA-TTTTAGAAA
14344908 GTTCAGTGAC
Statistics
Matches: 217, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
27 18 0.08
28 15 0.07
29 40 0.18
30 131 0.60
31 13 0.06
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTAGAAAAGTTTAA
Found at i:14346736 original size:52 final size:52
Alignment explanation
Indices: 14346655--14346922 Score: 369
Period size: 52 Copynumber: 5.2 Consensus size: 52
14346645 GGCTTCAACA
* * *
14346655 GTGAGCATATGATTCCTTTACGGATTATGAGGTTCGATGACTATGTGTCATC
1 GTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATC
*
14346707 GTGAGTATATGAATCCTTTACGGACTATGAGGTCCGATGACTATGTGTCATC
1 GTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATC
* * *
14346759 ATGAGTATATGAATCCTTTACGGATTATAAGGTCCGATGGCTATGTGTCATC
1 GTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATC
* * *
14346811 GTGAGTATATGAATCATTTACGGATTAAGAGGTACGATGACTATGTGTCATC
1 GTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATC
* * * * *
14346863 GTGAGCATAT-AGATCCTTTTACGGATT-TAAGGTTCGATAACTTTGTGTCATC
1 GTGAGTATATGA-ATCC-TTTACGGATTATGAGGTCCGATGACTATGTGTCATC
14346915 GTGAGTAT
1 GTGAGTAT
14346923 TAAATGGGAA
Statistics
Matches: 192, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
51 1 0.01
52 181 0.94
53 10 0.05
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (52 bp):
GTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATC
Found at i:14347822 original size:21 final size:21
Alignment explanation
Indices: 14347795--14347845 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
14347785 AGAGTTTTTA
14347795 GTATCGGTAGAAG-CATGACAT
1 GTATCGGTAGAAGTCAT-ACAT
* *
14347816 GTTTCGGTAGAAGTCATACTT
1 GTATCGGTAGAAGTCATACAT
14347837 GTATCGGTA
1 GTATCGGTA
14347846 ATATTGTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACAT
Found at i:14352154 original size:52 final size:52
Alignment explanation
Indices: 14352074--14352360 Score: 389
Period size: 52 Copynumber: 5.5 Consensus size: 52
14352064 TAAATGAAAA
* * * *
14352074 AGGTCTGATGACTATGTGTCATCATGAGTATATGATTCCTTTACGGGTTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
14352126 AGGTCCAATGCCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
14352178 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
14352230 AGGTCCAATGGCTATGTGTCATCATGAGTATATGAATCCTTTACGGATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
14352282 AAGTCCGATGACTATGTGTCATCGTGAGAATAT-AGATCCTTTTATGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGA-ATCC-TTTACGGATTATG
*
14352334 AGGTCCGATGACTTTGTGTCATCGTGA
1 AGGTCCGATGACTATGTGTCATCGTGA
14352361 ATATTAAATG
Statistics
Matches: 207, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
51 1 0.00
52 197 0.95
53 9 0.04
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:14362355 original size:20 final size:21
Alignment explanation
Indices: 14362318--14362361 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
14362308 AAGGTTGAAG
*
14362318 AAAATGCAAATGAAATTTCCT
1 AAAATGCAAATGAAATTTACT
*
14362339 AAAATGCAACT-AAATTTACT
1 AAAATGCAAATGAAATTTACT
14362359 AAA
1 AAA
14362362 GTACACACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (21 bp):
AAAATGCAAATGAAATTTACT
Found at i:14362853 original size:75 final size:75
Alignment explanation
Indices: 14362730--14362879 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
14362720 CTCTACTTCG
* *
14362730 CTCTACTTCGCTTGCAATGGGCAAGCCTTCTTTATTTCATTTCACTTCACCCTATTATTTTAATA
1 CTCTACTTCGCTTGCAATAGGCAAGCCTTCTTTATTTCATTTCACTTCACCCTATTATTTTAACA
14362795 GCATTATTAC
66 GCATTATTAC
14362805 CTCTACTTCGCTTGCAATAGGCAAGCCTTCTTTATTTCATTTCACTTCACCCTATTATTTTAACA
1 CTCTACTTCGCTTGCAATAGGCAAGCCTTCTTTATTTCATTTCACTTCACCCTATTATTTTAACA
14362870 GCATTATTAC
66 GCATTATTAC
14362880 AAAAGTTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (75 bp):
CTCTACTTCGCTTGCAATAGGCAAGCCTTCTTTATTTCATTTCACTTCACCCTATTATTTTAACA
GCATTATTAC
Found at i:14366285 original size:27 final size:27
Alignment explanation
Indices: 14366222--14366327 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
14366212 AACACATCAG
*
14366222 GAAAGGAATGTCTTTGTGGCAAAAATAT
1 GAAAGGAATGCCTTTGTGGC-AAAATAT
14366250 GAAAGGAATGCCTTTGTGGCAAAATAT
1 GAAAGGAATGCCTTTGTGGCAAAATAT
* * *
14366277 G-AAGAGAATGCCTGTGTGGCAAATTTT
1 GAAAG-GAATGCCTTTGTGGCAAAATAT
* *
14366304 TAAAGGAATTGCCTTCGTGG-AAAA
1 GAAAGGAA-TGCCTTTGTGGCAAAA
14366328 CTCTAAATGG
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
26 3 0.04
27 33 0.49
28 31 0.46
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.27
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGCAAAATAT
Found at i:14372076 original size:40 final size:40
Alignment explanation
Indices: 14371937--14372076 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
14371927 TTCCTCGGTG
* * *
14371937 TTTATCGGGCTTAGTGCCTTGCAGGCTTCGTGCCGGTGTA
1 TTTATCGGGCTTAATGCCTAGCAGGTTTCGTGCCGGTGTA
* ** *
14371977 TTTATCAGGCTTAATGCCTATTAGGTTTCATGCCGGTGTA
1 TTTATCGGGCTTAATGCCTAGCAGGTTTCGTGCCGGTGTA
* *
14372017 TTTATCGGGCTTAATGCCTAGCAGGTTTCGTGCCAGTATA
1 TTTATCGGGCTTAATGCCTAGCAGGTTTCGTGCCGGTGTA
* *
14372057 TTTTTCGGGCTTAGTGCCTA
1 TTTATCGGGCTTAATGCCTA
14372077 CAATCCTCAT
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (40 bp):
TTTATCGGGCTTAATGCCTAGCAGGTTTCGTGCCGGTGTA
Found at i:14375800 original size:31 final size:31
Alignment explanation
Indices: 14375765--14375827 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
14375755 AAAAAATCTT
14375765 GTATCAAAATTTTATTAACAAACTATTGTAA
1 GTATCAAAATTTTATTAACAAACTATTGTAA
*
14375796 GTATCAAAATTTTATTAACTAACTATTGTAA
1 GTATCAAAATTTTATTAACAAACTATTGTAA
14375827 G
1 G
14375828 ATATTGTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (31 bp):
GTATCAAAATTTTATTAACAAACTATTGTAA
Found at i:14376924 original size:2 final size:2
Alignment explanation
Indices: 14376917--14376957 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14376907 TAGAAAACTG
14376917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14376958 AGTATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14384390 original size:21 final size:19
Alignment explanation
Indices: 14384360--14384400 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
14384350 TATAGTAATA
14384360 TTTCTTTTTCTTTTCTCTTT
1 TTTCTTTTTCTTTTCT-TTT
14384380 TTTCTGTTTTCTTTTCTTTT
1 TTTCT-TTTTCTTTTCTTTT
14384400 T
1 T
14384401 CTCATTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTCTTTTCTTTT
Found at i:14409852 original size:24 final size:24
Alignment explanation
Indices: 14409820--14409866 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
14409810 ATGAGATACT
* *
14409820 GACCTTTTCATTGCTATCCTTTTC
1 GACCGTTTCATTGATATCCTTTTC
14409844 GACCGTTTCATTGATATCCTTTT
1 GACCGTTTCATTGATATCCTTTT
14409867 GGATAACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.26, G:0.11, T:0.49
Consensus pattern (24 bp):
GACCGTTTCATTGATATCCTTTTC
Found at i:14417376 original size:13 final size:13
Alignment explanation
Indices: 14417360--14417384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14417350 TAAAAAACCC
14417360 AAGATAAAATAAT
1 AAGATAAAATAAT
14417373 AAGATAAAATAA
1 AAGATAAAATAA
14417385 AATGAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
AAGATAAAATAAT
Found at i:14418454 original size:19 final size:19
Alignment explanation
Indices: 14418419--14418455 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14418409 ATTTCTCAAA
*
14418419 AAAGTCAATGGTAAAAGTC
1 AAAGTCAATGATAAAAGTC
*
14418438 AAAGTCAATGATCAAAGT
1 AAAGTCAATGATAAAAGT
14418456 TAACGGTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (19 bp):
AAAGTCAATGATAAAAGTC
Found at i:14429041 original size:20 final size:21
Alignment explanation
Indices: 14429005--14429055 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
14428995 ATTGGTATGG
*
14429005 TTTATATTAAGTGTAAATA-GA
1 TTTA-ATTAAGTGTAAAAATGA
14429026 TTTAATTAAGAT-TAAAAATGA
1 TTTAATTAAG-TGTAAAAATGA
14429047 -TTAATTAAG
1 TTTAATTAAG
14429056 GCTTAATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (21 bp):
TTTAATTAAGTGTAAAAATGA
Found at i:14443035 original size:37 final size:37
Alignment explanation
Indices: 14442956--14443048 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
14442946 ATATTCCTGT
** * *
14442956 GGCGACAATTTT-GGTACAATTTAGAAGTGCTCATGT
1 GGCGACAATTTTGGGCGCAATCTAGAAGTGCTCATGC
* *
14442992 GACGACAATTTTGGGCGCAATCTAGAGGTGCTCATGC
1 GGCGACAATTTTGGGCGCAATCTAGAAGTGCTCATGC
*
14443029 GGCGACAGTTTTGGGCGCAA
1 GGCGACAATTTTGGGCGCAA
14443049 ATTTGGTTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 11 0.23
37 37 0.77
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
GGCGACAATTTTGGGCGCAATCTAGAAGTGCTCATGC
Found at i:14444627 original size:17 final size:18
Alignment explanation
Indices: 14444596--14444645 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
14444586 AAATATTTAT
14444596 AAAAAATTATAAAAATAG
1 AAAAAATTATAAAAATAG
*
14444614 AAAAAA-TATTAAAATAG
1 AAAAAATTATAAAAATAG
14444631 AAAATAATTATAAAA
1 AAAA-AATTATAAAA
14444646 TTAAATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 14 0.50
18 8 0.29
19 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAAAATTATAAAAATAG
Found at i:14444646 original size:18 final size:17
Alignment explanation
Indices: 14444596--14444646 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
14444586 AAATATTTAT
14444596 AAAAAATTATAAAAATAG
1 AAAAAATTAT-AAAATAG
14444614 AAAAAA-TATTAAAATAG
1 AAAAAATTA-TAAAATAG
14444631 AAAATAATTATAAAAT
1 AAAA-AATTATAAAAT
14444647 TAAATAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 13 0.43
18 15 0.50
19 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAAAATTATAAAATAG
Found at i:14444707 original size:30 final size:30
Alignment explanation
Indices: 14444646--14444707 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
14444636 AATTATAAAA
*
14444646 TTAAATAACAATATAAAAATTTACTAAATTT
1 TTAAAAAACAATATAAAAATTTAC-AAATTT
14444677 TTAAAAAAC-ATATTAAAAATTTTA-AAATTT
1 TTAAAAAACAATA-TAAAAA-TTTACAAATTT
14444707 T
1 T
14444708 ATAAGCCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 10 0.36
31 14 0.50
32 4 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (30 bp):
TTAAAAAACAATATAAAAATTTACAAATTT
Found at i:14445509 original size:26 final size:24
Alignment explanation
Indices: 14445480--14445556 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 24
14445470 AGAAATAATA
* *
14445480 TTTCAGTTAAACACTGTTTATTTTTG
1 TTTCAATTAAACACTATTTA--TTTG
*
14445506 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACACTATTTATTTG
*
14445530 TTTCAATTAAA-ATTTATTTATTTG
1 TTTCAATTAAACA-CTATTTATTTG
14445554 TTT
1 TTT
14445557 GAGTCAAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
24 28 0.62
26 17 0.38
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACACTATTTATTTG
Found at i:14445563 original size:28 final size:24
Alignment explanation
Indices: 14445502--14445556 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
14445492 ACTGTTTATT
*
14445502 TTTGTTTCAATTAAACTCTATTTA
1 TTTGTTTCAATTAAAATCTATTTA
*
14445526 TTTGTTTCAATTAAAATTTATTTA
1 TTTGTTTCAATTAAAATCTATTTA
14445550 TTTGTTT
1 TTTGTTT
14445557 GAGTCAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.60
Consensus pattern (24 bp):
TTTGTTTCAATTAAAATCTATTTA
Found at i:14447502 original size:24 final size:24
Alignment explanation
Indices: 14447474--14447536 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
14447464 AGAAATAATC
14447474 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
14447498 TTTCAATTAAACTATGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
14447522 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
14447537 TATTAGTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:14449547 original size:26 final size:27
Alignment explanation
Indices: 14449504--14449554 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
14449494 TCATTAATAT
14449504 TTATTTGTTTTGACACTTTAACCCTAA
1 TTATTTGTTTTGACACTTTAACCCTAA
*
14449531 TTATTT-TTTT-ACTACTTTTACCCT
1 TTATTTGTTTTGAC-ACTTTAACCCT
14449555 CAAACATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 2 0.09
26 14 0.64
27 6 0.27
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.55
Consensus pattern (27 bp):
TTATTTGTTTTGACACTTTAACCCTAA
Found at i:14450723 original size:9 final size:9
Alignment explanation
Indices: 14450690--14450724 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
14450680 TAATTTATAA
14450690 AAAAATTCAT
1 AAAAATT-AT
14450700 AAAAATTTAT
1 AAAAA-TTAT
14450710 AAAAATTAT
1 AAAAATTAT
14450719 AAAAAT
1 AAAAAT
14450725 AAATTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 12 0.50
11 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14453107 original size:27 final size:27
Alignment explanation
Indices: 14453055--14453129 Score: 123
Period size: 27 Copynumber: 2.7 Consensus size: 27
14453045 GTCCTACGTA
*
14453055 TGCCACAAGGGCAGATCCTTTTTTAGTT
1 TGCCACAAAGGCA-ATCCTTTTTTAGTT
*
14453083 TTCCACAAAGGCAATCCTTTTTTAGTT
1 TGCCACAAAGGCAATCCTTTTTTAGTT
14453110 TGCCACAAAGGCAATCCTTT
1 TGCCACAAAGGCAATCCTTT
14453130 GCTATCATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 33 0.75
28 11 0.25
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (27 bp):
TGCCACAAAGGCAATCCTTTTTTAGTT
Found at i:14453990 original size:13 final size:14
Alignment explanation
Indices: 14453974--14454002 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14453964 AAAATTATTC
14453974 AAAAAATT-AAATA
1 AAAAAATTAAAATA
14453987 AAAAAATTAAAATA
1 AAAAAATTAAAATA
14454001 AA
1 AA
14454003 TTTTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATTAAAATA
Found at i:14454003 original size:23 final size:24
Alignment explanation
Indices: 14453945--14454004 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
14453935 CAATATAAGT
* *
14453945 TTAAGAATAAAATGAAATAAAAATTA
1 TTAA-AAT-AAATTAAATAAAAATAA
*
14453971 TTCAAA-AAATTAAATAAAAA-AA
1 TTAAAATAAATTAAATAAAAATAA
14453993 TTAAAATAAATT
1 TTAAAATAAATT
14454005 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 6 0.21
23 18 0.62
25 2 0.07
26 3 0.10
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (24 bp):
TTAAAATAAATTAAATAAAAATAA
Found at i:14458808 original size:21 final size:23
Alignment explanation
Indices: 14458760--14458807 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14458750 ATTAAATAAT
14458760 AAATAAAATATTATTATTTTACAA
1 AAATAAAATATTATTATTTTA-AA
*
14458784 AAATAAATTA-TATTATTTTAAA
1 AAATAAAATATTATTATTTTAAA
14458806 AA
1 AA
14458808 TGCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 10 0.43
24 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATAAAATATTATTATTTTAAA
Found at i:14459958 original size:14 final size:13
Alignment explanation
Indices: 14459938--14459977 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
14459928 AAATTTAAAA
14459938 TTTTTATAACTTT
1 TTTTTATAACTTT
14459951 TCTTTTATAACTTT
1 T-TTTTATAACTTT
*
14459965 TGTTTATAA-TTT
1 TTTTTATAACTTT
14459977 T
1 T
14459978 AACTCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTTATAACTTT
Found at i:14460418 original size:2 final size:2
Alignment explanation
Indices: 14460411--14460437 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14460401 TTTTAGTCTT
14460411 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
14460438 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14461686 original size:20 final size:20
Alignment explanation
Indices: 14461647--14461686 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14461637 ATACGGGTAG
*
14461647 AACTACAGTTCTATCAATAC
1 AACTACAGTTCTACCAATAC
*
14461667 AACTACAGTTCTACCGATAC
1 AACTACAGTTCTACCAATAC
14461687 CTTGTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (20 bp):
AACTACAGTTCTACCAATAC
Found at i:14464729 original size:20 final size:20
Alignment explanation
Indices: 14464689--14464735 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14464679 CTCTAGTGAG
* * *
14464689 ACTTCTATCGGTAGAAGTAC
1 ACTTCTATCGATACAACTAC
14464709 ACTTCTATCGATACAACTAC
1 ACTTCTATCGATACAACTAC
*
14464729 AGTTCTA
1 ACTTCTA
14464736 CCAATACCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (20 bp):
ACTTCTATCGATACAACTAC
Found at i:14474150 original size:251 final size:248
Alignment explanation
Indices: 14473710--14474210 Score: 896
Period size: 251 Copynumber: 2.0 Consensus size: 248
14473700 TCACAACAGG
*
14473710 ACACTGAAGTGTAAGGCCCATAGGAATCAAATACATACTCATATATATACACTTCCCTATATCAC
1 ACACTGAAGTGTAAGGCCCATAGGAATCAAATACATACTCATATATATACACTTCCCTACATCAC
*
14473775 ACTAGGGTCTCCCTAAAGACATAATATTTGATGATCTTCAACAAATGCTAGTTCCCGATATATTT
66 ACTAGGGTCTCCCTAAAGACATAATATTTGATGATCTTCAACAAATGCTAGTTCCCGATATATCT
*
14473840 GTAATGATCTTCGTACAATCACATATCCTGTACAAGTGCGCATATAACCCTATTAGCATGCCAAT
131 GTAATGATCTTCATACAATCACATATCCTGTACAAGTGCGCATATAACCCTATTAGCATGCCAAT
*
14473905 CGTATCCTAACCTTTTACTAAGTCACATGAGCAACAATTTACTTATATGCATT
196 CGTATCATAACCTTTTACTAAGTCACATGAGCAACAATTTACTTATATGCATT
*
14473958 ACACTGAAGTGTAAGGCCCATAGGAATCAAATACATACTCATATATATATACACTT-CCTCCATC
1 ACACTGAAGTGTAAGGCCCATAGGAATCAAATACATACTC--ATATATATACACTTCCCTACATC
*
14474022 ACACTAGGGTCTCCCTAGAGACATATAATATTTGATGATCTTCAACAAATGCTAGTTCCCGATAT
64 ACACTAGGGTCTCCCTAAAGAC--ATAATATTTGATGATCTTCAACAAATGCTAGTTCCCGATAT
14474087 ATCTGTAATGATCTTCATACAATCACATATCCTGTACAAGTGCGCATATAACCCTATTAGCATGC
127 ATCTGTAATGATCTTCATACAATCACATATCCTGTACAAGTGCGCATATAACCCTATTAGCATGC
*
14474152 CAATTGTATCATAACCTTTTACTAAGTCACATGAGCAACAATTTACTTATATGCATT
192 CAATCGTATCATAACCTTTTACTAAGTCACATGAGCAACAATTTACTTATATGCATT
14474209 AC
1 AC
14474211 CATACTTGTA
Statistics
Matches: 242, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
248 40 0.17
249 27 0.11
250 14 0.06
251 161 0.67
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (248 bp):
ACACTGAAGTGTAAGGCCCATAGGAATCAAATACATACTCATATATATACACTTCCCTACATCAC
ACTAGGGTCTCCCTAAAGACATAATATTTGATGATCTTCAACAAATGCTAGTTCCCGATATATCT
GTAATGATCTTCATACAATCACATATCCTGTACAAGTGCGCATATAACCCTATTAGCATGCCAAT
CGTATCATAACCTTTTACTAAGTCACATGAGCAACAATTTACTTATATGCATT
Found at i:14475264 original size:14 final size:14
Alignment explanation
Indices: 14475239--14475291 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
14475229 ATATAGTAAG
14475239 TTTAATTTAATTTAA
1 TTTAA-TTAATTTAA
14475254 TTTAATTAA-TTAA
1 TTTAATTAATTTAA
* **
14475267 TAATAATTAATCAAA
1 T-TTAATTAATTTAA
14475282 TTTAATTAAT
1 TTTAATTAAT
14475292 CTTTAATCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 5 0.16
14 19 0.59
15 8 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAATTAATTTAA
Found at i:14478270 original size:12 final size:12
Alignment explanation
Indices: 14478253--14478283 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
14478243 ATATATTTTA
14478253 AAAAAATTATAT
1 AAAAAATTATAT
14478265 AAAAAATTATAT
1 AAAAAATTATAT
14478277 AACAAAA
1 AA-AAAA
14478284 ATTAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:14481634 original size:12 final size:12
Alignment explanation
Indices: 14481617--14481645 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14481607 TTATATAATT
14481617 TTAAATAAAAAA
1 TTAAATAAAAAA
14481629 TTAAATAAAAAA
1 TTAAATAAAAAA
14481641 TTAAA
1 TTAAA
14481646 ATTTAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAATAAAAAA
Found at i:14482500 original size:19 final size:21
Alignment explanation
Indices: 14482467--14482505 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14482457 GGTGAAAAGT
14482467 AAAAGTTTAGAGGGA-AAATA
1 AAAAGTTTAGAGGGAGAAATA
*
14482487 AAAAGTTTTG-GGGAGAAAT
1 AAAAGTTTAGAGGGAGAAAT
14482506 GGGTTTGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (21 bp):
AAAAGTTTAGAGGGAGAAATA
Found at i:14485050 original size:70 final size:70
Alignment explanation
Indices: 14484931--14485106 Score: 298
Period size: 70 Copynumber: 2.5 Consensus size: 70
14484921 AATGTTGTCA
14484931 AATTTCCAAAACACGAACCAAAGTAAGGAGTTCTTTATAAAAAGGGGAATAATTGAGTTAAGTCC
1 AATTTCCAAAACACGAACCAAAGTAAGGAGTTCTTTATAAAAAGGGGAATAATTGAGTTAAGTCC
14484996 TAGTT
66 TAGTT
* * *
14485001 AATTTCCAAAACACGAACCAAAGTAAGGAGTTCTTTATAAAACGTGGAATAATTGAGTTAAGTCT
1 AATTTCCAAAACACGAACCAAAGTAAGGAGTTCTTTATAAAAAGGGGAATAATTGAGTTAAGTCC
*
14485066 TGGTT
66 TAGTT
* *
14485071 AATTTCCAAAACATGAACCAAAGTAAAGAGTTCTTT
1 AATTTCCAAAACACGAACCAAAGTAAGGAGTTCTTT
14485107 TATATATGCT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 100 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (70 bp):
AATTTCCAAAACACGAACCAAAGTAAGGAGTTCTTTATAAAAAGGGGAATAATTGAGTTAAGTCC
TAGTT
Found at i:14492554 original size:36 final size:37
Alignment explanation
Indices: 14492514--14492628 Score: 117
Period size: 36 Copynumber: 3.4 Consensus size: 37
14492504 ATAATTACCC
14492514 AAACAA-TTTATTTGTGTAATTACATAACTTATTTAT
1 AAACAACTTTATTTGTGTAATTACATAACTTATTTAT
***
14492550 AAACAACTTTA-TT-TGT-A-TA-ATAA-TTA--CCC
1 AAACAACTTTATTTGTGTAATTACATAACTTATTTAT
*
14492579 AAATAA-TTTATTTGTGTAATTACATAACTTATTTAT
1 AAACAACTTTATTTGTGTAATTACATAACTTATTTAT
14492615 -AACAACTTTATTTG
1 AAACAACTTTATTTG
14492629 AATTTAAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
28 4 0.07
29 7 0.11
30 3 0.05
31 4 0.07
32 6 0.10
33 6 0.10
34 4 0.07
35 7 0.11
36 16 0.26
37 4 0.07
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.45
Consensus pattern (37 bp):
AAACAACTTTATTTGTGTAATTACATAACTTATTTAT
Found at i:14492577 original size:65 final size:64
Alignment explanation
Indices: 14492500--14492628 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 64
14492490 ACTCACATGT
14492500 TATAATAATTACCCAAACAATTTATTTGTGTAATTACATAACTTATTTATAAACAACTTTATTTG
1 TATAATAATTACCCAAACAATTTATTTGTGTAATTACATAACTTATTTAT-AACAACTTTATTTG
*
14492565 TATAATAATTACCCAAATAATTTATTTGTGTAATTACATAACTTATTTATAACAACTTTATTTG
1 TATAATAATTACCCAAACAATTTATTTGTGTAATTACATAACTTATTTATAACAACTTTATTTG
14492629 AATTTAAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 14 0.22
65 49 0.78
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (64 bp):
TATAATAATTACCCAAACAATTTATTTGTGTAATTACATAACTTATTTATAACAACTTTATTTG
Done.