Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 82 of 438
Found at i:22239879 original size:25 final size:25
Alignment explanation
Indices: 22239757--22239883 Score: 90
Period size: 25 Copynumber: 5.3 Consensus size: 25
22239747 ATTCGGCCTT
* *
22239757 ATCACATATATGCATACTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
22239782 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
**
22239804 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
22239829 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
22239851 ATCACATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
22239876 ATCACATA
1 ATCACATA
22239884 AAATCCTAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
22 20 0.27
23 12 0.16
24 12 0.16
25 30 0.41
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.32
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:22239914 original size:94 final size:91
Alignment explanation
Indices: 22239717--22239903 Score: 236
Period size: 94 Copynumber: 2.0 Consensus size: 91
22239707 CTTATCACAC
* *
22239717 ATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATACTCACATTC
1 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACACTCACATTC
** * * *
22239782 ATCACATTGGCCATTCGGCCTTATCACAT
66 ATCACATT-GAAAAT--GCCTAATCAAAT
*
22239811 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTC
1 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACACTCACATTC
22239876 ATCACA-T-AAAAT-CCTAAATCAAAAT
66 ATCACATTGAAAATGCCT-AATC-AAAT
22239901 ATA
1 ATA
22239904 AATTTTCATG
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
88 3 0.04
89 3 0.04
90 6 0.07
91 2 0.02
93 1 0.01
94 68 0.82
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (91 bp):
ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACACTCACATTC
ATCACATTGAAAATGCCTAATCAAAT
Found at i:22248997 original size:38 final size:38
Alignment explanation
Indices: 22248917--22249106 Score: 186
Period size: 38 Copynumber: 4.9 Consensus size: 38
22248907 ATTTGATGTG
* *
22248917 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTAA-TA
* *
22248957 TATCCGGGTTAAATCCAGCAGGCTTCGTGTTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
22248995 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
22249033 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
22249071 TATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
22249107 GACTAGATTC
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 89 0.70
39 13 0.10
40 25 0.20
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:22249027 original size:76 final size:77
Alignment explanation
Indices: 22248924--22249105 Score: 224
Period size: 76 Copynumber: 2.4 Consensus size: 77
22248914 GTGTATCCGG
* * * * **
22248924 GCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCAGCAGGCTTCGTGTTG
1 GCTTAAAGTCCCGCAGGCT-TGTGCTGGAATTATATCCGGGTTAAATCCAGCAGGCCTAGTACTG
22248989 GTAATATATCTG-
65 GTAATATATCTGA
* * *
22249001 GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTACTG
1 GCTTAAAGTCCCGCAGGCTT-GTGCTGGAATTATATCCGGGTTAAATCCAGCAGGCCTAGTACTG
*
22249065 GTATTATATCTGA
65 GTAATATATCTGA
*
22249078 GCTTAAAGTCCCGCAGGTTTTGTGCTGG
1 GCTTAAAGTCCCGCAGG-CTTGTGCTGG
22249106 TGACTAGATT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
75 1 0.01
76 58 0.65
77 12 0.13
78 16 0.18
79 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (77 bp):
GCTTAAAGTCCCGCAGGCTTGTGCTGGAATTATATCCGGGTTAAATCCAGCAGGCCTAGTACTGG
TAATATATCTGA
Found at i:22249717 original size:16 final size:18
Alignment explanation
Indices: 22249686--22249718 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22249676 AGTTCATCAC
22249686 ACTATTGATCATTTTGGT
1 ACTATTGATCATTTTGGT
22249704 ACTATT-AT-ATTTTGG
1 ACTATTGATCATTTTGG
22249719 AGTTGATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (18 bp):
ACTATTGATCATTTTGGT
Found at i:22259689 original size:38 final size:38
Alignment explanation
Indices: 22259644--22259785 Score: 176
Period size: 38 Copynumber: 3.7 Consensus size: 38
22259634 TATATGTTGT
* *
22259644 TATTATATCTTGGTTAAATCCTGCAGGCTTCGTGCTGG
1 TATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
22259682 TAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
* * * *
22259720 TATTATATCTGGGCTAAATCCCGTAGGCCTAGTGCTGG
1 TATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
22259758 TATTATATCTAAGCTTAAAGTCCCGCAG
1 TATTATATCT-GGGTTAAA-TCCCGCAG
22259786 TTTTGTGCTG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 76 0.86
39 5 0.06
40 7 0.08
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (38 bp):
TATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:22261067 original size:24 final size:22
Alignment explanation
Indices: 22261040--22261086 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
22261030 GAACTTTAAT
*
22261040 ATCTCTTGGTATACTGTTCATATG
1 ATCTCTTCGT-TACT-TTCATATG
*
22261064 ATCTTTTCGTTACTTTCATATG
1 ATCTCTTCGTTACTTTCATATG
22261086 A
1 A
22261087 AAATAGACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (22 bp):
ATCTCTTCGTTACTTTCATATG
Found at i:22275515 original size:66 final size:68
Alignment explanation
Indices: 22275439--22275625 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
22275429 TAGTACCACT
*
22275439 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
22275501 CACG
65 CACG
22275505 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
22275570 ATCACG
63 ATCACG
22275576 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
22275626 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:22275550 original size:71 final size:71
Alignment explanation
Indices: 22275462--22275625 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22275452 CGATTTGTCT
22275462 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22275527 CTTTCA
66 CTTTCA
22275533 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22275598 CTTTCA
66 CTTTCA
22275604 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22275626 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22275663 original size:71 final size:70
Alignment explanation
Indices: 22275462--22275659 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
22275452 CGATTTGTCT
* * *
22275462 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22275527 CTTTCA
65 CTTTCA
* * *
22275533 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
22275598 CTTTCA
65 CTTTCA
* *
22275604 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
22275660 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22277367 original size:17 final size:17
Alignment explanation
Indices: 22277302--22277368 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 17
22277292 AAAAATGGAA
22277302 ATAAATAAATAA-AAATT
1 ATAAA-AAATAATAAATT
22277319 -TAGAAAAATATATATAATCT
1 ATA-AAAAATA-ATA-AAT-T
*
22277339 A-AAAACAT-ATAAATT
1 ATAAAAAATAATAAATT
22277354 ATAAAAAATAATAAA
1 ATAAAAAATAATAAA
22277369 AATAAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
15 2 0.05
16 16 0.40
17 11 0.28
18 1 0.03
19 8 0.20
20 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (17 bp):
ATAAAAAATAATAAATT
Found at i:22277522 original size:23 final size:22
Alignment explanation
Indices: 22277470--22277522 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
22277460 AAAACTTTCT
*
22277470 TTTAAAAATATATTTTATAAAAA
1 TTTAAAAATATATATTAT-AAAA
22277493 TTT-AAAATATATAATTAT-AAA
1 TTTAAAAATATAT-ATTATAAAA
22277514 TTCTAAAAA
1 TT-TAAAAA
22277523 GGTATACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.19
22 10 0.38
23 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAAATATATATTATAAAA
Found at i:22278072 original size:15 final size:14
Alignment explanation
Indices: 22278042--22278089 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
22278032 AAATATTAAT
*
22278042 ATAAAATTCATATA
1 ATAAAATCCATATA
*
22278056 ATAAAATCTATTATA
1 ATAAAATCCA-TATA
*
22278071 ATGAAATCCATATA
1 ATAAAATCCATATA
22278085 ATAAA
1 ATAAA
22278090 TGAATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAAAATCCATATA
Found at i:22285956 original size:46 final size:45
Alignment explanation
Indices: 22285870--22285988 Score: 132
Period size: 46 Copynumber: 2.6 Consensus size: 45
22285860 ATTTCGTAGT
* * *
22285870 CGATGCTTGTCCCAAACATGTCTTACACAGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACAGACTTA-GTCTCGAGGC
* *
22285916 CGATGCATGTCCCAGACATGTCTTACATTAGCACTT-GTCTCGATGC
1 CGATGCATGTCCCAGACATGTCTTACA-CAG-ACTTAGTCTCGAGGC
*
22285962 TGATGCCATGTCCCAGACATGTTCTTA
1 CGATG-CATGTCCCAGACATG-TCTTA
22285989 TACTGGCTCT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 38 0.60
47 17 0.27
48 8 0.13
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACAGACTTAGTCTCGAGGC
Found at i:22286033 original size:140 final size:141
Alignment explanation
Indices: 22285773--22286037 Score: 313
Period size: 140 Copynumber: 1.9 Consensus size: 141
22285763 TGGGTAAGGT
* * * *
22285773 GCCGATGCCATGTCCTAGACACGGTCTTACAATAACTCATATCTCATGTTGATGCCATGTCCTAG
1 GCCGATGCCATGTCCCAGACACGGTCTTACAATAACACATATCTCATGCTGATGCCATGTCCCAG
* **
22285838 ACATGGTCTTACACTGACTATCATTTCGTAGTCGATGCTTGTCCCAAACATGTCTTACACAGGCT
66 ACATGGTCTTACACTGACTATCATATCGTAGTCGATGCACGTCCCAAACATGTCTTACACAGGCT
22285903 TACGTCTCGAG
131 TACGTCTCGAG
* * * * *
22285914 GCCGATG-CATGTCCCAGACA-TGTCTTACATTAGCACTTGTCTCGATGCTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACACGGTCTTACAATAACACATATCTC-ATGCTGATGCCATGTCCCA
* * * * * *
22285977 GACATGTTCTTATACTGGCTCTCATAAT-GT-GGCTGATGCACGTCCCAGACATGTCTTACAC
65 GACATGGTCTTACACTGACTATCAT-ATCGTAGTC-GATGCACGTCCCAAACATGTCTTACAC
22286038 TAGCCCACCA
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
139 19 0.18
140 76 0.74
141 8 0.08
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACACGGTCTTACAATAACACATATCTCATGCTGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCATATCGTAGTCGATGCACGTCCCAAACATGTCTTACACAGGCT
TACGTCTCGAG
Found at i:22286050 original size:47 final size:48
Alignment explanation
Indices: 22285960--22286050 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 48
22285950 TTGTCTCGAT
* * * * *
22285960 GCTGATGCCATGTCCCAGACATGTTCTTATACTGGCTCTCATAATGTG
1 GCTGATGCCACGTCCCAGACATGTTCTTACACTAGCCCCCATAATGTG
22286008 GCTGATG-CACGTCCCAGACATG-TCTTACACTAGCCCACCATAA
1 GCTGATGCCACGTCCCAGACATGTTCTTACACTAGCCC-CCATAA
22286051 CCTATGTGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 11 0.30
47 19 0.51
48 7 0.19
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCTGATGCCACGTCCCAGACATGTTCTTACACTAGCCCCCATAATGTG
Found at i:22288821 original size:45 final size:45
Alignment explanation
Indices: 22288761--22288848 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
22288751 GAACTATGTG
* *
22288761 ATCTGAACTAATTGAGTTATGGTCTGAGTACGTGATATATGTGGC
1 ATCTAAACTAATTGAGTTATGGTCTGAGTACATGATATATGTGGC
* * *
22288806 ATCTAAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTG
1 ATCTAAACTAATTGAGTTATGGTCTGAGTACATGATATATGTG
22288849 ACACGTGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (45 bp):
ATCTAAACTAATTGAGTTATGGTCTGAGTACATGATATATGTGGC
Found at i:22297802 original size:40 final size:39
Alignment explanation
Indices: 22297585--22297817 Score: 313
Period size: 39 Copynumber: 5.9 Consensus size: 39
22297575 TGTGTATGAA
* * *
22297585 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
22297624 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
22297663 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
22297702 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
22297741 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCAGT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
22297781 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
22297818 GTTTGAACGA
Statistics
Matches: 174, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 133 0.76
40 41 0.24
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.22
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:22299845 original size:28 final size:28
Alignment explanation
Indices: 22299801--22299868 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
22299791 ATGAAAATTT
* * * * *
22299801 CACTAAGCGTGCGAGTTTGGTTAACGAG
1 CACTAAGTGTGCAAGTTTGATTAACAAA
*
22299829 CACTAAGTGTGCAAGTTTGATTATCAAA
1 CACTAAGTGTGCAAGTTTGATTAACAAA
22299857 CACTAAGTGTGC
1 CACTAAGTGTGC
22299869 GAAGGAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (28 bp):
CACTAAGTGTGCAAGTTTGATTAACAAA
Found at i:22304608 original size:68 final size:64
Alignment explanation
Indices: 22304517--22304726 Score: 217
Period size: 67 Copynumber: 3.2 Consensus size: 64
22304507 TAATACGAGA
* * *
22304517 TGTATACCATGT-GTACAAGAGAGCTACGAGACATTATGAGGTAGTTAGGTCGCATGGGTGATAC
1 TGTACACCATGTAG-ACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATAC
22304581 TATG
61 TATG
* * * * *
22304585 TGTACACCATGTAGACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCTAGGT
1 TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--T
22304650 G
64 G
* * * * *
22304651 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
22304715 TGTACACCATGT
1 TGTACACCATGT
22304727 GTACAAAAGA
Statistics
Matches: 119, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
63 10 0.08
64 25 0.21
65 2 0.02
66 24 0.20
67 30 0.25
68 27 0.23
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (64 bp):
TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:22309795 original size:2 final size:2
Alignment explanation
Indices: 22309788--22309818 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22309778 TGAGGTAAGA
22309788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22309819 AAGAATGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22310485 original size:14 final size:14
Alignment explanation
Indices: 22310466--22310501 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
22310456 ATGCCATGAA
22310466 GTGAGTGTAAGTAT
1 GTGAGTGTAAGTAT
22310480 GTGAGTGTAAGTAT
1 GTGAGTGTAAGTAT
22310494 GTGAGTGT
1 GTGAGTGT
22310502 TTAAGGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (14 bp):
GTGAGTGTAAGTAT
Found at i:22318198 original size:19 final size:17
Alignment explanation
Indices: 22318174--22318216 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
22318164 TGGGCCATTT
*
22318174 TGGGCCGAACTGGGCCGTG
1 TGGGCCCAA-TGGG-CGTG
*
22318193 TGGGCCCAATGGGCTTG
1 TGGGCCCAATGGGCGTG
22318210 TGGGCCC
1 TGGGCCC
22318217 TACACGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (17 bp):
TGGGCCCAATGGGCGTG
Found at i:22319989 original size:46 final size:46
Alignment explanation
Indices: 22319934--22320058 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
22319924 GGTTGAGCAT
* * *
22319934 CCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
22319980 CGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
22320026 CCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22320059 AGGGCGGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:22323981 original size:14 final size:14
Alignment explanation
Indices: 22323962--22323988 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22323952 ATATTTGGCT
22323962 TGTTCTTAATTATG
1 TGTTCTTAATTATG
22323976 TGTTCTTAATTAT
1 TGTTCTTAATTAT
22323989 TGTCTTCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:22339127 original size:40 final size:39
Alignment explanation
Indices: 22339073--22339267 Score: 176
Period size: 39 Copynumber: 4.9 Consensus size: 39
22339063 GAATTCAATC
* * *
22339073 ACCAACACAAAGCCTACGGGACTTTAAG-CTCGGATATAGT
1 ACCAGCACGAAGCCTAC-GGACCTTAAGTC-CGGATATAGT
* *
22339113 ACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGT
1 ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATATAGT
** * * *
22339152 ACCAGCACGAAGCCTGTGGATCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATATAGT
* * *** * * *
22339191 TCCAGCACGAAGCCTGCGGGTTTTTAAGCCCGGATACAAT
1 ACCAGCACGAAGCCTAC-GGACCTTAAGTCCGGATATAGT
* *
22339231 TCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATA
1 ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATATA
22339268 CATCAAATAT
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 83 0.62
40 50 0.38
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (39 bp):
ACCAGCACGAAGCCTACGGACCTTAAGTCCGGATATAGT
Found at i:22339146 original size:39 final size:39
Alignment explanation
Indices: 22339103--22339267 Score: 204
Period size: 39 Copynumber: 4.2 Consensus size: 39
22339093 ACTTTAAGCT
* *
22339103 CGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTC
1 CGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTC
* * *
22339142 CGGATATAGTACCAGCACGAAGCCTGTGGATCTTAAGTC
1 CGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTC
* * *** *
22339181 CGGATACAATTCCAGCACGAAGCCTGCGGGTTTTTAAGCC
1 CGGATATAATACCAGCACGAAGCCTGC-GGACCTTAAGTC
* *
22339221 CGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTC
1 CGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTC
22339260 CGGATATA
1 CGGATATA
22339268 CATCAAATAT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
39 74 0.67
40 36 0.33
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (39 bp):
CGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTC
Found at i:22341704 original size:50 final size:50
Alignment explanation
Indices: 22341585--22341830 Score: 255
Period size: 49 Copynumber: 4.9 Consensus size: 50
22341575 TAGTCGAAGC
* * * * * * *
22341585 TATCTGGTACGCATTGTAGCCTACACTTAGTACTACACATGCGA-CAAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
22341634 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTAAACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
22341684 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACGCGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
** * * * *
22341735 TAT-TAGGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACC-AAT
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
*
22341784 TATCTGGTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
22341831 CACAATAGCT
Statistics
Matches: 157, Mismatches: 35, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
49 74 0.47
50 49 0.31
51 34 0.22
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:22341806 original size:100 final size:101
Alignment explanation
Indices: 22341647--22341827 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 101
22341637 CCGGTACACG
* *
22341647 TAGTAGCCTGCACTTAGTACTAAACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTAAACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
22341712 AGTACTACACGCGTGATCGAAGTTATTAGGTATGCA
66 AATACTACACACGTGATCGAAGTTATTAGGTATGCA
* * ** *
22341748 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTAAACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
22341812 AATACTACACACGTGA
66 AATACTACACACGTGA
22341828 CCTCACAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 42 0.59
101 29 0.41
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTAAACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AATACTACACACGTGATCGAAGTTATTAGGTATGCA
Found at i:22354844 original size:30 final size:30
Alignment explanation
Indices: 22354810--22354867 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
22354800 TTTTCGAGCA
* *
22354810 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
22354840 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
22354868 GTGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:22357466 original size:41 final size:40
Alignment explanation
Indices: 22357385--22357466 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
22357375 GAGGGTATTT
** * *
22357385 GGCACTAAGTGTGCGATTTATACTAGCTTCGGCTACTTGA
1 GGCACTAAGTGTGCGATACAGACTAGCTTCGGCTAATTGA
* **
22357425 GGCACTAAGTGTGCGATACCGACTTAGCTTCGTTTAATTGA
1 GGCACTAAGTGTGCGATACAGAC-TAGCTTCGGCTAATTGA
22357466 G
1 G
22357467 ATGGCACTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 19 0.56
41 15 0.44
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATACAGACTAGCTTCGGCTAATTGA
Found at i:22364612 original size:41 final size:39
Alignment explanation
Indices: 22364531--22364651 Score: 100
Period size: 44 Copynumber: 2.9 Consensus size: 39
22364521 GAGGGTATTT
*
22364531 GGCACTAAGTGTGCGATTTATACTAGCTTCGGCTACTTGA
1 GGCACTAAGTGTGCGA-TTATACTAGCTTCGGCTAATTGA
**
22364571 GGCACTAAGTGTGCGA-TACTGACTTAGCTTCGTTTAATTGA
1 GGCACTAAGTGTGCGATTA-T-AC-TAGCTTCGGCTAATTGA
* * *
22364612 GATAGCACTAAGTATGCAGAATTGTTCTAGCTTCGGCTAA
1 G---GCACTAAGTGTGC-G-ATTATACTAGCTTCGGCTAA
22364652 CCTTTATAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
38 2 0.03
39 1 0.02
40 18 0.28
41 15 0.23
44 23 0.36
45 2 0.03
46 2 0.03
47 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (39 bp):
GGCACTAAGTGTGCGATTATACTAGCTTCGGCTAATTGA
Found at i:22365901 original size:27 final size:27
Alignment explanation
Indices: 22365871--22365935 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
22365861 TTTAAAACCC
22365871 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAAT-TCGGTAATTTTGCTCTT
22365898 TAGGGGTAATTCGGTAATTTTGCTCTT
1 TAGGGGTAATTCGGTAATTTTGCTCTT
*
22365925 TAAGGGTAATT
1 TAGGGGTAATT
22365936 TCATGTTCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (27 bp):
TAGGGGTAATTCGGTAATTTTGCTCTT
Found at i:22367581 original size:20 final size:20
Alignment explanation
Indices: 22367558--22367595 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22367548 CACATCCAAA
*
22367558 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
22367578 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
22367596 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:22367994 original size:48 final size:48
Alignment explanation
Indices: 22367937--22368033 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
22367927 TGTGAAAGTA
22367937 TGTTTTTGTGATGTATATACTTAACCATGTGATTTGGCTAATTTGTGC
1 TGTTTTTGTGATGTATATACTTAACCATGTGATTTGGCTAATTTGTGC
22367985 TGTTTTTGTGATGTATATACTTAACCATGTGATTTGGCTAATTTGTGC
1 TGTTTTTGTGATGTATATACTTAACCATGTGATTTGGCTAATTTGTGC
22368033 T
1 T
22368034 TGAAATCACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (48 bp):
TGTTTTTGTGATGTATATACTTAACCATGTGATTTGGCTAATTTGTGC
Found at i:22371000 original size:39 final size:39
Alignment explanation
Indices: 22370933--22371194 Score: 382
Period size: 39 Copynumber: 6.7 Consensus size: 39
22370923 ACAAAGCATG
* * *
22370933 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
22370973 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* * * *
22371013 TGGGGCTTAGCCCGGATATAACGCTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
22371052 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
22371091 CGGGACTTAGCCCGGATATAACACCAGCACAAATTCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
22371130 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
22371169 CGGGACTTAACCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
22371195 TTATAAAGTC
Statistics
Matches: 202, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 183 0.91
40 19 0.09
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:22371300 original size:28 final size:28
Alignment explanation
Indices: 22371267--22371339 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
22371257 ATTTAATCAT
*
22371267 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
* *
22371295 TCAATATCTCGCACATTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
*
22371323 TCAATATTTCGTACACT
1 TCAATATTTCGCACACT
22371340 GAGTACCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGTCATTC
Found at i:22388828 original size:85 final size:85
Alignment explanation
Indices: 22388685--22388855 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
22388675 TGTTAGAAAA
22388685 ATATCGGGACTAAATTGAGAACTTAGAGAATTTTTAACGAGATTTCTAAAATTTTCCAAGATACA
1 ATATCGGGACTAAATTGAGAACTTAGAGAATTTTTAACGAGATTTCTAAAATTTTCCAAGATACA
22388750 GGGCACACACGCCCGTGTGG
66 GGGCACACACGCCCGTGTGG
22388770 ATATCGGGACTAAATTGAGAACTTAGAGAATTTTTAACGAGATTTCTAAAATTTTCCAAGATACA
1 ATATCGGGACTAAATTGAGAACTTAGAGAATTTTTAACGAGATTTCTAAAATTTTCCAAGATACA
22388835 GGGCACACACGCCCGTGTGG
66 GGGCACACACGCCCGTGTGG
22388855 A
1 A
22388856 CCAAGGGACA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (85 bp):
ATATCGGGACTAAATTGAGAACTTAGAGAATTTTTAACGAGATTTCTAAAATTTTCCAAGATACA
GGGCACACACGCCCGTGTGG
Found at i:22388866 original size:22 final size:22
Alignment explanation
Indices: 22388841--22388897 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
22388831 TACAGGGCAC
22388841 ACACGCCCGTGTGGACCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
22388863 ACACGCCCGTGTGGACCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
22388885 ACACGCCCGTGTG
1 ACACGCCCGTGTG
22388898 ACCTTAGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.21, C:0.33, G:0.35, T:0.11
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:22390800 original size:31 final size:31
Alignment explanation
Indices: 22390757--22390820 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
22390747 CCTTTTCATA
*
22390757 TTTCATAGTTCATAAGACTGGGTCGAAGCCT
1 TTTCATAGTTCATAAGACTGGGCCGAAGCCT
* **
22390788 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAGTTCATAAGACTGGGCCGAAGCCT
22390819 TT
1 TT
22390821 ACTGTAACCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (31 bp):
TTTCATAGTTCATAAGACTGGGCCGAAGCCT
Found at i:22391089 original size:23 final size:24
Alignment explanation
Indices: 22391013--22391156 Score: 213
Period size: 24 Copynumber: 6.0 Consensus size: 24
22391003 ACTTTATCAT
*
22391013 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
22391038 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
*
22391063 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22391086 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22391110 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22391134 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22391157 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
23 23 0.21
24 58 0.52
25 24 0.22
26 6 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22391227 original size:20 final size:20
Alignment explanation
Indices: 22391202--22391272 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
22391192 GCATTTATGA
*
22391202 ACATATCGTGTGCATATCAT
1 ACATATCATGTGCATATCAT
22391222 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
**
22391242 ACACGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22391262 ACATATCATGT
1 ACATATCATGT
22391273 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:22393244 original size:57 final size:58
Alignment explanation
Indices: 22393183--22393296 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 58
22393173 CATTTCCAAA
* * * *
22393183 ATATGCTCACA-AGAGCTTA-ATCAGGATTACCCGTCCGGGCCAAATCCTATCTGTAAC
1 ATATGCTCA-AGAGAGCTTATATCAAGATTACCAGCCCAGGCCAAATCCTATCTGTAAC
* * *
22393240 ATATGCTCAAGAGGGCTTATATCAAGATTACCAGCCCAGGCTAAATCCTTTCTGTAA
1 ATATGCTCAAGAGAGCTTATATCAAGATTACCAGCCCAGGCCAAATCCTATCTGTAA
22393297 TAACGTCAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 1 0.02
57 16 0.33
58 31 0.65
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (58 bp):
ATATGCTCAAGAGAGCTTATATCAAGATTACCAGCCCAGGCCAAATCCTATCTGTAAC
Found at i:22412872 original size:24 final size:23
Alignment explanation
Indices: 22412811--22412873 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
22412801 CGGACACACC
* *
22412811 ACAGCTCATATGAGCTTCCTGTT
1 ACAGCTCGTATGAGCTTCCAGTT
* *
22412834 ATTTAGCTCGCATGAGCTTCCAGCTT
1 A--CAGCTCGTATGAGCTTCCAG-TT
22412860 ACAGCTCGTATGAG
1 ACAGCTCGTATGAG
22412874 TATACAAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 1 0.03
24 11 0.35
25 16 0.52
26 3 0.10
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (23 bp):
ACAGCTCGTATGAGCTTCCAGTT
Found at i:22417419 original size:9 final size:9
Alignment explanation
Indices: 22417405--22417432 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22417395 TGAATTGAGT
22417405 CTTCAACTC
1 CTTCAACTC
22417414 CTTCAACTC
1 CTTCAACTC
22417423 CTTCAACTC
1 CTTCAACTC
22417432 C
1 C
22417433 ATTGGAGGTA
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:0.21, C:0.46, G:0.00, T:0.32
Consensus pattern (9 bp):
CTTCAACTC
Found at i:22421971 original size:43 final size:43
Alignment explanation
Indices: 22421910--22422104 Score: 336
Period size: 43 Copynumber: 4.5 Consensus size: 43
22421900 GCTGGTATTA
* *
22421910 TATTCGGGCCTTCGTGCCTAGCATGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
22421953 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
22421996 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
22422039 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
22422082 TATTCGGGCCTTTGAGCCTAGCA
1 TATTCGGGCCTTCGTGCCTAGCA
22422105 TGCTATAATG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:22423749 original size:21 final size:20
Alignment explanation
Indices: 22423712--22423750 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
22423702 CTCTTGAAAC
22423712 AGGGAACACGCCAGTGTGAA
1 AGGGAACACGCCAGTGTGAA
* *
22423732 AGGGCAACATGCCCGTGTG
1 AGGG-AACACGCCAGTGTG
22423751 GTCATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.23, G:0.36, T:0.13
Consensus pattern (20 bp):
AGGGAACACGCCAGTGTGAA
Found at i:22424014 original size:13 final size:13
Alignment explanation
Indices: 22423996--22424027 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
22423986 ACTTAAGGGT
22423996 CACACGGCCAAGG
1 CACACGGCCAAGG
22424009 CACACGGCCAAGG
1 CACACGGCCAAGG
22424022 CACACG
1 CACACG
22424028 CCCGTGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.41, G:0.28, T:0.00
Consensus pattern (13 bp):
CACACGGCCAAGG
Found at i:22425082 original size:48 final size:47
Alignment explanation
Indices: 22424871--22425100 Score: 200
Period size: 48 Copynumber: 4.8 Consensus size: 47
22424861 GGTATAATAA
* * * *
22424871 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCC--ATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCCATATC-AGG
* * *
22424918 CGATGCCATGTCCCATACATGGTCTTACACTGACTA-TCGAAATCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACTCCATATC-AGG
** * * *
22424966 CTGACACCATGTCCTAGACATGGTCTTACACT-AGCTCTCACATATCCGCG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGA-CACTC-CATATCAG-G
* *
22425016 CTGATGCCATGTCCCAGACATGGTCTTACACTGACAACTCTATA-CATGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGAC-ACTCCATATCA-GG
22425065 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC
22425101 ATCTCGTAGC
Statistics
Matches: 150, Mismatches: 22, Indels: 22
0.77 0.11 0.11
Matches are distributed among these distances:
46 2 0.01
47 33 0.22
48 40 0.27
49 32 0.21
50 39 0.26
51 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCATATCAGG
Found at i:22425153 original size:40 final size:39
Alignment explanation
Indices: 22425080--22425159 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 39
22425070 CCATGTCCCA
*
22425080 GACATGGTCTTACACTGACACATCTCGTAGCCGATGCAT
1 GACATGGTCTTACACTGACACATCTCGAAGCCGATGCAT
*
22425119 GACAT-GTCTTACACTGGCTTACATCTC-AAGGCCGATGCAT
1 GACATGGTCTTACACTGAC--ACATCTCGAA-GCCGATGCAT
22425159 G
1 G
22425160 TCCCAGATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
38 12 0.33
39 6 0.17
40 18 0.50
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
GACATGGTCTTACACTGACACATCTCGAAGCCGATGCAT
Found at i:22433161 original size:31 final size:31
Alignment explanation
Indices: 22433126--22433189 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22433116 CCTTTTCATG
22433126 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
22433157 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
22433188 TT
1 TT
22433190 ATGTAACCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:22433454 original size:47 final size:46
Alignment explanation
Indices: 22433400--22433542 Score: 250
Period size: 47 Copynumber: 3.1 Consensus size: 46
22433390 CCTAGCCTCT
*
22433400 TTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTT-AATAACTGGGGCATAAGCCC
*
22433447 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
22433494 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
22433540 TTT
1 TTT
22433543 TGCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
46 25 0.27
47 64 0.70
48 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:22433457 original size:23 final size:23
Alignment explanation
Indices: 22433400--22433542 Score: 250
Period size: 23 Copynumber: 6.1 Consensus size: 23
22433390 CCTAGCCTCT
*
22433400 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22433423 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
22433447 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
22433470 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
22433494 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22433517 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22433540 TTT
1 TTT
22433543 TGCACTTCCT
Statistics
Matches: 115, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
23 71 0.62
24 44 0.38
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:22433619 original size:20 final size:20
Alignment explanation
Indices: 22433594--22433653 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
22433584 TATGATTACC
22433594 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
22433614 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
22433634 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
22433654 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:22433728 original size:25 final size:25
Alignment explanation
Indices: 22433696--22433743 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22433686 ATACATAAAC
* * *
22433696 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22433721 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22433744 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22438156 original size:31 final size:31
Alignment explanation
Indices: 22438121--22438184 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22438111 CTTTTCAATG
22438121 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
22438152 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
22438183 TT
1 TT
22438185 ACTGTAACCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:22438427 original size:24 final size:24
Alignment explanation
Indices: 22438376--22438583 Score: 281
Period size: 24 Copynumber: 9.0 Consensus size: 24
22438366 GCTTTATCAT
*
22438376 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
22438401 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
22438425 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
22438448 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
22438472 ATAACT--GG-AT-AGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
22438492 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
22438516 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22438539 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22438562 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22438584 GCACTTCCTC
Statistics
Matches: 169, Mismatches: 7, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.09
21 2 0.01
22 16 0.09
23 59 0.35
24 64 0.38
25 12 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22438550 original size:91 final size:92
Alignment explanation
Indices: 22438389--22438584 Score: 306
Period size: 91 Copynumber: 2.1 Consensus size: 92
22438379 ACTGGAGGCC
*
22438389 TAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACT
1 TAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACT
*
22438454 GGGGCATAAGCCCTTTTGATAACT-GG-A
65 GGGGCATAAGCCC-TTTAATAACTGGGCA
* **
22438481 TAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTG
1 TAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACTG
22438546 GGGCATAAGCCCTTTAATAACTGGGCA
66 GGGCATAAGCCCTTTAATAACTGGGCA
22438573 TAAGCCCTTTTG
1 T-AGCCCTTTTG
22438585 CACTTCCTCC
Statistics
Matches: 96, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
90 9 0.09
91 70 0.73
92 7 0.07
93 10 0.10
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (92 bp):
TAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACTG
GGGCATAAGCCCTTTAATAACTGGGCA
Found at i:22438659 original size:20 final size:20
Alignment explanation
Indices: 22438634--22438693 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
22438624 TATGATTACC
22438634 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
22438654 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
22438674 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
22438694 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:22438768 original size:25 final size:25
Alignment explanation
Indices: 22438736--22438783 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22438726 ATACATAAAC
* * *
22438736 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22438761 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22438784 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22443182 original size:31 final size:31
Alignment explanation
Indices: 22443147--22443210 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22443137 CCTTTTCATG
22443147 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
22443178 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
22443209 TT
1 TT
22443211 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:22443486 original size:22 final size:23
Alignment explanation
Indices: 22443423--22443588 Score: 216
Period size: 23 Copynumber: 7.1 Consensus size: 23
22443413 CCTAGCCTCT
*
22443423 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22443446 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
22443470 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22443492 TTT-ATAACT-GGG-ATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
22443512 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
22443536 TTTTGATAACTAACT-GGGCATAAGCCC
1 --TT--TAA-TAACTGGGGCATAAGCCC
22443563 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
22443586 TTT
1 TTT
22443589 TGCACTTCCT
Statistics
Matches: 131, Mismatches: 2, Indels: 20
0.86 0.01 0.13
Matches are distributed among these distances:
20 8 0.06
21 12 0.09
22 26 0.20
23 31 0.24
24 30 0.23
25 5 0.04
27 14 0.11
28 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:22443590 original size:50 final size:46
Alignment explanation
Indices: 22443423--22443589 Score: 225
Period size: 50 Copynumber: 3.6 Consensus size: 46
22443413 CCTAGCCTCT
* *
22443423 TTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCCC
22443470 TTTAATAACT-GGGCATAAGCCC-TTT-ATAACTGGG-ATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCCC
*
22443512 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAACTGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC-TTT--TAA-TAACTGGGCATAAGCCC
22443563 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
22443590 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 4, Indels: 18
0.83 0.03 0.14
Matches are distributed among these distances:
42 8 0.07
43 12 0.11
44 18 0.17
45 2 0.02
46 13 0.12
47 11 0.10
48 1 0.01
49 4 0.04
50 30 0.28
51 8 0.07
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCCC
Found at i:22443665 original size:20 final size:20
Alignment explanation
Indices: 22443640--22443699 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
22443630 TATGATTACC
22443640 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
22443660 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
22443680 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
22443700 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:22443774 original size:25 final size:25
Alignment explanation
Indices: 22443742--22443789 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22443732 ATACATAAAC
* * *
22443742 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22443767 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22443790 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22448179 original size:31 final size:31
Alignment explanation
Indices: 22448144--22448207 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22448134 CCTTTTCATG
22448144 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
22448175 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
22448206 TT
1 TT
22448208 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:22448450 original size:24 final size:24
Alignment explanation
Indices: 22448399--22448588 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
22448389 GCTTTATCAT
*
22448399 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
22448424 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
22448448 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
22448471 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
22448495 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
22448519 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
22448543 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22448566 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22448589 GCACTTCCTC
Statistics
Matches: 155, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 44 0.28
24 99 0.64
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22448474 original size:47 final size:47
Alignment explanation
Indices: 22448420--22448589 Score: 295
Period size: 47 Copynumber: 3.6 Consensus size: 47
22448410 CCTAGCCTCT
* **
22448420 TTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
22448467 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
22448514 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
22448562 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
22448590 CACTTCCTCC
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
47 71 0.61
48 46 0.39
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:22448588 original size:71 final size:71
Alignment explanation
Indices: 22448399--22448589 Score: 287
Period size: 71 Copynumber: 2.7 Consensus size: 71
22448389 GCTTTATCAT
* * **
22448399 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
22448463 GCCCTTTA
64 GCCCTTTA
*
22448471 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
*
22448536 CCTTTTG
66 CC-TTTA
22448543 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
22448590 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
71 76 0.69
72 34 0.31
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:22448664 original size:20 final size:20
Alignment explanation
Indices: 22448639--22448698 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
22448629 TATGATTACC
22448639 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
22448659 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
22448679 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
22448699 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:22448773 original size:25 final size:25
Alignment explanation
Indices: 22448741--22448788 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22448731 ATACATAAAC
* * *
22448741 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22448766 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22448789 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22451959 original size:5 final size:4
Alignment explanation
Indices: 22451925--22451958 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
22451915 TATTTACAAC
22451925 AAAT AAAT AAAT AAAT AAAT AAATT AAATT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAA-T AAA-T AAAT
22451959 TGTTTGCAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:22452313 original size:15 final size:14
Alignment explanation
Indices: 22452294--22452321 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22452284 ATTTAAAAAA
22452294 AAAAAAGATCATTT
1 AAAAAAGATCATTT
22452308 AAAAAAGATCATTT
1 AAAAAAGATCATTT
22452322 TCATTTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAAAAGATCATTT
Found at i:22452411 original size:64 final size:64
Alignment explanation
Indices: 22452334--22452525 Score: 233
Period size: 64 Copynumber: 3.0 Consensus size: 64
22452324 ATTTTCATAA
* * * * * *
22452334 CACATTTAATTAGGTGCATTTGATTCATTTCGATCATAGCGGCCTAATTATTTGACATCAGCAT
1 CACATCTAATTAGGAGCATTTGATTCATTTTGATCATAGCAGCCTAATTATGTGACATAAGCAT
* * *
22452398 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATGTGTCATAAGCAT
1 CACATCTAATTAGGAGCATTTGATTCATTTTGATCATAGCAGCCTAATTATGTGACATAAGCAT
** * * * *
22452462 CATGTCTAATTAGGAGTATTTGATTCATTTTGATCATAGTATCCTAATTA-GTTGGCATAAGCAT
1 CACATCTAATTAGGAGCATTTGATTCATTTTGATCATAGCAGCCTAATTATG-TGACATAAGCAT
22452526 GATACATCAA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
63 1 0.01
64 111 0.99
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (64 bp):
CACATCTAATTAGGAGCATTTGATTCATTTTGATCATAGCAGCCTAATTATGTGACATAAGCAT
Found at i:22453978 original size:46 final size:46
Alignment explanation
Indices: 22453928--22454103 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
22453918 TGTTTGGGAA
*
22453928 TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
22453974 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
22454019 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22454067 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22454104 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22454062 original size:93 final size:93
Alignment explanation
Indices: 22453927--22454096 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
22453917 ATGTTTGGGA
* * * *
22453927 ATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCAAACTAGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCGAACTCGTTGAGTTG
22453992 AGTCCAAGTTCGTGAGATGTAACTAGGC
66 AGTCCAAGTTCGTGAGATGTAACTAGGC
* *
22454020 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCGAGCTCGTTGAGTTG
1 ATCCAAACTAGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCGAACTCGTTGAGTTG
*
22454085 AGTCCGAGTTCG
66 AGTCCAAGTTCG
22454097 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
ATCCAAACTAGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCGAACTCGTTGAGTTG
AGTCCAAGTTCGTGAGATGTAACTAGGC
Found at i:22455569 original size:45 final size:44
Alignment explanation
Indices: 22455485--22455586 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 44
22455475 GATCATGACA
* *** *
22455485 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGACGGAAGAT-TG
1 AATCTTATCTCCCTGAAGTTGCAACAGAGCAGACGGAAGATGTG
22455528 AAGATCTTATCTCCCTGAAGTTGCAACAGAGCAGATC-GAAGATGGTG
1 -A-ATCTTATCTCCCTGAAGTTGCAACAGAGCAGA-CGGAAGAT-GTG
22455575 AATCTTATCTCC
1 AATCTTATCTCC
22455587 ATGTATCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
44 1 0.02
45 44 0.90
46 2 0.04
47 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAACAGAGCAGACGGAAGATGTG
Found at i:22455702 original size:45 final size:44
Alignment explanation
Indices: 22455621--22455719 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
22455611 TACCACCAGC
* * *
22455621 CTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGAT-TGAAGAT
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATGTG-A-AT
22455666 CTTATCTCCCTGAAGTTGCAGCGGAGCAGA-TCGAAGATGGTGAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACT-GAAGAT-GTGAAT
22455711 CTTATCTCC
1 CTTATCTCC
22455720 ATGTATCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 1 0.02
45 44 0.92
46 1 0.02
47 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATGTGAAT
Found at i:22455726 original size:133 final size:133
Alignment explanation
Indices: 22455488--22455787 Score: 487
Period size: 133 Copynumber: 2.3 Consensus size: 133
22455478 CATGACAAAT
*
22455488 CTTATCTCCCTGAGGTTGCAGTGGAGTAGACGGAAGATTGAAGATCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCA
22455553 ACAGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAAAAAT-GATGCAGATTTTACCAC
66 ACAGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAAAAATGGA-GCAGATTTTACCAC
22455617 CAGC
130 CAGC
22455621 CTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCA
* * ** *
22455686 GCGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTACCATC
66 ACAGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAAAAATGGAGCAGATTTTACCACC
22455751 AGC
131 AGC
* * * *
22455754 CTTATCTCTCT-AAGTTGCAGTGGAGCAGATTGAA
1 CTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAA
22455788 AATGGCGAAT
Statistics
Matches: 156, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
132 20 0.13
133 134 0.86
134 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCA
ACAGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCAAAAATGGAGCAGATTTTACCACC
AGC
Found at i:22455779 original size:87 final size:89
Alignment explanation
Indices: 22455666--22455851 Score: 263
Period size: 87 Copynumber: 2.1 Consensus size: 89
22455656 GATTGAAGAT
* * * *
22455666 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCA-GC
1 CTTATCTCTCTGAAGTTGCAGCGGAGCAGATCGAAAATGGCGAATCTTATATCCATGTA-CAGGC
22455730 AATGGAGCAGATTTTA-CCA-TCAGC
65 AATGGAGCAGATTTTAGCCACT-AGC
* *
22455754 CTTATCTCTCT-AAGTTGCAGTGGAGCAGATTGAAAATGGCGAATCTTATATCCATGTACAGGCA
1 CTTATCTCTCTGAAGTTGCAGCGGAGCAGATCGAAAATGGCGAATCTTATATCCATGTACAGGCA
*
22455818 ATGGAGCAGATTTTAGCCACTGGC
66 ATGGAGCAGATTTTAGCCACTAGC
22455842 CTTATCTCTC
1 CTTATCTCTC
22455852 GGAGGAAGCA
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
86 2 0.02
87 60 0.68
88 25 0.28
89 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (89 bp):
CTTATCTCTCTGAAGTTGCAGCGGAGCAGATCGAAAATGGCGAATCTTATATCCATGTACAGGCA
ATGGAGCAGATTTTAGCCACTAGC
Found at i:22456244 original size:180 final size:176
Alignment explanation
Indices: 22455942--22456510 Score: 615
Period size: 180 Copynumber: 3.2 Consensus size: 176
22455932 GGAAAAGGCA
* * * * *
22455942 AATCTTATCTCTATGTATCGGCAATGGAGCAAAATTAAGCCTCAAGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAG
* * *
22456007 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTTTGAGGTAGCAAAAAAGCAGACTG-TGAATT
66 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAG-ATT
* ** * *
22456071 GAAGATTTTATCTCCCTGAAGTTGCAGCAGAGTAGATCTTCATAGATGGCT
130 GAAGATCTTATCTCCCT-AAGCCGCAGCAGAGCAGATC--CA-AGATGGCG
* ** * * *
22456122 AATCTTATCTCCATTTATCGGTAATGGAGTGGATTTGAGCCCCAAACCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAG
* *
22456187 TAAGAGAGTAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTG
66 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTG
* * *
22456252 AAGATCTTATCTCCCTTAGCCGTAGCAGAGCAGATCGAAGATGGCG
131 AAGATCTTATCTCCCTAAGCCGCAGCAGAGCAGATCCAAGATGGCG
* * * * *
22456298 AGTCTTATCTCCATGTATCAGTAATGGAGCAGATTTTAGCCACTAGCCTTATCCCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAG
** * * * * *
22456363 CAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCATACTAAAGATT
66 CAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATT
* * ** ** ** * * *
22456428 AAAGATC-TATTTCCCTAAGTAGTTGTGGAGC--ATCGAGGATGGTG
130 GAAGATCTTATCTCCCTAAGCCGCAGCAGAGCAGATCCAAGATGGCG
* *
22456472 AATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAG
1 AATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAG
22456511 TCACCAGTCC
Statistics
Matches: 330, Mismatches: 57, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
174 45 0.14
176 97 0.29
177 44 0.13
179 15 0.05
180 128 0.39
181 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (176 bp):
AATCTTATCTCCATGTATCGGTAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTG
AAGATCTTATCTCCCTAAGCCGCAGCAGAGCAGATCCAAGATGGCG
Found at i:22456247 original size:43 final size:45
Alignment explanation
Indices: 22456169--22456264 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 45
22456159 AGCCCCAAAC
* * * **
22456169 CTTATCTCTCTGAGGTAGTAAGAGAGTAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
*
22456212 CTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
22456257 CTTATCTC
1 CTTATCTC
22456265 CCTTAGCCGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 34 0.77
44 2 0.05
45 8 0.18
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
Found at i:22458567 original size:25 final size:25
Alignment explanation
Indices: 22458539--22458587 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22458529 CCTTATAATG
* * *
22458539 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22458564 AAAATGACCATTATACCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
22458588 TTATATATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22458647 original size:20 final size:20
Alignment explanation
Indices: 22458622--22458672 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
22458612 ATTTTGATAA
*
22458622 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
22458642 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
22458662 ACATGAGATGT
1 ACATGACATGT
22458673 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:22458745 original size:23 final size:23
Alignment explanation
Indices: 22458719--22458791 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
22458709 AGGAAGTTCA
22458719 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
22458742 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
22458765 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
22458789 AAA
1 AAA
22458792 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:22458774 original size:24 final size:24
Alignment explanation
Indices: 22458718--22458798 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
22458708 GAGGAAGTTC
22458718 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22458742 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22458765 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22458789 AAAAGAGGCT
1 AAAAG-GGCT
22458799 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
23 23 0.43
24 27 0.50
25 4 0.07
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:22459040 original size:31 final size:31
Alignment explanation
Indices: 22459005--22459068 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22458995 CGTTTACAGT
22459005 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
22459036 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22459067 AA
1 AA
22459069 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22466656 original size:9 final size:9
Alignment explanation
Indices: 22466644--22466700 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22466634 TTTGATAAAC
22466644 ATGATATGT
1 ATGATATGT
*
22466653 ATGATATGCAC
1 ATGATATG--T
*
22466664 ATGACATGT
1 ATGATATGT
*
22466673 ATGATATGCAC
1 ATGATATG--T
22466684 ATGATATGT
1 ATGATATGT
22466693 ATGATATG
1 ATGATATG
22466701 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:22466667 original size:20 final size:20
Alignment explanation
Indices: 22466642--22466712 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
22466632 ATTTTGATAA
22466642 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
22466662 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
22466682 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
22466702 ACATGAGATGT
1 ACATGATATGT
22466713 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22466689 original size:11 final size:11
Alignment explanation
Indices: 22466653--22466707 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22466643 CATGATATGT
22466653 ATGATATGCAC
1 ATGATATGCAC
* *
22466664 ATGACATG--T
1 ATGATATGCAC
22466673 ATGATATGCAC
1 ATGATATGCAC
*
22466684 ATGATATG--T
1 ATGATATGCAC
22466693 ATGATATGCAC
1 ATGATATGCAC
22466704 ATGA
1 ATGA
22466708 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:22466814 original size:24 final size:24
Alignment explanation
Indices: 22466759--22466857 Score: 173
Period size: 24 Copynumber: 4.2 Consensus size: 24
22466749 AGGAAGTGCG
22466759 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTA
*
22466782 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATTA
22466806 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
22466830 AAAGGGCTTTTGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
22466854 AAAG
1 AAAG
22466858 AGGATAGGCC
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
23 22 0.31
24 50 0.69
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:22467104 original size:31 final size:31
Alignment explanation
Indices: 22467069--22467132 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22467059 CGTTTACAGT
22467069 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
22467100 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22467131 AA
1 AA
22467133 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22469227 original size:14 final size:15
Alignment explanation
Indices: 22469210--22469244 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
22469200 TATACATATA
22469210 ATTTTTATTTTT-TT
1 ATTTTTATTTTTATT
22469224 ATTTTTATTTTTATT
1 ATTTTTATTTTTATT
22469239 -TTTTTA
1 ATTTTTA
22469245 AATCTACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTATTTTTATT
Found at i:22469293 original size:29 final size:30
Alignment explanation
Indices: 22469234--22469294 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
22469224 ATTTTTATTT
* * *
22469234 TTATTTTTTTAAATCTACTTGTATACGTAA
1 TTATTTTTTTAAATCTACTTGCAAACATAA
*
22469264 TTATTTTTTTAAATCTA-TTGCAAATATAA
1 TTATTTTTTTAAATCTACTTGCAAACATAA
22469293 TT
1 TT
22469295 TATGATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (30 bp):
TTATTTTTTTAAATCTACTTGCAAACATAA
Found at i:22471097 original size:20 final size:20
Alignment explanation
Indices: 22471064--22471118 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
22471054 TATTGAAGTA
*
22471064 TTTAATATTATAAATTTATATT
1 TTTAA-ATT-TAAATTTAAATT
22471086 TTTAAATTTAAATTTAAATT
1 TTTAAATTTAAATTTAAATT
* *
22471106 TTTTATTTTAAAT
1 TTTAAATTTAAAT
22471119 AAACCTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAATTTAAATTTAAATT
Found at i:22472096 original size:17 final size:17
Alignment explanation
Indices: 22472054--22472089 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22472044 ACTAGAGTTC
22472054 TATAAGCTAAAGGGATT
1 TATAAGCTAAAGGGATT
22472071 TATAAGCTAAAGGGATT
1 TATAAGCTAAAGGGATT
22472088 TA
1 TA
22472090 ATAGCTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (17 bp):
TATAAGCTAAAGGGATT
Found at i:22490043 original size:27 final size:27
Alignment explanation
Indices: 22490009--22490181 Score: 231
Period size: 27 Copynumber: 6.4 Consensus size: 27
22489999 TGGATAAGTT
*
22490009 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
22490036 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
22490063 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
22490090 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
22490117 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
22490144 GTAGAATTACAGAGATACCCTTGT-GG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
22490170 GATAAAATTACC
1 G-TAGAATTACC
22490182 ATTTTGCCCC
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
26 3 0.02
27 127 0.98
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:22493511 original size:2 final size:2
Alignment explanation
Indices: 22493504--22493555 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
22493494 GCTTTGCCAC
22493504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22493546 AT AT AT AT AT
1 AT AT AT AT AT
22493556 CTGTTCTGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22493604 original size:27 final size:26
Alignment explanation
Indices: 22493552--22493611 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
22493542 ATATATATAT
*
22493552 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
22493578 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
22493605 ATATCTG
1 ATATCTG
22493612 GCAGTCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:22499379 original size:40 final size:40
Alignment explanation
Indices: 22499342--22499526 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
22499332 GCTACTCGTT
*
22499342 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
22499382 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
22499422 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
22499462 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
22499503 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22499527 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
39 13 0.10
40 110 0.83
41 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22510470 original size:23 final size:24
Alignment explanation
Indices: 22510429--22510473 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
22510419 AACATTTTCG
*
22510429 GGAATTTTGAGGGGGCGGAGGGAT
1 GGAATTGTGAGGGGGCGGAGGGAT
*
22510453 GGAATTGTG-GGGGTCGGAGGG
1 GGAATTGTGAGGGGGCGGAGGG
22510474 CAACAAGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.18, C:0.04, G:0.58, T:0.20
Consensus pattern (24 bp):
GGAATTGTGAGGGGGCGGAGGGAT
Found at i:22510742 original size:5 final size:5
Alignment explanation
Indices: 22510732--22510759 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22510722 ATGTGGGAAA
22510732 AGATT AGATT AGATT AGATT AGATT AGA
1 AGATT AGATT AGATT AGATT AGATT AGA
22510760 GAGCATAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (5 bp):
AGATT
Found at i:22522683 original size:29 final size:30
Alignment explanation
Indices: 22522640--22522709 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
22522630 AAATTAAAAT
22522640 TTCATGTATAAAATTATACA-AAATCAGAG
1 TTCATGTATAAAATTATACATAAATCAGAG
* * *
22522669 TTCATGTATACAATTGTACATTAAATCATAG
1 TTCATGTATAAAATTATACA-TAAATCAGAG
22522700 TTCATGTATA
1 TTCATGTATA
22522710 GTTTTGGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 18 0.50
31 18 0.50
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (30 bp):
TTCATGTATAAAATTATACATAAATCAGAG
Found at i:22527267 original size:23 final size:23
Alignment explanation
Indices: 22527224--22527268 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22527214 ATAAAATTAA
* *
22527224 TTTAAATTTTGATTTAATCAATT
1 TTTAAATTTTAATTCAATCAATT
22527247 TTTAAA-TTTAATTCAACTCAAT
1 TTTAAATTTTAATTCAA-TCAAT
22527269 ATCTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAAATTTTAATTCAATCAATT
Found at i:22530917 original size:2 final size:2
Alignment explanation
Indices: 22530910--22530943 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22530900 ATATTTTGAC
22530910 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22530944 GAGATTTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22531051 original size:26 final size:26
Alignment explanation
Indices: 22531015--22531066 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
22531005 CATGATATAA
22531015 CACAATGTTGGTGTTTGTAAAATTGG
1 CACAATGTTGGTGTTTGTAAAATTGG
22531041 CACAATGTTGGTGTTTGTAAAATTGG
1 CACAATGTTGGTGTTTGTAAAATTGG
22531067 AATACGAGAT
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:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (26 bp):
CACAATGTTGGTGTTTGTAAAATTGG
Found at i:22531422 original size:21 final size:22
Alignment explanation
Indices: 22531369--22531422 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
22531359 TACAAGGCAC
*
22531369 ACACGCCCGTGTGGTCCGAGGG
1 ACACGCCCGTGTGGACCGAGGG
* * **
22531391 ACAAGCTCGTGT-GACCTTGGG
1 ACACGCCCGTGTGGACCGAGGG
22531412 ACACGCCCGTG
1 ACACGCCCGTG
22531423 CTATAGGCTG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.17, C:0.31, G:0.35, T:0.17
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCGAGGG
Found at i:22543383 original size:2 final size:2
Alignment explanation
Indices: 22543376--22543406 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22543366 TCATGACATG
22543376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22543407 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22545784 original size:40 final size:40
Alignment explanation
Indices: 22545655--22545785 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
22545645 TATGCTGGAA
* * *
22545655 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
22545695 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
22545735 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
22545775 ATTAAATCCGG
1 ATTATATCCGG
22545786 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:22548430 original size:42 final size:43
Alignment explanation
Indices: 22548370--22548480 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
22548360 GATTTACGTA
* **
22548370 TAAGACCATGTCTGGGACATCGGCATCG-TATCT-AATTATGTG
1 TAAGACCATGTCTAGGACATCGGCATCGATAT-TGAATTACATG
* * **
22548412 TAAGACCCTTTCTAGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTAGGACATCGGCATCGATATTGAATTACATG
* *
22548455 TAAGACCATGTCCAGGACGTCGGCAT
1 TAAGACCATGTCTAGGACATCGGCAT
22548481 TGTACTTGGT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 24 0.44
43 30 0.56
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACATCGGCATCGATATTGAATTACATG
Found at i:22550396 original size:64 final size:63
Alignment explanation
Indices: 22550227--22550406 Score: 197
Period size: 64 Copynumber: 2.8 Consensus size: 63
22550217 CATAATTTTG
* * * * *
22550227 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCACA-TATATCCCGTA
* * * *
22550290 GCTC-CTTGTCTACATGGTGCCTTCACCT-GAACCACGCATGCGACCTAGCTACATATATCCCGT
1 GCTCTCTTGTCTACATGGTG--TACACATAGTACCACCCATGCGACCTAGC-ACATATATCCCGT
22550353 A
63 A
*
22550354 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCACAT
22550407 CATAATGTCT
Statistics
Matches: 97, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
61 1 0.01
62 13 0.13
63 31 0.32
64 35 0.36
65 17 0.18
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCACATATATCCCGTA
Found at i:22568278 original size:34 final size:34
Alignment explanation
Indices: 22568240--22568306 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
22568230 TTGGATACTG
22568240 TACTGAAATAGGCTAAGGCCCACACTGATATTGT
1 TACTGAAATAGGCTAAGGCCCACACTGATATTGT
* * *
22568274 TACTGTATTGGGCTAAGGCCCACACTGATATTG
1 TACTGAAATAGGCTAAGGCCCACACTGATATTG
22568307 CGACTGATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (34 bp):
TACTGAAATAGGCTAAGGCCCACACTGATATTGT
Found at i:22568327 original size:34 final size:34
Alignment explanation
Indices: 22568252--22568334 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
22568242 CTGAAATAGG
** *
22568252 CTAAGGCCCACACTGATATTGTTACTGTATTGGG
1 CTAAGGCCCACACTGATATTGCGACTGTATTGGA
22568286 CTAAGGCCCACACTGATATTGCGACTG-ATATGGA
1 CTAAGGCCCACACTGATATTGCGACTGTAT-TGGA
* *
22568320 CTTAGGCCCAGACTG
1 CTAAGGCCCACACTG
22568335 TTCAACACTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 2 0.05
34 41 0.95
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (34 bp):
CTAAGGCCCACACTGATATTGCGACTGTATTGGA
Found at i:22573936 original size:43 final size:40
Alignment explanation
Indices: 22573873--22574072 Score: 176
Period size: 41 Copynumber: 4.9 Consensus size: 40
22573863 TACCGTACCA
* * *
22573873 ATGCCATATCCCAGATATGGTCTTTCATGTAATCTCGTATCG
1 ATGCCA-ATACCAGATATGGTCTTTCACG-AATCTCATATCG
* * *
22573915 ATGCCAATAGCCTAGCTATGGTCTTACACGGAATCTCTTATCG
1 ATGCCAATA-CC-AGATATGGTCTTTCAC-GAATCTCATATCG
*
22573958 ATGCCATATACCAGATATGGT-TTTACACGAATCTCATATCA
1 ATGCCA-ATACCAGATATGGTCTTT-CACGAATCTCATATCG
* *
22573999 ATGCCATATCCCAGATATGGTC--TGA--AATCTCATATCG
1 ATGCCA-ATACCAGATATGGTCTTTCACGAATCTCATATCG
* *
22574036 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCA-ATACCAGATATGGTCTTTCACG-AATCTCA
22574073 GTAACCTAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
37 33 0.25
39 2 0.02
40 1 0.01
41 35 0.26
42 26 0.20
43 32 0.24
44 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (40 bp):
ATGCCAATACCAGATATGGTCTTTCACGAATCTCATATCG
Found at i:22574040 original size:37 final size:39
Alignment explanation
Indices: 22573873--22574072 Score: 179
Period size: 43 Copynumber: 4.9 Consensus size: 39
22573863 TACCGTACCA
* * *
22573873 ATGCCATATCCCAGATATGGTCTTTCATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTC-TACA--CAATCTCATATCG
* * * *
22573915 ATGCCAATAGCCTAGCTATGGTCTTACACGGAATCTCTTATCG
1 ATGCC-ATATCCCAGATATGGTC-TACAC--AATCTCATATCG
* * *
22573958 ATGCCATATACCAGATATGGTTTTACACGAATCTCATATCA
1 ATGCCATATCCCAGATATGG-TCTACAC-AATCTCATATCG
*
22573999 ATGCCATATCCCAGATATGGTCT-GA-AATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTACACAATCTCATATCG
22574036 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTC-TACAC--AATCTCA
22574073 GTAACCTAAT
Statistics
Matches: 131, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
37 33 0.25
38 1 0.01
39 2 0.02
40 2 0.02
41 30 0.23
42 28 0.21
43 35 0.27
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (39 bp):
ATGCCATATCCCAGATATGGTCTACACAATCTCATATCG
Found at i:22575888 original size:9 final size:9
Alignment explanation
Indices: 22575874--22575898 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22575864 TCATATTTAT
22575874 TTTAATTAA
1 TTTAATTAA
22575883 TTTAATTAA
1 TTTAATTAA
22575892 TTTAATT
1 TTTAATT
22575899 TTTCTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATTAA
Found at i:22580696 original size:48 final size:48
Alignment explanation
Indices: 22580625--22580856 Score: 219
Period size: 48 Copynumber: 5.0 Consensus size: 48
22580615 CATTAGGGTT
*
22580625 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGTCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
*
22580673 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * **
22580721 ATATG-GTATCCCATATAAGACCATATCTGGGATATGACATTGGCATAA
1 ATATGAG-ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
** ** * * *
22580769 ATATGTTATTTCGTGTAAGACCATGTCTTGG--A---CATTGGGAT--
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * *
22580810 ATGTGTGATCCCATGTAAGACCATATCTGGGATATGCCATTGGCATC
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
22580857 TTACTATGTG
Statistics
Matches: 151, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
41 24 0.16
43 9 0.06
46 9 0.06
47 1 0.01
48 108 0.72
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:22594423 original size:40 final size:39
Alignment explanation
Indices: 22594378--22594585 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
22594368 CGGAATACAA
*
22594378 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
22594418 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
22594458 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
22594498 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
22594538 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
22594578 CCGGATAT
1 CCGGATAT
22594586 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:22594525 original size:80 final size:81
Alignment explanation
Indices: 22594378--22594583 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
22594368 CGGAATACAA
* * * *
22594378 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
22594442 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
22594458 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
22594521 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
22594538 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
22594584 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:22602373 original size:40 final size:40
Alignment explanation
Indices: 22602329--22602435 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 40
22602319 TCGAATACAA
* * *
22602329 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
* * *
22602369 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
*
22602409 CCGGATTTAACAACTTGCACGAATGCC
1 CCGGATATAACAACTTGCACGAATGCC
22602436 CGGATTTAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
Done.