Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 40 of 205
Found at i:11947395 original size:21 final size:21
Alignment explanation
Indices: 11947371--11947419 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
11947361 CTTTTGAACC
* *
11947371 TCTGCTTCTCTCGCTGCAGCT
1 TCTGCTTCCCTCGCTGCAGCG
*
11947392 TCTGCTTCCCTCGCTGCCGCG
1 TCTGCTTCCCTCGCTGCAGCG
11947413 TCTGCTT
1 TCTGCTT
11947420 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.41, G:0.20, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCG
Found at i:11951102 original size:13 final size:14
Alignment explanation
Indices: 11951086--11951140 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
11951076 ATAACCTTTA
11951086 AACC-TTAAACCCC
1 AACCTTTAAACCCC
**
11951099 AACCTTTAATAACCTTA
1 AACCTTT-A-AACC-CC
11951116 AACC-TTAAACCCC
1 AACCTTTAAACCCC
11951129 AACCTTTAAACC
1 AACCTTTAAACC
11951141 ATAAACCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
13 8 0.24
14 13 0.39
15 2 0.06
16 6 0.18
17 4 0.12
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCTTTAAACCCC
Found at i:11951102 original size:21 final size:23
Alignment explanation
Indices: 11951078--11951119 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11951068 CTTAACACAT
11951078 AACCTTT-A-AACCTTAAACCCC
1 AACCTTTAATAACCTTAAACCCC
11951099 AACCTTTAATAACCTTAAACC
1 AACCTTTAATAACCTTAAACC
11951120 TTAAACCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 1 0.05
23 11 0.58
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.26
Consensus pattern (23 bp):
AACCTTTAATAACCTTAAACCCC
Found at i:11951119 original size:30 final size:31
Alignment explanation
Indices: 11951076--11951137 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
11951066 CCCTTAACAC
11951076 ATAACCTTTAAACCTTAAACCCCAACCTTTA
1 ATAACCTTTAAACCTTAAACCCCAACCTTTA
11951107 ATAACC-TTAAACCTTAAACCCCAACCTTTA
1 ATAACCTTTAAACCTTAAACCCCAACCTTTA
11951137 A
1 A
11951138 ACCATAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.27
Consensus pattern (31 bp):
ATAACCTTTAAACCTTAAACCCCAACCTTTA
Found at i:11951139 original size:21 final size:20
Alignment explanation
Indices: 11951109--11951147 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11951099 AACCTTTAAT
*
11951109 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
11951129 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
11951148 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:11951418 original size:115 final size:113
Alignment explanation
Indices: 11951207--11951746 Score: 462
Period size: 115 Copynumber: 4.7 Consensus size: 113
11951197 ATGCATGGTT
* * * * * **
11951207 AAGACCAAAACTCTGCGTTTTGGTTAAGACATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
*
11951272 TATGCTTTAGCGGCGATTTCTCG-TGGACGCCACTAATTCCAGTATACATC
66 TATGCTTTAGCGGCG-TTTCCCGAT-G-CGCCACTAATTCCAGTATACATC
** * * * * *
11951322 AAGACTTAAACGCTGCGTTTTTGTTAATATATTTTGCGGCGCTTTTTGAAAAGCGCCGTTAATAG
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
* * * * *
11951387 TATGCTTTAGCGGCGTTCTCCCAGAAGCGCCACTAATTCTAATATACCTG
66 TATGCTTTAGCGGCGTT-TCCC-GATGCGCCACTAATTCCAGTATACATC
* * * **
11951437 ATGA-AAAAACTCTGCGTTTTGGTGAGCATATTTTGCGGCGCTTTTTGCCAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
* * **** * ** *
11951501 TATGATTTAGCGGCATTTTTTAATATTCGCCACTAATAGCTGTATACATC
66 TATGCTTTAGCGGC--GTTTCCCGATGCGCCACTAATTCCAGTATACATC
* * *
11951551 AAGACAAAAACGT-TGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTG-AAAGCGCCGCTAAT
1 AAGACAAAAAC-TCTGCGTTTTGGTTAACATATTTTGCGGCGCTT-TTTGAAAAGCGCCGCTAAT
* * ** * *
11951614 AGTATGCCTTAGCGGCGTGTTCCCTTTGCGCCACTAATTCTAGTATACCTC
64 ACTATGCTTTAGCGGCGT-TTCCCGATGCGCCACTAATTCCAGTATACATC
* * ** *** *
11951665 AAGAC-CAAACTCTGCGTTTTGGTTAAGATATTTACCGGCGC-TTCACACAAAACGCCGCTAATA
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGA-AAAGCGCCGCTAATA
*
11951728 TTATGCTTTAGCGGCGTTT
65 CTATGCTTTAGCGGCGTTT
11951747 TCCCTTAAAC
Statistics
Matches: 337, Mismatches: 76, Indels: 27
0.77 0.17 0.06
Matches are distributed among these distances:
111 2 0.01
112 4 0.01
113 58 0.17
114 111 0.33
115 154 0.46
116 8 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (113 bp):
AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
TATGCTTTAGCGGCGTTTCCCGATGCGCCACTAATTCCAGTATACATC
Found at i:11951803 original size:228 final size:226
Alignment explanation
Indices: 11951207--11951824 Score: 597
Period size: 229 Copynumber: 2.7 Consensus size: 226
11951197 ATGCATGGTT
*
11951207 AAGACCAAAACTCTGCGTTTTGGTTAAGACATTTTCCGGCGCTTCTCA-AAAAGCGCCGCTAATA
1 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCACAAAA-CGCCGCTAATA
* * ** * **
11951271 CTATGCTTTAGCGGCGATTTCTCGTGGACGCCACTAATTCCAGT-ATACATCAAGACTTAAACGC
64 CTATGCTTTAGCGGCGTTTTC-CTTAAACGCCACTAA---CTGTAATACATCAAGACAAAAACGC
* * * * *
11951335 TGCGTTTTTGTTAATATATTTTGCGGCGCTTTTTGAAAAGCGCCGTTAATAGTATGCTTTAGCGG
125 TGCGTTTTGGTTAACATATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGG
*
11951400 CGTTCTCCCAGAAGCGCCACTAATTCTAATATACCTG
190 CGTTCTCCCAGAAGCGCCACTAATTCTAATATACCTC
* ** * * * ** * *
11951437 ATGAAAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCTTTTTGCCAAGCGCCGCTAATAC
1 AAGACCAAACTCTGCGTTTTGGTTAAG-ATATTTTCCGGCGCTTCTCACAAAACGCCGCTAATAC
* *
11951501 TATGATTTAGCGGCATTTT--TTAATATTCGCCACTAATAGCTGT-ATACATCAAGACAAAAACG
65 TATGCTTTAGCGGCGTTTTCCTTAA-A--CGCCACT-A-A-CTGTAATACATCAAGACAAAAACG
* * *
11951563 TTGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTG-AAAGCGCCGCTAATAGTATGCCTTAGC
124 CTGCGTTTTGGTTAACATATTTTGCGGCGCTT-TCTGAAAAGCGCCGCTAATAGTATGCCTTAGC
*** *
11951627 GGCGTGT-TCCC-TTTGCGCCACTAATTCTAGTATACCTC
188 GGCGT-TCTCCCAGAAGCGCCACTAATTCTAATATACCTC
* * *
11951665 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTACCGGCGCTTCACACAAAACGCCGCTAATATT
1 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCACAAAACGCCGCTAATACT
* * * * *
11951730 ATGCTTTAGCGGCGTTTTCCCTTAAACACCACTAACTGTAACATACACCAAAACCAAAACGGTGC
66 ATGCTTTAGCGGCGTTTT-CCTTAAACGCCACTAACTGT-A-ATACATCAAGACAAAAACGCTGC
** ** *
11951795 ACTTTGGTTAGGATATTTTGCGGCGTTTTC
128 GTTTTGGTTAACATATTTTGCGGCGCTTTC
11951825 CCATAAGCAC
Statistics
Matches: 312, Mismatches: 60, Indels: 35
0.77 0.15 0.09
Matches are distributed among these distances:
225 4 0.01
226 2 0.01
227 4 0.01
228 136 0.44
229 150 0.48
230 11 0.04
231 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (226 bp):
AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCACAAAACGCCGCTAATACT
ATGCTTTAGCGGCGTTTTCCTTAAACGCCACTAACTGTAATACATCAAGACAAAAACGCTGCGTT
TTGGTTAACATATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGGCGTTCT
CCCAGAAGCGCCACTAATTCTAATATACCTC
Found at i:11952685 original size:16 final size:16
Alignment explanation
Indices: 11952633--11952685 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
11952623 TTGGTTCGCT
*
11952633 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
*
11952649 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
11952665 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
11952681 ATAAT
1 GTAAT
11952686 AGGTAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:11952746 original size:44 final size:46
Alignment explanation
Indices: 11952671--11952762 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 46
11952661 ATGCGTAATG
*
11952671 GAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTGAATGGAATA
1 GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
*
11952717 GAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGGAATA
1 GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
11952761 GA
1 GA
11952763 GGTGTAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 27 0.61
45 3 0.07
46 14 0.32
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.36
Consensus pattern (46 bp):
GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
Found at i:11952760 original size:39 final size:41
Alignment explanation
Indices: 11952667--11952772 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
11952657 ATAGATGCGT
* *
11952667 AATGGAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
11952708 AATGGAATAGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTG
1 AAT-G----GAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
*
11952752 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
11952773 CATAAGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 14 0.25
40 1 0.02
41 3 0.05
42 1 0.02
43 1 0.02
44 19 0.34
45 3 0.05
46 14 0.25
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (41 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
Found at i:11952971 original size:18 final size:17
Alignment explanation
Indices: 11952919--11952971 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
11952909 TTATTATTAA
11952919 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
11952937 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
11952954 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
11952972 CATAATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 9 0.27
18 24 0.73
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11953112 original size:61 final size:61
Alignment explanation
Indices: 11952953--11953135 Score: 187
Period size: 61 Copynumber: 3.0 Consensus size: 61
11952943 TTTAATAAAA
11952953 TATATGAATTTACTAAAATCATAATATATAATACTATAAAA-AATAAGTTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATAATAAGTTAAAATAATTAT
* * * ** * * * ** * * *
11953013 TAT-TAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTCTTAGTATTAAAT-ATTCT
1 TATATGAATTTACTAAAATCATAATATATAATACT-ATAAAATAATAAGT-TAAAATAATTAT
*
11953073 TATATGAATTTACTAAAATCATAATATATAATACTATAAAAT-ATAATTTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATAATAAGTTAAAATAATTAT
11953133 TAT
1 TAT
11953136 TAAATATAAT
Statistics
Matches: 91, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
58 1 0.01
59 32 0.35
60 24 0.26
61 33 0.36
62 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (61 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATAATAAGTTAAAATAATTAT
Found at i:11962532 original size:50 final size:50
Alignment explanation
Indices: 11962453--11962551 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
11962443 ACCTTATTCT
* ** * *
11962453 AATCAATGTCAAATAGAAGGAGAGAAGTTCTTTACGGATTCTACTTGTAC
1 AATCAATATCAAATAGAAAAAGAGAAGTTCTATACAGATTCTACTTGTAC
* * *
11962503 AATCAATATCAAATAGAAAAAGAGTAGTTCTATACATATTTTACTTGTA
1 AATCAATATCAAATAGAAAAAGAGAAGTTCTATACAGATTCTACTTGTA
11962552 TTTTATTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (50 bp):
AATCAATATCAAATAGAAAAAGAGAAGTTCTATACAGATTCTACTTGTAC
Found at i:11962560 original size:5 final size:5
Alignment explanation
Indices: 11962539--11962573 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
11962529 GTTCTATACA
*
11962539 TATTT TACTTG TATTT TATTT TATTT TATTT TATT
1 TATTT TA-TTT TATTT TATTT TATTT TATTT TATT
11962574 AACATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:11963621 original size:22 final size:22
Alignment explanation
Indices: 11963595--11963639 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11963585 TCTCTCTCCT
11963595 TCATCTTTGGCTACTATTAACA
1 TCATCTTTGGCTACTATTAACA
11963617 TCATCTTTGGCTACTATTAACA
1 TCATCTTTGGCTACTATTAACA
11963639 T
1 T
11963640 GTCATCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (22 bp):
TCATCTTTGGCTACTATTAACA
Found at i:11965519 original size:27 final size:27
Alignment explanation
Indices: 11965485--11965787 Score: 247
Period size: 27 Copynumber: 11.3 Consensus size: 27
11965475 ATACCCCAAA
11965485 GGGTAAAATGACCAAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* *
11965512 GGGTAAAATGATCGAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* * * ** *
11965539 GGGTAGAATGATCGAAATACCCTTAAA
1 GGGTAAAATGACCAAAATACCCTCGAT
*
11965566 GGGTAAAATGACCGAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* ** *
11965593 GGGTAGAATGACCAAAATACCCTTAAA
1 GGGTAAAATGACCAAAATACCCTCGAT
* **
11965620 GGGTAAAATAACTGAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* *
11965647 GGATAGAATGACCAAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* * *
11965674 GGGTAAAATAACTAAAATACCC-CCAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* ** *
11965700 AAGGTAAAATGACCTTAATGCCC-CTG-T
1 -GGGTAAAATGACCAAAATACCCTC-GAT
* ** *
11965727 AGGGTAAAATAACCGTAATACCCCTCTA-
1 -GGGTAAAATGACCAAAATA-CCCTCGAT
* * *
11965755 GGGTAAAATGACCATAATGCCCTTG-T
1 GGGTAAAATGACCAAAATACCCTCGAT
11965781 GGGTAAA
1 GGGTAAA
11965788 TAACTATTTT
Statistics
Matches: 220, Mismatches: 50, Indels: 13
0.78 0.18 0.05
Matches are distributed among these distances:
26 14 0.06
27 202 0.92
28 3 0.01
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (27 bp):
GGGTAAAATGACCAAAATACCCTCGAT
Found at i:11965557 original size:54 final size:54
Alignment explanation
Indices: 11965471--11965695 Score: 276
Period size: 54 Copynumber: 4.2 Consensus size: 54
11965461 ATAACTGAGC
* * * * * *
11965471 CGAAATACCC-CAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGAT
1 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
* * * *
11965524 CGAAATACCCTCGATGGGTAGAATGATCGAAATACCCTTAAAGGGTAAAATGAC
1 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
*
11965578 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTTAAAGGGTAAAAT-AA
1 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
* * *
11965631 CTGAAATACCCTCGATGGATAGAATGACCAAAATACCCTCGATGGGTAAAAT-AA
1 C-GAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
*
11965685 CTAAAATACCC
1 C-GAAATACCC
11965696 CCATAAGGTA
Statistics
Matches: 153, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.08
54 141 0.92
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (54 bp):
CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
Found at i:11965611 original size:81 final size:80
Alignment explanation
Indices: 11965471--11965709 Score: 284
Period size: 81 Copynumber: 3.0 Consensus size: 80
11965461 ATAACTGAGC
* *
11965471 CGAAATACCC-CAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATACCCT
1 CGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCCT
* * * *
11965535 CGATGGGTAGAATGAT
66 CAAAGGGTAAAAT-AA
* * *
11965551 CGAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGATGGGTAGAATGACCAAAATACCCT
1 CGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCCT
*
11965616 TAAAGGGTAAAATAA
66 CAAAGGGTAAAATAA
* * * * * *
11965631 CTGAAATACCCTCGATGGATAGAATGACCAAAATACCCTCGATGGGTAAAATAACTAAAATACCC
1 C-GAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCC
*
11965696 CCATAA-GGTAAAAT
65 TCA-AAGGGTAAAAT
11965710 GACCTTAATG
Statistics
Matches: 135, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 12 0.09
81 121 0.90
82 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (80 bp):
CGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCCT
CAAAGGGTAAAATAA
Found at i:11965864 original size:24 final size:24
Alignment explanation
Indices: 11965822--11965894 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
11965812 AAATGATTAT
* *
11965822 TTTGTCTGTG-GTTAAATGACTGA
1 TTTGTCTGTGATTTGAATGACTGA
*
11965845 TTTGTCTGTG-TTTGGTATGACTGA
1 TTTGTCTGTGATTT-GAATGACTGA
11965869 TTTGTCTGTGATTTGAATGACTGA
1 TTTGTCTGTGATTTGAATGACTGA
11965893 TT
1 TT
11965895 CTGAGCATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 12 0.27
24 29 0.66
25 3 0.07
ACGTcount: A:0.18, C:0.08, G:0.26, T:0.48
Consensus pattern (24 bp):
TTTGTCTGTGATTTGAATGACTGA
Found at i:11965997 original size:27 final size:27
Alignment explanation
Indices: 11965966--11966022 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
11965956 AGTATTGTAT
*
11965966 TGGTGGCTCTGCCACA-ATCACTGTTAC
1 TGGTGGCTCTGCCACATAT-ACTATTAC
*
11965993 TGGTGGCTTTGCCACATATACTATTAC
1 TGGTGGCTCTGCCACATATACTATTAC
11966020 TGG
1 TGG
11966023 CAACTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATATACTATTAC
Found at i:11966048 original size:26 final size:26
Alignment explanation
Indices: 11966010--11966063 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
11966000 TTTGCCACAT
11966010 ATACTATTACTGGCAACTTTACTGCG
1 ATACTATTACTGGCAACTTTACTGCG
* * *
11966036 ATACTGTTGCTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAACTTTACTGCG
11966062 AT
1 AT
11966064 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTACTGCG
Found at i:11966075 original size:26 final size:26
Alignment explanation
Indices: 11966020--11966075 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
11966010 ATACTATTAC
** *
11966020 TGGCAACTTTACTGCGATACTGTTGC
1 TGGCAACTTTACTGCGATACTACTGA
* *
11966046 TGGCAGCTTTACTGCGATGCTACTGA
1 TGGCAACTTTACTGCGATACTACTGA
11966072 TGGC
1 TGGC
11966076 TTTGTGCCGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (26 bp):
TGGCAACTTTACTGCGATACTACTGA
Found at i:11966111 original size:32 final size:32
Alignment explanation
Indices: 11966066--11966153 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 32
11966056 ACTGCGATGC
* **
11966066 TACTGATGGCTTTGTGCCGGTCATAGTACCGT
1 TACTGATGACTTTGTGCCAATCATAGTACCGT
* *
11966098 TACTGATGACTTTGTGCCAATCATATTATCGT
1 TACTGATGACTTTGTGCCAATCATAGTACCGT
* * * *
11966130 TACTAATGGCTGTGTGCTAATCAT
1 TACTGATGACTTTGTGCCAATCAT
11966154 TTCACTGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGACTTTGTGCCAATCATAGTACCGT
Found at i:11966304 original size:26 final size:26
Alignment explanation
Indices: 11966275--11966328 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
11966265 GGCTTTTAGC
* * *
11966275 CATTCTGACTATTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
*
11966301 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGGCAGCTATGCTG
11966327 CA
1 CA
11966329 ATATTGGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:11966333 original size:26 final size:26
Alignment explanation
Indices: 11966282--11966333 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11966272 AGCCATTCTG
* * *
11966282 ACTATTGGCAGCTCTGCTGCATTATT
1 ACTACTGGCAGCTATGCTGCAATATT
11966308 ACTACTGGCAGCTATGCTGCAATATT
1 ACTACTGGCAGCTATGCTGCAATATT
11966334 GGTGTGAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (26 bp):
ACTACTGGCAGCTATGCTGCAATATT
Found at i:11976808 original size:26 final size:26
Alignment explanation
Indices: 11976772--11976823 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11976762 TAGACACATG
11976772 AAAGACATTATGAATCCTCTCAAGCT
1 AAAGACATTATGAATCCTCTCAAGCT
11976798 AAAGACATTATGAATCCTCTCAAGCT
1 AAAGACATTATGAATCCTCTCAAGCT
11976824 CTAACGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (26 bp):
AAAGACATTATGAATCCTCTCAAGCT
Found at i:11983042 original size:25 final size:25
Alignment explanation
Indices: 11983008--11983074 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
11982998 GCTGTAAACA
* *
11983008 GTAAGATCCTCCGAGCTAAATTATG
1 GTAAGCTCCTCCGAGCTAAATAATG
*
11983033 GTAAGCTCCTCTGAGCTAAATAATG
1 GTAAGCTCCTCCGAGCTAAATAATG
* *
11983058 GTAAGCTCATACGAGCT
1 GTAAGCTCCTCCGAGCT
11983075 GAGTATCAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTAAATAATG
Found at i:11985144 original size:27 final size:27
Alignment explanation
Indices: 11985114--11985188 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
11985104 TATAACAGTT
* *
11985114 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCTTATGGGGGTATTTTGATC
*
11985141 ATTTTACCTTATGAGGGTATTTTGATC
1 ATTTTACCTTATGGGGGTATTTTGATC
*
11985168 ATTTTACCTTATGGAGGTATT
1 ATTTTACCTTATGGGGGTATT
11985189 GCCACACTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (27 bp):
ATTTTACCTTATGGGGGTATTTTGATC
Found at i:11987780 original size:13 final size:12
Alignment explanation
Indices: 11987762--11987806 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
11987752 GCCGTGAGTC
11987762 TCTTTCTTTTTCT
1 TCTTTCTTTTT-T
*
11987775 TCTTTCTCTTTT
1 TCTTTCTTTTTT
11987787 TCTTTCTTTCTTT
1 TCTTTCTTT-TTT
11987800 TCTTTCT
1 TCTTTCT
11987807 AATTTGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTCTTTTTT
Found at i:11987786 original size:15 final size:16
Alignment explanation
Indices: 11987766--11987797 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11987756 TGAGTCTCTT
11987766 TCTTTTTC-TTCTTTC
1 TCTTTTTCTTTCTTTC
11987781 TCTTTTTCTTTCTTTC
1 TCTTTTTCTTTCTTTC
11987797 T
1 T
11987798 TTTCTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TCTTTTTCTTTCTTTC
Found at i:11993154 original size:22 final size:22
Alignment explanation
Indices: 11993129--11993184 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
11993119 GGTGGTGCTA
11993129 GTGGCTGCGACGGCGACGTCTG
1 GTGGCTGCGACGGCGACGTCTG
* * * *
11993151 GTGGCTCCGATGGCTATGTCTG
1 GTGGCTGCGACGGCGACGTCTG
11993173 GTGGCTGACGAC
1 GTGGCTG-CGAC
11993185 AGTTGGTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.11, C:0.25, G:0.41, T:0.23
Consensus pattern (22 bp):
GTGGCTGCGACGGCGACGTCTG
Found at i:11995211 original size:31 final size:30
Alignment explanation
Indices: 11995169--11995242 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
11995159 TATTTATATA
*
11995169 AAAAAAATTTAATTCAAAC-TATTTTAAAAAT
1 AAAAAAATTTAATT-AAACTTA-ATTAAAAAT
* *
11995200 AAAAAACTTTAAATTTAACTTAATTAAAAAT
1 AAAAAAATTT-AATTAAACTTAATTAAAAAT
11995231 AAAAAAATTTAA
1 AAAAAAATTTAA
11995243 AATTTCGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 2 0.05
31 29 0.78
32 6 0.16
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAAAATTTAATTAAACTTAATTAAAAAT
Found at i:11995440 original size:18 final size:19
Alignment explanation
Indices: 11995417--11995463 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
11995407 CTTTAGAAAT
* *
11995417 TTGAGAGAATTA-AGAGAG
1 TTGAGAGAATTAGAAAGAA
11995435 TTGAGAG-ATTAGAAAGAA
1 TTGAGAGAATTAGAAAGAA
11995453 TTGAGAGAATT
1 TTGAGAGAATT
11995464 GGATTTGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 18 0.72
19 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.26
Consensus pattern (19 bp):
TTGAGAGAATTAGAAAGAA
Found at i:11995441 original size:9 final size:9
Alignment explanation
Indices: 11995417--11995464 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
11995407 CTTTAGAAAT
11995417 TTGAGAGAA
1 TTGAGAGAA
* *
11995426 TTAAGAGAG
1 TTGAGAGAA
11995435 TTGAGAG-A
1 TTGAGAGAA
*
11995443 TTAGAAAGAA
1 TT-GAGAGAA
11995453 TTGAGAGAA
1 TTGAGAGAA
11995462 TTG
1 TTG
11995465 GATTTGAGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
8 2 0.06
9 26 0.84
10 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:12003273 original size:55 final size:55
Alignment explanation
Indices: 12002873--12003265 Score: 261
Period size: 55 Copynumber: 7.1 Consensus size: 55
12002863 AATGTAGCAG
* * * * * *
12002873 AGGTGCAACCATTGACCTTATGACTCGGGTTTATGCAATATGAGATGCTCGCGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * ** ** * *
12002928 GGGTGTAACTTTTGACCTTATC-ACCCAGGTTTACGTGATATGAGATGTTTGTGGA
1 AGGTGCAACCGTTGACCTTA-CGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * * *
12002983 AGGTGCAGCCGTTGACCTTACAACCCAGGTTTATGCAATATGAGATGCTTGTGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * * * * * ** * * *
12003038 AGATTCAATCATTGACCTTATGGCCCAAATTTATGCAATATGAGATGTTTGTGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * ** *** * *
12003093 GGGTGCAACCATTGACC-TAATAGTTAGGATTTACGCAACATGAGATGCTCATGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGG-TTTACGCAATATGAGATGCTCGTGGA
* * * * * * * * ***
12003148 AGGTGCAACCGTTGACCCTAAGGCCTAAGTTTACACAATATTATATGCAT-GCAAA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGC-TCGTGGA
* * *
12003203 AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAAATGCTCATGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
*
12003258 AGATGCAA
1 AGGTGCAA
12003266 TTGTTGACTT
Statistics
Matches: 253, Mismatches: 79, Indels: 12
0.74 0.23 0.03
Matches are distributed among these distances:
54 5 0.02
55 241 0.95
56 7 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (55 bp):
AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
Found at i:12004174 original size:18 final size:19
Alignment explanation
Indices: 12004137--12004173 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12004127 TTTTAAAAAA
12004137 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
12004155 TATAAATATTTGGAATTTT
1 TATAAATATTTGGAATTTT
12004174 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:12004179 original size:18 final size:20
Alignment explanation
Indices: 12004143--12004194 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
12004133 AAAATATAAA
*
12004143 ATTTGGAATTTTTATAAA-T
1 ATTTGGAATTTTTAAAAATT
12004162 ATTTGGAA-TTTTAAAAATT
1 ATTTGGAATTTTTAAAAATT
*
12004181 ATTTTGTAATTTTT
1 A-TTTGGAATTTTT
12004195 TTAGAGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 6 0.21
21 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTGGAATTTTTAAAAATT
Found at i:12012353 original size:18 final size:19
Alignment explanation
Indices: 12012312--12012355 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
12012302 ATTTGAGTAC
12012312 TCCATTTCTCATTCCATTT
1 TCCATTTCTCATTCCATTT
* *
12012331 T-CATTTCTCGTT-TATTT
1 TCCATTTCTCATTCCATTT
12012348 TCCATTTC
1 TCCATTTC
12012356 AATATCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 16 0.73
19 1 0.05
ACGTcount: A:0.14, C:0.27, G:0.02, T:0.57
Consensus pattern (19 bp):
TCCATTTCTCATTCCATTT
Found at i:12018598 original size:22 final size:23
Alignment explanation
Indices: 12018571--12018615 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12018561 AGGTATCTAC
*
12018571 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
12018593 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
12018616 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:12018619 original size:17 final size:17
Alignment explanation
Indices: 12018597--12018649 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
12018587 ATTACAAAAT
12018597 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
12018614 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
*
12018633 CATATCTTCGAAGATTA
1 CATATCTTCTAAGATTA
12018650 TATTTCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:12018620 original size:22 final size:22
Alignment explanation
Indices: 12018568--12018625 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
12018558 AAAAGGTATC
* *
12018568 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
12018589 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
12018612 TACATATCATATCT
1 TACAAATCATATCT
12018626 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12023733 original size:22 final size:23
Alignment explanation
Indices: 12023706--12023750 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
12023696 AGGTATCTAC
12023706 AAATCAAAT-TTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
12023728 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
12023751 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:12023743 original size:23 final size:22
Alignment explanation
Indices: 12023703--12023760 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
12023693 AAAAGGTATC
*
12023703 TACAAATCAAAT-TTCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12023724 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
12023747 TACATATCATATCT
1 TACAAATCATATCT
12023761 ACGATTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.55
23 12 0.36
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12023754 original size:17 final size:17
Alignment explanation
Indices: 12023732--12023784 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 17
12023722 ATTACAAAAT
12023732 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
12023749 CATATCATATCTACGATTA
1 CATATC-T-TCTAAGATTA
*
12023768 CATATCTTCAAAGATTA
1 CATATCTTCTAAGATTA
12023785 TGTTTTCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 14 0.45
18 2 0.06
19 15 0.48
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:12036143 original size:5 final size:5
Alignment explanation
Indices: 12036133--12036158 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12036123 TCTTTTCCCC
12036133 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
12036159 ACTACAATCA
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:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:12038831 original size:14 final size:13
Alignment explanation
Indices: 12038803--12038827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12038793 AATTTACTGT
12038803 TTTTTAATATTTA
1 TTTTTAATATTTA
12038816 TTTTTAATATTT
1 TTTTTAATATTT
12038828 TATTATATTC
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:12061411 original size:43 final size:43
Alignment explanation
Indices: 12061359--12061503 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
12061349 TGTCATATCC
* * *
12061359 CAGATATGGTCTTACA-TATAATCTCATATCGATGCCAATAGCC-
1 CAGACATGGTCTTACACCA-AATCACATATCGATGCCAAT-GCCT
* *
12061402 CAGCCATGGTCTTACACCAAATCACATATCGATGCTAATGCCT
1 CAGACATGGTCTTACACCAAATCACATATCGATGCCAATGCCT
* * * *
12061445 CAGACATGGTCTTACACGAAGTCTCATATTGATGCCATAT--CT
1 CAGACATGGTCTTACACCAAATCACATATCGATGCCA-ATGCCT
* *
12061487 TAGATATGGTCTTACAC
1 CAGACATGGTCTTACAC
12061504 ATTATCTCGG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 20 0.23
43 63 0.73
44 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
CAGACATGGTCTTACACCAAATCACATATCGATGCCAATGCCT
Found at i:12068004 original size:43 final size:43
Alignment explanation
Indices: 12067902--12068058 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
12067892 ACAATGTCCA
* *
12067902 ATCCCAGATATGGTCTTAGAT-ATAATCTCGTATCGATGCCAAT
1 ATCCCAGATATGGTCTTACATGA-AATCTCATATCGATGCCAAT
* ** * *
12067945 AACCCAGCCATTGTCTTACATGAAATCACATATCGATGCCAAT
1 ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
* *
12067988 ATCCCAGATATGGTCTTACACGAAGTCTCATATCGATG-CAAT
1 ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
* * * *
12068030 ATCCTAGATATAGTCTTACACGTAATCTC
1 ATCCCAGATATGGTCTTACATGAAATCTC
12068059 GGTAACCCTA
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
42 29 0.31
43 65 0.68
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
Found at i:12076175 original size:17 final size:18
Alignment explanation
Indices: 12076118--12076175 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 18
12076108 TCACCATTAA
*
12076118 AAATAATAGAAA-ATAA-
1 AAATAATAAAAATATAAT
**
12076134 AAATTTTAAAAATATAAT
1 AAATAATAAAAATATAAT
* *
12076152 ATATAATAAAATTAT-AT
1 AAATAATAAAAATATAAT
12076169 AAATAAT
1 AAATAAT
12076176 TTAATATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 9 0.28
17 12 0.38
18 11 0.34
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATAATAAAAATATAAT
Found at i:12078166 original size:31 final size:31
Alignment explanation
Indices: 12078107--12078166 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
12078097 CAATTATACA
* *
12078107 CATGAAACTTAATTTGTGGTTTATATGTATG
1 CATGAAACTTAATTTGTGATTTAAATGTATG
*
12078138 CATGAAACTTTGATTT-TGATTTAAATGTA
1 CATGAAAC-TTAATTTGTGATTTAAATGTA
12078167 CACATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (31 bp):
CATGAAACTTAATTTGTGATTTAAATGTATG
Found at i:12079037 original size:12 final size:12
Alignment explanation
Indices: 12079020--12079049 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
12079010 ACTTAGTCTT
12079020 TTTCTCATTTAC
1 TTTCTCATTTAC
12079032 TTTCTCATTTAC
1 TTTCTCATTTAC
12079044 TTTCTC
1 TTTCTC
12079050 CTATCAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCTCATTTAC
Found at i:12079953 original size:9 final size:9
Alignment explanation
Indices: 12079939--12080014 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
12079929 TTTAGTTAAA
*
12079939 AATTAACTG
1 AATTAACCG
*
12079948 AATTAACCA
1 AATTAACCG
*
12079957 AATTAACTG
1 AATTAACCG
*
12079966 AATTACCCG
1 AATTAACCG
*
12079975 AATTAACCA
1 AATTAACCG
*
12079984 AATT-TCTCG
1 AATTAAC-CG
*
12079993 AATTACCCG
1 AATTAACCG
12080002 AATTAACCG
1 AATTAACCG
12080011 AATT
1 AATT
12080015 GAATCACTAC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
8 1 0.02
9 51 0.96
10 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:12079977 original size:27 final size:27
Alignment explanation
Indices: 12079947--12080014 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
12079937 AAAATTAACT
12079947 GAATTAACCAAATTAACT-GAATTACCC
1 GAATTAACCAAATT-ACTCGAATTACCC
*
12079974 GAATTAACCAAATTTCTCGAATTACCC
1 GAATTAACCAAATTACTCGAATTACCC
*
12080001 GAATTAACCGAATT
1 GAATTAACCAAATT
12080015 GAATCACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
GAATTAACCAAATTACTCGAATTACCC
Found at i:12080159 original size:13 final size:13
Alignment explanation
Indices: 12080141--12080165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12080131 TTATGATTGG
12080141 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
12080154 ATTGGGTTGGGT
1 ATTGGGTTGGGT
12080166 TGGATACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:12080163 original size:18 final size:18
Alignment explanation
Indices: 12080136--12080179 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
12080126 AATTTTTATG
* *
12080136 ATTGGATTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
12080154 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
12080172 CTTGGGTT
1 ATTGGGTT
12080180 TGGATTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:12089574 original size:33 final size:33
Alignment explanation
Indices: 12089537--12089603 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
12089527 TACTTTTTCA
*
12089537 TGATTTTTATGCATAATTTAGCACCTAGACATT
1 TGATTTCTATGCATAATTTAGCACCTAGACATT
*
12089570 TGATTTCTATGCATAATTTATCACCTAGACATT
1 TGATTTCTATGCATAATTTAGCACCTAGACATT
12089603 T
1 T
12089604 ATAACAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.43
Consensus pattern (33 bp):
TGATTTCTATGCATAATTTAGCACCTAGACATT
Found at i:12090312 original size:50 final size:50
Alignment explanation
Indices: 12090237--12090479 Score: 252
Period size: 50 Copynumber: 4.7 Consensus size: 50
12090227 TTTATTGTAC
* * * * **
12090237 TGCCAATGCCATATCCCTGATATGGTCTTGCATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* ** * *
12090287 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
12090337 TGCCAACGCCATGTCCCAGACATGGTCTAACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * *
12090387 TGCCAATGCCATGTCCCAAACATGGTATTATATGGGACCTTTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
12090443 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
12090480 TCTCATCCTC
Statistics
Matches: 158, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 122 0.77
53 1 0.01
56 35 0.22
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:12091943 original size:104 final size:104
Alignment explanation
Indices: 12091763--12092029 Score: 462
Period size: 104 Copynumber: 2.6 Consensus size: 104
12091753 TAACCGTTAT
* * *
12091763 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
12091828 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
12091867 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
12091932 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
12091971 CGGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
12092030 TTATGTACAA
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 154 1.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:12094229 original size:24 final size:24
Alignment explanation
Indices: 12094202--12094253 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12094192 TTAGTAAGTC
*
12094202 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12094226 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12094250 AAAT
1 AAAT
12094254 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12095053 original size:95 final size:97
Alignment explanation
Indices: 12094926--12095115 Score: 303
Period size: 95 Copynumber: 2.0 Consensus size: 97
12094916 TCATACTTAC
* *
12094926 TTTCTTCTCTAGTTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTGTGAACTACACTAA
1 TTTCTTCTCTAGTTAGATATTTAATTGGACATTGGAAACCCTTATGATCTTGTGAACTACACCAA
* *
12094991 TAACATTTCATAAAAGGTGATAGCTCAATCGT
66 TAACATTGCACAAAAGGTGATAGCTCAATCGT
* *
12095023 TTTC-TCTCTATTTAGAT-TTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAA
1 TTTCTTCTCTAGTTAGATATTTAATTGGACATTGGAAACCCTTATGATCTTGTGAACTACACCAA
*
12095086 TAACATTGCACAAAATGTGATAGCTCAATC
66 TAACATTGCACAAAAGGTGATAGCTCAATC
12095116 CTATTCCTCC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 71 0.83
96 11 0.13
97 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (97 bp):
TTTCTTCTCTAGTTAGATATTTAATTGGACATTGGAAACCCTTATGATCTTGTGAACTACACCAA
TAACATTGCACAAAAGGTGATAGCTCAATCGT
Found at i:12096944 original size:24 final size:25
Alignment explanation
Indices: 12096900--12096947 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
12096890 AAACAACTCT
*
12096900 AAAAGAAACTTAAAAGTAATTCTTG
1 AAAAGAAACTCAAAAGTAATTCTTG
12096925 AAAA-AAACTCAAAGAG-AATTCTT
1 AAAAGAAACTCAAA-AGTAATTCTT
12096948 ATCAACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.25
Consensus pattern (25 bp):
AAAAGAAACTCAAAAGTAATTCTTG
Found at i:12099440 original size:103 final size:104
Alignment explanation
Indices: 12099261--12099525 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
12099251 AACCGTTATT
* * * *
12099261 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
12099326 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
12099364 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
12099428 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
12099468 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
12099526 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:12099887 original size:30 final size:29
Alignment explanation
Indices: 12099853--12099917 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
12099843 TAATCCACCA
12099853 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
12099883 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
12099913 CCCAA
1 CCCAA
12099918 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:12099891 original size:31 final size:30
Alignment explanation
Indices: 12099860--12099917 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12099850 CCACCCAACT
12099860 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
12099890 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
12099918 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:12109157 original size:20 final size:18
Alignment explanation
Indices: 12109118--12109155 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12109108 ATAAATTTTA
12109118 ATTATGGCTCAAATATAT
1 ATTATGGCTCAAATATAT
*
12109136 ATTATGGTTCAAATATAT
1 ATTATGGCTCAAATATAT
12109154 AT
1 AT
12109156 ATGAAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (18 bp):
ATTATGGCTCAAATATAT
Found at i:12110442 original size:6 final size:6
Alignment explanation
Indices: 12110433--12110510 Score: 81
Period size: 6 Copynumber: 13.5 Consensus size: 6
12110423 GTGAAGACCC
* * *
12110433 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA CGAGGA CGAGGA TGATGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA
* * *
12110481 CGACGA TGACGA T--GGA -GAGGA TGAGGA TGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGA
12110511 AGAGGATGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
4 2 0.03
5 3 0.05
6 57 0.92
ACGTcount: A:0.33, C:0.06, G:0.46, T:0.14
Consensus pattern (6 bp):
TGAGGA
Found at i:12110454 original size:18 final size:18
Alignment explanation
Indices: 12110433--12110510 Score: 90
Period size: 18 Copynumber: 4.5 Consensus size: 18
12110423 GTGAAGACCC
*
12110433 TGAGGATGAGGATGAGGA
1 TGAGGATGAGGACGAGGA
12110451 TGAGGATGAGGACGAGGA
1 TGAGGATGAGGACGAGGA
* * *
12110469 CGAGGATGATGACGACGA
1 TGAGGATGAGGACGAGGA
*
12110487 TGACGAT--GGA-GAGGA
1 TGAGGATGAGGACGAGGA
12110502 TGAGGATGA
1 TGAGGATGA
12110511 AGAGGATGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
15 10 0.20
16 2 0.04
18 37 0.76
ACGTcount: A:0.33, C:0.06, G:0.46, T:0.14
Consensus pattern (18 bp):
TGAGGATGAGGACGAGGA
Found at i:12110503 original size:15 final size:15
Alignment explanation
Indices: 12110485--12110518 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12110475 TGATGACGAC
*
12110485 GATGACGATGGAGAG
1 GATGACGATGAAGAG
*
12110500 GATGAGGATGAAGAG
1 GATGACGATGAAGAG
12110515 GATG
1 GATG
12110519 TTGAAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.47, T:0.15
Consensus pattern (15 bp):
GATGACGATGAAGAG
Found at i:12110550 original size:21 final size:21
Alignment explanation
Indices: 12110524--12110569 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
12110514 GGATGTTGAA
12110524 GAAGAAGAAAATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
*
12110545 GAAGAAGAAGATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
12110566 GAAG
1 GAAG
12110570 CCCTGCAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.37, T:0.09
Consensus pattern (21 bp):
GAAGAAGAAAATGAAGATGAG
Found at i:12110569 original size:15 final size:15
Alignment explanation
Indices: 12110520--12110561 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
12110510 AAGAGGATGT
*
12110520 TGAAGAAGAAGAAAA
1 TGAAGATGAAGAAAA
*
12110535 TGAAGATGAGGAAGAA
1 TGAAGATGAAGAA-AA
12110551 -GAAGATGAAGA
1 TGAAGATGAAGA
12110562 TGAGGAAGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (15 bp):
TGAAGATGAAGAAAA
Found at i:12115993 original size:175 final size:175
Alignment explanation
Indices: 12115702--12116053 Score: 704
Period size: 175 Copynumber: 2.0 Consensus size: 175
12115692 TAAATCAAAG
12115702 ATCGGGAATAAAAACCACAATCCATTCTGAGATTGAATCTTTCAACATCCTGAAGATAAAGTTGT
1 ATCGGGAATAAAAACCACAATCCATTCTGAGATTGAATCTTTCAACATCCTGAAGATAAAGTTGT
12115767 AAGGGAGAAAATTTAAGGTGAAAAGGAATTTGATTTGTGGGACGACTTTGAAAGATTTTGAAAAA
66 AAGGGAGAAAATTTAAGGTGAAAAGGAATTTGATTTGTGGGACGACTTTGAAAGATTTTGAAAAA
12115832 ATAGAGAATCATCGTGTTGATAATGTGTTATAAAATAAAGAGAAT
131 ATAGAGAATCATCGTGTTGATAATGTGTTATAAAATAAAGAGAAT
12115877 ATCGGGAATAAAAACCACAATCCATTCTGAGATTGAATCTTTCAACATCCTGAAGATAAAGTTGT
1 ATCGGGAATAAAAACCACAATCCATTCTGAGATTGAATCTTTCAACATCCTGAAGATAAAGTTGT
12115942 AAGGGAGAAAATTTAAGGTGAAAAGGAATTTGATTTGTGGGACGACTTTGAAAGATTTTGAAAAA
66 AAGGGAGAAAATTTAAGGTGAAAAGGAATTTGATTTGTGGGACGACTTTGAAAGATTTTGAAAAA
12116007 ATAGAGAATCATCGTGTTGATAATGTGTTATAAAATAAAGAGAAT
131 ATAGAGAATCATCGTGTTGATAATGTGTTATAAAATAAAGAGAAT
12116052 AT
1 AT
12116054 ACTTTATTGA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 177 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (175 bp):
ATCGGGAATAAAAACCACAATCCATTCTGAGATTGAATCTTTCAACATCCTGAAGATAAAGTTGT
AAGGGAGAAAATTTAAGGTGAAAAGGAATTTGATTTGTGGGACGACTTTGAAAGATTTTGAAAAA
ATAGAGAATCATCGTGTTGATAATGTGTTATAAAATAAAGAGAAT
Found at i:12131218 original size:42 final size:42
Alignment explanation
Indices: 12131055--12131208 Score: 254
Period size: 42 Copynumber: 3.7 Consensus size: 42
12131045 CACACAGCCG
* * *
12131055 TGTCCCAGCCCGTGTAACTCACTGACTTGGGACACACGACCA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
12131097 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
*
12131139 TGTCCCAGCCCGTGTAGCTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
* *
12131181 TGTCCCAGCTCGTATAACTCACTGACTT
1 TGTCCCAGCCCGTGTAACTCACTGACTT
12131209 AGGTTACACG
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 105 1.00
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (42 bp):
TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
Found at i:12132035 original size:19 final size:19
Alignment explanation
Indices: 12131992--12132042 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
12131982 CAATACTTGA
12131992 ATTCATTTCA--AGTTTCAC
1 ATTCATTTCATCA-TTTCAC
*
12132010 ATCTCATTTCATCATTTCAT
1 AT-TCATTTCATCATTTCAC
12132030 ATTCATTT-ATCAT
1 ATTCATTTCATCAT
12132043 CTTTGTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 7 0.24
19 14 0.48
20 7 0.24
21 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTCATTTCATCATTTCAC
Found at i:12133274 original size:15 final size:15
Alignment explanation
Indices: 12133254--12133285 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12133244 TGTTTTCATT
*
12133254 TTATTATCTTTATTA
1 TTATTATCATTATTA
12133269 TTATTATCATTATTA
1 TTATTATCATTATTA
12133284 TT
1 TT
12133286 GAAGGTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:12138908 original size:25 final size:26
Alignment explanation
Indices: 12138880--12138932 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
12138870 TTATTGTGTT
12138880 TTTTACAACA-AATTG-TTAACTATAA
1 TTTTACAA-AGAATTGATTAACTATAA
*
12138905 TTTTGCAAAGAATTGATTAACTATAA
1 TTTTACAAAGAATTGATTAACTATAA
12138931 TT
1 TT
12138933 ATTGTGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 12 0.48
26 12 0.48
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (26 bp):
TTTTACAAAGAATTGATTAACTATAA
Found at i:12139175 original size:39 final size:39
Alignment explanation
Indices: 12139125--12139209 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
12139115 AGTTACAGGG
* * *
12139125 ACTAAAAATGCAAATAAATCTAAGTTACAGTGTTAACTA
1 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
12139164 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
1 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
12139203 ACTACAA
1 ACTACAA
12139210 GAACACTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (39 bp):
ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
Found at i:12139310 original size:21 final size:21
Alignment explanation
Indices: 12139273--12139312 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12139263 AGATGGTACT
*
12139273 AAGAAAACCTAGAAGAAAAGG
1 AAGAAAAACTAGAAGAAAAGG
12139294 AAGAAAAACTA-AGAGAAAA
1 AAGAAAAACTAGA-AGAAAA
12139313 ACTAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.68, C:0.07, G:0.20, T:0.05
Consensus pattern (21 bp):
AAGAAAAACTAGAAGAAAAGG
Found at i:12141113 original size:24 final size:24
Alignment explanation
Indices: 12141081--12141128 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12141071 TGTGGCTTAG
* *
12141081 GTTGGTTCAGAAGTGAAGAACTAA
1 GTTGGTTCAAAACTGAAGAACTAA
12141105 GTTGGTTCAAAACTGAAGAACTAA
1 GTTGGTTCAAAACTGAAGAACTAA
12141129 CTCTACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (24 bp):
GTTGGTTCAAAACTGAAGAACTAA
Found at i:12144824 original size:22 final size:22
Alignment explanation
Indices: 12144799--12144841 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12144789 TTAGAAATCA
* *
12144799 TAAAGCAACCAGACCAAAAAAT
1 TAAACCAAACAGACCAAAAAAT
*
12144821 TAAACCAAACAGTCCAAAAAA
1 TAAACCAAACAGACCAAAAAA
12144842 AATTTTGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.09
Consensus pattern (22 bp):
TAAACCAAACAGACCAAAAAAT
Found at i:12145702 original size:32 final size:32
Alignment explanation
Indices: 12145658--12145735 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
12145648 AAACCTACAC
*
12145658 GCCCGTGCGGCCCACACACCCAACCTGGCCTA
1 GCCCGTGTGGCCCACACACCCAACCTGGCCTA
* ***
12145690 GCTCGTGTGGCCCACGTGCCCAACCTGGCCTA
1 GCCCGTGTGGCCCACACACCCAACCTGGCCTA
12145722 GCCCGTGTGGCCCA
1 GCCCGTGTGGCCCA
12145736 TACGGCCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (32 bp):
GCCCGTGTGGCCCACACACCCAACCTGGCCTA
Found at i:12154547 original size:15 final size:16
Alignment explanation
Indices: 12154515--12154547 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12154505 TCAAGATGGA
*
12154515 ATTTTGAATTCATTTG
1 ATTTTGAATTCATATG
12154531 ATTTTGAA-TCATATG
1 ATTTTGAATTCATATG
12154546 AT
1 AT
12154548 ACTTTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
ATTTTGAATTCATATG
Found at i:12160866 original size:49 final size:48
Alignment explanation
Indices: 12160804--12160934 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 48
12160794 ATAAGGAAAT
*
12160804 AGAATTTAATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAAC
1 AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATT-AAAC
* * * *
12160853 ATAATTTAATTATTATTTACAAGAGTTTTAAATAAATGATAATTAAAT
1 AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAC
*
12160901 AGAATTTAAATTATTATTTAAAAAAGCTTTTAAA
1 AGAATTT-AATTATTATTTAAAAGAG-TTTTAAA
12160935 ATTCAAGATA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
48 9 0.12
49 56 0.78
50 7 0.10
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (48 bp):
AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAC
Found at i:12164232 original size:23 final size:25
Alignment explanation
Indices: 12164201--12164247 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
12164191 TAAATTAGAA
12164201 AAATATCTC-T-AGA-AATTTTCTT
1 AAATATCTCTTCAGAGAATTTTCTT
12164223 AAATAATCTCTTCAGAGAATTTTCT
1 AAAT-ATCTCTTCAGAGAATTTTCT
12164248 CTCTACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 1 0.05
25 3 0.14
26 8 0.38
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (25 bp):
AAATATCTCTTCAGAGAATTTTCTT
Found at i:12164459 original size:62 final size:59
Alignment explanation
Indices: 12164357--12164473 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
12164347 TCACTTTAAT
* *
12164357 ATTAAAATAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAGTCTG
1 ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAGTCTG
*
12164416 ATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAG
1 ATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAAG
12164474 ATAATCACTT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 19 0.37
61 1 0.02
62 32 0.62
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (59 bp):
ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAGTCTG
Found at i:12169196 original size:39 final size:39
Alignment explanation
Indices: 12169153--12169254 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
12169143 AACATGTTTT
12169153 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
12169192 TGAGTATTGTGATATATGCTTAAATTTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
12169231 TGTGTAATGTGATATGTGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
12169255 AGTGAATATG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:12172136 original size:15 final size:16
Alignment explanation
Indices: 12172099--12172136 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
12172089 TTTTTACTAT
12172099 TATTTCAATTTTAATTA
1 TATTT-AATTTTAATTA
*
12172116 TTTTTAATTTT-ATTA
1 TATTTAATTTTAATTA
12172131 TATTTA
1 TATTTA
12172137 GATTCCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 9 0.47
16 6 0.32
17 4 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTAATTTTAATTA
Found at i:12173844 original size:30 final size:32
Alignment explanation
Indices: 12173783--12173855 Score: 105
Period size: 30 Copynumber: 2.3 Consensus size: 32
12173773 AAATGGGAAT
12173783 GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
1 GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
* **
12173815 GGGAAATGGGAGGA-GGGCA-CGGTGGAAGAG
1 GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
12173845 GGGAAATGGGA
1 GGGAAATGGGA
12173856 ATGGGAATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 20 0.53
31 4 0.11
32 14 0.37
ACGTcount: A:0.33, C:0.05, G:0.55, T:0.07
Consensus pattern (32 bp):
GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
Found at i:12173856 original size:15 final size:15
Alignment explanation
Indices: 12173783--12173905 Score: 54
Period size: 15 Copynumber: 7.8 Consensus size: 15
12173773 AAATGGGAAT
*
12173783 GGGAAATGGGAGGAG
1 GGGAAATGGGAAGAG
12173798 GGG-AATCGACGGAAGAG
1 GGGAAAT-G--GGAAGAG
*
12173815 GGGAAATGGGAGGA-
1 GGGAAATGGGAAGAG
* **
12173829 GGGCACGGTGGAAGAG
1 GGGAAATG-GGAAGAG
*
12173845 GGGAAATGGGAATGGGAAT
1 GGGAAATGGGAA---G-AG
*
12173864 GGGAAATGGGAGGA-
1 GGGAAATGGGAAGAG
* **
12173878 GGGCACGGTGGAAGAG
1 GGGAAATG-GGAAGAG
12173894 GGGAAATGGGAA
1 GGGAAATGGGAA
12173906 TGTGAAGATG
Statistics
Matches: 78, Mismatches: 18, Indels: 24
0.65 0.15 0.20
Matches are distributed among these distances:
14 13 0.17
15 28 0.36
16 11 0.14
17 10 0.13
18 4 0.05
19 12 0.15
ACGTcount: A:0.33, C:0.05, G:0.54, T:0.08
Consensus pattern (15 bp):
GGGAAATGGGAAGAG
Found at i:12174019 original size:29 final size:30
Alignment explanation
Indices: 12173941--12174157 Score: 357
Period size: 30 Copynumber: 7.2 Consensus size: 30
12173931 CATTGTATTT
*
12173941 GTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
12173971 GTGTATTTTTAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
12174001 GTTTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
12174032 GTGTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
*
12174063 GTGTATTTTAAAAAT-AAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
12174092 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
12174121 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
12174151 CTGTATT
1 GTGTATT
12174158 CGGTTTATTC
Statistics
Matches: 177, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
29 52 0.29
30 71 0.40
31 54 0.31
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (30 bp):
GTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:12174829 original size:21 final size:23
Alignment explanation
Indices: 12174787--12174829 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12174777 TTATCATTGT
**
12174787 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
12174810 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
12174830 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAAATATTTAAAAATAAC
Found at i:12175097 original size:21 final size:21
Alignment explanation
Indices: 12175071--12175123 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
12175061 CATTGTTTCT
* *
12175071 AATCTCACTGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
12175092 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
12175113 AATCTCACCGC
1 AATCTCACCGC
12175124 CACCGCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:12177037 original size:20 final size:20
Alignment explanation
Indices: 12176993--12177054 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
12176983 ATGTTACATT
* *
12176993 AAATGTAATAATAAATACAATA
1 AAATGTAAT-TTAAATTC-ATA
12177015 AAATGTAATTTAAATTCATA
1 AAATGTAATTTAAATTCATA
12177035 AAATGTAATTTAAATTCATA
1 AAATGTAATTTAAATTCATA
12177055 TATCACATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 23 0.61
21 6 0.16
22 9 0.24
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATGTAATTTAAATTCATA
Found at i:12181430 original size:46 final size:47
Alignment explanation
Indices: 12181352--12181440 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 47
12181342 TTCTCCAAGT
* *
12181352 CCAAGATCTTTAATATTGTCGTATCTAAATCCATAC-CTTCAGTATA
1 CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAGTATA
* *
12181398 CCAACATCTTTAATATTGTCATGTCTAGATCCATACTCTTCAG
1 CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAG
12181441 CTTTGACAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 32 0.84
47 6 0.16
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (47 bp):
CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAGTATA
Found at i:12182577 original size:27 final size:28
Alignment explanation
Indices: 12182547--12182601 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
12182537 ATAGGCTTAT
*
12182547 ATATACAATT-TT-AATAAATAAATAAAA
1 ATATAAAATTATTAAAT-AATAAATAAAA
*
12182574 ATATAAAATTATTAAATATTAAATAAAA
1 ATATAAAATTATTAAATAATAAATAAAA
12182602 TTAATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 12 0.50
29 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAATTATTAAATAATAAATAAAA
Found at i:12184195 original size:15 final size:17
Alignment explanation
Indices: 12184177--12184217 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12184167 AATCTAAATT
12184177 TAATAAAATT-AAA-AA
1 TAATAAAATTGAAATAA
12184192 TAATTAAAATTGAAATAA
1 TAA-TAAAATTGAAATAA
*
12184210 TAGTAAAA
1 TAATAAAA
12184218 CTAGACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 7 0.32
17 8 0.36
18 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
TAATAAAATTGAAATAA
Found at i:12184891 original size:16 final size:17
Alignment explanation
Indices: 12184870--12184911 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
12184860 AAATAAGAAA
12184870 AAAAGAAAAGAT-AAAG
1 AAAAGAAAAGATCAAAG
*
12184886 AAAAG-AAGGATCAAAG
1 AAAAGAAAAGATCAAAG
12184902 AAAGAGAAAA
1 AAA-AGAAAA
12184912 AGAGAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 2 0.10
18 2 0.10
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAGATCAAAG
Found at i:12185983 original size:25 final size:27
Alignment explanation
Indices: 12185924--12185986 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
12185914 GCACATTTGC
12185924 ATTACATTAATAAAATTTTTCGAACAG
1 ATTACATTAATAAAATTTTTCGAACAG
* **
12185951 ATT-GATTAATAAAATTTTTC-ATGA-
1 ATTACATTAATAAAATTTTTCGAACAG
12185975 ATTACATTAATA
1 ATTACATTAATA
12185987 CTTTAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 3 0.10
25 9 0.29
26 16 0.52
27 3 0.10
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTACATTAATAAAATTTTTCGAACAG
Found at i:12200213 original size:42 final size:42
Alignment explanation
Indices: 12200113--12200222 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
12200103 AATGCCAACA
* *
12200113 TCCCAGACGTGGTCTTACATGTAATCAAACAACCATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCAAACAACCA-GCCAATG
* *
12200156 TCCTAGACAGGGTCTTACATGTAATCATATACAA-C-GCCAATG
1 TCCCAGACATGGTCTTACATGTAATCA-A-ACAACCAGCCAATG
* *
12200198 TCCCATACATGGTCTTACACGTAAT
1 TCCCAGACATGGTCTTACATGTAAT
12200223 TCTCAAATCG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
42 27 0.47
43 24 0.42
44 2 0.04
45 4 0.07
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGTAATCAAACAACCAGCCAATG
Found at i:12202811 original size:49 final size:48
Alignment explanation
Indices: 12202726--12203009 Score: 291
Period size: 49 Copynumber: 5.7 Consensus size: 48
12202716 GCGTACTTGT
* * * * *
12202726 ATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTGTTTTGCTGC
1 ATTCAT-AATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * *
12202775 ATTCCTATATTAAGTTGTTTTATTTATGCTTCATTGATTGTTTTGCTGC
1 ATTCATA-ATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * * * *
12202824 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTCTATTGC
1 ATTCATAATTA-AGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* *
12202873 ATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGATTATTTTGTTGC
1 ATTCAT-AATTAAGT--TGTTTTATTTATGCTTCATTGATTATTTTGTTGC
*
12202924 ATTCATACA-TAGAGTTGTTTTATTTATGCTTCATTCATTATTTTGTTGC
1 ATTCATA-ATTA-AGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * *
12202973 ATTCATAACTAAAGTTGTGTTTTAATTATACTTCATT
1 ATTCATAA-TTAAG-T-TGTTTTATTTATGCTTCATT
12203010 CTTTGTTTGT
Statistics
Matches: 199, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
48 5 0.03
49 130 0.65
50 7 0.04
51 57 0.29
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (48 bp):
ATTCATAATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
Found at i:12202929 original size:100 final size:99
Alignment explanation
Indices: 12202726--12203009 Score: 390
Period size: 100 Copynumber: 2.9 Consensus size: 99
12202716 GCGTACTTGT
* * * * * * * *
12202726 ATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTGTTTTGCTGCATTCCTATATTAAGT-
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGTG
* *
12202790 TGTTTTATTTATGCTTCATTGATTGTTTTGCTGC
66 TGTTTTAATTATGCTTCATTGATTATTTTGCTGC
* *
12202824 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTCTATTGCATTCATAAATAAAGTG
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGT-
*
12202889 GTGTTTTAATTATGCTTCATTGATTATTTTGTTGC
65 GTGTTTTAATTATGCTTCATTGATTATTTTGCTGC
* * *
12202924 ATTCATACATAGAGTTGTTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAACTAAAGTT
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAG-T
*
12202989 GTGTTTTAATTATACTTCATT
65 GTGTTTTAATTATGCTTCATT
12203010 CTTTGTTTGT
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
98 54 0.33
100 109 0.66
101 1 0.01
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (99 bp):
ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGTG
TGTTTTAATTATGCTTCATTGATTATTTTGCTGC
Found at i:12203271 original size:21 final size:21
Alignment explanation
Indices: 12203245--12203289 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
12203235 AAACAAGTGA
12203245 ATTTTCATCAACTTCATGACT
1 ATTTTCATCAACTTCATGACT
12203266 ATTTTCATCAACTTCATGACT
1 ATTTTCATCAACTTCATGACT
12203287 ATT
1 ATT
12203290 AGAATTCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (21 bp):
ATTTTCATCAACTTCATGACT
Found at i:12208916 original size:49 final size:49
Alignment explanation
Indices: 12208841--12209145 Score: 384
Period size: 49 Copynumber: 6.2 Consensus size: 49
12208831 TAAAGCATAC
*
12208841 TTGCATTCATAAATAAAGTT-TCTTTATTTATGCTTCATTGATTGTTTCG
1 TTGCATTCATAAATAAAGTTGT-TTTATTTATGCTTCATTGATTGTTTTG
* *
12208890 CTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTATTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * * * * * *
12208939 CTGCATTCATAAACAGAGTTGCTTTATTTATGCTTTATTCATTGTTCTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
12208988 TTGCATTCATAAATAAAGTGATGTTTTAATTATGCTTCATTGACTATTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
12209039 TTGCATTCATACATAGAGTTGTTTTATTTATGCTTCATTTATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
*
12209088 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATT--TT-TTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
12209136 TTGCATTCAT
1 TTGCATTCAT
12209146 TTCAGTTATG
Statistics
Matches: 222, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
48 15 0.07
49 147 0.66
50 1 0.00
51 59 0.27
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.50
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
Found at i:12209049 original size:100 final size:97
Alignment explanation
Indices: 12208841--12209145 Score: 418
Period size: 100 Copynumber: 3.1 Consensus size: 97
12208831 TAAAGCATAC
* * * *
12208841 TTGCATTCATAAATAAAGTTTCTTTATTTATGCTTCATTGATTGTTTCGCTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTT-GTTGCATTCATAAATAA
*
12208906 AGT-TGTTTTATTTATGCTTCATTGATTATTTTG
65 AGTGTGTTTTAATTATGCTTCATTGA-TATTTTG
* * *
12208939 CTGCATTCATAAACAGAGTTGCTTTATTTATGCTTTATTCATTGTTCTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTT-TGTTGCATTCATAAATAA
12209004 AGTGATGTTTTAATTATGCTTCATTGACTATTTTG
65 AGTG-TGTTTTAATTATGCTTCATTGA-TATTTTG
* * *
12209039 TTGCATTCATACATAGAGTTGTTTTATTTATGCTTCATTTATTGTTTTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTG-TTTGTTGCATTCATAAATAA
*
12209104 AGTGGTGTTTTAATTATGCTTCATT--TTTTTTG
65 AGT-GTGTTTTAATTATGCTTCATTGATATTTTG
12209136 TTGCATTCAT
1 TTGCATTCAT
12209146 TTCAGTTATG
Statistics
Matches: 186, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
97 16 0.09
98 59 0.32
99 1 0.01
100 107 0.58
101 3 0.02
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.50
Consensus pattern (97 bp):
TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTTGTTGCATTCATAAATAAA
GTGTGTTTTAATTATGCTTCATTGATATTTTG
Found at i:12210994 original size:81 final size:82
Alignment explanation
Indices: 12210903--12211068 Score: 316
Period size: 81 Copynumber: 2.0 Consensus size: 82
12210893 TAAATACAAT
*
12210903 TTTAATTATTACTTAAGATAACTATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
1 TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
12210968 AATGTTTTTAATA-TAA
66 AATGTTTTTAATAGTAA
12210984 TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
1 TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
12211049 AATGTTTTTAATAGTAA
66 AATGTTTTTAATAGTAA
12211066 TTT
1 TTT
12211069 TCCATTTTAA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 77 0.93
82 6 0.07
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (82 bp):
TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
AATGTTTTTAATAGTAA
Found at i:12218042 original size:16 final size:16
Alignment explanation
Indices: 12218021--12218060 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
12218011 CCTTCCCTAA
*
12218021 GAACTTTTATTCTTCT
1 GAACTTCTATTCTTCT
12218037 GAACTTCTATTCTTCT
1 GAACTTCTATTCTTCT
*
12218053 AAACTTCT
1 GAACTTCT
12218061 TCAATTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.50
Consensus pattern (16 bp):
GAACTTCTATTCTTCT
Found at i:12222025 original size:16 final size:17
Alignment explanation
Indices: 12221999--12222035 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
12221989 ATTTAATTGG
*
12221999 TTTAGTTGTTTTTTTAT
1 TTTAGTTGTTTATTTAT
12222016 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
12222032 TTTA
1 TTTA
12222036 ATTATCTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:12225383 original size:27 final size:28
Alignment explanation
Indices: 12225325--12225377 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
12225315 ACTTTAGCCA
* *
12225325 TTTTTTATTTTAATTTTAATATTTTTTG
1 TTTTTTATTTTAATTTTAACATTTTATG
*
12225353 TTTTTTA-TTTAATTTTTACATTTTA
1 TTTTTTATTTTAATTTTAACATTTTA
12225378 ATTTTTCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTTTATTTTAATTTTAACATTTTATG
Found at i:12228663 original size:8 final size:9
Alignment explanation
Indices: 12228645--12228672 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12228635 CCAAGCCCTA
12228645 TTTTTATTT
1 TTTTTATTT
12228654 TTTTTATTT
1 TTTTTATTT
12228663 TTTTTATTT
1 TTTTTATTT
12228672 T
1 T
12228673 CTAGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTATTT
Found at i:12246039 original size:44 final size:47
Alignment explanation
Indices: 12245942--12246042 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 47
12245932 TAGACCGCCT
* *
12245942 GGGAGATAAG-GTTCGCTGTTCTCAGTCTGCCCCACTGCAACTTTAA
1 GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
* * * *
12245988 GGG-GATAAGACTT-GCT-TTCTCCGTCTGCTCCGCTGCAAC-CTCA
1 GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
12246031 GGGAGATAAGAC
1 GGGAGATAAGAC
12246043 CTGATGTGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.11
44 28 0.60
45 9 0.19
46 5 0.11
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.26
Consensus pattern (47 bp):
GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
Found at i:12246297 original size:218 final size:218
Alignment explanation
Indices: 12245967--12247741 Score: 2536
Period size: 218 Copynumber: 8.1 Consensus size: 218
12245957 CTGTTCTCAG
* * * * *
12245967 TCTGCCCCACTGCAACTTTAAGGGGATAAGACTTGCTTTCTCCGTCTGCTCCGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * * *
12246032 GGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * * * * *
12246097 CCGCTCCACTAAAATTTTAGGGAGATAAGATTATCAGCTTTAATCTGCTTCACTTCAACCTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
12246162 GAGATAAGATTTGCCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* * * * *
12246185 TCTGCCCCACTTCAACTTCAAGGGGATAAGACCTACTTACTCAGCCTGTTCCACTACAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
12246250 GGAGATAAGACTTGATGCGATCCACTCTA-TGGCAATTTCAAAGAGATAAGATCCATTACTTTAA
66 GGAGATAAGACCTGATGCGATCCACTCTACT-GCAACTTCAGAGAGATAAGATCCATTACTTTAA
* *
12246314 TCCGCTCCACTACAAATTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCGCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* *
12246379 GGAGATAAGATTTTCCATCTTCGG
195 GGAGATAAGATTTGCCATCTTCGA
* * * *
12246403 TCTGTCCCACTACAACTTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
12246468 AGAGATAAAACCTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCCATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * *
12246533 CCGCTCCGCTACAACTTCAGAGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAACTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
*
12246598 GAGATAAGATTTGTCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* * * *
12246621 TCTGTCCCACTACAAC-TCATA-AGGATAAGTCCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
1 TCTGCCCCACTGCAACTTCA-AGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
* * *
12246684 GGGAGATAAAACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGAAAAGATCTATTACTTTAA
65 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAA
* * * * *
12246749 TCTGCTCCGCGACAACTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCTACTGCAACCTCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* * *
12246814 GGAGATAATATGTGCCATCTTTGA
195 GGAGATAAGATTTGCCATCTTCGA
* *
12246838 TCTGCCCCACTGCAACTT-TAGAGGGATAAGACCTGCTTACTCAGTTTGCTCCACTGCAACCTCA
1 TCTGCCCCACTGCAACTTCAAG-GGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
12246902 GGGAGATAAGACCTGATGCGATCCACTCTA-TGGCAACTTCAGAGAGATAAGATCCATTACTTTA
65 GGGAGATAAGACCTGATGCGATCCACTCTACT-GCAACTTCAGAGAGATAAGATCCATTACTTTA
* *
12246966 ATCCGCTCAACTACAATTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
129 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
*
12247031 AGGAGATAAGATTTGCCATCTTCGA
194 GGGAGATAAGATTTGCCATCTTCGA
* * * * **
12247056 TCTGCCCCCCTGCAACTTCAGGGGGATAATACCTGCTTACCCAGTCTGCTCTGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
12247121 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * *
12247186 TCGCTCTACTACAATTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGA
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
* *
12247251 GAGATAAGATTTGTCATCTTTGA
196 GAGATAAGATTTGCCATCTTCGA
* * **
12247274 TCTGCCCCACTGCAACTTCAGGGGGATAATACCTGCTTACTCAGTCTGCTCTGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* *
12247339 GGAGATAAGACCTGATGCGATCCATTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * *
12247404 CTGTTCCGCTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
*
12247469 GAGATAAGATTTGCCATCTTCAA
196 GAGATAAGATTTGCCATCTTCGA
* * * * *** *
12247492 TCTGCCCCACTGCAACTT-TAGGAGGATGAGACCTACTTACTTAGTCTGCTGTGCTACAACCTCA
1 TCTGCCCCACTGCAACTTCAAGG-GGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
* * *
12247556 GGGAGATAAGACCTGATGCGATCCACTCTACTGTAACTTTAGAGAGATAAGATCTATTACTTTAA
65 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAA
* * *
12247621 TCCGCTCCGCTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCCCCACTGCAACCTCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* *
12247686 AGAGATAAGATTTTCCATCTTCGA
195 GGAGATAAGATTTGCCATCTTCGA
* **
12247710 TCTGCCCCACTACAACTTCAATAGGATAAGAC
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGAC
12247742 ATGTATAATG
Statistics
Matches: 1403, Mismatches: 143, Indels: 22
0.89 0.09 0.01
Matches are distributed among these distances:
216 1 0.00
217 199 0.14
218 1199 0.85
219 4 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (218 bp):
TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
GAGATAAGATTTGCCATCTTCGA
Found at i:12247647 original size:44 final size:44
Alignment explanation
Indices: 12246064--12247696 Score: 304
Period size: 44 Copynumber: 37.5 Consensus size: 44
12246054 TACTCTGCTG
* *
12246064 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * * * * *
12246108 AAATTTTAGGGAGATAAGAT-TATCAGCTTTAATCTGCTTCACTT
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * *** ** * *
12246152 CAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTT
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * ** *
12246197 CAACTTCAAGGG-GATAAGACCTACTTAC-TCAGCCTGTTCCACTA
1 CAACTTC-AGGGAGATAAGATCTA-TTACTTTAATCTGCTCCACTA
* * *** ** * *
12246241 CAACCTCAGGGAGATAAGA-CT-TGA-TGCGATCCACTCTA-TGG
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT-A
* ** * *
12246282 CAATTTCAAAGAGATAAGATCCATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** * *
12246326 CAAATTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
** ***
12246370 CAACCGCAGGGAGATAAGAT-T-TTCCATCTTCGGTCTG-TCCCACTA
1 CAACTTCAGGGAGATAAGATCTATT--A-CTTTAATCTGCT-CCACTA
* * * * *
12246415 CAACTTCAGGGGGATAAGA-CTTGCTTAC-TCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATC-T-ATTACTTTAATCTGCTCCACTA
* * * * * * ** *
12246459 CAACCTCAGAGAGATAAAACCTGA-TGC---GATCCACTCTACTA
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * *
12246500 CAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCCGCTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** *
12246544 CAACTTCAGAGAGATAGGAT-TATCGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * **
12246588 CAAAC-TCAGGGAGATAAGATTTGTCATCTTCGATCTG-TCCCACTA
1 C-AACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCT-CCACTA
** * * * *
12246633 CAAC-TCA-TAAGGATAAG-TCCTGCTTAC-TCAGTCTGCTCCACTG
1 CAACTTCAGGGA-GATAAGAT-CT-ATTACTTTAATCTGCTCCACTA
* * * * * ** * *
12246676 CAACCTCAGGGAGATAAAACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * *
12246717 CAACTTCAGAGAGAAAAGATCTATTACTTTAATCTGCTCCGCGA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** * * *
12246761 CAACTTCAAGGAGATAGGAT-TATCGGCTTCAATCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * *** * * *
12246805 CAACCTCAGGGAGATAATATGTGCCATCTTTGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * * * *
12246850 CAACTTTAGAGG-GATAAGACCTGCTTAC-TCAGTTTGCTCCACTG
1 CAACTTCAG-GGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * ** * *
12246894 CAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTA-TGG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT-A
* * * *
12246935 CAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCAACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** * *
12246979 CAATTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * *** ** * * *
12247023 CAACCTCAAGGAGATAAGATTTGCCATCTTCGATCTGCCCCCCTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * ** * ** *
12247068 CAACTTCAGGGGGATAATACCTGCTTAC-CCAGTCTGCTCTGCTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * ** * *
12247112 CAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * *
12247153 CAACTTCAGAGAGATAAGATCCATTACTTTAAT-TCGCTCTACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCT-GCTCCACTA
* * * ** * *
12247197 CAATTTCAAGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * * * * * *
12247241 CAACCTCAGAGAGATAAGATTTGTCATCTTTGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * * * ** *
12247286 CAACTTCAGGGGGATAATACCTGCTTAC-TCAGTCTGCTCTGCTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * ** *
12247330 CAACCTCAGGGAGATAAGACCTGA-TGCGATCCAT-T-CT--ACTG
1 CAACTTCAGGGAGATAAGATCT-ATTAC-TTTAATCTGCTCCACTA
* * *
12247371 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGTTCCGCTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* ** * *
12247415 CAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * *** * * *
12247459 CAACCTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * ***
12247504 CAACTTTA-GGAGGATGAGACCTACTTAC-TTAGTCTGCTGTGCTA
1 CAACTTCAGGGA-GATAAGATCTA-TTACTTTAATCTGCTCCACTA
* * * * ** * *
12247548 CAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * *
12247589 TAACTTTAGAGAGATAAGATCTATTACTTTAATCCGCTCCGCTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * * * *
12247633 CAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* *
12247677 CAACCTCAGAGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
12247697 TTTCCATCTT
Statistics
Matches: 1128, Mismatches: 374, Indels: 174
0.67 0.22 0.10
Matches are distributed among these distances:
40 11 0.01
41 184 0.16
42 2 0.00
43 63 0.06
44 627 0.56
45 225 0.20
46 14 0.01
48 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
Found at i:12247714 original size:45 final size:44
Alignment explanation
Indices: 12247596--12247725 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 44
12247586 CTGTAACTTT
* * * * * *
12247596 AGAGAGATAAGATCTAT-TACTTTAATCCGCTCCGCTACAACTTC
1 AGAGAGATAAGAT-TATCCACTTCAATCTGCCCCACTACAACCTC
* * * *
12247640 AGGGAGATAGGATTATCGACTTCAATCTGCCCCACTGCAACCTC
1 AGAGAGATAAGATTATCCACTTCAATCTGCCCCACTACAACCTC
* *
12247684 AGAGAGATAAGATTTTCCATCTTCGATCTGCCCCACTACAAC
1 AGAGAGATAAGATTATCCA-CTTCAATCTGCCCCACTACAAC
12247726 TTCAATAGGA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
43 3 0.04
44 46 0.67
45 20 0.29
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (44 bp):
AGAGAGATAAGATTATCCACTTCAATCTGCCCCACTACAACCTC
Found at i:12249850 original size:6 final size:6
Alignment explanation
Indices: 12249847--12249892 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
12249837 TTTCTTTTAT
* *
12249847 TTTTTA TTTTGA TTTTGA TTTTGA TTTTTA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
12249893 TCTCCTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:12249850 original size:22 final size:22
Alignment explanation
Indices: 12249807--12249851 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
12249797 CGCCTTGGCC
*
12249807 TCTTCTTTTTCTTTTTTCTTTT
1 TCTTCTTTTTCTTTTATCTTTT
12249829 TCTTCTTCTTTCTTTTAT-TTTT
1 TCTTCTT-TTTCTTTTATCTTTT
12249851 T
1 T
12249852 ATTTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (22 bp):
TCTTCTTTTTCTTTTATCTTTT
Found at i:12256630 original size:25 final size:24
Alignment explanation
Indices: 12256602--12256654 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
12256592 TTATAAATTG
*
12256602 TAATATATATTTATT-ATTAAAATAT
1 TAATATA-ATTT-TTAAATAAAATAT
12256627 TAATATAATTTTTAAAATAAAATAT
1 TAATATAATTTTT-AAATAAAATAT
12256652 TAA
1 TAA
12256655 GAATATTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 2 0.08
24 4 0.16
25 19 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATATAATTTTTAAATAAAATAT
Found at i:12258422 original size:123 final size:120
Alignment explanation
Indices: 12258227--12258574 Score: 500
Period size: 123 Copynumber: 2.8 Consensus size: 120
12258217 TAATCTCGAG
* ** *
12258227 TTGAAGTTTCTGATAAAATAGTATAAAATCACTTCTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA--A-GATGCTATTTGAGAAGAATTTGTG
12258292 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATAATCATTTTT
63 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAAT-AT--TTTTT
12258353 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
* * * * * *
12258418 TCGCGGCATCGT-CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTTT
66 TCGCGCCCTCGTGGA-CGTGCTTTTGCTACAGTAGGTCACGGAAGAAATATTTTTT
*
12258473 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAAGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT---AAGATGCTATTTGAGAAGAATTTGTG
12258538 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
63 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
12258575 CATGTTTGGG
Statistics
Matches: 202, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
120 40 0.20
122 3 0.01
123 124 0.61
124 2 0.01
126 33 0.16
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (120 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
TCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATATTTTTT
Found at i:12261630 original size:30 final size:29
Alignment explanation
Indices: 12261591--12261854 Score: 335
Period size: 30 Copynumber: 9.0 Consensus size: 29
12261581 NNNNNNNNAA
12261591 TTAGG-TTAGGGTTTTTAATTAAATTAGG
1 TTAGGTTTAGGGTTTTTAATTAAATTAGG
12261619 TTAGGATTTAGGGTTTTTAATTAAATTAGG
1 TTAGG-TTTAGGGTTTTTAATTAAATTAGG
*
12261649 TTAGGGTTTAGGGTTTTTAATTAAATTAAG
1 TTA-GGTTTAGGGTTTTTAATTAAATTAGG
* *
12261679 TTAGGGTTAGGGTTTTTAATTAAATTAAG
1 TTAGGTTTAGGGTTTTTAATTAAATTAGG
*
12261708 TTAGGGTTAGGGTTTTTAATT-AA-T---
1 TTAGGTTTAGGGTTTTTAATTAAATTAGG
12261732 TTAGG-TTAGGGTTTTTAATTAATTTAGGTTAGGG
1 TTAGGTTTAGGGTTTTTAATTAA---A--TTA-GG
12261766 TTAGGGTTTAGGGTTTTTAATTAAATTAGG
1 TTA-GGTTTAGGGTTTTTAATTAAATTAGG
* *
12261796 TTAGGGTTATGGTTTTTAATTAAATTAGG
1 TTAGGTTTAGGGTTTTTAATTAAATTAGG
12261825 TTAGTGTTTAGGGTTTTTAATTAAATTAGG
1 TTAG-GTTTAGGGTTTTTAATTAAATTAGG
12261855 ATTTTTATTA
Statistics
Matches: 213, Mismatches: 6, Indels: 32
0.85 0.02 0.13
Matches are distributed among these distances:
23 15 0.07
24 6 0.03
27 2 0.01
28 7 0.03
29 74 0.35
30 81 0.38
31 5 0.02
33 1 0.00
34 3 0.01
35 2 0.01
36 17 0.08
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (29 bp):
TTAGGTTTAGGGTTTTTAATTAAATTAGG
Found at i:12261689 original size:29 final size:29
Alignment explanation
Indices: 12261594--12261854 Score: 350
Period size: 29 Copynumber: 8.9 Consensus size: 29
12261584 NNNNNAATTA
12261594 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12261623 GATTTAGGGTTTTTAATTAAATTAGGTTAG
1 G-GTTAGGGTTTTTAATTAAATTAGGTTAG
*
12261653 GGTTTAGGGTTTTTAATTAAATTAAGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
12261683 GGTTAGGGTTTTTAATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12261712 GGTTAGGGTTTTTAATTAATTTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
**
12261741 GGTT----TTTAATTAATTTAGGTTAGGGTTAG
1 GGTTAGGGTTT--TTAA-TTAAATTA-GGTTAG
12261770 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
*
12261800 GGTTATGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
12261829 TGTTTAGGGTTTTTAATTAAATTAGG
1 -GGTTAGGGTTTTTAATTAAATTAGG
12261855 ATTTTTATTA
Statistics
Matches: 208, Mismatches: 12, Indels: 23
0.86 0.05 0.09
Matches are distributed among these distances:
25 3 0.01
27 4 0.02
28 6 0.03
29 93 0.45
30 89 0.43
31 6 0.03
32 4 0.02
34 3 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:12261712 original size:59 final size:59
Alignment explanation
Indices: 12261596--12261854 Score: 366
Period size: 59 Copynumber: 4.4 Consensus size: 59
12261586 NNNAATTAGG
*
12261596 TTAGGGTTTTTAATTAAATTAGGTTAGGATTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGG-GTTAGGGTTTTTAATTAAATTAGGTTAGGGT
* *
12261656 TTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
* **
12261714 TTAGGGTTTTTAATTAATTTAGGTTAGGGTT----TTTAATTAATTTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT--TTAA-TTAAATTA-GGTTAGGGT
* *
12261773 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGTGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
12261832 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
12261855 ATTTTTATTA
Statistics
Matches: 178, Mismatches: 12, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
54 3 0.02
56 4 0.02
57 6 0.03
58 36 0.20
59 89 0.50
60 33 0.19
61 4 0.02
63 3 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (59 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
Found at i:12261777 original size:36 final size:36
Alignment explanation
Indices: 12261737--12261854 Score: 136
Period size: 36 Copynumber: 3.6 Consensus size: 36
12261727 TTAATTTAGG
*
12261737 TTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
12261773 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTA----
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
12261805 -T--GGTTTTTAATTAAATTAGGTTA--G-T---GT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
12261832 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
12261855 ATTTTTATTA
Statistics
Matches: 76, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 1 0.01
29 22 0.29
30 19 0.25
31 1 0.01
36 31 0.41
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.48
Consensus pattern (36 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
Done.