Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 73 of 290
Found at i:22097798 original size:32 final size:32
Alignment explanation
Indices: 22097762--22097825 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
22097752 TATATAATAC
*
22097762 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
22097794 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
22097826 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:22101256 original size:54 final size:54
Alignment explanation
Indices: 22101142--22101347 Score: 173
Period size: 54 Copynumber: 3.8 Consensus size: 54
22101132 TTATAGTTTG
* * * * * * **
22101142 CCGATTTACAATTGCAACCCTGTACTTACAAGATTTTCAGAAACTTCTG-GTTTG
1 CCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTT-TGAGTTCA
** * * * *
22101196 TTGATTTACAATCACAACCTTGCACTTCCATGATTATTAGAATC-TTGAGGTTCG
1 CCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTTGA-GTTCA
* * * * *
22101250 CCGATTTAAAATTGCAACCTTGCACTTCTAAGTTTTTTAGAATCTTTTAGTTCA
1 CCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTTGAGTTCA
** * *
22101304 CTAATTTACGATCGTAACCTTGCACTTCCAAGATTTTTAGAATC
1 CCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATC
22101348 CTATGATTTG
Statistics
Matches: 118, Mismatches: 31, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 112 0.95
55 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (54 bp):
CCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTTGAGTTCA
Found at i:22101365 original size:54 final size:52
Alignment explanation
Indices: 22101138--22101394 Score: 167
Period size: 54 Copynumber: 4.8 Consensus size: 52
22101128 GCTCTTATAG
* * * * * * *
22101138 TTTGCCGATTTACAATTGCAACCCTGTACTTACAAGATTTTCAGAAACTTCTGG
1 TTTGCCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATC-T-TGA
** * * *
22101192 TTTGTTGATTTACAATCACAACCTTGCACTTCCATGATTATTAGAATCTTGA
1 TTTGCCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTGA
* * * * * *
22101244 GGTTCGCCGATTTAAAATTGCAACCTTGCACTTCTAAGTTTTTTAGAATCTTTTA
1 --TTTGCCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATC-TTGA
* * * *
22101299 GTT-CACTAATTTACGATCGTAACCTTGCACTTCCAAGATTTTTAGAATCCTATGA
1 TTTGC-C-GATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAAT-CT-TGA
* * * * *
22101354 TTTGTCGATTTA-ATATCGTAACCTCGTACTTACAAGATTTT
1 TTTGCCGATTTACA-ATCGCAACCTTGCACTTCCAAGATTTT
22101395 CATAATTTGT
Statistics
Matches: 154, Mismatches: 40, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
52 3 0.02
53 3 0.02
54 139 0.90
55 9 0.06
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (52 bp):
TTTGCCGATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTGA
Found at i:22103138 original size:10 final size:10
Alignment explanation
Indices: 22103125--22103171 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
22103115 TTATTTTCAT
22103125 TTATCTTTAA
1 TTATCTTTAA
22103135 TTATCTTTAA
1 TTATCTTTAA
22103145 TTATCTTTAA
1 TTATCTTTAA
*
22103155 TTAT-TTATAT
1 TTATCTT-TAA
22103165 TTATCTT
1 TTATCTT
22103172 ATAGAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:22103981 original size:40 final size:39
Alignment explanation
Indices: 22103898--22103972 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
22103888 ATTTTCGCAA
*
22103898 TTCCA-ATCAAAACTTTTAATTATGTTTTTATTTTATTT
1 TTCCAGATCAAAACTTTTAATTATATTTTTATTTTATTT
* *
22103936 TTCCAGATCAAAACTTTTTATTCTA-TTTT-TTTTATTT
1 TTCCAGATCAAAACTTTTAATTATATTTTTATTTTATTT
22103973 CTTTTCCAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 8 0.24
38 9 0.27
39 16 0.48
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.59
Consensus pattern (39 bp):
TTCCAGATCAAAACTTTTAATTATATTTTTATTTTATTT
Found at i:22108749 original size:120 final size:120
Alignment explanation
Indices: 22108536--22109114 Score: 901
Period size: 120 Copynumber: 4.8 Consensus size: 120
22108526 TAAGTCTGTT
* * ** * * *
22108536 TGAGAACATCTGAGAGTCAAATCTGCTATTTCCTTAATTTGTTTTTTGTAAACATAAGATTGTCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
* *
22108601 AATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGTCATGTC
66 AATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
* *
22108656 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACATAAGAATGTCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
* * *
22108721 AATCATCTTGGATCTTACTTCAGTATAAACCTCTGAAGGCTAGATCTACCATGTC
66 AATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
*
22108776 TGTGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
*
22108841 AATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTT
66 AATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
* * *
22108896 TGAGAACATCTGAGAGTCAAATCTGCTATGTTCTTGATTTGTT-CTTGTAAACACAATAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
* ** * *
22108960 AATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGTTATATT
66 AATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
* * *
22109014 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
22109079 AATCATCTTGGATCTTGCTTCAGTATAAACATCTGA
66 AATCATCTTGGATCTTGCTTCAGTATAAACATCTGA
22109115 GAGTCAAATC
Statistics
Matches: 431, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
118 77 0.18
119 67 0.16
120 287 0.67
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (120 bp):
TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCA
AATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTC
Found at i:22109109 original size:42 final size:42
Alignment explanation
Indices: 22109062--22109197 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 42
22109052 TTGTTTCTTG
22109062 TAAACACAAGAATACCAAATCATCTTGGATCTTGCTTCAGTA
1 TAAACACAAGAATACCAAATCATCTTGGATCTTGCTTCAGTA
* * * * *
22109104 TAAACATCTGAGAGT--CAAATC-TGCTATGTCCTCGAT-TTGTTTC-TTG
1 TAAACA-C-AAGAATACCAAATCAT-CT-TG-----GATCTTGCTTCAGTA
22109150 TAAACACAAGAATACCAAATCATCTTGGATCTTGCTTCAGTA
1 TAAACACAAGAATACCAAATCATCTTGGATCTTGCTTCAGTA
22109192 TAAACA
1 TAAACA
22109198 TCTGAAGGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 28
0.65 0.09 0.26
Matches are distributed among these distances:
40 3 0.04
41 7 0.10
42 21 0.30
43 3 0.04
44 8 0.11
45 3 0.04
46 15 0.21
47 7 0.10
48 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
TAAACACAAGAATACCAAATCATCTTGGATCTTGCTTCAGTA
Found at i:22109150 original size:88 final size:88
Alignment explanation
Indices: 22109018--22109202 Score: 370
Period size: 88 Copynumber: 2.1 Consensus size: 88
22109008 TATATTTGAG
22109018 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATC
1 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATC
22109083 ATCTTGGATCTTGCTTCAGTATA
66 ATCTTGGATCTTGCTTCAGTATA
22109106 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATC
1 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATC
22109171 ATCTTGGATCTTGCTTCAGTATA
66 ATCTTGGATCTTGCTTCAGTATA
22109194 AACATCTGA
1 AACATCTGA
22109203 AGGCTAGATT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 97 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (88 bp):
AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATC
ATCTTGGATCTTGCTTCAGTATA
Found at i:22109257 original size:208 final size:205
Alignment explanation
Indices: 22108900--22109321 Score: 727
Period size: 208 Copynumber: 2.0 Consensus size: 205
22108890 CATGTTTGAG
* * *
22108900 AACATCTGAGAGTCAAATCTGCTATGTTCTTGATTTGTTCTTGTAAACACAATAATACCAAATCA
1 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCTTGTAAACACAAGAATACCAAATCA
* *
22108965 TCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGTTATATTTGAGAACATCTGAGAG
66 TCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTAAGAG
* *
22109030 TCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTT
131 TCAAATCTGCTACGTCCTCGATTTGTTTCTTATAAACACAAGAATACCAAATCATCTTGGATC-T
22109095 GCTTCAGTATA
195 GCTTCAGTATA
22109106 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATC
1 AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTG-TTCTTGTAAACACAAGAATACCAAATC
* *
22109171 ATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATTTGCTATATTTGAGAACATCTAAG
65 ATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTAAG
22109236 AGTCAAATCTGCTACGTCCTCGATTTGTTTCTTATAAACACAAGAATACCAAATCATCTTGGATC
129 AGTCAAATCTGCTACGTCCTCGATTTGTTTCTTATAAACACAAGAATACCAAATCATCTTGGATC
*
22109301 TGCTTCAGTGTA
194 TGCTTCAGTATA
22109313 AACATCTGA
1 AACATCTGA
22109322 AGGCTAGATC
Statistics
Matches: 204, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
206 35 0.17
207 56 0.27
208 113 0.55
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (205 bp):
AACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCTTGTAAACACAAGAATACCAAATCA
TCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTAAGAG
TCAAATCTGCTACGTCCTCGATTTGTTTCTTATAAACACAAGAATACCAAATCATCTTGGATCTG
CTTCAGTATA
Found at i:22117363 original size:15 final size:15
Alignment explanation
Indices: 22117322--22117369 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
22117312 ATAACCTTGA
*
22117322 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
22117336 ATG-AAATGCCATGAG
1 ATGCAAATG-CATGAG
22117351 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
22117365 ATGCA
1 ATGCA
22117370 TAAAGAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.17
14 8 0.27
15 12 0.40
16 5 0.17
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:22119591 original size:13 final size:13
Alignment explanation
Indices: 22119573--22119598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22119563 AGATAGTCAG
22119573 TATCACATGATAT
1 TATCACATGATAT
22119586 TATCACATGATAT
1 TATCACATGATAT
22119599 ACTATCTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCACATGATAT
Found at i:22119740 original size:202 final size:202
Alignment explanation
Indices: 22119394--22119800 Score: 796
Period size: 202 Copynumber: 2.0 Consensus size: 202
22119384 ATCCCTCAGC
22119394 TATACTATCTCCCTTTTCTAGTTGAGTTTGCTCGGACCATCTATGGACGTTAGTGTTACCTTCCA
1 TATACTATCTCCCTTTTCTAGTTGAGTTTGCTCGGACCATCTATGGACGTTAGTGTTACCTTCCA
*
22119459 CTCTATCAAGAAGTCCGTTCTCTATAATAAAACTTCCTAACTTAGAAACTGATCGTGAACCGATA
66 CTCTATCAAGAAGTCCGTTCTCCATAATAAAACTTCCTAACTTAGAAACTGATCGTGAACCGATA
22119524 TCTTTGTAAATGCAAAATGACATACAAGCAAAAGAAAAGAGATAGTCAGTATCACATGATATTAT
131 TCTTTGTAAATGCAAAATGACATACAAGCAAAAGAAAAGAGATAGTCAGTATCACATGATATTAT
22119589 CACATGA
196 CACATGA
22119596 TATACTATCTCCCTTTTCTAGTTGAGTTTGCTCGGACCATCTATGGACGTTAGTGTTACCTTCCA
1 TATACTATCTCCCTTTTCTAGTTGAGTTTGCTCGGACCATCTATGGACGTTAGTGTTACCTTCCA
22119661 CTCTATCAAGAAGTCCGTTCTCCATAATAAAACTTCCTAACTTAGAAACTGATCGTGAACCGATA
66 CTCTATCAAGAAGTCCGTTCTCCATAATAAAACTTCCTAACTTAGAAACTGATCGTGAACCGATA
*
22119726 TCTTTGTAAATGCAAAATGACATGCAAGCAAAAGAAAAGAGATAGTCAGTATCACATGATATTAT
131 TCTTTGTAAATGCAAAATGACATACAAGCAAAAGAAAAGAGATAGTCAGTATCACATGATATTAT
22119791 CACATGA
196 CACATGA
22119798 TAT
1 TAT
22119801 CAATAAATAA
Statistics
Matches: 203, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
202 203 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (202 bp):
TATACTATCTCCCTTTTCTAGTTGAGTTTGCTCGGACCATCTATGGACGTTAGTGTTACCTTCCA
CTCTATCAAGAAGTCCGTTCTCCATAATAAAACTTCCTAACTTAGAAACTGATCGTGAACCGATA
TCTTTGTAAATGCAAAATGACATACAAGCAAAAGAAAAGAGATAGTCAGTATCACATGATATTAT
CACATGA
Found at i:22119793 original size:13 final size:13
Alignment explanation
Indices: 22119775--22119800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22119765 AGATAGTCAG
22119775 TATCACATGATAT
1 TATCACATGATAT
22119788 TATCACATGATAT
1 TATCACATGATAT
22119801 CAATAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCACATGATAT
Found at i:22121603 original size:34 final size:35
Alignment explanation
Indices: 22121562--22121641 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 35
22121552 TTTAAATAAT
**
22121562 ATATATGATATAAACATAA-ATA-ATATAATTGGTA
1 ATATATGA-ATAAACATAACATATATATAAAAGGTA
22121596 ATATATGAGAT--ACATAACATATATATAAAAGGTA
1 ATATATGA-ATAAACATAACATATATATAAAAGGTA
22121630 ATATA-GAATAAA
1 ATATATGAATAAA
22121642 AAATAAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
32 8 0.21
33 5 0.13
34 26 0.67
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (35 bp):
ATATATGAATAAACATAACATATATATAAAAGGTA
Found at i:22127714 original size:18 final size:17
Alignment explanation
Indices: 22127691--22127732 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
22127681 TTTTTTCTTT
22127691 TATTATTATATTATATTA
1 TATTATTATATT-TATTA
22127709 TATTATT-TATTTATTA
1 TATTATTATATTTATTA
22127725 T-TTATTAT
1 TATTATTAT
22127733 TTACTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 7 0.30
17 4 0.17
18 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTATTATATTTATTA
Found at i:22127725 original size:7 final size:7
Alignment explanation
Indices: 22127689--22127735 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
22127679 ATTTTTTTCT
22127689 TTTATTA
1 TTTATTA
22127696 -TTA-TA
1 TTTATTA
22127701 TTATATTA
1 TT-TATTA
22127709 TATTATTTA
1 T-TTA-TTA
22127718 TTTATTA
1 TTTATTA
22127725 TTTATTA
1 TTTATTA
22127732 TTTA
1 TTTA
22127736 CTTTTTTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
5 2 0.06
6 4 0.11
7 16 0.46
8 8 0.23
9 5 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:22127733 original size:18 final size:18
Alignment explanation
Indices: 22127689--22127735 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
22127679 ATTTTTTTCT
22127689 TTTATTA-TTATATTATA
1 TTTATTATTTATATTATA
22127706 TTATATTATTTAT-TTATTA
1 TT-TATTATTTATATTA-TA
22127725 TTTATTATTTA
1 TTTATTATTTA
22127736 CTTTTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.07
18 17 0.63
19 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTATTTATATTATA
Found at i:22129795 original size:96 final size:96
Alignment explanation
Indices: 22129631--22129828 Score: 308
Period size: 96 Copynumber: 2.1 Consensus size: 96
22129621 TTTTTAAGAA
* * *
22129631 TGTGTTGGGTTGAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCGCGTCAAAAGGTTCG
1 TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCACGTCAAAAGGTTCG
*
22129696 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 ATATGTTCTCAAGAAAAATAAAAATTAGGAG
* * **
22129727 TGTGTTGGGCTAAGTAACTGGGGTGGGGTGCTTGGCTGTCAT-TTTTCTTCATTTCAAAAGGTTC
1 TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTT-TTCACGTCAAAAGGTTC
22129791 GATATGTTCTCAAGAAAAATAAAAATTAGGAG
65 GATATGTTCTCAAGAAAAATAAAAATTAGGAG
22129823 TGTGTT
1 TGTGTT
22129829 CGATATATTC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 3 0.03
96 90 0.97
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (96 bp):
TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCACGTCAAAAGGTTCG
ATATGTTCTCAAGAAAAATAAAAATTAGGAG
Found at i:22130498 original size:10 final size:10
Alignment explanation
Indices: 22130483--22130531 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
22130473 TAATTTTAAG
22130483 ATTTAT-TTT
1 ATTTATCTTT
22130492 CATTTATCTTT
1 -ATTTATCTTT
*
22130503 AATTATCTTT
1 ATTTATCTTT
22130513 ATTTAT-TTGT
1 ATTTATCTT-T
22130523 ATTTATCTT
1 ATTTATCTT
22130532 ATAGAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:22131302 original size:39 final size:39
Alignment explanation
Indices: 22131254--22131338 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
22131244 ATTTTCGCAA
22131254 TTCCA-ATCAAAAATTTTAATTCTATTTTTATT-TTAT-TT
1 TTCCAGATCAAAAATTTTAATTCTATTTTT-TTATT-TCTT
* *
22131292 TTCCAGATCAAAACTTTTAATTCTGTTTTTTTATTTCTT
1 TTCCAGATCAAAAATTTTAATTCTATTTTTTTATTTCTT
22131331 TTCCAGAT
1 TTCCAGAT
22131339 ACGCAGGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
38 8 0.19
39 34 0.81
ACGTcount: A:0.27, C:0.14, G:0.04, T:0.55
Consensus pattern (39 bp):
TTCCAGATCAAAAATTTTAATTCTATTTTTTTATTTCTT
Found at i:22135778 original size:595 final size:595
Alignment explanation
Indices: 22134333--22136116 Score: 3052
Period size: 595 Copynumber: 3.0 Consensus size: 595
22134323 TGGCCTAACC
* *
22134333 ACGGCCTCTCGAAAGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGACTTGCATCTTGTCGGA
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
*
22134398 CCTCCACGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
66 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
* * * *
22134463 TCCAACACTCGCCCTGATAGCGTCTACCACAGTCAGTACACGGCGGCTGTCCAGCAGTAGCTATA
131 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
* *
22134528 TGA-CCCTTAACTTTGATCGGCCTATCCGCTCTGGCCTTTTT-TTAAGCCTCTAAATAGAACTCG
196 GGAGCCC-TAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCG
* *
22134591 AGGGCTCTGAATCCCTCTTGCTCTTACCTCTTTCCCGGTTCTGGAGCTCAGCGCGCTTTACTTCC
260 AGGGCTCAGAATCCCTCTTGCTCTTACCTCTTTCCCGGTTCTGGAGCTCAGCGCGCTTCACTTCC
* *
22134656 TCGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCACTCCCTCTGTGGAGCCATCAAAAC
325 TCGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAAC
* *
22134721 CTTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTTAGTCGCCATCATAC
390 CCTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATAC
* *
22134786 TTCGCGTATAGCGGCTCAGTCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGG
455 CTCGCGCATAGCGGCTCAGTCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGG
*
22134851 GTCAAATTTAGAAACTCTCTCCTACGAGCATCCACATAATTGGCCCCC-CATACTTCCCCTGGAA
520 GTCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAA
22134915 AGCAATCTTAA
585 AGCAATCTTAA
22134926 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
*
22134991 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTC
66 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
* * *
22135056 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAACGGGTATCCAGCAGCAGCTATA
131 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
* *
22135121 GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTATATAGAACTCAA
196 GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
* * *
22135186 GGGCTCAAAATCCCTCTTGCTCTTACCTCTTTCCCGGTTCTGGAGCTTAGCGCACTTCACTTCCT
261 GGGCTCAGAATCCCTCTTGCTCTTACCTCTTTCCCGGTTCTGGAGCTCAGCGCGCTTCACTTCCT
22135251 CGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
326 CGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
*
22135316 CTCAGATTATCCTTGAGGCCATCCTCAAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACC
391 CTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACC
* * *
22135381 TCGCGCATAGTGGCTCAATCTTAGAAATTTAGCCTCATTCTCGACCACTGATCTATCACCCTGGG
456 TCGCGCATAGCGGCTCAGTCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGG
*
22135446 TCAAATTTAGAAACTCTCTCCTATGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAAA
521 TCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAAA
22135511 GCAATCTTAA
586 GCAATCTTAA
* * * *
22135521 ATGGCCTCTCGAAGGCTGCTCAGTGGTGGTACAATACCAGTACCCGGGGCTTGCATCTTATCGGA
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
* * *
22135586 CCTCCGTGGATAATTCCTAATACGGTGCCCTAATGAACCGCACTTCAAACAAACCCTAGTTCTTT
66 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
22135651 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
131 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
* *
22135716 GGAGCCCTAACTCTGATTGGCCTATCCGCTCTAGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
196 GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
* *
22135781 GGGCTCCGAATCCCTCTTGCTCTTACCTCTTTCCTGGTTCTGGAGCTCAGCGCGCTTCACTTCCT
261 GGGCTCAGAATCCCTCTTGCTCTTACCTCTTTCCCGGTTCTGGAGCTCAGCGCGCTTCACTTCCT
* * *
22135846 CGGTAATCTTCATCTTATCAACCAATGCAGTAAAGTCTCGCTTCCTCTGTGGAGCTATCAAAACC
326 CGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
* * *
22135911 CTCAGAATATCCTTGAGGCCATCCTCGAAGTGAACGCATTGCTCGTACTCAGTCGCCATCATACC
391 CTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACC
* *
22135976 TCACGCATAGCGGCTCAGTCTCAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGG
456 TCGCGCATAGCGGCTCAGTCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGG
*
22136041 TTAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAAA
521 TCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAAA
* *
22136106 GTAATATTAA
586 GCAATCTTAA
22136116 A
1 A
22136117 GAACTCCCAG
Statistics
Matches: 1120, Mismatches: 68, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
593 219 0.20
594 314 0.28
595 587 0.52
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (595 bp):
ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
GGGCTCAGAATCCCTCTTGCTCTTACCTCTTTCCCGGTTCTGGAGCTCAGCGCGCTTCACTTCCT
CGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
CTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACC
TCGCGCATAGCGGCTCAGTCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGG
TCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAAA
GCAATCTTAA
Found at i:22151326 original size:19 final size:19
Alignment explanation
Indices: 22151302--22151345 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22151292 TTTATAGTTT
*
22151302 TAAAAAA-CATTGGTTATTG
1 TAAAAAATCATTAG-TATTG
*
22151321 TAAAAAATTATTAGTATTG
1 TAAAAAATCATTAGTATTG
22151340 TAAAAA
1 TAAAAA
22151346 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAAAAATCATTAGTATTG
Found at i:22152110 original size:3 final size:3
Alignment explanation
Indices: 22152102--22152134 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22152092 TTGTCTAAAA
22152102 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22152135 CATAACTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22157433 original size:25 final size:25
Alignment explanation
Indices: 22157405--22157460 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
22157395 CTCGGCTCTG
22157405 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
22157430 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
22157455 TCACAT
1 TCACAT
22157461 CGGCTATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:22157481 original size:72 final size:72
Alignment explanation
Indices: 22157357--22157507 Score: 214
Period size: 72 Copynumber: 2.1 Consensus size: 72
22157347 TTCGGGACTT
* * * * *
22157357 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCTCTGTCACATATATACACTTT
1 ATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTCTATCACATATATACACTTT
22157422 CACATTC
66 CACATTC
* * *
22157429 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC-CTTATCACATATATACACTT
1 ATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTC-TATCACATATATACACTT
22157493 TCACATTC
65 TCACATTC
22157501 ATCACAT
1 ATCACAT
22157508 CGGCCATTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 1 0.01
72 69 0.99
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.34
Consensus pattern (72 bp):
ATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTCTATCACATATATACACTTT
CACATTC
Found at i:22157553 original size:49 final size:49
Alignment explanation
Indices: 22157434--22157692 Score: 431
Period size: 47 Copynumber: 5.4 Consensus size: 49
22157424 CATTCATCAC
*
22157434 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
22157481 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
22157530 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--AT
* *
22157581 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
22157628 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
22157677 ATATATACA--TTCACAT
1 ATATATACACTTTCACAT
22157693 CACAATTATC
Statistics
Matches: 201, Mismatches: 5, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
47 98 0.49
49 56 0.28
51 47 0.23
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:22161414 original size:40 final size:40
Alignment explanation
Indices: 22161267--22161427 Score: 129
Period size: 40 Copynumber: 4.1 Consensus size: 40
22161257 CAGCATGACT
* * * * *
22161267 TGCTCTTCGGGACACTAAGCCCGGATATAACACCAGC-CGAA
1 TGCTCTTC-GGA-ACTTAGTCCGGATACATCACTAGCACGAA
* * **
22161308 TGCTTTTCGAAACTTAG-CAAGATTA-ATCAACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGA-TACATC-ACTAGCACGAA
22161348 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
22161388 TGCTCTT-GGGATTTAG-CCGGATATA-CACT-GCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
22161424 TGCT
1 TGCT
22161428 GTTTTTTCGG
Statistics
Matches: 101, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
36 11 0.11
37 4 0.04
38 13 0.13
39 19 0.19
40 41 0.41
41 13 0.13
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:22161576 original size:41 final size:41
Alignment explanation
Indices: 22161452--22161580 Score: 138
Period size: 41 Copynumber: 3.1 Consensus size: 41
22161442 TAGGTCCGCG
* *
22161452 TCGGAAACTTAGTCTGGATACA-CACCTAGCACGAATGCTCT
1 TCGGAAACTTACTCCGGATACATCA-CTAGCACGAATGCTCT
* *
22161493 TTGG-AATTTAGC-CCGGGAATATCATCACTAGCACGAATGCTCT
1 TCGGAAACTTA-CTCC-GG-ATA-CATCACTAGCACGAATGCTCT
* *
22161536 TCGGAAACTTACTCCGGATACATCACTAGCATGAAGGCTCT
1 TCGGAAACTTACTCCGGATACATCACTAGCACGAATGCTCT
22161577 TCGG
1 TCGG
22161581 GATTTAGCCC
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
40 6 0.08
41 28 0.38
42 6 0.08
43 24 0.33
44 9 0.12
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
TCGGAAACTTACTCCGGATACATCACTAGCACGAATGCTCT
Found at i:22162086 original size:42 final size:40
Alignment explanation
Indices: 22161754--22162269 Score: 393
Period size: 42 Copynumber: 12.7 Consensus size: 40
22161744 TACCAACCAC
* *
22161754 AGCACGAATGCTCTTCGGGATTTAGCCCGGATA-TTCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* * * *
22161793 AGCCACGAACTGCTCTTTGGAACTTA--TC-GCT-CATCACT
1 AG-CACGAA-TGCTCTTCGGGACTTAGCCCGGATACATCACT
* * *
22161831 -GCGATGAATGCTC-TCGGGATTTAGCCAC-GATATATCACT
1 AGC-ACGAATGCTCTTCGGGACTTAGCC-CGGATACATCACT
* * *
22161870 AGCACGAATGCT-TT-AGGACTTTAGTCCGGATAAACTCACT
1 AGCACGAATGCTCTTCGGGAC-TTAGCCCGGATACA-TCACT
* * *
22161910 AGGGCATGAA-GCTCTTCGGGATTTTAGGCCCGGATATATCACT
1 A--GCACGAATGCTCTTCGGGA-CTTA-GCCCGGATACATCACT
* *
22161953 AGCACGAATGCTCTTCGGAACTTAGTTCC-GATACATCAC-
1 AGCACGAATGCTCTTCGGGACTTAG-CCCGGATACATCACT
* *
22161992 AG-ATGAATGCTCTTCGCGGACTGAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATACATCACT
* * *
22162032 GGCGCAAATGCTC-TCAGCGGACTTAGCCCGGATTACATCACT
1 AGCACGAATGCTCTTC-G-GGACTTAGCCCGGA-TACATCACT
* * * *
22162074 AGCATGATTGCTCTTCGGGATTTAAGGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTT-A-GCCCGGATACATCACT
* *
22162116 AGCACGAATGCTCTTCGGAAACCTTAGTCCGG-TACATCCACT
1 AGCACGAATGCTCTTCGG-GA-CTTAGCCCGGATACAT-CACT
*
22162158 AGCATGAATG-TCTTTCGGGACTTAG-CCGGATACATCACT
1 AGCACGAATGCTC-TTCGGGACTTAGCCCGGATACATCACT
* *
22162197 CAGCACAAATGCTCATTCGGGACTTAGCCCGGATTACATCACG
1 -AGCACGAATGCTC-TTCGGGACTTAGCCCGGA-TACATCACT
*
22162240 AGCACGAATGCTCTTTTGGGACTTAGCCCG
1 AGCACGAATGCTC-TTCGGGACTTAGCCCG
22162270 AGAATCATCG
Statistics
Matches: 379, Mismatches: 59, Indels: 75
0.74 0.12 0.15
Matches are distributed among these distances:
35 7 0.02
36 6 0.02
37 5 0.01
38 29 0.08
39 54 0.14
40 45 0.12
41 75 0.20
42 116 0.31
43 31 0.08
44 11 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
Found at i:22164678 original size:49 final size:49
Alignment explanation
Indices: 22164624--22164825 Score: 356
Period size: 49 Copynumber: 4.1 Consensus size: 49
22164614 CATCTCATCA
*
22164624 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
22164673 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
22164722 ATAATACACTTTCACATTCATCACAT-GGCCATT-GGCCTTATCACA-AT
1 AT-ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
22164769 ATATACACTTTCACATTCATCACATTCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACA-TCGGCCATTAGGCCTTATCACATAT
22164819 ATATACA
1 ATATACA
22164826 TTCACGTCAC
Statistics
Matches: 147, Mismatches: 1, Indels: 9
0.94 0.01 0.06
Matches are distributed among these distances:
46 22 0.15
47 5 0.03
48 19 0.13
49 69 0.47
50 32 0.22
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:22164813 original size:97 final size:98
Alignment explanation
Indices: 22164624--22164825 Score: 356
Period size: 97 Copynumber: 2.1 Consensus size: 98
22164614 CATCTCATCA
*
22164624 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
22164689 TCATCACATCGGCCATTAGGCCTTATCACATAT
66 TCATCACATCGGCCATTAGGCCTTATCACATAT
22164722 ATAATACACTTTCACATTCATCACAT-GGCCATT-GGCCTTATCACA-ATATATACACTTTCACA
1 AT-ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
22164784 TTCATCACATTCGGCCATTAGGCCTTATCACATAT
65 TTCATCACA-TCGGCCATTAGGCCTTATCACATAT
22164819 ATATACA
1 ATATACA
22164826 TTCACGTCAC
Statistics
Matches: 101, Mismatches: 1, Indels: 6
0.94 0.01 0.06
Matches are distributed among these distances:
96 31 0.31
97 39 0.39
98 8 0.08
99 23 0.23
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (98 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:22167631 original size:80 final size:76
Alignment explanation
Indices: 22167539--22167911 Score: 306
Period size: 78 Copynumber: 4.8 Consensus size: 76
22167529 TTGACAGGAA
22167539 TGAAAATACCTCAACGGTGTCTTGGGAGGCTCAAC-CACCTCTCGCAATATGAGTTGAATTTTTC
1 TGAAAATACCTCAAC-GTGTCTT-GGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTC
22167603 TTGAAAAGCAGAAAT
63 TTGAAAA-CAGAAAT
22167618 TGAAAAATACCTCAACTGTGTCTTGGAGGCT-AACATCACCTCTGTCGCAATATGAGTTGATTTT
1 TG-AAAATACCTCAAC-GTGTCTTGGAGGCTCAAC-TCACCTC--TCGCAATATGAGTTGATTTT
* *
22167682 TTTTGACAACAGAAAT
61 TCTTGAAAACAGAAAT
* * *
22167698 TG-AAATACCTCAGCGTGTCCT-GAGGCTCAAACTCACCCTCTAGCAATATGAAGTTGA--TTT-
1 TGAAAATACCTCAACGTGTCTTGGAGGCTC-AACTCA-CCTCTCGCAATATG-AGTTGATTTTTC
* *
22167758 TGGAAAAACAAAAAT
63 TTG-AAAACAGAAAT
* * * ** *
22167773 TGGGAAATTAACTCAGCGTGTC-T-GA-GCTC-ACTCATTTCTCGCAATATTAGTTGATTTTT-T
1 T--GAAAATACCTCAACGTGTCTTGGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCT
22167833 TGACAAACAGAAAT
64 TGA-AAACAGAAAT
* * *
22167847 TGGAAAATTACCTCAGCGTGTC-T-GAGGCTCACCTCAAGCCTCTAGCAATATGAAGGTTGATTT
1 T-GAAAA-TACCTCAACGTGTCTTGGAGGCTCAACTC-A-CCTCTCGCAATATG-A-GTTGATTT
22167910 TT
60 TT
22167912 GAAAAAATTG
Statistics
Matches: 247, Mismatches: 24, Indels: 45
0.78 0.08 0.14
Matches are distributed among these distances:
72 6 0.02
73 16 0.06
74 38 0.15
75 17 0.07
76 22 0.09
77 20 0.08
78 46 0.19
79 10 0.04
80 45 0.18
81 12 0.05
82 15 0.06
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (76 bp):
TGAAAATACCTCAACGTGTCTTGGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCTTG
AAAACAGAAAT
Found at i:22167847 original size:74 final size:76
Alignment explanation
Indices: 22167564--22167911 Score: 288
Period size: 74 Copynumber: 4.5 Consensus size: 76
22167554 GGTGTCTTGG
* * *
22167564 GAGGCTCAAC-CA-CCTCTCGCAATATGAGTTGAATTTTTCTTGA-AAAGCAGAAATT-GAAAAA
1 GAGGCTC-ACTCACCCTCTCGCAATATAAGTTG-ATTTTT-TTGACAAA-CAGAAATTGGGAAAT
*
22167625 TACCTCAACTGTGTCTT
62 TACCTCAGC-GTGTC-T
* * *
22167642 GGAGGCTAACATCACCTCTGTCGCAATATGAGTTGATTTTTTTTGAC-AACAGAAATT--GAAA-
1 -GAGGCTCAC-TCACC-CTCTCGCAATATAAGTTGA-TTTTTTTGACAAACAGAAATTGGGAAAT
22167703 TACCTCAGCGTGTCCT
62 TACCTCAGCGTGT-CT
* * * *
22167719 GAGGCTCAAACTCACCCTCTAGCAATATGAAGTTGA--TTTTGGAAAAACAAAAATTGGGAAATT
1 GAGGCTC--ACTCACCCTCTCGCAATAT-AAGTTGATTTTTTTGACAAACAGAAATTGGGAAATT
*
22167782 AACTCAGCGTGTCT
63 ACCTCAGCGTGTCT
** * *
22167796 GA-GCTCACTCA-TTTCTCGCAATATTAGTTGATTTTTTTGACAAACAGAAATTGGAAAATTACC
1 GAGGCTCACTCACCCTCTCGCAATATAAGTTGATTTTTTTGACAAACAGAAATTGGGAAATTACC
22167859 TCAGCGTGTCT
66 TCAGCGTGTCT
* *
22167870 GAGGCTCACCTCAAGCCTCTAGCAATATGAAGGTTGATTTTT
1 GAGGCTCA-CTC-ACCCTCTCGCAATAT-AA-GTTGATTTTT
22167912 GAAAAAATTG
Statistics
Matches: 222, Mismatches: 25, Indels: 43
0.77 0.09 0.15
Matches are distributed among these distances:
72 6 0.03
73 10 0.05
74 49 0.22
75 14 0.06
76 23 0.10
77 25 0.11
78 35 0.16
79 10 0.05
80 20 0.09
81 8 0.04
82 22 0.10
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (76 bp):
GAGGCTCACTCACCCTCTCGCAATATAAGTTGATTTTTTTGACAAACAGAAATTGGGAAATTACC
TCAGCGTGTCT
Found at i:22167957 original size:151 final size:146
Alignment explanation
Indices: 22167662--22167974 Score: 397
Period size: 151 Copynumber: 2.1 Consensus size: 146
22167652 ATCACCTCTG
22167662 TCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCA
1 TCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCA
22167727 AACTCACCCTCTAGCAATATGAAGTTGATTTTGGAAAAACAAAAATTGGGAAATTAACTCAGCGT
66 AACTCACCCTCTAGCAATATGAAGTTGATTTTGG---AACAAAAATTGGGAAATTAACTCAGCGT
22167792 GTCTGAGCTCACTCATTTC
128 GTCTGAGCTCACTCATTTC
*
22167811 TCGCAATATTAGTTGA-TTTTTTTGACAAACAGAAATTGGAAAATTACCTCAGCGTGT-CTGAGG
1 TCGCAATATGAGTTGATTTTTTTTGAC-AACAGAAATT-G-AAA-TACCTCAGCGTGTCCTGAGG
* * * *
22167874 CTC-ACCTCAAGCCTCTAGCAATATGAAGGTTGATTTTTG-A-AAAAATT-GGAAATT-CCTCAG
62 CTCAAACTC-ACCCTCTAGCAATATGAA-GTTGATTTTGGAACAAAAATTGGGAAATTAACTCAG
22167934 CGTGTAGCTGAGGGGCTCAACTCATTTC
125 CGTGT--CTGA---GCTC-ACTCATTTC
22167962 TCGCAATATGAGT
1 TCGCAATATGAGT
22167975 CAATTTAAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 22
0.84 0.03 0.13
Matches are distributed among these distances:
145 10 0.07
146 7 0.05
147 11 0.08
148 11 0.08
149 25 0.17
150 9 0.06
151 50 0.34
152 23 0.16
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (146 bp):
TCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCA
AACTCACCCTCTAGCAATATGAAGTTGATTTTGGAACAAAAATTGGGAAATTAACTCAGCGTGTC
TGAGCTCACTCATTTC
Found at i:22173025 original size:40 final size:38
Alignment explanation
Indices: 22172980--22173122 Score: 146
Period size: 39 Copynumber: 3.7 Consensus size: 38
22172970 ATAAAACACC
* *
22172980 AGCACGAATGCTTTTCGAAACTTAGCACAGATATATCACT
1 AGCACGAATGCTCTTCGGAACTTAGC-C-GATATATCACT
* * *
22173020 AGCACGAAAGCTCTGC-GAACTTAGTCCGATACATCACT
1 AGCACGAATGCTCTTCGGAACTTAG-CCGATATATCACT
* * *
22173058 AGCACGAAATGCTCTTTGGGATTTAGCCCGGATATATC-CT
1 AGCACG-AATGCTCTTCGGAACTTAG-CC-GATATATCACT
22173098 AGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGAACTTAG
22173123 TCCGGTCCGA
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
38 16 0.19
39 31 0.37
40 30 0.36
41 7 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (38 bp):
AGCACGAATGCTCTTCGGAACTTAGCCGATATATCACT
Found at i:22173072 original size:39 final size:39
Alignment explanation
Indices: 22173009--22173126 Score: 127
Period size: 38 Copynumber: 3.0 Consensus size: 39
22172999 ACTTAGCACA
22173009 GATATATCACTAGCACGAAA-GCTCTGCGAACTTAGTCC
1 GATATATCACTAGCACGAAATGCTCTGCGAACTTAGTCC
* * * *
22173047 GATACATCACTAGCACGAAATGCTCTTTG-GGATTTAGCCC
1 GATATATCACTAGCACGAAATGCTC--TGCGAACTTAGTCC
*
22173087 GGATATATC-CTAGCACG-AATGCTCTTCGGAACTTAGTCC
1 -GATATATCACTAGCACGAAATGCTCTGC-GAACTTAGTCC
22173126 G
1 G
22173127 GTCCGAACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
37 1 0.02
38 20 0.31
39 19 0.29
40 16 0.25
41 9 0.14
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (39 bp):
GATATATCACTAGCACGAAATGCTCTGCGAACTTAGTCC
Found at i:22173211 original size:92 final size:95
Alignment explanation
Indices: 22173035--22173211 Score: 274
Period size: 92 Copynumber: 1.9 Consensus size: 95
22173025 GAAAGCTCTG
* *
22173035 CGAACTTAGTCCGATACATCACTAGCACGAAATGCTCTTTGGGATTTAGCCCGGATATATCCTAG
1 CGAACTTAGTCCGATACAACACTAGCACGAAATGCTCTTTGGGATATAGCCCGGATATATCCTAG
22173100 CACGAATGCTCTTCGGAACTTAGTCCGGTC
66 CACGAATGCTCTTCGGAACTTAGTCCGGTC
*
22173130 CGAACTTAGTCTGGATACAACACTAGCACG-AATGCTC-TTGGGATATA-CCCGGATATA-CACT
1 CGAACTTAGTC-CGATACAACACTAGCACGAAATGCTCTTTGGGATATAGCCCGGATATATC-CT
22173191 A-CACGAATGCTCTTCGGAACT
64 AGCACGAATGCTCTTCGGAACT
22173212 ACTCCGGATA
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
92 21 0.27
93 13 0.17
94 9 0.12
95 18 0.23
96 16 0.21
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (95 bp):
CGAACTTAGTCCGATACAACACTAGCACGAAATGCTCTTTGGGATATAGCCCGGATATATCCTAG
CACGAATGCTCTTCGGAACTTAGTCCGGTC
Found at i:22173240 original size:39 final size:39
Alignment explanation
Indices: 22173142--22173376 Score: 232
Period size: 39 Copynumber: 6.1 Consensus size: 39
22173132 AACTTAGTCT
* *
22173142 GGATACAACACTAGCACGAATGCTCTTGGGATA-TA-CCC
1 GGATACATCACTAGCACGAATGCTCTTCGGA-ACTAGCCC
*
22173180 GGATATA-CACTA-CACGAATGCTCTTCGGAACTA-CTCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTAGC-CC
* **
22173217 GGATACATCACTAGCATGAATGCTCTTCGGATTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTAGCCC
* * * * *
22173256 GGATATATCACTAGCACGAATACTTTTAGGAACTTAGGCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAAC-TAGCCC
* **
22173296 GGATACATCACTAGCATGAATGCTC-TCGGGATTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTC-GGAACTAGCCC
*
22173335 GGATATATCACTAGCACGAATGCTC-TCGGAACTTAGCTCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAAC-TAGC-CC
22173375 GG
1 GG
22173377 TCGGAACTTA
Statistics
Matches: 162, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
35 1 0.01
36 19 0.12
37 13 0.08
38 14 0.09
39 81 0.50
40 34 0.21
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
GGATACATCACTAGCACGAATGCTCTTCGGAACTAGCCC
Found at i:22173307 original size:79 final size:79
Alignment explanation
Indices: 22173131--22173376 Score: 324
Period size: 79 Copynumber: 3.2 Consensus size: 79
22173121 AGTCCGGTCC
* * * * *
22173131 GAACTTAGTCTGGATACAACACTAGCACGAATGCTCTTGGGATATA-CCCGGATATA-CACTA-C
1 GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGATTTAGCCCGGATATATCACTAGC
* *
22173193 ACGAATGCTCTTCG
66 ACGAATACTCTTAG
*
22173207 GAAC-TACTCCGGATACATCACTAGCATGAATGCTCTTCGGATTTAGCCCGGATATATCACTAGC
1 GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGATTTAGCCCGGATATATCACTAGC
*
22173271 ACGAATACTTTTAG
66 ACGAATACTCTTAG
*
22173285 GAACTTAGGCCGGATACATCACTAGCATGAATGCTC-TCGGGATTTAGCCCGGATATATCACTAG
1 GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTC-GGATTTAGCCCGGATATATCACTAG
* *
22173349 CACGAATGCTC-TCG
65 CACGAATACTCTTAG
22173363 GAACTTAGCTCCGG
1 GAACTTAG-TCCGG
22173377 TCGGAACTTA
Statistics
Matches: 149, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
75 35 0.23
76 14 0.09
77 5 0.03
78 28 0.19
79 67 0.45
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (79 bp):
GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGATTTAGCCCGGATATATCACTAGC
ACGAATACTCTTAG
Found at i:22173444 original size:40 final size:40
Alignment explanation
Indices: 22173389--22173913 Score: 640
Period size: 40 Copynumber: 13.2 Consensus size: 40
22173379 GGAACTTAGT
* *
22173389 CGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* * * *
22173429 CGGATATATCACTAGCACGAAATGCTCTT-TGAACTTAGTC
1 CGGATACATCACTAGCACG-AATGCTCTTCGGGACTTAGCC
* *
22173469 CGGATACATCACTAGCATGAATGCTCTTC-GGATTTAG-C
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* ** * *
22173507 CGCGATATATCACTAGCACGAATGCT-TTTAGAACTTAGTC
1 CG-GATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* *
22173547 CGGATACATCACTAGCAGGAATGCTCTTC-GGATTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* * *
22173586 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
*
22173626 CGGATACATCACTAGCATGAATGC-CTCTC-GGACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCT-TCGGGACTTAGCC
* *
22173665 CGGATAACATCACTAGCGCAAAATGCTC-TCGGGACTTAGCC
1 CGGAT-ACATCACTAGCAC-GAATGCTCTTCGGGACTTAGCC
* *
22173706 CGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* ** *
22173746 C-GATATATCACTAGCACGAATGCTCTTCGAAACTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
*
22173785 CGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
*
22173825 CGGATACATCACTAGCACAAATGCTCTTC-GGACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* *
22173864 CGGATAATATCACTAGCACGAATGCTCTTTGGGACTTAGCC
1 CGGAT-ACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
22173905 CGGAT-CATC
1 CGGATACATC
22173914 GTCGAGACCT
Statistics
Matches: 415, Mismatches: 54, Indels: 33
0.83 0.11 0.07
Matches are distributed among these distances:
38 5 0.01
39 170 0.41
40 195 0.47
41 44 0.11
42 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (40 bp):
CGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCC
Found at i:22173447 original size:95 final size:95
Alignment explanation
Indices: 22173284--22173471 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 95
22173274 AATACTTTTA
* *
22173284 GGAACTTAGGCCGGATACATCACTAGCATGAATGCTCTCGGGATTTAGCCCGGATATATCACTAG
1 GGAACTTAGGCCGGATACAACACTAGCACGAATGCTCTCGGGATTTAGCCCGGATATATCACTAG
22173349 CACG-AATGCTCTCGGAACTTAGCTCCGGTC
66 CACGAAATGCTCTCGGAACTTAG-TCCGGTC
*
22173379 GGAACTTA-GTCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTA
1 GGAACTTAGGCCGGATACAACACTAGCACGAATGCTC-TCGGGATTTAGCCCGGATATATCACTA
**
22173443 GCACGAAATGCTCTTTGAACTTAGTCCGG
65 GCACGAAATGCTCTCGGAACTTAGTCCGG
22173472 ATACATCACT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 25 0.29
95 45 0.52
96 16 0.19
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (95 bp):
GGAACTTAGGCCGGATACAACACTAGCACGAATGCTCTCGGGATTTAGCCCGGATATATCACTAG
CACGAAATGCTCTCGGAACTTAGTCCGGTC
Found at i:22173517 original size:79 final size:79
Alignment explanation
Indices: 22173380--22173909 Score: 734
Period size: 79 Copynumber: 6.7 Consensus size: 79
22173370 GCTCCGGTCG
* *
22173380 GAACTTAGT-CGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
1 GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
*
22173444 CACGAAATGCTCTTT
66 CACG-AATGCTCTTC
22173459 GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTC-GGATTTAG-CCGCGATATATCACTA
1 GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCG-GATATATCACTA
* *
22173522 GCACGAATGCTTTTA
65 GCACGAATGCTCTTC
*
22173537 GAACTTAGTCCGGATACATCACTAGCAGGAATGCTCTTC-GGATTTAGCCCGGATATATCACTAG
1 GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
22173601 CACGAATGCTCTTC
66 CACGAATGCTCTTC
* *
22173615 GGAACTTAGTCCGGATACATCACTAGCATGAATGC-CTCTC-GGACTTAGCCCGGATAACATCAC
1 -GAACTTAGTCCGGATACATCACTAGCATGAATGCTCT-TCGGGATTTAGCCCGGAT-ATATCAC
* *
22173678 TAGCGCAAAATGCTC-TC
63 TAGCAC-GAATGCTCTTC
* *
22173695 GGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCC-GATATATCACTA
1 -GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATATATCACTA
22173759 GCACGAATGCTCTTC
65 GCACGAATGCTCTTC
* *
22173774 GAAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTA
1 G-AACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATATATCACTA
*
22173839 GCACAAATGCTCTTC
65 GCACGAATGCTCTTC
* * * * * *
22173854 GGACTTAGCCCGGATAATATCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGAT
1 GAACTTAGTCCGGAT-ACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGAT
22173910 CATCGTCGAG
Statistics
Matches: 410, Mismatches: 28, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
78 92 0.22
79 158 0.39
80 141 0.34
81 19 0.05
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
GAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
CACGAATGCTCTTC
Found at i:22173763 original size:159 final size:157
Alignment explanation
Indices: 22173389--22173909 Score: 773
Period size: 159 Copynumber: 3.3 Consensus size: 157
22173379 GGAACTTAGT
*
22173389 CGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAAATGC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACG-AATGC
* * *
22173454 TCTT-TGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGATTTAG-CCGCGATATAT
65 TCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGACTTAGCCCG-GATACAT
* * * * *
22173517 CACTAGCACGAATGCTTTTAGAACTTAGTC
129 CACTAGCACAAATGC-TCTCGGACTTAGCC
*
22173547 CGGATACATCACTAGCAGGAATGCTCTTC-GGATTTAGCCCGGATATATCACTAGCACGAATGCT
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCT
22173611 CTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGC-CTCTCGGACTTAGCCCGGATAACAT
66 CTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCT-TCGGACTTAGCCCGGAT-ACAT
*
22173675 CACTAGCGCAAAATGCTCTCGGGACTTAGCC
129 CACTAGCAC-AAATGCTCTC-GGACTTAGCC
*
22173706 CGGATACATCACTAGCATGAATGCTCTTCGGGATTTAGCCC-GATATATCACTAGCACGAATGCT
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCT
*
22173770 CTTCGAAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
66 CTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACATC
22173835 ACTAGCACAAATGCTCTTCGGACTTAGCC
130 ACTAGCACAAATGCTC-TCGGACTTAGCC
* * *
22173864 CGGATAATATCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGAT
1 CGGAT-ACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGAT
22173910 CATCGTCGAG
Statistics
Matches: 333, Mismatches: 18, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
156 11 0.03
157 75 0.23
158 66 0.20
159 150 0.45
160 31 0.09
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (157 bp):
CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCT
CTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACATCA
CTAGCACAAATGCTCTCGGACTTAGCC
Found at i:22175208 original size:17 final size:17
Alignment explanation
Indices: 22175183--22175217 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
22175173 TTCATTTAAA
22175183 TAATTTATT-CACTATT
1 TAATTTATTCCACTATT
22175199 TAATTCTATTCCACTATT
1 TAATT-TATTCCACTATT
22175217 T
1 T
22175218 TTAGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 4 0.24
18 8 0.47
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTTATTCCACTATT
Found at i:22176385 original size:51 final size:49
Alignment explanation
Indices: 22176214--22176472 Score: 372
Period size: 51 Copynumber: 5.4 Consensus size: 49
22176204 GGCTCTGTAC
* *
22176214 ATATATACAC-TTCACATTCATTCACATCGGCCATT-TGCCTCATCACAT
1 ATATATACACTTTCACATTCA-TCACATCGGCCATTAGGCCTTATCACAT
*
22176262 A-ATATACACTTTCACATTCATCACCATCGGCTATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCA-CATCGGCCATTAGGCCTTATCACAT
22176311 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--AT
* * *
22176362 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTGATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
22176409 ATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
22176457 ATATATACA--TTCACAT
1 ATATATACACTTTCACAT
22176473 CACAATTATC
Statistics
Matches: 193, Mismatches: 10, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
46 16 0.08
47 45 0.23
48 30 0.16
49 34 0.18
50 22 0.11
51 46 0.24
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:22176419 original size:98 final size:97
Alignment explanation
Indices: 22176171--22176463 Score: 402
Period size: 98 Copynumber: 3.0 Consensus size: 97
22176161 TTATCACATT
* *
22176171 TATACACTTTCACA-TCTATCACGTTGGCCACTCGGCTCTG-T-ACATATATACAC-TTCACATT
1 TATACACTTTCACATTC-ATCACATTGGCCATTCGGC-CTGATCACATATATACACTTTCACATT
* *
22176232 CATTCACATCGGCCATTTGCCTCATCAC--ATA-A
64 CA-TCACATCGGCCATTAGCCTTATCACATATATA
* * * *
22176264 TATACACTTTCACATTCATCACCATCGGCTATTAGGCCTTATCACATATATATACACTTTCACAT
1 TATACACTTTCACATTCATCA-CATTGGCCATTCGGCCTGATCAC--ATATATACACTTTCACAT
22176329 TCATCACATCGGCCATTAGGCCTTATCACATATATA
63 TCATCACATCGGCCATTA-GCCTTATCACATATATA
22176365 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTGATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTGATCACATATATACACTTTCACATTCA
22176430 TCACATCGGCCATTAGCCTTATCACATATATA
66 TCACATCGGCCATTAGCCTTATCACATATATA
22176462 TA
1 TA
22176464 CATTCACATC
Statistics
Matches: 177, Mismatches: 12, Indels: 18
0.86 0.06 0.09
Matches are distributed among these distances:
93 20 0.11
94 13 0.07
95 2 0.01
97 43 0.24
98 55 0.31
100 22 0.12
101 22 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (97 bp):
TATACACTTTCACATTCATCACATTGGCCATTCGGCCTGATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGCCTTATCACATATATA
Found at i:22194563 original size:16 final size:16
Alignment explanation
Indices: 22194544--22194586 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
22194534 AAAAAAAGAA
22194544 AGAAGGGAGAGAGGGG
1 AGAAGGGAGAGAGGGG
*
22194560 AGAAGGAAGAGAGGGG
1 AGAAGGGAGAGAGGGG
22194576 A-AAGGG-GAGAG
1 AGAAGGGAGAGAG
22194587 CTCCGGCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (16 bp):
AGAAGGGAGAGAGGGG
Found at i:22210098 original size:172 final size:172
Alignment explanation
Indices: 22209812--22210157 Score: 638
Period size: 172 Copynumber: 2.0 Consensus size: 172
22209802 TTCAAGTTCA
*
22209812 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATTTTGATGCTCAATCTCTCTTCCC
1 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATTTTGACGCTCAATCTCTCTTCCC
* *
22209877 TAGCGTTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTGTCAAAATAAACT
66 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
22209942 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
131 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
*
22209984 CACTGCCTCTCTGCCACGCCCGTGCGCCGCTTCCCACTCCATTTTGACGCTCAATCTCTCTTCCC
1 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATTTTGACGCTCAATCTCTCTTCCC
* *
22210049 TAGCATTTGTTTACTTCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAACATAAACT
66 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
22210114 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
131 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
22210156 CA
1 CA
22210158 TTTAATTTGC
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 168 1.00
ACGTcount: A:0.18, C:0.28, G:0.10, T:0.44
Consensus pattern (172 bp):
CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATTTTGACGCTCAATCTCTCTTCCC
TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
Found at i:22210446 original size:21 final size:20
Alignment explanation
Indices: 22210417--22210464 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
22210407 TTCGAATTTG
*
22210417 TTTACCTATTATTATTATTC
1 TTTATCTATTATTATTATTC
22210437 ATTTATCTATTATTATTATTC
1 -TTTATCTATTATTATTATTC
22210458 TTTATCT
1 TTTATCT
22210465 TATAGGCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATCTATTATTATTATTC
Found at i:22218233 original size:7 final size:7
Alignment explanation
Indices: 22218221--22218258 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
22218211 AAATGTATCG
22218221 TAGGGTT
1 TAGGGTT
22218228 TAGGGTT
1 TAGGGTT
22218235 TAGGGTT
1 TAGGGTT
*
22218242 TAGAGTT
1 TAGGGTT
22218249 TAGGGTT
1 TAGGGTT
22218256 TAG
1 TAG
22218259 CGTTGGGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
TAGGGTT
Found at i:22219812 original size:19 final size:19
Alignment explanation
Indices: 22219778--22219816 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22219768 GATTTTGTAC
*
22219778 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
22219798 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
22219816 T
1 T
22219817 CTTTCACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:22227037 original size:8 final size:8
Alignment explanation
Indices: 22227024--22227062 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
22227014 AAATTAATTT
22227024 TTATAAAA
1 TTATAAAA
22227032 TTATAAAA
1 TTATAAAA
*
22227040 -TATATAA
1 TTATAAAA
22227047 TTATAAAA
1 TTATAAAA
*
22227055 TTCTAAAA
1 TTATAAAA
22227063 ATTTGTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TTATAAAA
Found at i:22227043 original size:15 final size:15
Alignment explanation
Indices: 22227025--22227055 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22227015 AATTAATTTT
22227025 TATAAAATTATAAAA
1 TATAAAATTATAAAA
*
22227040 TATATAATTATAAAA
1 TATAAAATTATAAAA
22227055 T
1 T
22227056 TCTAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTATAAAA
Found at i:22227133 original size:20 final size:19
Alignment explanation
Indices: 22227106--22227164 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
22227096 TGAAATTTAA
22227106 ATAC-TTTTTTTAATTTTT
1 ATACATTTTTTTAATTTTT
*
22227124 ATAACATTTTTCTAATTTTT
1 AT-ACATTTTTTTAATTTTT
*
22227144 ATATATTATTTTTAATTTTT
1 ATACATT-TTTTTAATTTTT
22227164 A
1 A
22227165 AAATTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.06
19 6 0.17
20 27 0.77
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
ATACATTTTTTTAATTTTT
Found at i:22227172 original size:20 final size:20
Alignment explanation
Indices: 22227112--22227172 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
22227102 TTAAATACTT
22227112 TTTTTAATTTTTATAACA-TT-
1 TTTTTAATTTTTA-AA-ATTTA
* *
22227132 TTTCTAATTTTT-ATATATTA
1 TTTTTAATTTTTAAAAT-TTA
22227152 TTTTTAATTTTTAAAATTTA
1 TTTTTAATTTTTAAAATTTA
22227172 T
1 T
22227173 AATTATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 2 0.06
20 26 0.79
21 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATTTA
Found at i:22227378 original size:21 final size:21
Alignment explanation
Indices: 22227329--22227378 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22227319 CTAGTCAACG
22227329 CCAATCAACAATGGTCAACAT
1 CCAATCAACAATGGTCAACAT
** *
22227350 CCGGTCAACATTGGTCAACAAT
1 CCAATCAACAATGGTCAAC-AT
22227372 -CAATCAA
1 CCAATCAA
22227379 AGTAAAGTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (21 bp):
CCAATCAACAATGGTCAACAT
Found at i:22229061 original size:17 final size:17
Alignment explanation
Indices: 22229039--22229071 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22229029 AAAGTTATCT
22229039 ATTCCTCTGTTTTGTTG
1 ATTCCTCTGTTTTGTTG
*
22229056 ATTCCTCTTTTTTGTT
1 ATTCCTCTGTTTTGTT
22229072 CTTTAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.18, G:0.12, T:0.64
Consensus pattern (17 bp):
ATTCCTCTGTTTTGTTG
Found at i:22229672 original size:25 final size:26
Alignment explanation
Indices: 22229598--22229673 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 26
22229588 AATTTTCTCG
* * * *
22229598 AAATTTTATCAGAGGTAAAATCGACAAA
1 AAATTTTACCAGGGGTAAAATTGTC--A
22229626 AAATTTTACCAGGGGTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATTGTCA
*
22229652 AAATTTTACTA-GGGTAAAATTG
1 AAATTTTACCAGGGGTAAAATTG
22229674 GGGTGAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.26
26 11 0.26
28 21 0.49
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (26 bp):
AAATTTTACCAGGGGTAAAATTGTCA
Found at i:22233458 original size:18 final size:18
Alignment explanation
Indices: 22233435--22233492 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
22233425 TCCTTTAAAT
22233435 AAAATATCATAGTTATAA
1 AAAATATCATAGTTATAA
** *
22233453 AAAATAAAGAAAG-TA-AA
1 AAAAT-ATCATAGTTATAA
22233470 TAAAATATCATAGTTATAA
1 -AAAATATCATAGTTATAA
22233489 AAAA
1 AAAA
22233493 ATAAAGAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 6 0.20
18 18 0.60
19 6 0.20
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (18 bp):
AAAATATCATAGTTATAA
Found at i:22233477 original size:36 final size:37
Alignment explanation
Indices: 22233430--22233509 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
22233420 CAATATCCTT
22233430 TAAATAAAATATCATAGTTAT-AAAAAATAAAGAAAG
1 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
22233466 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
1 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
22233503 TAAATAA
1 TAAATAA
22233510 TCCCAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 21 0.49
37 22 0.51
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (37 bp):
TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
Found at i:22234421 original size:13 final size:13
Alignment explanation
Indices: 22234403--22234427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22234393 ATGTCCATTT
22234403 CAGATACAGATAA
1 CAGATACAGATAA
22234416 CAGATACAGATA
1 CAGATACAGATA
22234428 TGTAGATCAA
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
CAGATACAGATAA
Found at i:22236472 original size:44 final size:43
Alignment explanation
Indices: 22236420--22236578 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 43
22236410 TATGTGTCAT
*
22236420 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTATGTTTTA
* * *
22236464 CGTATAAGACCACGTTTGGGACGTTGGCATCGTATT-TGATTTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTATG-TTTTA
* * * * *
22236507 -GTGTAAGACCATGTATGGGATAGTGGCATTGA-TAT-TTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATTATGTT--TTA
* *
22236549 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
22236579 TTTCCGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 4 0.04
42 24 0.26
43 25 0.27
44 34 0.37
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATTATGTTTTA
Found at i:22236579 original size:43 final size:43
Alignment explanation
Indices: 22236420--22236578 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
22236410 TATGTGTCAT
* *
22236420 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGTT--TTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA--TAT-TTGATTA
* * *
22236464 CGTATAAGACCACGTTTGGGACGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
* * * * *
22236506 TGTGTAAGACCATGTATGGGATAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCACGTCTGGGA-CGTTGGCATCGATATTTGATTA
*
22236549 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
22236579 TTTCCGAGCT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 27 0.29
43 33 0.35
44 28 0.30
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:22238987 original size:35 final size:35
Alignment explanation
Indices: 22238922--22238988 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
22238912 TATATATATA
* *
22238922 TTTAATTTACTTTTTGGAATAATTATAATAATTAT
1 TTTAATTTACTTTTTGAAATAATTAGAATAATTAT
* *
22238957 TTTATTTTA-TTTCTTGAAATAATTGGAATAAT
1 TTTAATTTACTTT-TTGAAATAATTAGAATAAT
22238989 ATGTTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 3 0.11
35 24 0.89
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (35 bp):
TTTAATTTACTTTTTGAAATAATTAGAATAATTAT
Found at i:22240644 original size:20 final size:20
Alignment explanation
Indices: 22240616--22240653 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22240606 ACTCTTTGTA
22240616 ATTTGTAATTTAATTGATTG
1 ATTTGTAATTTAATTGATTG
*
22240636 ATTTTTAATTTAATTGAT
1 ATTTGTAATTTAATTGAT
22240654 ATCGTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (20 bp):
ATTTGTAATTTAATTGATTG
Found at i:22240814 original size:12 final size:12
Alignment explanation
Indices: 22240799--22240823 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22240789 GAGTCAATAA
22240799 ATTTAATTATAT
1 ATTTAATTATAT
22240811 ATTTAATTATAT
1 ATTTAATTATAT
22240823 A
1 A
22240824 CATGTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTAATTATAT
Found at i:22241283 original size:23 final size:21
Alignment explanation
Indices: 22241257--22241308 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 21
22241247 TCTCTCAATC
* *
22241257 TTTTAATTCAATATTTATTTAT
1 TTTTAATTCAAAAATTA-TTAT
* *
22241279 ATTTTCATTTAAAAATTATTAT
1 -TTTTAATTCAAAAATTATTAT
22241301 TTTTAATT
1 TTTTAATT
22241309 ATATAGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
23 13 0.54
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATTCAAAAATTATTAT
Found at i:22243385 original size:93 final size:93
Alignment explanation
Indices: 22243226--22243413 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 93
22243216 TCCCTCTCTC
22243226 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
1 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
22243291 ACCCATCATTTTGTTTTGTTTTTCTTTG
66 ACCCATCATTTTGTTTTGTTTTTCTTTG
*
22243319 AAATCAGTTTCGTTTTCTTCTTCTCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
1 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
22243384 ACCCATCATTTTGTTTTGTTTTTCTTTG
66 ACCCATCATTTTGTTTTGTTTTTCTTTG
22243412 AA
1 AA
22243414 TTTCTTATAG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (93 bp):
AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
ACCCATCATTTTGTTTTGTTTTTCTTTG
Found at i:22243775 original size:17 final size:17
Alignment explanation
Indices: 22243743--22243777 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22243733 CAACCCATAT
*
22243743 AGGCATGTGCTACACAC
1 AGGCATGTGCCACACAC
*
22243760 AGGCATGTGCCGCACAC
1 AGGCATGTGCCACACAC
22243777 A
1 A
22243778 AGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (17 bp):
AGGCATGTGCCACACAC
Found at i:22243980 original size:21 final size:21
Alignment explanation
Indices: 22243956--22243996 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22243946 TGTAACCCAG
22243956 TCACACGA-GCGTGTCCCTCAA
1 TCACA-GAGGCGTGTCCCTCAA
*
22243977 TCACAGAGGTGTGTCCCTCA
1 TCACAGAGGCGTGTCCCTCA
22243997 GTCATATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (21 bp):
TCACAGAGGCGTGTCCCTCAA
Found at i:22245172 original size:30 final size:30
Alignment explanation
Indices: 22245123--22245180 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22245113 CACGGGCTGG
* * * *
22245123 CACATGGGCGTGTGGCCAACCCGTGTGGCT
1 CACACGGGCATGTGCCCAACCCATGTGGCT
22245153 CACACGGGCATGTGCCCAACCCATGTGG
1 CACACGGGCATGTGCCCAACCCATGTGG
22245181 AAGTGCCCAG
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:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (30 bp):
CACACGGGCATGTGCCCAACCCATGTGGCT
Found at i:22247026 original size:6 final size:5
Alignment explanation
Indices: 22247008--22247072 Score: 67
Period size: 5 Copynumber: 11.6 Consensus size: 5
22246998 GAAGTCTAAA
22247008 AAAAT AATAAT AAACAT AAAAAT AGAAAT AAAACT AGAAAT AAAAAT AAAAT
1 AAAAT AA-AAT AAA-AT -AAAAT A-AAAT AAAA-T A-AAAT -AAAAT AAAAT
22247060 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
22247073 TGGACTTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
5 25 0.47
6 21 0.40
7 7 0.13
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:22247026 original size:12 final size:10
Alignment explanation
Indices: 22247008--22247072 Score: 67
Period size: 12 Copynumber: 5.8 Consensus size: 10
22246998 GAAGTCTAAA
22247008 AAAATAATAAT
1 AAAATAA-AAT
22247019 AAACATAAAAAT
1 AAA-AT-AAAAT
22247031 AGAAATAAAACT
1 A-AAATAAAA-T
22247043 AGAAATAAAAAT
1 A-AAAT-AAAAT
22247055 AAAATAAAAT
1 AAAATAAAAT
22247065 AAAATAAA
1 AAAATAAA
22247073 TGGACTTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
10 13 0.27
11 11 0.22
12 17 0.35
13 8 0.16
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:22247028 original size:18 final size:16
Alignment explanation
Indices: 22247007--22247072 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 16
22246997 AGAAGTCTAA
22247007 AAAAATAATAATAAACAT
1 AAAAATAA-AATAAA-AT
22247025 AAAAATAGAAATAAAACT
1 AAAAATA-AAATAAAA-T
*
22247043 AGAAATAAAAATAAAAT
1 AAAAAT-AAAATAAAAT
22247060 -AAAATAAAATAAA
1 AAAAATAAAATAAA
22247073 TGGACTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 8 0.19
16 4 0.09
17 2 0.05
18 27 0.63
19 2 0.05
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:22251874 original size:12 final size:11
Alignment explanation
Indices: 22251848--22251891 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
22251838 CCTTAAAACT
*
22251848 AAAATAACAATA
1 AAAATAA-AAGA
22251860 AAAATAAAGAGA
1 AAAATAAA-AGA
22251872 AAAATAAAAGA
1 AAAATAAAAGA
22251883 TAAAATAAA
1 -AAAATAAA
22251892 TGGACTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 4 0.14
12 25 0.86
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAATAAAAGA
Found at i:22253731 original size:18 final size:19
Alignment explanation
Indices: 22253708--22253745 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
22253698 TAAATAAATG
*
22253708 AATAAAGAAA-TAAATTAA
1 AATAAAGAAAGTAAAATAA
22253726 AATAAAGAAAGTAAAATAA
1 AATAAAGAAAGTAAAATAA
22253745 A
1 A
22253746 TGAAGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (19 bp):
AATAAAGAAAGTAAAATAA
Found at i:22253746 original size:18 final size:17
Alignment explanation
Indices: 22253699--22253751 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
22253689 AACCAAAAAT
*
22253699 AAAT-AAATGAATAAAG
1 AAATAAAATAAATAAAG
*
22253715 AAATAAATTAAAATAAAG
1 AAATAAAAT-AAATAAAG
*
22253733 AAAGTAAAATAAATGAAG
1 AAA-TAAAATAAATAAAG
22253751 A
1 A
22253752 GAATGGGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 18 0.60
19 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAATAAAG
Found at i:22272140 original size:19 final size:18
Alignment explanation
Indices: 22272116--22272166 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
22272106 TCCTAGAAGC
22272116 AAACAAAATAAAAATTAGA
1 AAACAAAATAAAAATTA-A
*
22272135 AAACAAAA-ATTAAATTAA
1 AAACAAAATA-AAAATTAA
22272153 AAACAAAAATAAAA
1 AAAC-AAAATAAAA
22272167 TGCAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 6 0.22
19 20 0.74
20 1 0.04
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (18 bp):
AAACAAAATAAAAATTAA
Found at i:22272157 original size:18 final size:19
Alignment explanation
Indices: 22272116--22272167 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
22272106 TCCTAGAAGC
22272116 AAAC-AAAATAAAAATTAGA
1 AAACAAAAAT-AAAATTAGA
*
22272135 AAACAAAAATTAAATTA-A
1 AAACAAAAATAAAATTAGA
22272153 AAACAAAAATAAAAT
1 AAACAAAAATAAAAT
22272168 GCAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 15 0.50
19 10 0.33
20 5 0.17
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (19 bp):
AAACAAAAATAAAATTAGA
Found at i:22278883 original size:25 final size:25
Alignment explanation
Indices: 22278833--22278888 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
22278823 TATTTATAAC
* *
22278833 ATAAAAAATATTTAGATTTATCAAAA
1 ATAAAAAATATTAAAATTTA-CAAAA
22278859 ATAAAAAATATTAAAATATTA-AAAA
1 ATAAAAAATATTAAAAT-TTACAAAA
22278884 ATAAA
1 ATAAA
22278889 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
26 15 0.56
27 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAAAAAATATTAAAATTTACAAAA
Found at i:22280305 original size:16 final size:17
Alignment explanation
Indices: 22280286--22280324 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
22280276 TTTAATCATT
22280286 TTTTTAAAT-TTATTTA
1 TTTTTAAATATTATTTA
22280302 -TTTTAAATATTATTTA
1 TTTTTAAATATTATTTA
22280318 TTATTTA
1 TT-TTTA
22280325 TTTATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 1 0.05
18 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAAATATTATTTA
Found at i:22280307 original size:15 final size:16
Alignment explanation
Indices: 22280283--22280319 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
22280273 AATTTTAATC
22280283 ATTT-TTTTAAAT-TT
1 ATTTATTTTAAATATT
22280297 ATTTATTTTAAATATT
1 ATTTATTTTAAATATT
22280313 ATTTATT
1 ATTTATT
22280320 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTATTTTAAATATT
Found at i:22280394 original size:5 final size:5
Alignment explanation
Indices: 22280376--22280510 Score: 80
Period size: 5 Copynumber: 29.0 Consensus size: 5
22280366 TATTTTCAAG
*
22280376 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT T-T-T TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
22280419 T-T-T TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* *
22280467 ATATAT TATAT TATAT TATAT TATAT TTTAT CATA- TAT-T TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
22280511 CTTATTACAT
Statistics
Matches: 101, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
3 5 0.05
4 25 0.25
5 62 0.61
6 7 0.07
7 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:22280436 original size:50 final size:51
Alignment explanation
Indices: 22280342--22280451 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 51
22280332 ATATAAAAAT
** *
22280342 TTATTTATTTGTATATTATTTTTTTATTTTCAAGTATATTTATATATTATA
1 TTATTTATTAATATATTATTTTTATATTTTCAAGTATATTTATATATTATA
*
22280393 TTATTTATTAATATA-TATTTTTATATTTT-TA-TATTATTATATATATTATA
1 TTATTTATTAATATATTATTTTTATATTTTCAAGTA-TATT-TATATATTATA
22280443 TTATCTTAT
1 TTAT-TTAT
22280452 GTTTTAATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
48 2 0.04
49 5 0.10
50 28 0.54
51 17 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (51 bp):
TTATTTATTAATATATTATTTTTATATTTTCAAGTATATTTATATATTATA
Found at i:22280516 original size:28 final size:27
Alignment explanation
Indices: 22280473--22280528 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
22280463 CATTATATAT
* *
22280473 TATATTATATTATATTATATTTTATCA
1 TATATTATATTATATTACATATTATCA
22280500 TATATTTATATCT-TATTACATATTATCA
1 TATA-TTATAT-TATATTACATATTATCA
22280528 T
1 T
22280529 GTATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 20 0.80
29 1 0.04
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (27 bp):
TATATTATATTATATTACATATTATCA
Found at i:22280735 original size:22 final size:23
Alignment explanation
Indices: 22280709--22280759 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22280699 TTATAAATTA
* *
22280709 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
22280730 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
22280754 TTATTA
1 TTATTA
22280760 TAAAGTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:22292747 original size:47 final size:47
Alignment explanation
Indices: 22292696--22292834 Score: 124
Period size: 47 Copynumber: 3.0 Consensus size: 47
22292686 GGAGACATAG
22292696 CAGATTTGACCTTCGGATGTTTTCACATTGAAGCAGATCCAAGATAA
1 CAGATTTGACCTTCGGATGTTTTCACATTGAAGCAGATCCAAGATAA
* * * * * * *
22292743 CAGATTTGGCATCTC-CA--TATTC-GATGGAGAGCAGATCGAAGACATAA
1 CAGATTTGACCT-TCGGATGTTTTCACATTGA-AGCAGATCCAAG--ATAA
* * *
22292790 CAGATCTAACCTTCGGATGTTTTCACATTGAAGTAGATCCAAGAT
1 CAGATTTGACCTTCGGATGTTTTCACATTGAAGCAGATCCAAGAT
22292835 GATTTGGTAC
Statistics
Matches: 67, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
44 4 0.06
45 15 0.22
46 2 0.03
47 26 0.39
48 2 0.03
49 14 0.21
50 4 0.06
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (47 bp):
CAGATTTGACCTTCGGATGTTTTCACATTGAAGCAGATCCAAGATAA
Found at i:22292808 original size:94 final size:94
Alignment explanation
Indices: 22292643--22292834 Score: 296
Period size: 94 Copynumber: 2.1 Consensus size: 94
22292633 GAACAAATCG
* * * * * * *
22292643 AAGA-AACAGATTTTGCATCTTCGTATTCGACGGAGAGCAGATCGGAGACATAGCAGATTTGACC
1 AAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATCTAACC
22292707 TTCGGATGTTTTCACATTGAAGCAGATCC
66 TTCGGATGTTTTCACATTGAAGCAGATCC
*
22292736 AAGATAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAACAGATCTAACC
1 AAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATCTAACC
*
22292801 TTCGGATGTTTTCACATTGAAGTAGATCC
66 TTCGGATGTTTTCACATTGAAGCAGATCC
22292830 AAGAT
1 AAGAT
22292835 GATTTGGTAC
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 4 0.04
94 85 0.96
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (94 bp):
AAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATCTAACC
TTCGGATGTTTTCACATTGAAGCAGATCC
Found at i:22294577 original size:15 final size:16
Alignment explanation
Indices: 22294553--22294589 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
22294543 AATTTTAATC
22294553 ATTT-TTTTAAAT-TT
1 ATTTATTTTAAATATT
22294567 ATTTATTTTAAATATT
1 ATTTATTTTAAATATT
22294583 ATTTATT
1 ATTTATT
22294590 ATTTATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTATTTTAAATATT
Found at i:22294588 original size:20 final size:20
Alignment explanation
Indices: 22294563--22294656 Score: 59
Period size: 20 Copynumber: 4.5 Consensus size: 20
22294553 ATTTTTTTAA
22294563 ATTTATTTATTTTAAATATT
1 ATTTATTTATTTTAAATATT
**
22294583 ATTTA-TTATTTATACATATAAAA
1 ATTTATTTATTT-TA-A-AT-ATT
*
22294606 ATTTATTTA-TTTATATATT
1 ATTTATTTATTTTAAATATT
* *
22294625 ATTTTTGTTATTTTCAAGTA-T
1 ATTTAT-TTATTTT-AAATATT
*
22294646 ATTTATATATT
1 ATTTATTTATT
22294657 ATATTATTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
19 12 0.21
20 16 0.29
21 10 0.18
22 7 0.12
23 8 0.14
24 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTATTTATTTTAAATATT
Found at i:22294661 original size:5 final size:5
Alignment explanation
Indices: 22294643--22294784 Score: 90
Period size: 5 Copynumber: 30.0 Consensus size: 5
22294633 TATTTTCAAG
* *
22294643 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
22294688 T-T-T TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * *
22294736 ATATAT TATAT TATAT TATTT TATTT TATAT TATAT CATA- TAT-T TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
22294785 CTTATTACAT
Statistics
Matches: 108, Mismatches: 16, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
3 3 0.03
4 23 0.21
5 73 0.68
6 7 0.06
7 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:22294666 original size:52 final size:51
Alignment explanation
Indices: 22294608--22294720 Score: 133
Period size: 52 Copynumber: 2.2 Consensus size: 51
22294598 ATATAAAAAT
*
22294608 TTATTTATT-TATATATTATTTTTGTTATTTTCAAGTA-TATT-TATATATTATA
1 TTATTTATTATATATATTA-TTTT-ATATTTT-AA-TATTATTATATATATTATA
*
22294660 TTATTTATTAATATATATTATTTTATATTTTTATATTATTATATATATTATA
1 TTATTTATT-ATATATATTATTTTATATTTTAATATTATTATATATATTATA
22294712 TTATCTTAT
1 TTAT-TTAT
22294721 GTTTTAATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
50 2 0.04
51 5 0.09
52 30 0.56
53 8 0.15
54 9 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (51 bp):
TTATTTATTATATATATTATTTTATATTTTAATATTATTATATATATTATA
Found at i:22294668 original size:32 final size:31
Alignment explanation
Indices: 22294613--22294784 Score: 109
Period size: 32 Copynumber: 5.7 Consensus size: 31
22294603 AAAATTTATT
* *
22294613 TATTTATATATTAT-TTTTGTTATTTTCAAGTA
1 TATTTATATATTATATTATATTATTTT-AA-TA
22294645 TATTTATATATTATATTAT-TTA--TTAATA
1 TATTTATATATTATATTATATTATTTTAATA
*
22294673 TATATTAT-T-TTATATT-T-TTATATT-AT-
1 TAT-TTATATATTATATTATATTATTTTAATA
*
22294699 TA--TATATATTATATTATCTTATGTTTTAATA
1 TATTTATATATTATATTATATTA--TTTTAATA
* * *
22294730 TACATTATATATTATATTATATTATTTTATTT
1 TA-TTTATATATTATATTATATTATTTTAATA
22294762 TATATTATATCA-TATATTTATAT
1 TAT-TTATAT-ATTATA-TTATAT
22294785 CTTATTACAT
Statistics
Matches: 116, Mismatches: 6, Indels: 35
0.74 0.04 0.22
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 7 0.06
26 7 0.06
27 12 0.10
28 8 0.07
29 9 0.08
30 4 0.03
31 2 0.02
32 35 0.30
33 10 0.09
34 18 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (31 bp):
TATTTATATATTATATTATATTATTTTAATA
Found at i:22294685 original size:34 final size:35
Alignment explanation
Indices: 22294647--22294769 Score: 105
Period size: 34 Copynumber: 3.5 Consensus size: 35
22294637 TTCAAGTATA
22294647 TTTATATATTATATTATTTATTAATA-TATATTAT
1 TTTATATATTATATTATTTATTAATATTATATTAT
* *
22294681 TTTATATTTTTATATTATTATATATATTATATTATCTTAT
1 TTTATA-TATTATATTATT-TAT-TA--ATATTATATTAT
* *
22294721 GTTT-TA-ATATACATTATATATT-ATATTATATTAT
1 -TTTATATAT-TATATTATTTATTAATATTATATTAT
22294755 TTTAT-T-TTATATTAT
1 TTTATATATTATATTAT
22294770 ATCATATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
32 7 0.10
33 4 0.06
34 18 0.25
35 11 0.15
36 3 0.04
37 3 0.04
38 4 0.06
39 10 0.14
40 9 0.12
41 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (35 bp):
TTTATATATTATATTATTTATTAATATTATATTAT
Found at i:22294686 original size:10 final size:10
Alignment explanation
Indices: 22294607--22294771 Score: 81
Period size: 10 Copynumber: 15.7 Consensus size: 10
22294597 CATATAAAAA
22294607 TTTAT-TTAT
1 TTTATATTAT
22294616 TTATATATTAT
1 TT-TATATTAT
*
22294627 TTT-TGTTAT
1 TTTATATTAT
22294636 TTTCA-AGTATAT
1 TTT-ATA-T-TAT
22294648 TTATATATTAT
1 TT-TATATTAT
*
22294659 ATTAT-TTAT
1 TTTATATTAT
22294668 TAATATATATTAT
1 T--T-TATATTAT
22294681 TTTATA-T-T
1 TTTATATTAT
22294689 TTTATATTAT
1 TTTATATTAT
22294699 TATATATATTAT
1 T-T-TATATTAT
* *
22294711 ATTATCTTATGT
1 TTTATATTA--T
*
22294723 TTTAATATACAT
1 TTT-ATAT-TAT
*
22294735 TATATATTAT
1 TTTATATTAT
*
22294745 ATTATATTAT
1 TTTATATTAT
*
22294755 TTTATTTTAT
1 TTTATATTAT
*
22294765 ATTATAT
1 TTTATAT
22294772 CATATATTTA
Statistics
Matches: 119, Mismatches: 17, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
8 7 0.06
9 16 0.13
10 42 0.35
11 19 0.16
12 24 0.20
13 10 0.08
14 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATATTAT
Found at i:22294746 original size:39 final size:40
Alignment explanation
Indices: 22294649--22294784 Score: 119
Period size: 39 Copynumber: 3.5 Consensus size: 40
22294639 CAAGTATATT
* *
22294649 TATAT-ATTATATTATT-TATTA-ATATATATTATTTTATATT
1 TATATCATTATA-TATTATATTATAT-TATCTTATTTTATA-A
*
22294689 TTTAT-ATTAT-TATATATATTATATTATCTTATGTTT-TAA
1 TATATCATTATATAT-TATATTATATTATCTTAT-TTTATAA
* *
22294728 TATA-CATTATATATTATATTATATTATTTTATTTTATAT
1 TATATCATTATATATTATATTATATTATCTTATTTTATAA
22294767 TATATCA-TATAT-TTATAT
1 TATATCATTATATATTATAT
22294785 CTTATTACAT
Statistics
Matches: 82, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
38 12 0.15
39 37 0.45
40 28 0.34
41 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (40 bp):
TATATCATTATATATTATATTATATTATCTTATTTTATAA
Found at i:22294933 original size:17 final size:17
Alignment explanation
Indices: 22294904--22294956 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
22294894 ATTTTATTCT
* *
22294904 TTTATATTTTATATGTTA
1 TTTATATTATATAT-ATA
22294922 TTT-TATTATATATATA
1 TTTATATTATATATATA
22294938 TTTATATTAT-TAATATA
1 TTTATATTATAT-ATATA
22294955 TT
1 TT
22294957 ATTACACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 22 0.71
18 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATATTATATATATA
Found at i:22294954 original size:11 final size:10
Alignment explanation
Indices: 22294906--22294960 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
22294896 TTTATTCTTT
22294906 TATATT-TTA
1 TATATTATTA
*
22294915 TATGTTATT-
1 TATATTATTA
22294924 T-TATTA-TA
1 TATATTATTA
22294932 TATA-TATT-
1 TATATTATTA
22294940 TATATTATTAA
1 TATATTATT-A
22294951 TATATTATTA
1 TATATTATTA
22294961 CACTATTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
7 1 0.03
8 11 0.30
9 13 0.35
10 3 0.08
11 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TATATTATTA
Found at i:22295011 original size:22 final size:23
Alignment explanation
Indices: 22294985--22295035 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22294975 TTATAAATTA
* *
22294985 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
22295006 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
22295030 TTATTA
1 TTATTA
22295036 TAAAGTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:22306427 original size:17 final size:18
Alignment explanation
Indices: 22306396--22306434 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
22306386 CGTGTGACAT
22306396 GCCCGTATAGGCCCACAC
1 GCCCGTATAGGCCCACAC
*
22306414 GCCCGTAT-GGCCCACAT
1 GCCCGTATAGGCCCACAC
22306431 GCCC
1 GCCC
22306435 AACTTGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (18 bp):
GCCCGTATAGGCCCACAC
Found at i:22307662 original size:38 final size:38
Alignment explanation
Indices: 22307607--22307682 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
22307597 TGATAGATAG
* * *
22307607 AAATGTGTGCAAACCACTAGAATATATAGATCATTAAA
1 AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
*
22307645 AAATATGTGCACACCACTAGAAAATACAGATCATTAAA
1 AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
22307683 CTACCATAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.24
Consensus pattern (38 bp):
AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
Found at i:22310085 original size:20 final size:19
Alignment explanation
Indices: 22310043--22310086 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
22310033 GAAAATAGTG
* *
22310043 ATAAATTTATTTTCTAAGT
1 ATAAATTTATTATCTAAGA
*
22310062 ATAAATTCTATTATCTAGGA
1 ATAAATT-TATTATCTAAGA
22310082 ATAAA
1 ATAAA
22310087 AATTCTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (19 bp):
ATAAATTTATTATCTAAGA
Found at i:22312624 original size:40 final size:41
Alignment explanation
Indices: 22312573--22312681 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
22312563 AGTTTGGAAC
* **
22312573 CCAATGCCTCATCGGAT-AATTTGAAGTAGTAAATTGACAA
1 CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
* * *
22312613 CCAGTGTCTCATCGAATAAATCCGAAGTAGTAAATTGACAC
1 CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
* *
22312654 CCAATGTCTCATCGGTTAAA-CCAAAGTA
1 CCAATGTCTCATCGGATAAATCCGAAGTA
22312682 AATTGGCACC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 21 0.36
41 37 0.64
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (41 bp):
CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
Found at i:22312642 original size:41 final size:40
Alignment explanation
Indices: 22312595--22312705 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
22312585 CGGATAATTT
*
22312595 GAAGTAGTAAATTGACAACCAGTGTCTCATCGAATAAATCC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAA-CC
* **
22312636 GAAGTAGTAAATTGACACCCAATGTCTCATCGGTTAAACC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAACC
* *
22312676 -AA--AGTAAATTGGCACCCAGTGCCTCATCGA
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGA
22312706 CTCGAAGTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
37 24 0.39
39 2 0.03
40 2 0.03
41 34 0.55
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAACC
Found at i:22312919 original size:50 final size:51
Alignment explanation
Indices: 22312855--22312960 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 51
22312845 TCATATATAT
22312855 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
1 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
* *
22312906 ATTC-TTTCAATTGAAATAATTAATACATTCATAATATATCACTTCAATCC
1 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
22312956 ATTCA
1 ATTCA
22312961 ATCAACTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (51 bp):
ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
Found at i:22312959 original size:24 final size:24
Alignment explanation
Indices: 22312875--22312960 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
22312865 ATTGAAATAA
22312875 TCAATACATTCATAATATATCACT
1 TCAATACATTCATAATATATCACT
* * * * *
22312899 ACAATCCATTCTTTCAATTGAAAT-AAT
1 TCAATACATTC-AT-AA-T-ATATCACT
22312926 T-AATACATTCATAATATATCACT
1 TCAATACATTCATAATATATCACT
*
22312949 TCAATCCATTCA
1 TCAATACATTCA
22312961 ATCAACTTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
22 3 0.07
23 4 0.09
24 20 0.44
25 2 0.04
26 10 0.22
27 3 0.07
28 3 0.07
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (24 bp):
TCAATACATTCATAATATATCACT
Found at i:22321124 original size:55 final size:55
Alignment explanation
Indices: 22321000--22321139 Score: 165
Period size: 55 Copynumber: 2.5 Consensus size: 55
22320990 TGTGACATGG
* * * **
22321000 CCGTGGGCGAACCTGCCAAAACAACAGGGGCGTGCGACACGTCCATGCCTTGAAA
1 CCGTGGGCGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAA
* * * * * *
22321055 CTGT-GGCTGGACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGCAA
1 CCGTGGGC-GAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAA
22321110 CCGTGGGCGAACCTGCCAAAATAACACGGG
1 CCGTGGGCGAACCTGCCAAAATAACACGGG
22321140 TGTGATACCT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
54 3 0.04
55 62 0.91
56 3 0.04
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.14
Consensus pattern (55 bp):
CCGTGGGCGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAA
Found at i:22325743 original size:18 final size:18
Alignment explanation
Indices: 22325716--22325751 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
22325706 TTCAGCTATG
22325716 AAAATATTTCA-AATAAC
1 AAAATATTTCATAATAAC
22325733 AAAACTATTTCATAATAAC
1 AAAA-TATTTCATAATAAC
22325752 TTTCACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATTTCATAATAAC
Found at i:22327202 original size:16 final size:15
Alignment explanation
Indices: 22327182--22327211 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22327172 TAACCAAAAA
22327182 AAAAAACCCAAAATT
1 AAAAAACCCAAAATT
*
22327197 AAAAAACCCACAATT
1 AAAAAACCCAAAATT
22327212 TTTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAACCCAAAATT
Found at i:22328432 original size:2 final size:2
Alignment explanation
Indices: 22328425--22328466 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
22328415 ATATCAAAGA
22328425 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22328467 GAGTGGTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22329577 original size:60 final size:59
Alignment explanation
Indices: 22329506--22329622 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 59
22329496 TTTTCATAAG
* *
22329506 ATGATTATTATTCTAAAGTAGT-TCATAAACTTAAAAATATTTTAATTATATTCTTAAATT
1 ATGATCATTATTCTAAAGTAATCT-ATAAACTTAAAAATA-TTTAATTATATTCTTAAATT
* * * * * *
22329566 ATGATCATTATTTTAAATTAATCTTTAAATTTTAAAATATTTAATTATATTTTTAAA
1 ATGATCATTATTCTAAAGTAATCTATAAACTTAAAAATATTTAATTATATTCTTAAA
22329623 ACTATCGATC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 17 0.35
60 30 0.62
61 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (59 bp):
ATGATCATTATTCTAAAGTAATCTATAAACTTAAAAATATTTAATTATATTCTTAAATT
Found at i:22331209 original size:20 final size:19
Alignment explanation
Indices: 22331164--22331224 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
22331154 ATATTTTTTC
*
22331164 TTTCTTTCTTTCTTTCTTCTT
1 TTTCTTACTTT-TTT-TTCTT
*
22331185 CTTCTTACTTTTGTTTTCTT
1 TTTCTTACTTTT-TTTTCTT
*
22331205 TTTCTTCCTTTTTTTTCTT
1 TTTCTTACTTTTTTTTCTT
22331224 T
1 T
22331225 GCTTCTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 8 0.23
20 16 0.46
21 11 0.31
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTCTTACTTTTTTTTCTT
Found at i:22331242 original size:44 final size:45
Alignment explanation
Indices: 22331158--22331246 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 45
22331148 TTTCCAATAT
*
22331158 TTTTTCTTTCTTTCTTTCTTTCTTCTTCTTCTTACTTTTGTTTTC
1 TTTTTCTTCCTTTCTTTCTTTCTTCTTCTTCTTACTTTTGTTTTC
*
22331203 TTTTTCTTCCTTTTTTTTCTTTGCTTC-TCTT-TT-CTTTTGTTTTC
1 TTTTTCTTCC-TTTCTTTCTTT-CTTCTTCTTCTTACTTTTGTTTTC
22331247 CGTTCGGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 11 0.28
45 11 0.28
46 14 0.35
47 4 0.10
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.74
Consensus pattern (45 bp):
TTTTTCTTCCTTTCTTTCTTTCTTCTTCTTCTTACTTTTGTTTTC
Found at i:22346458 original size:50 final size:50
Alignment explanation
Indices: 22346404--22346533 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
22346394 TATCAATGCT
* * *
22346404 GATGCCATATCCCAGATATGGTCTTACATTGGCTCTCATATGTCGAG-GCC
1 GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATATGTCG-GTGCC
* * *
22346454 GATGCCATATCCTAGACATGGTCTTACACTAGCTCTTATCTGTCGGTGCC
1 GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATATGTCGGTGCC
*
22346504 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATATCCCAGACATGGTCTTACACT
22346534 GACACATATC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 70 0.99
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (50 bp):
GATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATATGTCGGTGCC
Found at i:22352766 original size:43 final size:43
Alignment explanation
Indices: 22352712--22352802 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
22352702 TGCATATAAC
*
22352712 TCAATATAAGCCAACACATTTTGCCAAAGCAAAATAATGCATG
1 TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
22352755 TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
1 TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
22352798 TCAAT
1 TCAAT
22352803 TAACTAAATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (43 bp):
TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
Found at i:22354119 original size:50 final size:48
Alignment explanation
Indices: 22354053--22354181 Score: 158
Period size: 50 Copynumber: 2.7 Consensus size: 48
22354043 ACATATTGAT
* * * * *
22354053 GCCGATGCCATATCCCAGATATAGTCTTACACTGGTTGTCATATATCGAG
1 GCCGATGCCATGTCCCAGATATGGTCTTACACTGG-TGACACATATC-AA
22354103 GCCGATGCCATGTCCCAGATATGGTCTTACAC---TGACACATATCAA
1 GCCGATGCCATGTCCCAGATATGGTCTTACACTGGTGACACATATCAA
*
22354148 G-CGATGCCATGTCCCAGACATGGTCTTACACTGG
1 GCCGATGCCATGTCCCAGATATGGTCTTACACTGG
22354182 CTCACATAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
44 29 0.41
45 2 0.03
46 9 0.13
50 30 0.43
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGATATGGTCTTACACTGGTGACACATATCAA
Found at i:22357513 original size:13 final size:13
Alignment explanation
Indices: 22357495--22357524 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22357485 AAATAGAAGA
22357495 TATTATTTAGTTT
1 TATTATTTAGTTT
*
22357508 TATTATTTATTTT
1 TATTATTTAGTTT
22357521 TATT
1 TATT
22357525 TTATTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TATTATTTAGTTT
Found at i:22357528 original size:18 final size:21
Alignment explanation
Indices: 22357495--22357535 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
22357485 AAATAGAAGA
22357495 TATTATTTAGTTTTATT-ATT
1 TATTATTTAGTTTTATTAATT
22357515 TATT-TTTA-TTTTATTAATT
1 TATTATTTAGTTTTATTAATT
22357534 TA
1 TA
22357536 GGTTAGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TATTATTTAGTTTTATTAATT
Found at i:22360769 original size:30 final size:28
Alignment explanation
Indices: 22360730--22360791 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
22360720 ATGGATTTAA
22360730 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
22360760 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
22360788 ATTA
1 ATTA
22360792 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:22362120 original size:18 final size:18
Alignment explanation
Indices: 22362097--22362163 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
22362087 TAAACTAATG
22362097 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
22362115 TACTGAATAACTAAATTGCT
1 TACTGAATAA-TTGATAG-T
*
22362135 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
22362154 TATTGAATAA
1 TACTGAATAA
22362164 CTAAACTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 20 0.51
19 5 0.13
20 5 0.13
21 9 0.23
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Done.