Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 95 of 163
Found at i:30496911 original size:9 final size:9
Alignment explanation
Indices: 30496897--30496921 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30496887 TATAGTTTGA
30496897 TATTCGAAT
1 TATTCGAAT
30496906 TATTCGAAT
1 TATTCGAAT
30496915 TATTCGA
1 TATTCGA
30496922 GTATTTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:30497005 original size:9 final size:9
Alignment explanation
Indices: 30496988--30497018 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30496978 TCGAGTTGAT
30496988 TCGAATAAC
1 TCGAATAAC
*
30496997 TCGATTAAC
1 TCGAATAAC
30497006 TCGAATAAC
1 TCGAATAAC
30497015 TCGA
1 TCGA
30497019 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30501895 original size:22 final size:24
Alignment explanation
Indices: 30501852--30501895 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
30501842 ATGCATACTT
*
30501852 ATATATATACTTTTATATATTAAA
1 ATATATATACTTTTATACATTAAA
*
30501876 ATATGTATA-TTTT-TACATTA
1 ATATATATACTTTTATACATTA
30501896 TATATATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 4 0.22
24 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATATATACTTTTATACATTAAA
Found at i:30509883 original size:20 final size:21
Alignment explanation
Indices: 30509854--30509910 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
30509844 TATAGGATTT
*
30509854 CACTTTGGTGCCTCTGTT-TG
1 CACTTCGGTGCCTCTGTTATG
30509874 CACTTCGGTGCCTCTGTTATG
1 CACTTCGGTGCCTCTGTTATG
* *
30509895 CATCTACGATGCCTCT
1 CA-CTTCGGTGCCTCT
30509911 AGTGTGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 17 0.53
21 4 0.12
22 11 0.34
ACGTcount: A:0.11, C:0.30, G:0.21, T:0.39
Consensus pattern (21 bp):
CACTTCGGTGCCTCTGTTATG
Found at i:30509910 original size:22 final size:20
Alignment explanation
Indices: 30509862--30509910 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
30509852 TTCACTTTGG
* *
30509862 TGCCTCTGTTTGCACTTCGG
1 TGCCTCTGTTTGCACTACGA
30509882 TGCCTCTGTTATGCATCTACGA
1 TGCCTCTGTT-TGCA-CTACGA
30509904 TGCCTCT
1 TGCCTCT
30509911 AGTGTGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 4 0.16
22 11 0.44
ACGTcount: A:0.10, C:0.31, G:0.20, T:0.39
Consensus pattern (20 bp):
TGCCTCTGTTTGCACTACGA
Found at i:30513576 original size:25 final size:24
Alignment explanation
Indices: 30513547--30513612 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
30513537 TCCTATACAT
*
30513547 GTATGCTTATACGAGTTATGAATCG
1 GTATGCTTATACGAGCTAT-AATCG
*
30513572 GTATGCTCT-TACGAGCTGTAATCG
1 GTATGCT-TATACGAGCTATAATCG
* *
30513596 GTAAGCTCATACGAGCT
1 GTATGCTTATACGAGCT
30513613 GAGTAACAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 19 0.54
25 15 0.43
26 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (24 bp):
GTATGCTTATACGAGCTATAATCG
Found at i:30513603 original size:24 final size:24
Alignment explanation
Indices: 30513567--30513639 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
30513557 ACGAGTTATG
* *
30513567 AATCGGTATGCTCTTACGAGCTGT
1 AATCGGTAAGCTCATACGAGCTGT
30513591 AATCGGTAAGCTCATACGAGCTGAGT
1 AATCGGTAAGCTCATACGAGCT--GT
*
30513617 AA-CAGTAAGCTCATACGAGCTGT
1 AATCGGTAAGCTCATACGAGCTGT
30513640 GGTGTGTCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 20 0.45
25 18 0.41
26 4 0.09
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGT
Found at i:30517687 original size:19 final size:20
Alignment explanation
Indices: 30517663--30517700 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30517653 TAATTTTTGA
30517663 AGTTTATT-CAATTTAGTCT
1 AGTTTATTGCAATTTAGTCT
30517682 AGTTTATTGCAATTTAGTC
1 AGTTTATTGCAATTTAGTC
30517701 ACTGACCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (20 bp):
AGTTTATTGCAATTTAGTCT
Found at i:30518152 original size:20 final size:21
Alignment explanation
Indices: 30518127--30518165 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30518117 ATGAAAGAAA
30518127 AACCT-AAACTAAAGCTTTCT
1 AACCTAAAACTAAAGCTTTCT
*
30518147 AACCTAAAACTACAGCTTT
1 AACCTAAAACTAAAGCTTT
30518166 TTTTCTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (21 bp):
AACCTAAAACTAAAGCTTTCT
Found at i:30524476 original size:42 final size:42
Alignment explanation
Indices: 30524417--30524502 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
30524407 CTTGATTAAT
30524417 TAGTGGAAGTGTCTTCTTGAAGGCACGTTGTTTGGTATTGGC
1 TAGTGGAAGTGTCTTCTTGAAGGCACGTTGTTTGGTATTGGC
30524459 TAGTGGAAGTGTCTTCTTGAAGGCACGTTGTTTGGTATTGGC
1 TAGTGGAAGTGTCTTCTTGAAGGCACGTTGTTTGGTATTGGC
30524501 TA
1 TA
30524503 AGTTATTGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.17, C:0.12, G:0.33, T:0.38
Consensus pattern (42 bp):
TAGTGGAAGTGTCTTCTTGAAGGCACGTTGTTTGGTATTGGC
Found at i:30530473 original size:2 final size:2
Alignment explanation
Indices: 30530462--30530504 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
30530452 AACAACATGC
* *
30530462 AT AT AT -T AT AT AT GT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30530503 AT
1 AT
30530505 GAATTAAGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30532934 original size:25 final size:25
Alignment explanation
Indices: 30532898--30532984 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
30532888 AAATTGGTGC
30532898 TTAATTGCTGTCCATTTTTTAGCATA
1 TTAA-TGCTGTCCATTTTTTAGCATA
* **
30532924 TTAATGCTGTCCAAATTAGT-GC-T-
1 TTAATGCTGTCC-ATTTTTTAGCATA
* *
30532947 TAAATGCTTTCCATTTTTTAGCATA
1 TTAATGCTGTCCATTTTTTAGCATA
* *
30532972 TTAGTGCTATCCA
1 TTAATGCTGTCCA
30532985 AATTAGTGCT
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 4 0.09
23 12 0.26
24 2 0.04
25 20 0.43
26 8 0.17
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (25 bp):
TTAATGCTGTCCATTTTTTAGCATA
Found at i:30532952 original size:23 final size:23
Alignment explanation
Indices: 30532879--30532959 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
30532869 TGATGATAAG
*
30532879 ATGCTGTCCAAATTGGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* * ** *
30532902 TTGCTGTCC-ATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGT-GC-T-TAA
30532927 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
*
30532950 ATGCTTTCCA
1 ATGCTGTCCA
30532960 TTTTTTAGCA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 4 0.09
23 21 0.49
24 2 0.05
25 12 0.28
26 4 0.09
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:30532960 original size:48 final size:48
Alignment explanation
Indices: 30532879--30533107 Score: 289
Period size: 48 Copynumber: 4.7 Consensus size: 48
30532869 TGATGATAAG
* *
30532879 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
*
30532927 ATGCTGTCCAAATTAGTGCTTAAATGCTTTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
* * *
30532975 GTGCTATCCAAATTAGTGCTGAAATGCTGTCCATTTTTTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA---TTTTTT-AGCATATTA
* * * *
30533027 ATGCTATCCAAATT-GATGCTTAATTGCTGTCCATTTTTGAGTATATTA
1 ATGCTGTCCAAATTAG-TGCTTAAATGCTGTCCATTTTTTAGCATATTA
* * *
30533075 ATGCTGTCCAAATTGGTACTTAAATGTTGTCCA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA
30533108 AATATTTGTG
Statistics
Matches: 159, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
48 109 0.69
49 6 0.04
51 7 0.04
52 37 0.23
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
Found at i:30533060 original size:100 final size:96
Alignment explanation
Indices: 30532879--30533107 Score: 298
Period size: 100 Copynumber: 2.3 Consensus size: 96
30532869 TGATGATAAG
* *
30532879 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTAATGCTGTCCAAATTAGT
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGCTATCCAAATTAGT
* *
30532944 GCTTAAATGCTTTCCATTTTTTAGCATATTA
66 GCTTAAATGCTGTCCATTTTTGAGCATATTA
* * * *
30532975 GTGCTATCCAAATTAGTGCTGAAATGCTGTCCATTTTTTTTTGAGCATATTAATGCTATCCAAAT
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA---TTTTTT-AGCATATTAATGCTATCCAAAT
* *
30533040 T-GATGCTTAATTGCTGTCCATTTTTGAGTATATTA
62 TAG-TGCTTAAATGCTGTCCATTTTTGAGCATATTA
* *
30533075 ATGCTGTCCAAATTGGTACTTAAATGTTGTCCA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA
30533108 AATATTTGTG
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
96 28 0.25
99 7 0.06
100 77 0.69
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (96 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGCTATCCAAATTAGT
GCTTAAATGCTGTCCATTTTTGAGCATATTA
Found at i:30540135 original size:42 final size:41
Alignment explanation
Indices: 30540088--30540171 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
30540078 TTCCGAGGTG
* * *
30540088 TGATTTAGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 TGATTTAGTGTAAGACCATGTCTGAGACAGTGACATCG-ATA
* *
30540130 TGATTTCGTGTAAGACCCTGTCTGAGACAGTGACATCGATA
1 TGATTTAGTGTAAGACCATGTCTGAGACAGTGACATCGATA
30540171 T
1 T
30540172 CTTATAACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TGATTTAGTGTAAGACCATGTCTGAGACAGTGACATCGATA
Found at i:30540802 original size:25 final size:25
Alignment explanation
Indices: 30540766--30540852 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
30540756 AAATTGGTGC
30540766 TTAATTGCTGTCCATTTTTTAGCATA
1 TTAA-TGCTGTCCATTTTTTAGCATA
* **
30540792 TTAATGCTGTCCAAATTAGT-GC-T-
1 TTAATGCTGTCC-ATTTTTTAGCATA
* *
30540815 TAAATGCTTTCCATTTTTTAGCATA
1 TTAATGCTGTCCATTTTTTAGCATA
*
30540840 TTAGTGCTGTCCA
1 TTAATGCTGTCCA
30540853 AATTAGTGCT
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 4 0.09
23 12 0.26
24 2 0.04
25 20 0.43
26 8 0.17
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (25 bp):
TTAATGCTGTCCATTTTTTAGCATA
Found at i:30540820 original size:23 final size:23
Alignment explanation
Indices: 30540747--30540875 Score: 73
Period size: 23 Copynumber: 5.4 Consensus size: 23
30540737 TGATGATAAG
*
30540747 ATGCTGTCCAAATTGGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* * ** *
30540770 TTGCTGTCC-ATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGT-GC-T-TAA
30540795 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* * ** *
30540818 ATGCTTTCC-ATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGT-GC-T-TAA
*
30540843 GTGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
*
30540866 ATACTGTCCA
1 ATGCTGTCCA
30540876 TTTTTTTTTT
Statistics
Matches: 75, Mismatches: 23, Indels: 16
0.66 0.20 0.14
Matches are distributed among these distances:
22 8 0.11
23 32 0.43
24 4 0.05
25 23 0.31
26 8 0.11
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:30540828 original size:48 final size:48
Alignment explanation
Indices: 30540747--30540977 Score: 284
Period size: 48 Copynumber: 4.7 Consensus size: 48
30540737 TGATGATAAG
* *
30540747 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
*
30540795 ATGCTGTCCAAATTAGTGCTTAAATGCTTTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
* *
30540843 GTGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTTTTTTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA-----TTTTTT-AGCATATTA
* * * *
30540897 ATGCTATCCAAATT-GATGCTTAATTGCTGTCCATTTTTGAGTATATTA
1 ATGCTGTCCAAATTAG-TGCTTAAATGCTGTCCATTTTTTAGCATATTA
* * *
30540945 ATGCTGTCCAAATTGGTACTTAAATGTTGTCCA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA
30540978 AATATTTGTG
Statistics
Matches: 159, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
48 110 0.69
49 6 0.04
53 7 0.04
54 36 0.23
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
Found at i:30540976 original size:102 final size:96
Alignment explanation
Indices: 30540747--30540977 Score: 293
Period size: 102 Copynumber: 2.3 Consensus size: 96
30540737 TGATGATAAG
* *
30540747 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTAATGCTGTCCAAATTAGT
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGCTATCCAAATTAGT
* *
30540812 GCTTAAATGCTTTCCATTTTTTAGCATATTA
66 GCTTAAATGCTGTCCATTTTTGAGCATATTA
* * *
30540843 GTGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTTTTTTTTTGAGCATATTAATGCTATCCAA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA-----TTTTTT-AGCATATTAATGCTATCCAA
* *
30540908 ATT-GATGCTTAATTGCTGTCCATTTTTGAGTATATTA
60 ATTAG-TGCTTAAATGCTGTCCATTTTTGAGCATATTA
* *
30540945 ATGCTGTCCAAATTGGTACTTAAATGTTGTCCA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA
30540978 AATATTTGTG
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
96 29 0.25
101 7 0.06
102 78 0.68
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (96 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTAATGCTATCCAAATTAGT
GCTTAAATGCTGTCCATTTTTGAGCATATTA
Found at i:30558643 original size:27 final size:27
Alignment explanation
Indices: 30558603--30558718 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
30558593 GTAATGGACC
* * *
30558603 TAAAATAACTGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCCCAAAGGG
* * ** *
30558630 TAAAATGATCGAAATACCTCTGAGGGG
1 TAAAATGACCGAAATACCCCCAAAGGG
* ** *
30558657 TAAAATGACCTAAATACCCTTAAAGGA
1 TAAAATGACCGAAATACCCCCAAAGGG
30558684 TAAAATGACCG-AATACCCCCAAAGGG
1 TAAAATGACCGAAATACCCCCAAAGGG
30558710 TAAAATGAC
1 TAAAATGAC
30558719 TGTTATACCC
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 21 0.29
27 51 0.71
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCAAAGGG
Found at i:30558922 original size:26 final size:26
Alignment explanation
Indices: 30558867--30558966 Score: 94
Period size: 26 Copynumber: 3.8 Consensus size: 26
30558857 AGGGGAAGTA
** **
30558867 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* *
30558892 ATACTGTTACTGGTAGCTTTGCTGCGT
1 -TACTGTTACTGGCAGCTTTGCTGCAT
*
30558919 TACTGTTATTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
30558945 CACTATTACTAGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
30558967 ACAATATTGG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
26 46 0.74
27 16 0.26
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:30559124 original size:28 final size:28
Alignment explanation
Indices: 30559080--30559136 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
30559070 ATTGTATTGA
* *
30559080 TTACTGTATTGGGCTAAGGCCCACACTG
1 TTACTGTAATGGACTAAGGCCCACACTG
*
30559108 TTACTGTAATGGACTAAGGCCCACGCTG
1 TTACTGTAATGGACTAAGGCCCACACTG
30559136 T
1 T
30559137 ATTGATATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (28 bp):
TTACTGTAATGGACTAAGGCCCACACTG
Found at i:30562399 original size:7 final size:7
Alignment explanation
Indices: 30562387--30562434 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
30562377 AAGATATTTG
30562387 TAAATGT
1 TAAATGT
30562394 TAAATGT
1 TAAATGT
30562401 TAAATGT
1 TAAATGT
30562408 TAAATGT
1 TAAATGT
30562415 TAAATGT
1 TAAATGT
30562422 TAAATGT
1 TAAATGT
*
30562429 TCAATG
1 TAAATG
30562435 AATTACTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (7 bp):
TAAATGT
Found at i:30563345 original size:9 final size:9
Alignment explanation
Indices: 30563328--30563364 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30563318 TGAGTTTTCG
30563328 AATTCGAAT
1 AATTCGAAT
*
30563337 AACTCGAAT
1 AATTCGAAT
30563346 AATTCGAAT
1 AATTCGAAT
30563355 AATTCGAAT
1 AATTCGAAT
30563364 A
1 A
30563365 TCAAGCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30564195 original size:5 final size:5
Alignment explanation
Indices: 30564185--30564210 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30564175 CTCGAAAATT
30564185 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30564211 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30565040 original size:130 final size:130
Alignment explanation
Indices: 30564807--30565067 Score: 522
Period size: 130 Copynumber: 2.0 Consensus size: 130
30564797 AAAGATTTGG
30564807 CCATTTTAGGTATGATTTGGGTATGTTTTAATGTCTTGTGTAATGTGCAAGTGCCTTGTAGGTTC
1 CCATTTTAGGTATGATTTGGGTATGTTTTAATGTCTTGTGTAATGTGCAAGTGCCTTGTAGGTTC
30564872 ATGTTTTAAAGGGTGAGAGAAATGGCTTTATTTTGGCCATTTTCTTGTCCACAGGGCCTTAGACA
66 ATGTTTTAAAGGGTGAGAGAAATGGCTTTATTTTGGCCATTTTCTTGTCCACAGGGCCTTAGACA
30564937 CCATTTTAGGTATGATTTGGGTATGTTTTAATGTCTTGTGTAATGTGCAAGTGCCTTGTAGGTTC
1 CCATTTTAGGTATGATTTGGGTATGTTTTAATGTCTTGTGTAATGTGCAAGTGCCTTGTAGGTTC
30565002 ATGTTTTAAAGGGTGAGAGAAATGGCTTTATTTTGGCCATTTTCTTGTCCACAGGGCCTTAGACA
66 ATGTTTTAAAGGGTGAGAGAAATGGCTTTATTTTGGCCATTTTCTTGTCCACAGGGCCTTAGACA
30565067 C
1 C
30565068 AGGCGTGTGT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.40
Consensus pattern (130 bp):
CCATTTTAGGTATGATTTGGGTATGTTTTAATGTCTTGTGTAATGTGCAAGTGCCTTGTAGGTTC
ATGTTTTAAAGGGTGAGAGAAATGGCTTTATTTTGGCCATTTTCTTGTCCACAGGGCCTTAGACA
Found at i:30569250 original size:21 final size:21
Alignment explanation
Indices: 30569221--30569260 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30569211 CCCTGTAAAT
30569221 TTTTAACGATTTTACCCCCGA
1 TTTTAACGATTTTACCCCCGA
*
30569242 TTTTGACGATTTTACCCCC
1 TTTTAACGATTTTACCCCC
30569261 AATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTTAACGATTTTACCCCCGA
Found at i:30586791 original size:84 final size:84
Alignment explanation
Indices: 30586409--30586988 Score: 494
Period size: 84 Copynumber: 6.8 Consensus size: 84
30586399 ATTAAAAGTG
* * * * ** * *
30586409 AATAAAATTTGTTTCGGGATTTCTTCCCTCCGTTCAATGA-ATTTTATTCCAATTTTGATTTTAT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATT-CGATTTT-ATTTTGT
* *
30586473 TTCCAAAATGAGTATTAAAATTAA
64 TTCC-AAATTAGAATT-AAATT-A
** * *** * * ** ** *
30586497 AATAAAATCCGTTTCAAGATTTATTCCTATCATTCAA-TGGATTTTATTCTTTTTTTTATTTTAT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTC--GATTTTATTTTGT
*
30586561 TTCCAAATGAGAAATTAAAGTTA
64 TTCCAAATTAG-AATTAAA-TTA
* * * * * *
30586584 AATAAAATCTGTTTCGGGATTTATTCCCACTGTTCAAC-GGATTTTATTAC-ATTTTGATTTTGT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATT-CGATTTT-ATTTTGT
* **
30586647 TGCCAAAACAAGAAATTAAAATTA
64 TTCC-AAATTAG-AATT-AAATTA
**** * * * *
30586671 AATAAAA-TCAAATCTGGGTTTATTCCTGCCATTTAACAAGATTTTATTCGATTTTATTTTGTTT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
*
30586735 CTAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * *
30586754 AATTAAATCTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCAATTTTATTTTGTTT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
30586819 CCAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * *
30586838 AATAAAATTTGTTTC-GAGATTTATTCACGTCGTTTAACAA-ATTTT-TT-TATTTTATTTTGTT
1 AATAAAATTTGTTTCAG-GATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTT
30586899 TCCAAATTAGAATTAAATTA
65 TCCAAATTAGAATTAAATTA
* * * *
30586919 AATAAAATTTGTTTCAGGATTTATTACTGCCGTTTAACAAGATTTTATTCGATATTGTTTTGTTT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
30586984 CCAAA
66 CCAAA
30586989 CAAAGACTTA
Statistics
Matches: 407, Mismatches: 67, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
81 67 0.16
82 8 0.02
83 20 0.05
84 120 0.29
85 9 0.02
86 37 0.09
87 86 0.21
88 56 0.14
89 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (84 bp):
AATAAAATTTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
CCAAATTAGAATTAAATTA
Found at i:30586938 original size:165 final size:169
Alignment explanation
Indices: 30586240--30586988 Score: 592
Period size: 165 Copynumber: 4.5 Consensus size: 169
30586230 AAATAAATTT
* * * **
30586240 TTAAATTAAAATAAAATCTATTTC-GAGATTAATTTCCGCCGTTCAACAA-ATTTTATTTTTTAT
1 TTAAATT-AAATAAAATCTGTTTCAG-GATTTATTCCCGCCGTTCAACAAGATTTTA--TTCAAT
* * * ** * * *
30586303 TTTGTTTTTATTTCTAAACGAA-TATTAAAATTAAATAAAATCTGTTTCGAGCTTTACTTCC-AT
62 TTTGATTTTGTTTCCAAAATAAGAATTAAAATTAAATAAAATCCGTTTCGAGATTTA-TTCCTAT
* * ** *
30586366 CGTTTAACAGA--TT-TTT-TTCGATTTTGTTTCTAAATT---A
126 CATTTAACAAATTTTATTTATTTTATTTTGTTTCCAAATTAGAA
* * * * * * **
30586403 --AAAGTGAATAAAATTTGTTTCGGGATTTCTTCCCTCCGTTCAATGA-ATTTTATTCCAATTTT
1 TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATT-CAATTTT
* * * *
30586465 GATTTTATTTCCAAAATGAGTATTAAAATTAAAATAAAATCCGTTTCAAGATTTATTCCTATCAT
65 GATTTTGTTTCCAAAATAAGAATTAAAATT-AAATAAAATCCGTTTCGAGATTTATTCCTATCAT
* *** * * *
30586530 TCAATGGATTTTATTCTTTTTTTTATTTTATTTCCAAATGAGAAA
129 TTAACAAATTTTA---TTTATTTTATTTTGTTTCCAAATTAG-AA
* * * *
30586575 TTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCCCACTGTTCAAC-GGATTTTATT-ACATTT
1 TTAAA-TTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCA-ATTT
* * *** * **
30586638 TGATTTTGTTGCCAAAACAAGAAATTAAAATTAAATAAAAT-CAAATCTG-GGTTTATTCCTGCC
64 TGATTTTGTTTCCAAAATAAG-AATTAAAATTAAATAAAATCCGTTTC-GAGATTTATTCCTATC
* *
30586701 ATTTAACAAGATTTTATTCGATTTTATTTTGTTTCTAAATTAGAA
127 ATTTAACAA-ATTTTATT-TATTTTATTTTGTTTCCAAATTAGAA
* *
30586746 TTAAATTAAATTAAATCTGTTTCAGGATTTATTCCCGCCGTTTAACAAGATTTTATTCAATTTT-
1 TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCAATTTTG
* ** * *
30586810 ATTTTGTTTCC-AAATTAGAATT-AAATTAAATAAAATTTGTTTCGAGATTTATTCAC-GTCGTT
66 ATTTTGTTTCCAAAATAAGAATTAAAATTAAATAAAATCCGTTTCGAGATTTATTC-CTATCATT
30586872 TAACAAATTTT-TTTATTTTATTTTGTTTCCAAATTAGAA
130 TAACAAATTTTATTTATTTTATTTTGTTTCCAAATTAGAA
* * * * * *
30586911 TTAAATTAAATAAAATTTGTTTCAGGATTTATTACTGCCGTTTAACAAGATTTTATTCGATATTG
1 TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCAATTTTG
30586976 -TTTTGTTTCCAAA
66 ATTTTGTTTCCAAA
30586989 CAAAGACTTA
Statistics
Matches: 472, Mismatches: 82, Indels: 61
0.77 0.13 0.10
Matches are distributed among these distances:
158 2 0.00
159 19 0.04
160 50 0.11
161 35 0.07
163 2 0.00
165 92 0.19
166 4 0.01
167 23 0.05
168 39 0.08
169 6 0.01
170 46 0.10
171 23 0.05
172 21 0.04
173 20 0.04
174 39 0.08
175 51 0.11
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (169 bp):
TTAAATTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGTTCAACAAGATTTTATTCAATTTTG
ATTTTGTTTCCAAAATAAGAATTAAAATTAAATAAAATCCGTTTCGAGATTTATTCCTATCATTT
AACAAATTTTATTTATTTTATTTTGTTTCCAAATTAGAA
Found at i:30587079 original size:59 final size:59
Alignment explanation
Indices: 30587004--30587130 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 59
30586994 ACTTAATCAA
* * *
30587004 ATAATTCTATTTCGGGATATATTCCCGTCATTTAACATATTCT-ATTTTGATTTGGTTAT
1 ATAATTTTATTTCGGGATATAATCCCGTCATTTAACAAATT-TGATTTTGATTTGGTTAT
* * * * * *
30587063 ATAATTTTGTTTCGGGATTTAATCCTGTCGTTTAACAAATTTGATTTTGATTTTGTTTT
1 ATAATTTTATTTCGGGATATAATCCCGTCATTTAACAAATTTGATTTTGATTTGGTTAT
*
30587122 AGAATTTTA
1 ATAATTTTA
30587131 ATTCTACCGT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 55 0.98
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.51
Consensus pattern (59 bp):
ATAATTTTATTTCGGGATATAATCCCGTCATTTAACAAATTTGATTTTGATTTGGTTAT
Found at i:30589834 original size:10 final size:10
Alignment explanation
Indices: 30589819--30589854 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
30589809 AGATAAAAAA
30589819 ATAGATATAG
1 ATAGATATAG
30589829 ATAGATATAG
1 ATAGATATAG
*
30589839 ATAGATGAGAG
1 ATAGAT-ATAG
30589850 ATAGA
1 ATAGA
30589855 AGAGAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (10 bp):
ATAGATATAG
Found at i:30593706 original size:22 final size:24
Alignment explanation
Indices: 30593656--30593706 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
30593646 TTACAATGCT
30593656 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
30593681 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
30593702 TTTAT
1 TTTAT
30593707 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:30593895 original size:14 final size:14
Alignment explanation
Indices: 30593864--30593901 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
30593854 AAACACCAGA
30593864 AAATATTTTCTAGT
1 AAATATTTTCTAGT
30593878 AAATCATTTTCTAG-
1 AAAT-ATTTTCTAGT
30593892 AAATTATTTT
1 AAA-TATTTT
30593902 ACGGAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (14 bp):
AAATATTTTCTAGT
Found at i:30594809 original size:13 final size:13
Alignment explanation
Indices: 30594793--30594858 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
30594783 TTTAAACTAA
30594793 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
30594806 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
30594819 ACTTTTCCATAA-C
1 ACTTTT-CAAAAGC
*
30594832 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
30594845 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
30594858 A
1 A
30594859 ATGAAGAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 4 0.09
13 37 0.82
14 4 0.09
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:30608514 original size:292 final size:293
Alignment explanation
Indices: 30607986--30608574 Score: 1164
Period size: 292 Copynumber: 2.0 Consensus size: 293
30607976 TTTACACTTT
30607986 TTAT-CATCATAAATTGCACTTTAAATTTTTATAATTTATTCAAAATTTTATATAAGTGATATAT
1 TTATACATCATAAATTGCACTTTAAATTTTTATAATTTATTCAAAATTTTATATAAGTGATATAT
30608050 TATTATTTGAAATTATTTATTATATTAAAACTAATAAAAAATTGAATAAATTAGCCTAATAAAAT
66 TATTATTTGAAATTATTTATTATATTAAAACTAATAAAAAATTGAATAAATTAGCCTAATAAAAT
30608115 GTTGAATTACACTTTATATTCATAATATTTCATTATAATTTGAACTATTTATTATTATTATATTC
131 GTTGAATTACACTTTATATTCATAATATTTCATTATAATTTGAACTATTTATTATTATTATATTC
30608180 AAAGTAAATAAAAATAGATAAAAGTTTGATAAATATTTAATTAAAATTTATATTTACTTTCATTA
196 AAAGTAAATAAAAATAGATAAAAGTTTGATAAATATTTAATTAAAATTTATATTTACTTTCATTA
30608245 TAATTTAAACCATTCAACTCTAAATAA-CAATA
261 TAATTTAAACCATTCAACTCTAAATAATCAATA
30608277 TTATACATCATAAATTGCACTTTAAATTTTTATAATTTATTCAAAATTTTATATAAGTGATATAT
1 TTATACATCATAAATTGCACTTTAAATTTTTATAATTTATTCAAAATTTTATATAAGTGATATAT
30608342 TATTATTTGAAATTATTTATTATATTAAAACTAATAAAAAATTGAATAAATTAGCCTAATAAAAT
66 TATTATTTGAAATTATTTATTATATTAAAACTAATAAAAAATTGAATAAATTAGCCTAATAAAAT
30608407 GTTGAATTACACTTTATATTCATAATATTTCATTATAATTTGAACTATTTATTATTATTATATTC
131 GTTGAATTACACTTTATATTCATAATATTTCATTATAATTTGAACTATTTATTATTATTATATTC
30608472 AAAGTAAATAAAAATAGATAAAAGTTTGATAAATATTTAATTAAAATTTATATTTACTTTCATTA
196 AAAGTAAATAAAAATAGATAAAAGTTTGATAAATATTTAATTAAAATTTATATTTACTTTCATTA
30608537 TAATTTAAACCATTCAACTCTAAATAATCAATA
261 TAATTTAAACCATTCAACTCTAAATAATCAATA
30608570 TTATA
1 TTATA
30608575 TTATTTTAAA
Statistics
Matches: 296, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
291 4 0.01
292 282 0.95
293 10 0.03
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (293 bp):
TTATACATCATAAATTGCACTTTAAATTTTTATAATTTATTCAAAATTTTATATAAGTGATATAT
TATTATTTGAAATTATTTATTATATTAAAACTAATAAAAAATTGAATAAATTAGCCTAATAAAAT
GTTGAATTACACTTTATATTCATAATATTTCATTATAATTTGAACTATTTATTATTATTATATTC
AAAGTAAATAAAAATAGATAAAAGTTTGATAAATATTTAATTAAAATTTATATTTACTTTCATTA
TAATTTAAACCATTCAACTCTAAATAATCAATA
Found at i:30609117 original size:20 final size:20
Alignment explanation
Indices: 30609094--30609138 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30609084 GGGCCGCTGA
* **
30609094 CAAAACTGTCACTCAGGTTT
1 CAAAACAGTCACTCAACTTT
*
30609114 CAAATCAGTCACTCAACTTT
1 CAAAACAGTCACTCAACTTT
30609134 CAAAA
1 CAAAA
30609139 TATAACTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (20 bp):
CAAAACAGTCACTCAACTTT
Found at i:30612578 original size:1 final size:1
Alignment explanation
Indices: 30612572--30612606 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
30612562 TAAAGAAGGC
30612572 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30612607 GTGATCTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:30615669 original size:14 final size:15
Alignment explanation
Indices: 30615647--30615723 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
30615637 CAATCAAACA
30615647 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
30615661 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
30615676 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
30615696 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
30615710 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
30615724 ACTGGCTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:30615688 original size:20 final size:20
Alignment explanation
Indices: 30615663--30615702 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30615653 AATATTTTCC
*
30615663 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
30615683 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
30615703 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30615708 original size:34 final size:35
Alignment explanation
Indices: 30615651--30615717 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
30615641 CAAACACCAG
*
30615651 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
30615686 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
30615718 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30615724 original size:14 final size:14
Alignment explanation
Indices: 30615686--30615725 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30615676 ACAGAAAAGT
*
30615686 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
30615700 AAATCATTTTACGG
1 AAAACATTTTACAG
30615714 AAAACATTTTAC
1 AAAACATTTTAC
30615726 TGGCTATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:30622969 original size:185 final size:186
Alignment explanation
Indices: 30622653--30623029 Score: 702
Period size: 185 Copynumber: 2.0 Consensus size: 186
30622643 AAAAGGTGAT
30622653 ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTGACCCACCCACAATATTACGTGAGATTTG
1 ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTG---CACCCACAATATTACGTGAGATTTG
*
30622718 ATAAACATCATACTTATACAATCGGGTCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGT
63 ATAAACATCATACTTATACAATCGGATCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGT
30622783 ACTCCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
128 ACTCCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
30622842 ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTG-ACCCACAATATTACGTGAGATTTGATA
1 ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTGCACCCACAATATTACGTGAGATTTGATA
*
30622906 AACATCATACTTATACAATCGGATCACTTCTATCTTTTGTATAAATTGATCTCAACTTGAGTACT
66 AACATCATACTTATACAATCGGATCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGTACT
30622971 CCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
131 CCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
30623027 ATC
1 ATC
30623030 AAGACAACCT
Statistics
Matches: 186, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
185 149 0.80
189 37 0.20
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (186 bp):
ATCCAGAGTCTTATAACTTTCTCATAATTTAATATTGCACCCACAATATTACGTGAGATTTGATA
AACATCATACTTATACAATCGGATCACTTCTATCTTCTGTATAAATTGATCTCAACTTGAGTACT
CCCAACATTAGCCATCAATGACTTCTCTTTTTGGAGAGAACAATCAAAGTCAATAC
Found at i:30624227 original size:18 final size:19
Alignment explanation
Indices: 30624192--30624233 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
30624182 GAAAATTAAT
*
30624192 AAAAGAAAATACAAAAAAA
1 AAAAGAAAAGACAAAAAAA
* *
30624211 AAAAG-AAAGACAGAAAAG
1 AAAAGAAAAGACAAAAAAA
30624229 AAAAG
1 AAAAG
30624234 TTTGGAAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAGACAAAAAAA
Found at i:30624227 original size:19 final size:20
Alignment explanation
Indices: 30624192--30624232 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
30624182 GAAAATTAAT
*
30624192 AAAAGAAAATACAAAAA-AA
1 AAAAGAAAAGACAAAAAGAA
30624211 AAAAG-AAAGACAGAAAAGAA
1 AAAAGAAAAGACA-AAAAGAA
30624231 AA
1 AA
30624233 GTTTGGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 6 0.32
19 9 0.47
20 4 0.21
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGACAAAAAGAA
Found at i:30624871 original size:3 final size:3
Alignment explanation
Indices: 30624863--30624902 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
30624853 ATTGAATTGA
30624863 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
30624903 TTTAATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:30634259 original size:3 final size:3
Alignment explanation
Indices: 30634251--30634293 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
30634241 AATTGAATTG
* *
30634251 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTC TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30634294 ATTTATGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:30637465 original size:18 final size:17
Alignment explanation
Indices: 30637435--30637477 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
30637425 CAAATAACCT
30637435 AAAAATAAT--TAATTA
1 AAAAATAATCCTAATTA
*
30637450 CATAAATAATCCTAATTA
1 -AAAAATAATCCTAATTA
30637468 AAAAATAATC
1 AAAAATAATC
30637478 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATAATCCTAATTA
Found at i:30637475 original size:17 final size:17
Alignment explanation
Indices: 30637435--30637477 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
30637425 CAAATAACCT
30637435 AAAAATAAT-TAATTAC
1 AAAAATAATCTAATTAC
*
30637451 ATAAATAATCCTAATTA-
1 AAAAATAAT-CTAATTAC
30637468 AAAAATAATC
1 AAAAATAATC
30637478 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATAATCTAATTAC
Found at i:30649433 original size:19 final size:19
Alignment explanation
Indices: 30649405--30649441 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30649395 TACTCATCCT
*
30649405 ATCAATTAAAAAAAATTTG
1 ATCAACTAAAAAAAATTTG
*
30649424 ATCAACTAAAAATAATTT
1 ATCAACTAAAAAAAATTT
30649442 CACAAATTTA
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:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (19 bp):
ATCAACTAAAAAAAATTTG
Found at i:30649952 original size:114 final size:111
Alignment explanation
Indices: 30649763--30650082 Score: 333
Period size: 113 Copynumber: 2.8 Consensus size: 111
30649753 TTAATCAAAC
* ** * * * * *
30649763 CTAATAAAACACAACAACAAAAATAAT-TTTTCCTTCAATACGAAAAACTAATATAAGATACCAC
1 CTAATAAAACAAAACAAC-AAAA-AATCTTCCCCTTAAATACAAAAAAGTGATATAAGATACAAC
* *
30649827 AAAAATATTAATAAAACAAATTAATCATACCTTTAATACAAATCTAAAAT
64 -AAAACATTAATAAAACAAATTAATCATACATTTAATACAAA-CTAAAAT
* *
30649877 -TAGTAAAACACAACAA-AAAAATATCCTTCCCCTTAAATACAAAAAAGTTGATATAAGATACAA
1 CTAATAAAACAAAACAACAAAAA-AT-CTTCCCCTTAAATACAAAAAAG-TGATATAAGATACAA
* *
30649940 CAAAAGCATTAATAAAACAAACTAATCATACATTTAATACAAACTTAAAT
63 CAAAA-CATTAATAAAACAAATTAATCATACATTTAATACAAACTAAAAT
* ** *
30649990 CTAATAAAACAAAACAACAAAAAATCTTTCTTTTAAATACAAAAAAGTGTTATAAGATATCATA-
1 CTAATAAAACAAAACAACAAAAAATCTTCCCCTTAAATACAAAAAAGTGATATAAGATA-CA-AC
* * *
30650054 AAAACAATAGTAAAACAAATAAATCATAC
64 AAAACATTAATAAAACAAATTAATCATAC
30650083 TTTTTTTGTG
Statistics
Matches: 175, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
110 1 0.01
111 6 0.03
112 32 0.18
113 66 0.38
114 65 0.37
115 5 0.03
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (111 bp):
CTAATAAAACAAAACAACAAAAAATCTTCCCCTTAAATACAAAAAAGTGATATAAGATACAACAA
AACATTAATAAAACAAATTAATCATACATTTAATACAAACTAAAAT
Found at i:30650767 original size:24 final size:24
Alignment explanation
Indices: 30650740--30650791 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
30650730 TCCCGAATAG
*
30650740 ACAAGACCAATCAACCCCACTCGA
1 ACAACACCAATCAACCCCACTCGA
30650764 ACAACACCAATCAACCCCACTCGA
1 ACAACACCAATCAACCCCACTCGA
30650788 ACAA
1 ACAA
30650792 AATGAGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.42, G:0.06, T:0.08
Consensus pattern (24 bp):
ACAACACCAATCAACCCCACTCGA
Found at i:30657675 original size:28 final size:28
Alignment explanation
Indices: 30657644--30657705 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
30657634 GATACTAGAG
*
30657644 TATTTTCATAATTTTTTAATATTTTAGT
1 TATTTACATAATTTTTTAATATTTTAGT
30657672 TATTTACATAATTTTTTAATATTTTAGT
1 TATTTACATAATTTTTTAATATTTTAGT
30657700 TATTTA
1 TATTTA
30657706 TCTAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (28 bp):
TATTTACATAATTTTTTAATATTTTAGT
Found at i:30658153 original size:18 final size:18
Alignment explanation
Indices: 30658132--30658176 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
30658122 CATTCTTCTC
* *
30658132 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTACCCCTT
30658150 CCCTTTCCCCTACCCCTT
1 CCCTTTCCCCTACCCCTT
30658168 CCCTTTCCC
1 CCCTTTCCC
30658177 GTTTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.60, G:0.00, T:0.38
Consensus pattern (18 bp):
CCCTTTCCCCTACCCCTT
Found at i:30660608 original size:34 final size:35
Alignment explanation
Indices: 30660542--30660608 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
30660532 CAAACACCAG
* * *
30660542 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
*
30660577 AAAACATTTTCCA-AAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
30660609 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:30662704 original size:19 final size:18
Alignment explanation
Indices: 30662675--30662738 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 18
30662665 AATTTTTATT
30662675 ATAAAATTAAAAATGAATTG
1 ATAAAA-TAAAAAT-AATTG
*
30662695 ATAAAATAAATATTACA-TG
1 ATAAAATAAA-AATA-ATTG
*
30662714 A-AAAATGAAAAATAATTA
1 ATAAAAT-AAAAATAATTG
30662732 ATAAAAT
1 ATAAAAT
30662739 TATTATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
17 1 0.03
18 10 0.28
19 16 0.44
20 9 0.25
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (18 bp):
ATAAAATAAAAATAATTG
Found at i:30668967 original size:11 final size:11
Alignment explanation
Indices: 30668951--30668980 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
30668941 TGTTTGAGTT
30668951 AAATTAAAAAA
1 AAATTAAAAAA
30668962 AAATTAAAAAA
1 AAATTAAAAAA
30668973 AAATTAAA
1 AAATTAAA
30668981 CTGACCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATTAAAAAA
Found at i:30669231 original size:115 final size:116
Alignment explanation
Indices: 30669054--30669285 Score: 457
Period size: 115 Copynumber: 2.0 Consensus size: 116
30669044 GAGGAAAAAA
30669054 AAAGATAAGTAGTATGATAAACTTGATTTGATAACTTGCTTGTTTAAGGTCTCAAATTTATCATT
1 AAAGATAAGTAGTATGATAAACTTGATTTGATAACTTGCTTGTTTAAGGTCTCAAATTTATCATT
30669119 TTGAATTTTTTTAAAAAAATTATAATTTAACATACATATA-GTAAATATAT
66 TTGAATTTTTTTAAAAAAATTATAATTTAACATACATATATGTAAATATAT
30669169 AAAGATAAGTAGTATGATAAACTTGATTTGATAACTTGCTTGTTTAAGGTCTCAAATTTATCATT
1 AAAGATAAGTAGTATGATAAACTTGATTTGATAACTTGCTTGTTTAAGGTCTCAAATTTATCATT
30669234 TTGAATTTTTTTAAAAAAATTATAATTTAACATACATATATGTAAATATAT
66 TTGAATTTTTTTAAAAAAATTATAATTTAACATACATATATGTAAATATAT
30669285 A
1 A
30669286 TGATTTTTTA
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 105 0.91
116 11 0.09
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (116 bp):
AAAGATAAGTAGTATGATAAACTTGATTTGATAACTTGCTTGTTTAAGGTCTCAAATTTATCATT
TTGAATTTTTTTAAAAAAATTATAATTTAACATACATATATGTAAATATAT
Found at i:30671139 original size:32 final size:32
Alignment explanation
Indices: 30671103--30671208 Score: 94
Period size: 32 Copynumber: 3.3 Consensus size: 32
30671093 TTTTAATGAA
30671103 AAGACCATAGAAATGTTTAAATGTTTAAATGT
1 AAGACCATAGAAATGTTTAAATGTTTAAATGT
* ** * *
30671135 AAGACCAT--AACTGGGCT--ATGGCATTTTAATGAA
1 AAGACCATAGAAAT-GTTTAAAT-G--TTTAAATG-T
30671168 AAGACCATAGAAATGTTTAAATGTTTAAATGT
1 AAGACCATAGAAATGTTTAAATGTTTAAATGT
30671200 AAGACCATA
1 AAGACCATA
30671209 ACTGGGCTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
29 2 0.04
30 4 0.07
31 2 0.04
32 24 0.44
33 15 0.27
34 2 0.04
35 4 0.07
36 2 0.04
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (32 bp):
AAGACCATAGAAATGTTTAAATGTTTAAATGT
Found at i:30671172 original size:33 final size:33
Alignment explanation
Indices: 30671070--30671252 Score: 125
Period size: 33 Copynumber: 5.6 Consensus size: 33
30671060 ATTGACGGAT
30671070 AAGACCATAACTGGGCTATGGCATTTTAATGAA
1 AAGACCATAACTGGGCTATGGCATTTTAATGAA
* ** * *
30671103 AAGACCATAGAAAT-GTTTAAAT-G--TTTAAATG-T
1 AAGACCAT--AACTGGGCT--ATGGCATTTTAATGAA
30671135 AAGACCATAACTGGGCTATGGCATTTTAATGAA
1 AAGACCATAACTGGGCTATGGCATTTTAATGAA
* ** * *
30671168 AAGACCATAGAAAT-GTTTAAAT-G--TTTAAATG-T
1 AAGACCAT--AACTGGGCT--ATGGCATTTTAATGAA
30671200 AAGACCATAACTGGGCTATGGCATTTTAATGAA
1 AAGACCATAACTGGGCTATGGCATTTTAATGAA
*
30671233 AAGACCATAACTGGGTTATG
1 AAGACCATAACTGGGCTATG
30671253 ACACCTTGAA
Statistics
Matches: 111, Mismatches: 21, Indels: 36
0.66 0.12 0.21
Matches are distributed among these distances:
29 4 0.04
30 8 0.07
31 4 0.04
32 30 0.27
33 49 0.44
34 4 0.04
35 8 0.07
36 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (33 bp):
AAGACCATAACTGGGCTATGGCATTTTAATGAA
Found at i:30671173 original size:65 final size:65
Alignment explanation
Indices: 30671069--30671241 Score: 346
Period size: 65 Copynumber: 2.7 Consensus size: 65
30671059 AATTGACGGA
30671069 TAAGACCATAACTGGGCTATGGCATTTTAATGAAAAGACCATAGAAATGTTTAAATGTTTAAATG
1 TAAGACCATAACTGGGCTATGGCATTTTAATGAAAAGACCATAGAAATGTTTAAATGTTTAAATG
30671134 TAAGACCATAACTGGGCTATGGCATTTTAATGAAAAGACCATAGAAATGTTTAAATGTTTAAATG
1 TAAGACCATAACTGGGCTATGGCATTTTAATGAAAAGACCATAGAAATGTTTAAATGTTTAAATG
30671199 TAAGACCATAACTGGGCTATGGCATTTTAATGAAAAGACCATA
1 TAAGACCATAACTGGGCTATGGCATTTTAATGAAAAGACCATA
30671242 ACTGGGTTAT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 108 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (65 bp):
TAAGACCATAACTGGGCTATGGCATTTTAATGAAAAGACCATAGAAATGTTTAAATGTTTAAATG
Found at i:30671270 original size:33 final size:32
Alignment explanation
Indices: 30671198--30671273 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
30671188 ATGTTTAAAT
* * * *
30671198 GTAAGACCATAACTGGGCTATGGCATTTTAAT
1 GTAAGACCATAACTGGGCTATGACACTTGAAC
* *
30671230 GAAAAGACCATAACTGGGTTATGACACCTTGAAC
1 G-TAAGACCATAACTGGGCTATGACA-CTTGAAC
30671264 GTAAGACCAT
1 GTAAGACCAT
30671274 GGTTGGACAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 29 0.83
34 5 0.14
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGACACTTGAAC
Found at i:30671374 original size:33 final size:32
Alignment explanation
Indices: 30671302--30671378 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
30671292 TAGATACATG
* * * **
30671302 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
*
30671334 TGATAAGACCATAACTGGGTTATGACACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
30671368 TGTAAGACCAT
1 TGTAAGACCAT
30671379 GGCAAGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:30682642 original size:21 final size:21
Alignment explanation
Indices: 30682616--30682662 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
30682606 GAGAAGAGAA
30682616 TGATAAGAATAGATTGTGTTT
1 TGATAAGAATAGATTGTGTTT
30682637 TGATAAGAATAGATTGTGTTT
1 TGATAAGAATAGATTGTGTTT
30682658 TGATA
1 TGATA
30682663 GGGACCCGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (21 bp):
TGATAAGAATAGATTGTGTTT
Found at i:30689293 original size:30 final size:30
Alignment explanation
Indices: 30689259--30689321 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
30689249 ATTTATTTTA
30689259 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
30689289 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
30689319 TTG
1 TTG
30689322 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:30690062 original size:29 final size:30
Alignment explanation
Indices: 30690027--30690090 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
30690017 TAGCAAAAAA
30690027 CTCTCAAATTTC-CCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
30690056 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
30690086 CTCTC
1 CTCTC
30690091 TTTAATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:30698276 original size:17 final size:16
Alignment explanation
Indices: 30698254--30698298 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
30698244 TAGAATCAAG
*
30698254 TTGAGAAAATTATTTAA
1 TTGAG-AAATTAATTAA
30698271 TTGAGAAATTAATTAA
1 TTGAGAAATTAATTAA
30698287 TT-A-AAATTAATT
1 TTGAGAAATTAATT
30698299 TATGATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 12 0.44
17 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TTGAGAAATTAATTAA
Found at i:30700549 original size:12 final size:12
Alignment explanation
Indices: 30700532--30700556 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30700522 AACCAGAGCA
30700532 ATAGAATGCTAC
1 ATAGAATGCTAC
30700544 ATAGAATGCTAC
1 ATAGAATGCTAC
30700556 A
1 A
30700557 GATGGTTACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAGAATGCTAC
Found at i:30706385 original size:13 final size:13
Alignment explanation
Indices: 30706367--30706392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30706357 CAAAGGATTT
30706367 ATTTCTTTTATTG
1 ATTTCTTTTATTG
30706380 ATTTCTTTTATTG
1 ATTTCTTTTATTG
30706393 GTTTAGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
ATTTCTTTTATTG
Found at i:30708942 original size:13 final size:13
Alignment explanation
Indices: 30708924--30708951 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30708914 TCTAAGTGGA
30708924 TAGAAGCAAAGCC
1 TAGAAGCAAAGCC
30708937 TAGAAGCAAAGCC
1 TAGAAGCAAAGCC
30708950 TA
1 TA
30708952 CTCATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (13 bp):
TAGAAGCAAAGCC
Found at i:30712971 original size:41 final size:41
Alignment explanation
Indices: 30712926--30713133 Score: 290
Period size: 41 Copynumber: 5.1 Consensus size: 41
30712916 CGTACATCTG
* * *
30712926 TTTGTACTTCGGTACTCTTGAATTGCACATACATGCCCCTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
30712967 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
* *
30713008 TTTGTACTTTGGTACCCCTAAATTGCACATACATGCCCCTG
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
* * *
30713049 TTTGTACTTTGGTACCCGTGAATTGCACATAAATGCCCTTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
* * ** * *
30713090 TTTGTACTTCGGTACCCTTGAATAACATATACGTGCCCCTA
1 TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
30713131 TTT
1 TTT
30713134 ACACTTCAGT
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (41 bp):
TTTGTACTTTGGTACCCCTGAATTGCACATACATGCCCCTA
Found at i:30713027 original size:20 final size:20
Alignment explanation
Indices: 30712961--30713027 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
30712951 CACATACATG
30712961 CCCCTATTTGTACTTTGGTA
1 CCCCTATTTGTACTTTGGTA
* * * *** *
30712981 CCCCTGAATTGCACATACATG
1 CCCCT-ATTTGTACTTTGGTA
30713002 CCCCTATTTGTACTTTGGTA
1 CCCCTATTTGTACTTTGGTA
30713022 CCCCTA
1 CCCCTA
30713028 AATTGCACAT
Statistics
Matches: 32, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.36
Consensus pattern (20 bp):
CCCCTATTTGTACTTTGGTA
Found at i:30721865 original size:30 final size:30
Alignment explanation
Indices: 30721831--30721895 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
30721821 CAACTTAATA
*
30721831 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAAGT
*
30721861 AACAAATGCCTTTAAAATAATAACAAAAGT
1 AACAAATGCCTCTAAAATAATAACAAAAGT
30721891 AACAA
1 AACAA
30721896 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAAGT
Found at i:30723555 original size:92 final size:92
Alignment explanation
Indices: 30723412--30724010 Score: 959
Period size: 92 Copynumber: 6.5 Consensus size: 92
30723402 ATCCAATGCT
* * * *
30723412 CAAATCAA-TTCAACAATATATATTCATATACGAATCAAATTCGGCAACTTATCTTCATATACAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATC-AATTCGGCAACTTATCTTCATATACAA
* *
30723476 ATCGATTTCGATAATGTATAATCATATA
65 ATCAATTTCGATAATGTATAACCATATA
* *
30723504 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTTGGCAACTTATCTTCATATATAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
30723569 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * *
30723596 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTTGGCAACTTATCTTCACATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
* *
30723661 TCAATTTCTATAATATATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* * *
30723688 CAAATAAATTTCAGCAATGTATAATTATATACAAATCAATTCGACAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
*
30723753 TCACTTTCGATAATAG-ATAACCATATA
66 TCAATTTCGATAAT-GTATAACCATATA
30723780 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
*
30723845 TCAATTTCGATAATATATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
*
30723872 TAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
30723937 TCAATTTCGATAATGTATAACCATATA
66 TCAATTTCGATAATGTATAACCATATA
* ** *
30723964 CAAATAAATTTCAACAATGTATAATTGTATACGAATTAATTCGGCAA
1 CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAA
30724011 TGTATAAAAC
Statistics
Matches: 472, Mismatches: 32, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
92 447 0.95
93 25 0.05
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (92 bp):
CAAATAAATTTCAGCAATGTATAATCATATACGAATCAATTCGGCAACTTATCTTCATATACAAA
TCAATTTCGATAATGTATAACCATATA
Found at i:30725524 original size:25 final size:25
Alignment explanation
Indices: 30725493--30725603 Score: 84
Period size: 25 Copynumber: 4.5 Consensus size: 25
30725483 AGTCCTCTCT
30725493 CGAGCCATATAACAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATG
* * * * *
30725518 TGAGCCATGTAACGGGAAGCTTATC
1 CGAGCCATATAACAGGAAGCTCATG
** *
30725543 CGAGCTGTATAAC-GTGAAGCTCATA
1 CGAGCCATATAACAG-GAAGCTCATG
* * * *
30725568 AGAGTCATAT-TCAGGAAACTCATG
1 CGAGCCATATAACAGGAAGCTCATG
30725592 CGAGCCA-ATAAC
1 CGAGCCATATAAC
30725604 GGGTAGCTTC
Statistics
Matches: 62, Mismatches: 21, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
23 2 0.03
24 16 0.26
25 44 0.71
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATG
Found at i:30725636 original size:73 final size:72
Alignment explanation
Indices: 30725558--30725720 Score: 166
Period size: 73 Copynumber: 2.2 Consensus size: 72
30725548 TGTATAACGT
* * * *
30725558 GAAGCTCATAAGAGTCATAT-TCAGGAAACTCATGCGAGCCAATAACGGGTAGCTTCAAAGAGCC
1 GAAGCTCA-AAGAGCCATATATCAGGAAACTCAAGCGAGCC-ATAACGGGAAGCTCCAAAGAGCC
30725622 ATTAATCAG
64 ATTAATCAG
* ** ** * *
30725631 GAAGCTTCAAATAGCCATATATTGGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGAAGAGCCA
1 GAAGC-TCAAAGAGCCATATATCAGGAAACTCAAGCGAGCCATAACGGGAAGCTCCAAAGAGCCA
*
30725696 TTAATTAG
65 TTAATCAG
30725704 GAAGCTTACAAAGAGCC
1 GAAGC-T-CAAAGAGCC
30725721 TTTAATCGGG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
73 48 0.65
74 26 0.35
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (72 bp):
GAAGCTCAAAGAGCCATATATCAGGAAACTCAAGCGAGCCATAACGGGAAGCTCCAAAGAGCCAT
TAATCAG
Found at i:30725638 original size:25 final size:25
Alignment explanation
Indices: 30725593--30725748 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
30725583 AAACTCATGC
* *
30725593 GAGCCAATAA-CGGGTAGCTTCAAA
1 GAGCCATTAATCGGGAAGCTTCAAA
*
30725617 GAGCCATTAATCAGGAAGCTTCAAA
1 GAGCCATTAATCGGGAAGCTTCAAA
* * *
30725642 TAGCCA-TATATTGGGAAG-TTCAAGC
1 GAGCCATTA-ATCGGGAAGCTTCAA-A
* *
30725667 GAGCCA-T-ATCGGGAAGCTCCGAA
1 GAGCCATTAATCGGGAAGCTTCAAA
**
30725690 GAGCCATTAATTAGGAAGCTTACAAA
1 GAGCCATTAATCGGGAAGCTT-CAAA
*
30725716 GAGCCTTTAATCGGGAAGC-TCATGAA
1 GAGCCATTAATCGGGAAGCTTCA--AA
30725742 GAGCCAT
1 GAGCCAT
30725749 ATAACATGAT
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
23 14 0.14
24 22 0.21
25 40 0.39
26 27 0.26
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTTCAAA
Found at i:30727462 original size:148 final size:149
Alignment explanation
Indices: 30727194--30727491 Score: 589
Period size: 148 Copynumber: 2.0 Consensus size: 149
30727184 ACACAAAATC
30727194 TATAATATTTCTAACTACCCCATTAGAATAGTTATTGAACATGTCAAACGGTGAATGTCAAATCT
1 TATAATATTTCTAACTACCCCATTAGAATAGTTATTGAACATGTCAAACGGTGAATGTCAAATCT
30727259 GAACAGATTTATTTTAGATTAAAATTTTATTGAGTTCAAGTTTAAATTTTTAAATCAATTTTAAA
66 GAACAGATTTATTTTAGATTAAAATTTTATTGAGTTCAAGTTTAAATTTTTAAATCAATTTTAAA
30727324 TCATTTA-TTGAATTATTT
131 TCATTTATTTGAATTATTT
30727342 TATAATATTTCTAACTACCCCATTAGAATAGTTATTGAACATGTCAAACGGTGAATGTCAAATCT
1 TATAATATTTCTAACTACCCCATTAGAATAGTTATTGAACATGTCAAACGGTGAATGTCAAATCT
30727407 GAACAGATTTATTTTAGATTAAAATTTTATTGAGTTCAAGTTTAAATTTTTAAATCAATTTTAAA
66 GAACAGATTTATTTTAGATTAAAATTTTATTGAGTTCAAGTTTAAATTTTTAAATCAATTTTAAA
30727472 TCATTTATTTGAATTATTT
131 TCATTTATTTGAATTATTT
30727491 T
1 T
30727492 GTTTTTATTA
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
148 137 0.92
149 12 0.08
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (149 bp):
TATAATATTTCTAACTACCCCATTAGAATAGTTATTGAACATGTCAAACGGTGAATGTCAAATCT
GAACAGATTTATTTTAGATTAAAATTTTATTGAGTTCAAGTTTAAATTTTTAAATCAATTTTAAA
TCATTTATTTGAATTATTT
Found at i:30729605 original size:24 final size:24
Alignment explanation
Indices: 30729578--30729627 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
30729568 TCTATATTGT
30729578 TAATAAACCTTCTACATTTATATA
1 TAATAAACCTTCTACATTTATATA
*
30729602 TAATAAACTTTCTACATTTATATA
1 TAATAAACCTTCTACATTTATATA
30729626 TA
1 TA
30729628 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAAACCTTCTACATTTATATA
Found at i:30732242 original size:19 final size:20
Alignment explanation
Indices: 30732218--30732276 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
30732208 TGTACATGAA
*
30732218 AATAATG-AATAATATTAAT
1 AATAATGCAATAATAGTAAT
30732237 AATAATATGCAATAATAGTAAT
1 AAT-A-ATGCAATAATAGTAAT
*
30732259 AATAA-ACAAATAATAGTA
1 AATAATGC-AATAATAGTA
30732277 TCATAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.12
20 12 0.35
21 4 0.12
22 14 0.41
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (20 bp):
AATAATGCAATAATAGTAAT
Found at i:30732273 original size:33 final size:30
Alignment explanation
Indices: 30732216--30732294 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
30732206 AATGTACATG
**
30732216 AAAATAATGAATAATATTAATAATAATATGCAAT
1 AAAATAAT-AATAA-ACAAATAATAATAT-C-AT
* *
30732250 AATAGTAATAATAAACAAATAATAGTATCAT
1 AA-AATAATAATAAACAAATAATAATATCAT
30732281 AAAATAATAATAAA
1 AAAATAATAATAAA
30732295 AAAAAGTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 11 0.28
31 4 0.10
32 1 0.03
33 11 0.28
34 7 0.18
35 5 0.13
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (30 bp):
AAAATAATAATAAACAAATAATAATATCAT
Found at i:30732292 original size:19 final size:20
Alignment explanation
Indices: 30732225--30732276 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
30732215 GAAAATAATG
*
30732225 AATAATATTAATAATAATATGC-
1 AATAATAGTAATAATAA-A--CA
30732247 AATAATAGTAATAATAAACA
1 AATAATAGTAATAATAAACA
30732267 AATAATAGTA
1 AATAATAGTA
30732277 TCATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 10 0.36
21 1 0.04
22 16 0.57
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (20 bp):
AATAATAGTAATAATAAACA
Found at i:30734048 original size:88 final size:88
Alignment explanation
Indices: 30733956--30734167 Score: 212
Period size: 88 Copynumber: 2.4 Consensus size: 88
30733946 ACCAGTATGG
* * * * * *
30733956 GAAGATAAAATCTG-TGTATTTGATCCACTTCGCTACT-GATATAGGAAGACAGGACCTGCTATC
1 GAAGATAAAATCTGCTCTATTCGATCCACTCCACCACTAG-TATAGGAAGACAAGACCTG-TATC
30734019 TTTAATCTACTTCACGCCAGTACAT
64 TTTAATCTACTTCACGCCAGTACAT
* * * * * *
30734044 GAAGATAAAATCTGCTCTCTTCGATCTACTCCACCACTAGTATGGGGAGACAAGATCTGTTTCTT
1 GAAGATAAAATCTGCTCTATTCGATCCACTCCACCACTAGTATAGGAAGACAAGACCTGTATCTT
* *
30734109 TGATCTACTTCATGCCAGTACAT
66 TAATCTACTTCACGCCAGTACAT
* * * * * *
30734132 GAAGACAAGATCTGCTATCTTTGATCTACTCCACCA
1 GAAGATAAAATCTGCTCTATTCGATCCACTCCACCA
30734168 NNNNNNNNNN
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 72 0.69
89 31 0.30
90 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (88 bp):
GAAGATAAAATCTGCTCTATTCGATCCACTCCACCACTAGTATAGGAAGACAAGACCTGTATCTT
TAATCTACTTCACGCCAGTACAT
Found at i:30734059 original size:44 final size:44
Alignment explanation
Indices: 30734000--30734161 Score: 166
Period size: 44 Copynumber: 3.7 Consensus size: 44
30733990 ACTGATATAG
* * *
30734000 GAAGACAGGACCTGCTATCTTTAATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * ***
30734044 GAAGATAAAATCTGCTCTCTTCGATCTACTCCAC-CACTAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGC-C-AGTACAT
* * *
30734089 GGAGACAAGATCTG-TTTCTTTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
30734132 GAAGACAAGATCTGCTATCTTTGATCTACT
1 GAAGACAAGATCTGCTATCTTTGATCTACT
30734162 CCACCANNNN
Statistics
Matches: 91, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
43 18 0.20
44 57 0.63
45 16 0.18
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:30734271 original size:44 final size:43
Alignment explanation
Indices: 30734207--30734330 Score: 203
Period size: 44 Copynumber: 2.8 Consensus size: 43
30734197 NNNNNNNNNN
30734207 ATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTCG
1 ATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TATCTTCG
* **
30734251 ATCTACTTCACGCCAATACATGAAGACAAGATCTAGTATCTTTA
1 ATCTACTTCACGCCAGTACATGAAGACAAGATCT-GTATCTTCG
30734295 ATCTACTTCACGCCAGTACATGAAGACAAGATCTGT
1 ATCTACTTCACGCCAGTACATGAAGACAAGATCTGT
30734331 TTTCTACGAT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 2 0.03
44 72 0.96
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATCTACTTCACGCCAGTACATGAAGACAAGATCTGTATCTTCG
Found at i:30747989 original size:14 final size:15
Alignment explanation
Indices: 30747970--30748000 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
30747960 ATGTGAGTTT
30747970 TAAATATATTT-TTA
1 TAAATATATTTGTTA
30747984 TAAATATATTTGTTA
1 TAAATATATTTGTTA
30747999 TA
1 TA
30748001 TAAAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TAAATATATTTGTTA
Found at i:30748544 original size:27 final size:27
Alignment explanation
Indices: 30748495--30748561 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
30748485 GATGAAGCCA
*
30748495 AAATTTTTTTAG-GAAAGTTAAATTAT
1 AAATTTTATTAGAGAAAGTTAAATTAT
30748521 AAATTTTATTAGAGAAAGTTAAATTAT
1 AAATTTTATTAGAGAAAGTTAAATTAT
30748548 AAATTTTATTAGAG
1 AAATTTTATTAGAG
30748562 GTATAATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 11 0.28
27 28 0.72
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (27 bp):
AAATTTTATTAGAGAAAGTTAAATTAT
Found at i:30749321 original size:26 final size:27
Alignment explanation
Indices: 30749256--30749322 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
30749246 TACATTATAC
30749256 CTCTAATAAAATTTATAATTTAACTTT
1 CTCTAATAAAATTTATAATTTAACTTT
30749283 CTCTAATAAAATTTATAATTTAACTTT
1 CTCTAATAAAATTTATAATTTAACTTT
*
30749310 C-CTAAAAAAATTT
1 CTCTAATAAAATTT
30749323 TGGCTTCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 11 0.28
27 28 0.72
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (27 bp):
CTCTAATAAAATTTATAATTTAACTTT
Found at i:30750040 original size:27 final size:27
Alignment explanation
Indices: 30749991--30750057 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
30749981 GATGAAGCCA
*
30749991 AAATTTTTTTAG-GAAAGTTAAATTAT
1 AAATTTTATTAGAGAAAGTTAAATTAT
30750017 AAATTTTATTAGAGAAAGTTAAATTAT
1 AAATTTTATTAGAGAAAGTTAAATTAT
30750044 AAATTTTATTAGAG
1 AAATTTTATTAGAG
30750058 GTATAATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 11 0.28
27 28 0.72
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (27 bp):
AAATTTTATTAGAGAAAGTTAAATTAT
Found at i:30755286 original size:507 final size:508
Alignment explanation
Indices: 30754332--30755320 Score: 1935
Period size: 507 Copynumber: 1.9 Consensus size: 508
30754322 ACCTTTCTAC
30754332 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
1 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
30754397 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTTG
66 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTTG
30754462 ATGATGTTTCCATTTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAAC
131 ATGATGTTTCCATTTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAAC
30754527 TCCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAA
196 TCCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAA
30754592 TCTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTC
261 TCTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTC
*
30754657 TTCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCGATTTC
326 TTCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTC
30754722 TACAATTTATGGAAAATTTTCAAAGTTAGCCAACTCTTGCTATCCAAACAACAAGCAATTTTGGC
391 TACAATTTATGGAAAATTTTCAAAGTTAGCCAACTCTTGCTATCCAAACAACAAGCAATTTTGGC
30754787 TTTTCGCCGAATCCCTTTTTTTGTTGTCTCATAAAAAAATTTTGACCTTGTCT
456 TTTTCGCCGAATCCCTTTTTTTGTTGTCTCATAAAAAAATTTTGACCTTGTCT
30754840 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
1 CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
30754905 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTTG
66 TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTTG
30754970 ATGATGTTTCCA-TTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAAC
131 ATGATGTTTCCATTTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAAC
* *
30755034 TCCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATAGGGGAACCCGAATTCAA
196 TCCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAA
30755099 TCTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTC
261 TCTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTC
30755164 TTCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTC
326 TTCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTC
*
30755229 TACAATTTATGGAAAATTTTCAAAGTTAGCCTACTCTTGCTATCCAAACAACAAGCAATTTTGGC
391 TACAATTTATGGAAAATTTTCAAAGTTAGCCAACTCTTGCTATCCAAACAACAAGCAATTTTGGC
30755294 TTTTCGCCGAATCCCTTTTTTTGTTGT
456 TTTTCGCCGAATCCCTTTTTTTGTTGT
30755321 GTTTCGGGTA
Statistics
Matches: 477, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
507 335 0.70
508 142 0.30
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (508 bp):
CATAAAATTTTCAGAATTTTTGGTTTAGCCAATAAGTACAGTAAAATCTTCAAACTTACCCCTGT
TCTGATGTCTAACAGCTTCATCCCTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTTG
ATGATGTTTCCATTTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAAC
TCCTAATTATTTTTCTCCAATTTTTGATGATTTTCCAAAGTCAGAATACGGGAACCCAAATTCAA
TCTGACCTTGTCTCACAAAGTTTATTATACCTCACAATTTACAATTCCATTACTTACACCGTTTC
TTCTATGAAAAACTAGACTCAATAAGATTTAATTTCATATTTTTTTCATCCTCTAATTCAATTTC
TACAATTTATGGAAAATTTTCAAAGTTAGCCAACTCTTGCTATCCAAACAACAAGCAATTTTGGC
TTTTCGCCGAATCCCTTTTTTTGTTGTCTCATAAAAAAATTTTGACCTTGTCT
Found at i:30756654 original size:26 final size:26
Alignment explanation
Indices: 30756625--30756674 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
30756615 CAGTGGCTGG
30756625 TTTGACCAACTGATTCTATTAACTAA
1 TTTGACCAACTGATTCTATTAACTAA
30756651 TTTGACCAACTGATTCTATTAACT
1 TTTGACCAACTGATTCTATTAACT
30756675 GTTTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (26 bp):
TTTGACCAACTGATTCTATTAACTAA
Found at i:30758743 original size:10 final size:10
Alignment explanation
Indices: 30758728--30758775 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
30758718 CTCTCACAAC
30758728 AAAAATTATA
1 AAAAATTATA
30758738 AAAAATTA-A
1 AAAAATTATA
30758747 AATAAATT-TA
1 AA-AAATTATA
*
30758757 AAAAATT-CA
1 AAAAATTATA
30758766 AAAAATTATA
1 AAAAATTATA
30758776 GAAATTCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:30758760 original size:19 final size:19
Alignment explanation
Indices: 30758728--30758775 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
30758718 CTCTCACAAC
30758728 AAAAATTATAAAAAATTAA
1 AAAAATTATAAAAAATTAA
*
30758747 AATAAATT-TAAAAAATTCA
1 AA-AAATTATAAAAAATTAA
30758766 AAAAATTATA
1 AAAAATTATA
30758776 GAAATTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAA
Found at i:30758768 original size:9 final size:9
Alignment explanation
Indices: 30758728--30758773 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
30758718 CTCTCACAAC
30758728 AAAAATTATA
1 AAAAATTA-A
30758738 AAAAATTAA
1 AAAAATTAA
*
30758747 AATAAATTTA
1 AA-AAATTAA
*
30758757 AAAAATTCA
1 AAAAATTAA
30758766 AAAAATTA
1 AAAAATTA
30758774 TAGAAATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAA
Found at i:30758780 original size:18 final size:19
Alignment explanation
Indices: 30758728--30758793 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
30758718 CTCTCACAAC
*
30758728 AAAAATTATAAAAAATTAA
1 AAAAATTATAAAAAATTCA
30758747 AATAAATT-TAAAAAATTCA
1 AA-AAATTATAAAAAATTCA
* *
30758766 AAAAATTAT-AGAAATTCT
1 AAAAATTATAAAAAATTCA
*
30758784 AAAATTTATA
1 AAAAATTATA
30758794 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 20 0.50
19 15 0.38
20 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAAATTCA
Found at i:30765669 original size:11 final size:11
Alignment explanation
Indices: 30765653--30765678 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30765643 TTTTTTAATA
30765653 TTATTTAATTT
1 TTATTTAATTT
30765664 TTATTTAATTT
1 TTATTTAATTT
30765675 TTAT
1 TTAT
30765679 AATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTAATTT
Found at i:30765689 original size:29 final size:30
Alignment explanation
Indices: 30765637--30765708 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
30765627 ATAAGGGTTA
* *
30765637 ATTTCATTTTTTAATATTATTTAAT-TTTT
1 ATTTAATTTTTTAATATTAATTAATATTTT
30765666 ATTTAATTTTTATAAT-TTAATTAATATTTT
1 ATTTAATTTTT-TAATATTAATTAATATTTT
*
30765696 TTTATAATTTTTT
1 ATT-TAATTTTTT
30765709 TATAATAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 18 0.49
30 11 0.30
31 8 0.22
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (30 bp):
ATTTAATTTTTTAATATTAATTAATATTTT
Found at i:30765705 original size:11 final size:11
Alignment explanation
Indices: 30765672--30765714 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
30765662 TTTTATTTAA
30765672 TTTTTATAATT
1 TTTTTATAATT
**
30765683 TAATTA-ATATT
1 TTTTTATA-ATT
30765694 TTTTTATAATT
1 TTTTTATAATT
30765705 TTTTTATAAT
1 TTTTTATAAT
30765715 AGCCGGTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 24 0.92
12 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:30765785 original size:41 final size:41
Alignment explanation
Indices: 30765730--30765808 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
30765720 GTAGATCCAA
* * * *
30765730 TGTTGCAATGTTTTATTCGTAATCTACCTGGTCCTCCAGAG
1 TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCAGAG
30765771 TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCA
1 TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCA
30765809 TCACTGTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (41 bp):
TGTTACAACGTTTTAGTCATAATCTACCTGGTCCTCCAGAG
Found at i:30767846 original size:29 final size:29
Alignment explanation
Indices: 30767814--30767902 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
30767804 AAAACAAAAT
*
30767814 ACATCTTGTCAAAATAATTTTTTCAGAAC
1 ACATCTTGTCAAAATTATTTTTTCAGAAC
** *
30767843 ACATCACGTCAAATTTATTTTTTCAGAAC
1 ACATCTTGTCAAAATTATTTTTTCAGAAC
* *
30767872 -CTATCTTGTTAAAATTATTTTTCCCAGAAC
1 AC-ATCTTGTCAAAATTATTTTT-TCAGAAC
30767902 A
1 A
30767903 ATACTTAGCA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
28 1 0.02
29 41 0.85
30 6 0.12
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (29 bp):
ACATCTTGTCAAAATTATTTTTTCAGAAC
Found at i:30771237 original size:21 final size:21
Alignment explanation
Indices: 30771198--30771237 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30771188 TTTGATTTTT
*
30771198 TTTAAGATGAAAATCTTGAAA
1 TTTAAGATGAAAATATTGAAA
* *
30771219 TTTAGGATGAAATTATTGA
1 TTTAAGATGAAAATATTGA
30771238 TGTGACATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (21 bp):
TTTAAGATGAAAATATTGAAA
Found at i:30776757 original size:13 final size:13
Alignment explanation
Indices: 30776739--30776763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30776729 CTAAATCGTA
30776739 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
30776752 ATTTTAGTAAAA
1 ATTTTAGTAAAA
30776764 CCTTTTTGGT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:30780910 original size:25 final size:25
Alignment explanation
Indices: 30780862--30780927 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
30780852 TTATTATGCA
* *
30780862 CTAATGAA-CAGAGAGCATCGACATG
1 CTAAT-AATCAGAGAGCACCAACATG
*
30780887 CTAGTAATCAGAGAGCACCAACATG
1 CTAATAATCAGAGAGCACCAACATG
30780912 CTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
30780928 GCGCTAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 2 0.06
25 34 0.94
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACCAACATG
Found at i:30791185 original size:44 final size:44
Alignment explanation
Indices: 30791137--30791460 Score: 203
Period size: 44 Copynumber: 7.5 Consensus size: 44
30791127 AATCCACTTT
* *
30791137 ACTGCAACTTCAGGAAAATAAGATTGGTTTCTTCAATCTGCTCC
1 ACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTCC
* * ** * * * *
30791181 ACTGCAACTTCAGGGAGATCAGATT-G-GAC-GCGATCTGATCT
1 ACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTCC
*
30791222 ACTGCAACTTCA-GAGAGATAAGATCTATGATT-TT-AATCTGCTCC
1 ACTGCAACTTCAGGA-AGATAAGAT-TA-GTTTCTTCAATCTGCTCC
* * *
30791266 ACTGCAACTTCAAGG-AGATAGGATTAGTTTCTTTC-GTCTGCTCT
1 ACTGCAACTTC-AGGAAGATAAGATTAGTTTC-TTCAATCTGCTCC
* * ** * * * *
30791310 ACTACAACTTCAGGGAGATAAGACCAG---ATGCGATCTGCTCT
1 ACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTCC
*
30791351 ACTGCAACTTCA-GAGAGATACGATCT-GTGATT-TT-AATCTGCTCC
1 ACTGCAACTTCAGGA-AGATAAGAT-TAGT--TTCTTCAATCTGCTCC
* *
30791395 ACTGCAACTTCAGGGAGATAAGATTAGTTTCTTTC-GTCTGCTCC
1 ACTGCAACTTCAGGAAGATAAGATTAGTTTC-TTCAATCTGCTCC
* *
30791439 ACTACAACTTCAGGGAGATAAG
1 ACTGCAACTTCAGGAAGATAAG
30791461 GCTGGATGCG
Statistics
Matches: 215, Mismatches: 40, Indels: 50
0.70 0.13 0.16
Matches are distributed among these distances:
40 4 0.02
41 55 0.26
42 7 0.03
43 7 0.03
44 138 0.64
45 3 0.01
46 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGAAGATAAGATTAGTTTCTTCAATCTGCTCC
Found at i:30791346 original size:85 final size:85
Alignment explanation
Indices: 30791257--30791417 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
30791247 TATGATTTTA
* * ** *
30791257 ATCTGCTCCACTGCAACTTCA-AGGAGATAGGAT-TAGT-TTCTTTCGTCTGCTCTACTACAACT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATACGATCT-GTGAT-TTTAATCTGCTCCACTACAACT
30791319 TCAGGGAGATAAGACCAGATGCG
63 TCAGGGAGATAAGACCAGATGCG
* *
30791342 ATCTGCTCTACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTACAACTTCA
30791407 GGGAGATAAGA
66 GGGAGATAAGA
30791418 TTAGTTTCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
85 63 0.95
86 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (85 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTACAACTTCA
GGGAGATAAGACCAGATGCG
Found at i:30791469 original size:129 final size:129
Alignment explanation
Indices: 30791078--30791482 Score: 578
Period size: 129 Copynumber: 3.1 Consensus size: 129
30791068 AATAAAATTT
* * ** **
30791078 GATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATCATTTTAATCCACTTTACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
* * * * * * *
30791143 ACTTCAGGAAAATAAGATTGGTTTC-TTCAATCTGCTCCACTGCAACTTCAGGGAGATCAGATTG
66 ACTTCAGGGAGATAAGATTAGTTTCTTTC-GTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
* *
30791207 GACGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
* * * **
30791272 ACTTCAAGGAGATAGGATTAGTTTCTTTCGTCTGCTCTACTACAACTTCAGGGAGATAAGACCA
66 ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
* *
30791336 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATACGATCTGTGATTTTAATCTGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
*
30791401 ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGGCTG
66 ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
*
30791465 GATGCGATCTACTCTACT
1 GATGCGATCTGCTCTACT
30791483 AATGCTTAGG
Statistics
Matches: 244, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 241 0.99
130 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCTGCTCCACTGCA
ACTTCAGGGAGATAAGATTAGTTTCTTTCGTCTGCTCCACTACAACTTCAGGGAGATAAGACTG
Found at i:30791627 original size:131 final size:131
Alignment explanation
Indices: 30791480--30792333 Score: 1386
Period size: 131 Copynumber: 6.5 Consensus size: 131
30791470 GATCTACTCT
* *
30791480 ACTAATGCTTAGGGAGATAATATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * * * *
30791545 ACTAGTGGGTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTACTT
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
30791610 C
131 C
*
30791611 ACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * * * *
30791676 ACTAGTGGGTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCATCTTCGATCTGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
30791741 C
131 C
* * *
30791742 ACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGA
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * * *
30791807 ACTGGTGGCTTAAATCTGCTTACTGCTATCTTGGGAAGATATGATTCGCCGTCTTTGATCTG-TT
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
30791871 CC
131 -C
30791873 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
30791938 ACTGGTGGCTTAAATCTGTTTCCTACTATCTTGGGAAGATAAGATTCACCGTCTTCGATCTGTTT
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
30792003 C
131 C
*
30792004 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
30792069 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCTGTCTTCGATATGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
30792134 C
131 C
* * *
30792135 ACTACTGTTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
* * *
30792200 ACTGGTGGCTTAAATTTGCTTCCTACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTC
66 ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
30792265 C
131 C
*
30792266 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACCGCTGCTCAGGGAGATAGG
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
30792331 ACT
66 ACT
30792334 TGTAGTTTCA
Statistics
Matches: 673, Mismatches: 48, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 670 1.00
132 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGG
ACTGGTGGCTTAAATCTGCTTCCTACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTT
C
Found at i:30792037 original size:44 final size:44
Alignment explanation
Indices: 30791480--30792328 Score: 194
Period size: 44 Copynumber: 19.4 Consensus size: 44
30791470 GATCTACTCT
* * * **
30791480 ACTAATGCTTAGGGAGATAATATCTACAATCTTCAACCTACTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
* * * ***** *
30791524 ACTGCTGCTCAGGGAGATAGGA-CTAGTGGGTTAAATCTGCTTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTG-TTCC
* * *
30791568 TACTA-T-CTT-GGGAAGATAAGAT-TCACCATCTTCGATCTACTT-C
1 -ACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAATCT-GTTCC
* * **
30791611 ACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
* * * ***** *
30791655 ACTGCTGCTCAGGGAGATAGGA-CTAGTGGGTTAAATCTGCTTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTG-TTCC
* * * * *
30791699 TACTA-T-C-TCGGGAAGATAAGAT-TCGCCATCTTCGATCTGCTCC
1 -ACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAATCTGTTCC
* * **
30791742 ACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
* * * * ***** *
30791786 ACTGCTGCTCAAGGAGAT-AGAACTGGTGGCTTAAATCTGCTT--
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTG-TTCC
* * * * ** **
30791828 ACTGCTATCTT-GGGAAGATATGAT-TCGCCGTCTTTGATCTGTTCC
1 ACTACT-GCTTAGGG-AGATAAGATCT-ACAATCTTCAATCTGTTCC
* **
30791873 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
* * * ***** *
30791917 ACTGCTGCTCAGGGAGATAGGA-CTGGTGGCTTAAATCTGTTTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTG-TTCC
** * *
30791961 TACTA-T-CTT-GGGAAGATAAGAT-TCACCGTCTTCGATCTGTTTC
1 -ACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAATCTGTTCC
* **
30792004 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
* * ***** *
30792048 ACTACTGCTCAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTG-TTCC
* ** * * *
30792092 TACTA-T-CTT-GGGAAGATAAGAT-TCGCTGTCTTCGATATGCTCC
1 -ACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAATCTGTTCC
* * * **
30792135 ACTACTGTTTAGGGAGATAAGATCTACAATTTTCAACCTACTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
* * * * ***** * *
30792179 ACTGCTGCTCAAGGAGATAGGA-CTGGTGGCTTAAATTTGCTTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTG-TTCC
* * ** * *
30792223 TACTA-T-CTT-GGAAAGATAAGAT-TCGCCGTCTTCGATCTGCTCC
1 -ACTACTGCTTAGG-GAGATAAGATCT-ACAATCTTCAATCTGTTCC
* **
30792266 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCC
1 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
** *
30792310 ACCGCTGCTCAGGGAGATA
1 ACTACTGCTTAGGGAGATA
30792329 GGACTTGTAG
Statistics
Matches: 556, Mismatches: 193, Indels: 112
0.65 0.22 0.13
Matches are distributed among these distances:
42 41 0.07
43 132 0.24
44 339 0.61
45 44 0.08
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGTTCC
Found at i:30793230 original size:17 final size:17
Alignment explanation
Indices: 30793210--30793245 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30793200 TTTTTCGTTC
30793210 TTCTTTTCATTTCTTTT
1 TTCTTTTCATTTCTTTT
30793227 TTCTTTTCATTTCTTTT
1 TTCTTTTCATTTCTTTT
30793244 TT
1 TT
30793246 TTTCAAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTCATTTCTTTT
Found at i:30800453 original size:48 final size:48
Alignment explanation
Indices: 30800398--30800546 Score: 266
Period size: 48 Copynumber: 3.1 Consensus size: 48
30800388 TCATTATTTA
*
30800398 CAGTGCATTATTTTCGAACATTTAGATAGGTTCAGTGTATTAGTTTTC
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
30800446 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
*
30800494 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGCATTA-TTTT-
1 CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
30800540 CAGTGCA
1 CAGTGCA
30800547 CTATAAAAAA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 7 0.07
47 4 0.04
48 88 0.89
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (48 bp):
CAGTGCATTATTTTCGAACATTGAGATAGGTTCAGTGTATTAGTTTTC
Found at i:30800609 original size:21 final size:21
Alignment explanation
Indices: 30800583--30800623 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30800573 TCCATACTCA
30800583 TATTTATTAATATTTTTAACC
1 TATTTATTAATATTTTTAACC
*
30800604 TATTTATTAATTTTTTTAAC
1 TATTTATTAATATTTTTAAC
30800624 TGCAATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTATTAATATTTTTAACC
Found at i:30803752 original size:22 final size:23
Alignment explanation
Indices: 30803710--30803752 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30803700 CACTTTTCAA
* *
30803710 AATAATGTAGTCAAACTGCCACC
1 AATAATGCAGTCAAACCGCCACC
30803733 AATAATGCAGT-AAACCGCCA
1 AATAATGCAGTCAAACCGCCA
30803753 GAATCACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.19
Consensus pattern (23 bp):
AATAATGCAGTCAAACCGCCACC
Found at i:30804703 original size:21 final size:21
Alignment explanation
Indices: 30804656--30804699 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
30804646 TGGCTGATTG
*
30804656 AGAA-AACAAAATATAGGAGA
1 AGAAGAACAAAAAATAGGAGA
*
30804676 AGAAGAACAAAAAATTGG-GA
1 AGAAGAACAAAAAATAGGAGA
30804696 AGAA
1 AGAA
30804700 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.64, C:0.05, G:0.23, T:0.09
Consensus pattern (21 bp):
AGAAGAACAAAAAATAGGAGA
Found at i:30804710 original size:21 final size:22
Alignment explanation
Indices: 30804656--30804710 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
30804646 TGGCTGATTG
30804656 AGAAAACAAAATATAGGAGAAGA
1 AGAAAA-AAAATATAGGAGAAGA
30804679 AGAACAAAAAAT-T-GG-GAAGAA
1 AGAA-AAAAAATATAGGAGAAG-A
30804700 AGAAAAGAAAA
1 AGAAAA-AAAA
30804711 GGAAAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 1 0.03
23 9 0.31
24 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.07
Consensus pattern (22 bp):
AGAAAAAAAATATAGGAGAAGA
Found at i:30807127 original size:18 final size:19
Alignment explanation
Indices: 30807096--30807143 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
30807086 AAATAATTCA
*
30807096 AAATAATTTTTAAAAA-TAT
1 AAAT-ATTTATAAAAATTAT
*
30807115 AAATATTTATAAAAATTCT
1 AAATATTTATAAAAATTAT
30807134 AAA-ATTTATA
1 AAATATTTATA
30807144 TTTTAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATATTTATAAAAATTAT
Found at i:30812887 original size:24 final size:24
Alignment explanation
Indices: 30812824--30812875 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
30812814 TTTCTAGAAG
* *
30812824 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
30812848 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
30812872 ATTT
1 ATTT
30812876 GACTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:30818178 original size:42 final size:43
Alignment explanation
Indices: 30818131--30818239 Score: 159
Period size: 42 Copynumber: 2.5 Consensus size: 43
30818121 TCCAGTTTGT
30818131 TTCCACGTTGCTTTCTTTTTTGTCTAGATT-AGTTGTGACTGC
1 TTCCACGTTGCTTTCTTTTTTGTCTAGATTCAGTTGTGACTGC
* **
30818173 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTCAGTTGTGGTTGC
1 TTCCACGTTGC-T-TTCTTTTTTGTCTAGATTCAGTTGTGACTGC
30818218 TTCCACGTTGC-TTCTTTTTTGT
1 TTCCACGTTGCTTTCTTTTTTGT
30818240 ATTTTTCTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
42 21 0.35
43 1 0.02
44 17 0.28
45 21 0.35
ACGTcount: A:0.09, C:0.19, G:0.18, T:0.53
Consensus pattern (43 bp):
TTCCACGTTGCTTTCTTTTTTGTCTAGATTCAGTTGTGACTGC
Found at i:30818212 original size:45 final size:44
Alignment explanation
Indices: 30818131--30818237 Score: 164
Period size: 45 Copynumber: 2.5 Consensus size: 44
30818121 TCCAGTTTGT
*
30818131 TTCCACGTTGC-T-TTCTTTTTTGTCTAGATTAGTTGTGACTGC
1 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTAGTTGTGACTGC
**
30818173 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTCAGTTGTGGTTGC
1 TTCCACGTTGCTTCTTTTTTTTTGTCTAGATT-AGTTGTGACTGC
30818218 TTCCACGTTGCTTCTTTTTT
1 TTCCACGTTGCTTCTTTTTT
30818238 GTATTTTTCT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
42 11 0.19
43 1 0.02
44 17 0.29
45 30 0.51
ACGTcount: A:0.09, C:0.20, G:0.18, T:0.53
Consensus pattern (44 bp):
TTCCACGTTGCTTCTTTTTTTTTGTCTAGATTAGTTGTGACTGC
Found at i:30824932 original size:96 final size:96
Alignment explanation
Indices: 30824799--30825090 Score: 512
Period size: 96 Copynumber: 3.0 Consensus size: 96
30824789 TTGAAATGGA
* * * * * *
30824799 AGAGAATGATGAAGTAAGCTATTGATAAAGCCTGTGTTCTGAACGCTTGTTTTCAGTTTTGGGTC
1 AGAGAGTGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
30824864 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
66 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
30824895 AGAGAGTGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
1 AGAGAGTGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
30824960 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
66 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
30824991 AGAGAGTGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
1 AGAGAGTGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
* *
30825056 TAGGGTAAAGTTCTAATTTTTGGATTTTTTT
66 TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
30825087 AGAG
1 AGAG
30825091 TTTGGGCCTT
Statistics
Matches: 188, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 188 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (96 bp):
AGAGAGTGATGAAGAAAGCTATTAATAAAACCTGTGTTCCGAAGGCTTGTTTTCAGTTTTGGGTC
TAGGGTAAAGTTCTAATTTTTGAATTGTTTT
Found at i:30828719 original size:188 final size:189
Alignment explanation
Indices: 30828386--30828762 Score: 729
Period size: 188 Copynumber: 2.0 Consensus size: 189
30828376 AATTAATCAT
30828386 TTTTTTTAGAATATAGACTGATTTTATAAATCACTGCAAAAACACAACAACCGAGAAAACTCCCA
1 TTTTTTTAGAATATAGACTGATTTTATAAATCACTGCAAAAACACAACAACCGAGAAAACTCCCA
30828451 GTACAAGACAAAACCAGCTGTCCCTCATAAAGCAAAGAAAATTGAAATGAAAAGACAAAAGAAAA
66 GTACAAGACAAAACCAGCTGTCCCTCATAAAGCAAAGAAAATTGAAATGAAAAGACAAAAGAAAA
30828516 CATAAAGCAAATAAAGCAATAAAGAAATGAAAAGGCAAAAAGATATAAAGCAAAGCCAC
131 CATAAAGCAAATAAAGCAATAAAGAAATGAAAAGGCAAAAAGATATAAAGCAAAGCCAC
* *
30828575 TTTTTTTA-TATATATACTGATTTTATAAATCACTGCAAAAACACAACAACCGAGAAAACTCCCA
1 TTTTTTTAGAATATAGACTGATTTTATAAATCACTGCAAAAACACAACAACCGAGAAAACTCCCA
30828639 GTACAAGACAAAACCAGCTGTCCCTCATAAAGCAAAGAAAATTGAAATGAAAAGACAAAAGAAAA
66 GTACAAGACAAAACCAGCTGTCCCTCATAAAGCAAAGAAAATTGAAATGAAAAGACAAAAGAAAA
30828704 CATAAAGCAAATAAAGCAATAAAGAAATGAAAAGGCAAAAAGATATAAAGCAAAGCCAC
131 CATAAAGCAAATAAAGCAATAAAGAAATGAAAAGGCAAAAAGATATAAAGCAAAGCCAC
30828763 AGTGACTCAT
Statistics
Matches: 186, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
188 178 0.96
189 8 0.04
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.18
Consensus pattern (189 bp):
TTTTTTTAGAATATAGACTGATTTTATAAATCACTGCAAAAACACAACAACCGAGAAAACTCCCA
GTACAAGACAAAACCAGCTGTCCCTCATAAAGCAAAGAAAATTGAAATGAAAAGACAAAAGAAAA
CATAAAGCAAATAAAGCAATAAAGAAATGAAAAGGCAAAAAGATATAAAGCAAAGCCAC
Done.