Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 75 of 185
Found at i:23572305 original size:42 final size:43
Alignment explanation
Indices: 23572203--23572312 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
23572193 CAATGCTAAC
* * *
23572203 GTCCCAGACATGGTCTTACATGAAATTGAATATTGATGTCACT
1 GTCCCAGACATGGTCTTACATGAAATTCAATATCGATGTCAAT
* * *
23572246 ATCCCAGATAGGGTCTTACATGAAA-TC-ATATACGATGTCAAT
1 GTCCCAGACATGGTCTTACATGAAATTCAATAT-CGATGTCAAT
* *
23572288 GTCCCAGACATGATCTTACACGAAA
1 GTCCCAGACATGGTCTTACATGAAA
23572313 ATCTCAAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 4 0.07
42 29 0.53
43 22 0.40
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATTCAATATCGATGTCAAT
Found at i:23579689 original size:23 final size:23
Alignment explanation
Indices: 23579657--23579729 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
23579647 AGTGCCACAT
* *
23579657 TGATATGTAGCCGAAGCTACCCC
1 TGATATGTAGTCGAAGCTACCAC
* *
23579680 TGATACGTAGTCGTAGCTACCAC
1 TGATATGTAGTCGAAGCTACCAC
*
23579703 TGAAATGTAGTCGAAGCTACCAC
1 TGATATGTAGTCGAAGCTACCAC
23579726 TGAT
1 TGAT
23579730 CAATAACACT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (23 bp):
TGATATGTAGTCGAAGCTACCAC
Found at i:23582870 original size:18 final size:19
Alignment explanation
Indices: 23582829--23582872 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
23582819 TTCCCTTAAA
*
23582829 AGGAATTGGTAGGGTTAGC
1 AGGAGTTGGTAGGGTTAGC
23582848 A-GAGTTGGTAGGGTTAG-
1 AGGAGTTGGTAGGGTTAGC
23582865 AGGAGTTG
1 AGGAGTTG
23582873 AGAGTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.45, T:0.27
Consensus pattern (19 bp):
AGGAGTTGGTAGGGTTAGC
Found at i:23592992 original size:3 final size:3
Alignment explanation
Indices: 23592984--23593018 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23592974 TAAAAAGAGG
23592984 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23593019 CCTTAAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23603128 original size:16 final size:16
Alignment explanation
Indices: 23603107--23603139 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23603097 TTCGCTGTAT
23603107 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23603123 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23603139 T
1 T
23603140 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:23603393 original size:18 final size:17
Alignment explanation
Indices: 23603372--23603406 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23603362 TTATTATTAA
*
23603372 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23603390 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23603407 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23607280 original size:3 final size:3
Alignment explanation
Indices: 23607272--23607308 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
23607262 TGAGGGGGAA
*
23607272 GAG GAG GAG GAG GAG GAG GAG CA- GAG GA- GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
23607309 TGACGGAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 3 0.10
3 27 0.90
ACGTcount: A:0.35, C:0.03, G:0.62, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:23607317 original size:16 final size:14
Alignment explanation
Indices: 23607271--23607308 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
23607261 CTGAGGGGGA
23607271 AGAGGAGGAGGAGG
1 AGAGGAGGAGGAGG
*
23607285 AGGAGGAGCA-GAGG
1 A-GAGGAGGAGGAGG
23607299 AGAGGAGGAG
1 AGAGGAGGAG
23607309 TGACGGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 7 0.35
14 6 0.30
15 7 0.35
ACGTcount: A:0.37, C:0.03, G:0.61, T:0.00
Consensus pattern (14 bp):
AGAGGAGGAGGAGG
Found at i:23608256 original size:21 final size:21
Alignment explanation
Indices: 23608232--23608271 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
23608222 AAATATAATC
23608232 ATTAA-ATATTTGTAATTATAT
1 ATTAACATATTTGT-ATTATAT
23608253 ATTAACATATTTGTATTAT
1 ATTAACATATTTGTATTAT
23608272 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTAACATATTTGTATTATAT
Found at i:23613073 original size:28 final size:27
Alignment explanation
Indices: 23613042--23613099 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
23613032 ATTCGCTACG
*
23613042 AAGGCTGTTCTTTTCAAGATTCACCACA
1 AAGG-TGTTCATTTCAAGATTCACCACA
* * *
23613070 AAGGTTTTCATTTCATGATTTACCACA
1 AAGGTGTTCATTTCAAGATTCACCACA
23613097 AAG
1 AAG
23613100 AATTTTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (27 bp):
AAGGTGTTCATTTCAAGATTCACCACA
Found at i:23613089 original size:27 final size:27
Alignment explanation
Indices: 23613008--23613099 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 27
23612998 TCATAATCCG
* * *
23613008 CCACAAAAGGTATTTCCTTTCATAATTCG
1 CCAC-AAAGGT-TTTCATTTCATGATTCA
* * * * *
23613037 CTACGAAGGCTGTTCTTTTCAAGATTCA
1 CCACAAAGG-TTTTCATTTCATGATTCA
*
23613065 CCACAAAGGTTTTCATTTCATGATTTA
1 CCACAAAGGTTTTCATTTCATGATTCA
23613092 CCACAAAG
1 CCACAAAG
23613100 AATTTTCTTT
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
27 22 0.45
28 23 0.47
29 4 0.08
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (27 bp):
CCACAAAGGTTTTCATTTCATGATTCA
Found at i:23613110 original size:27 final size:27
Alignment explanation
Indices: 23613053--23613110 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
23613043 AGGCTGTTCT
*
23613053 TTTCAAGATTCACCACAAAGGTTTTCA
1 TTTCAAGATTCACCACAAAGATTTTCA
* *
23613080 TTTCATGATTTACCACAAAGAATTTTC-
1 TTTCAAGATTCACCACAAAG-ATTTTCA
23613107 TTTC
1 TTTC
23613111 TTGACATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (27 bp):
TTTCAAGATTCACCACAAAGATTTTCA
Found at i:23615977 original size:36 final size:36
Alignment explanation
Indices: 23615930--23616002 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
23615920 ATTCGAACCC
23615930 ATGCTTTTACTTACATCAAAGTGTATGATCACACAT
1 ATGCTTTTACTTACATCAAAGTGTATGATCACACAT
23615966 ATGCTTTTACTTACATCAAAGTGTATGATCACACAT
1 ATGCTTTTACTTACATCAAAGTGTATGATCACACAT
23616002 A
1 A
23616003 CATAGTCTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (36 bp):
ATGCTTTTACTTACATCAAAGTGTATGATCACACAT
Found at i:23617421 original size:21 final size:21
Alignment explanation
Indices: 23617393--23617473 Score: 108
Period size: 21 Copynumber: 3.9 Consensus size: 21
23617383 GACATGGTCG
23617393 TGTGGTTACTCCACACGCCCA
1 TGTGGTTACTCCACACGCCCA
* * *
23617414 TATGGTTACTCCACACTCTCA
1 TGTGGTTACTCCACACGCCCA
**
23617435 TGTGGTTACTCCACACGCCTG
1 TGTGGTTACTCCACACGCCCA
*
23617456 TGTGGTTACTCCATACGC
1 TGTGGTTACTCCACACGC
23617474 TCGTATGCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.30
Consensus pattern (21 bp):
TGTGGTTACTCCACACGCCCA
Found at i:23620342 original size:42 final size:43
Alignment explanation
Indices: 23620262--23620342 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
23620252 AAATATAATC
*
23620262 ATAAAATTAAATATAAAATATTTAAAAAATAATATTAAAAGAA
1 ATAAAATGAAATATAAAATATTTAAAAAATAATATTAAAAGAA
*
23620305 ATAAAATGAAATATAAAGA-A-TTAAAAAATTATATTAAA
1 ATAAAATGAAATATAAA-ATATTTAAAAAATAATATTAAA
23620343 TAATAAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 17 0.49
43 17 0.49
44 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (43 bp):
ATAAAATGAAATATAAAATATTTAAAAAATAATATTAAAAGAA
Found at i:23626883 original size:3 final size:3
Alignment explanation
Indices: 23626875--23626900 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23626865 GCTTTAGTTT
23626875 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
23626901 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:23630029 original size:41 final size:41
Alignment explanation
Indices: 23629967--23630169 Score: 226
Period size: 41 Copynumber: 4.6 Consensus size: 41
23629957 GACTATACGT
23629967 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
23630008 CTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
23630049 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCC-G-G---TG----A---TCTGAATCAGGTTATAAAC
* * * *
23630102 CTAGTAGGCTAAGTGCCGGTGATCTGAATTAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
23630143 CTTGCAGGCTAAGCGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
23630170 TTAAATTAAG
Statistics
Matches: 140, Mismatches: 9, Indels: 25
0.80 0.05 0.14
Matches are distributed among these distances:
41 90 0.64
42 6 0.04
43 1 0.01
44 1 0.01
46 2 0.01
48 2 0.01
50 1 0.01
51 1 0.01
52 1 0.01
53 35 0.25
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:23630088 original size:12 final size:12
Alignment explanation
Indices: 23630071--23630095 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23630061 GTGCCGGTGA
23630071 TCTGAATCAGGT
1 TCTGAATCAGGT
23630083 TCTGAATCAGGT
1 TCTGAATCAGGT
23630095 T
1 T
23630096 ATAAACCTAG
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:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TCTGAATCAGGT
Found at i:23630111 original size:53 final size:53
Alignment explanation
Indices: 23630030--23630130 Score: 193
Period size: 53 Copynumber: 1.9 Consensus size: 53
23630020 GTGCTGGTGA
23630030 TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
1 TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
23630083 TCTGAATCAGGTTATAAACCTAGTAGGCTAAGTGCCGGTGATCTGAAT
1 TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAAT
23630131 TAGGCTATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (53 bp):
TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
Found at i:23630150 original size:94 final size:95
Alignment explanation
Indices: 23629989--23630169 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 95
23629979 GTGCCGGTGA
* *
23629989 TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGTTATAAACCTAGC
1 TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGC
*
23630054 AGGCTAAGTGCCGGTG-ATCTGAATCAGGT
66 AGGCTAAGCGCCGGTGAATCTGAATCAGGT
* * * *
23630083 TCTGAATCAGGTTATAAACCTAGTAGGCTAAGTGCCGGTGATCTGAATTAGGCTATAAGCCTTGC
1 TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGC
23630148 AGGCTAAGCGCCGGTGAATCTG
66 AGGCTAAGCGCCGGTGAATCTG
23630170 TTAAATTAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 74 0.94
95 5 0.06
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (95 bp):
TCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGC
AGGCTAAGCGCCGGTGAATCTGAATCAGGT
Found at i:23630948 original size:40 final size:39
Alignment explanation
Indices: 23630883--23631009 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
23630873 AATAAATATA
* *
23630883 TTTATTTTTTAAATTTTTAAA-ATTTTTAAAATACTTTT
1 TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
23630921 TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTATT-TTTTTAATTTTAAAATATTTTTAAAATACTTTT
**
23630961 TAAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
*
23631000 TTTAATTTTT
1 TTTATTTTTT
23631010 AAAATAAATA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 6 0.08
39 53 0.66
40 21 0.26
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
Found at i:23630949 original size:11 final size:11
Alignment explanation
Indices: 23630935--23631000 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
23630925 TTATTTTTAA
23630935 TTTTAAAATAT
1 TTTTAAAATAT
23630946 TTTTAAAATACT
1 TTTTAAAATA-T
23630958 TTTT-AAAT-T
1 TTTTAAAATAT
*
23630967 TTTT----TAA
1 TTTTAAAATAT
23630974 TTTTAAAATAT
1 TTTTAAAATAT
23630985 TTTTAAAATACT
1 TTTTAAAATA-T
23630997 TTTT
1 TTTT
23631001 TTAATTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
9 5 0.11
11 26 0.57
12 10 0.22
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:23630960 original size:29 final size:30
Alignment explanation
Indices: 23630887--23630968 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
23630877 AATATATTTA
* *
23630887 TTTTTTAAAT-TTTTAAAATTTTTAAAATAC
1 TTTTTAAAATATTTTTAAA-TTTTAAAATAC
** *
23630917 TTTTTTTATTATTTTT-AATTTTAAAATA-
1 TTTTTAAAATATTTTTAAATTTTAAAATAC
23630945 TTTTTAAAATACTTTTTAAATTTT
1 TTTTTAAAATA-TTTTTAAATTTT
23630969 TTTAATTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 8 0.19
29 15 0.35
30 16 0.37
31 4 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTAAAATATTTTTAAATTTTAAAATAC
Found at i:23633678 original size:27 final size:27
Alignment explanation
Indices: 23633648--23633705 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
23633638 ATATTTATAT
23633648 ATAT-AAATAATAATAATTTTAAAAAAA
1 ATATCAAA-AATAATAATTTTAAAAAAA
* * * *
23633675 ATATCAGAAATACTGATTTTAAGAAAA
1 ATATCAAAAATAATAATTTTAAAAAAA
23633702 ATAT
1 ATAT
23633706 GGAAAAAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (27 bp):
ATATCAAAAATAATAATTTTAAAAAAA
Found at i:23635289 original size:132 final size:132
Alignment explanation
Indices: 23635082--23635641 Score: 854
Period size: 132 Copynumber: 4.2 Consensus size: 132
23635072 TAGTGTTTTA
* * * * * * *
23635082 ATCTACTCCTCTGCAACTTTAGGGAGATAAGA-CT-TGTAGCTTCAACCTTCTCCACTGCTGCTT
1 ATCTGCTCCACTGCAAC-TTAGGGAGATAAGATCTAT-AATCTTCAACCTTCTCCGCTACTGCTC
* * *
23635145 AGGGAGACAAGGCTTGGTGGCTTTAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTC
64 AGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
23635210 TTCG
129 TTCG
* * * *
23635214 ATCTGCTCCACTGCAACTTAGGAAGATAAGATCTATAATCTTCATCCTTCTCTGCTGCTGCTCAG
1 ATCTGCTCCACTGCAACTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTCAG
*
23635279 GAAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
66 GGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
23635344 CG
131 CG
* **
23635346 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTCAG
1 ATCTGCTCCACTGCAACTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTCAG
*
23635411 GGAGATAAGGCTTGGTGTCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
66 GGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
23635476 CG
131 CG
* **
23635478 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTCAG
1 ATCTGCTCCACTGCAACTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTCAG
*
23635543 GGAGATAAGGCTTGGTGTCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
66 GGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
23635608 CG
131 CG
* *
23635610 ATCTGCTCTACTGTAACTTCAGGGAGATAAGA
1 ATCTGCTCCACTGCAACTT-AGGGAGATAAGA
23635642 CTACTGGTTA
Statistics
Matches: 398, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
131 13 0.03
132 372 0.93
133 13 0.03
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
ATCTGCTCCACTGCAACTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTCAG
GGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTT
CG
Found at i:23635373 original size:44 final size:44
Alignment explanation
Indices: 23635325--23635617 Score: 165
Period size: 44 Copynumber: 6.7 Consensus size: 44
23635315 TATCTTGGAA
*
23635325 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
**** * * * *
23635369 AGATAAGA-TCTATAATCTTCAACCTTCTCCGCTACTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * *
23635413 AGATAAGGCTT-GGTGTCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
23635457 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
**** * * * *
23635501 AGATAAGA-TCTATAATCTTCAACCTTCTCCGCTACTGCTCAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * *
23635545 AGATAAGGCTT-GGTGTCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
23635589 AGATAAGATTCGCCGTCTTCGATCTGCTC
1 AGATAAGATTCGCCGTCTTCAATCTGCTC
23635618 TACTGTAACT
Statistics
Matches: 181, Mismatches: 51, Indels: 36
0.68 0.19 0.13
Matches are distributed among these distances:
42 7 0.04
43 17 0.09
44 137 0.76
45 8 0.04
46 12 0.07
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:23647086 original size:98 final size:98
Alignment explanation
Indices: 23646917--23647113 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
23646907 GTGCAATAAA
* *
23646917 ACTTTAAAAGAACATTCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATT
23646982 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
23647015 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATT
23647080 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
23647113 A
1 A
23647114 TTATTTTTAG
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:23650381 original size:6 final size:6
Alignment explanation
Indices: 23650370--23650398 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23650360 ATGGAATGTG
23650370 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
23650399 TGCATGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:23658149 original size:3 final size:3
Alignment explanation
Indices: 23658141--23658171 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23658131 TGTCTTGAAT
23658141 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
23658172 AGTATCAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:23662544 original size:14 final size:13
Alignment explanation
Indices: 23662512--23662549 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
23662502 CCTTTTGTCC
23662512 TTTTT-TTTG-TT
1 TTTTTATTTGTTT
23662523 TTTTTATTTGTTT
1 TTTTTATTTGTTT
23662536 TTCTTTATTTGTTT
1 TT-TTTATTTGTTT
23662550 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.21
12 4 0.17
13 4 0.17
14 11 0.46
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTTATTTGTTT
Found at i:23662550 original size:22 final size:21
Alignment explanation
Indices: 23662512--23662563 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
23662502 CCTTTTGTCC
* *
23662512 TTTTTTTTGTTTTTTTATTTG
1 TTTTTTTTATTTGTTTATTTG
23662533 TTTTTCTTTATTTGTTTATTAT-
1 TTTTT-TTTATTTGTTTATT-TG
23662555 TTTTTTTTA
1 TTTTTTTTA
23662564 AAATTGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.33
22 17 0.63
23 1 0.04
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.83
Consensus pattern (21 bp):
TTTTTTTTATTTGTTTATTTG
Found at i:23662595 original size:22 final size:23
Alignment explanation
Indices: 23662544--23662588 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
23662534 TTTTCTTTAT
*
23662544 TTGTTTATTATTTTTTTTTAAAA
1 TTGTTTATTATTTTTTTATAAAA
23662567 TTGTTTATTATTTGTTTTATAA
1 TTGTTTATTATTT-TTTTATAA
23662589 TATTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (23 bp):
TTGTTTATTATTTTTTTATAAAA
Found at i:23663186 original size:366 final size:363
Alignment explanation
Indices: 23662713--23663721 Score: 1451
Period size: 362 Copynumber: 2.8 Consensus size: 363
23662703 TAATATAATT
* * * * * *
23662713 TTCCTTTTTCTGGTGGAGCTAAATAATTTGCCGCCACCAAATTTCAAC-CC-CT-CT----GTTA
1 TTCCTTTTTCTAGTGGAGCCAAATAATTTGGCGCCACCAAATTCCAACACCTCTACTACCATTTG
*
23662771 TC-TTTTGTC--TTTTTT-TTTGTTTTTCTTTATTTGTTTATTATTTGTTTTATAATGTTTTATG
66 TCATTTT-TCTATTTTTTATTTGTTTTTCTTTATTTGTTTATTATTTGTTTTATAATATTTTATG
* *
23662832 TATACTTTTTAGGTGGAGCCATTCTAAATGACGTCACCAATACGTTTTTTTAAATTTATTTTTTA
130 TATA-TTTTTTGGTGGAGCCATTCTAAATGGCGTCACCAATACGTTTTTTT-AATTTATTTTTTA
* *
23662897 TATTTAAAATTTTTAAAAAATAATATTTTATTTGGTAGAGCCATTTTATTTTGCGTGACCAAATT
193 TATTTAAAATTTTTAAAAAATAATATTTTATTTGGTAGAGCCATTCTATTTGGCGTGACCAAATT
23662962 TATATATATAAGCCTCTCAATGACACATGAATCTAAGTTGAAAGAAAAAAATTACTTATACTTTG
258 TATATATATAAGCCTCTCAATGACACATGAATCTAAGTTG-AA-AAAAAAA-TACTTATACTTTG
*
23663027 TTAGAGGATGAAT-GTGATG-AAAAGGGGGGGCTTTAAACAAATA
320 TTAGAGGATGAATAG-GATGAAAAAGGGGGAGCTTTAAACAAATA
* * * *
23663070 TTCCTTTTTCTGGTGGAGCCAAATACTTTGGCGCCACCAGATTCCAACACCTCTGCTA-CATTTG
1 TTCCTTTTTCTAGTGGAGCCAAATAATTTGGCGCCACCAAATTCCAACACCTCTACTACCATTTG
* * *
23663134 TCCTTTTTCTGTTTTTTATTTGTTTTTCTTTATTTGTTTATTACTTGTTTTATAATATTTTATGT
66 TCATTTTTCTATTTTTTATTTGTTTTTCTTTATTTGTTTATTATTTGTTTTATAATATTTTATGT
* *
23663199 AT-TTTTTTTGTGGAGCCATTCTAAATGGCATCACCAATA--TATTTTTTAATTTATTTTTTATA
131 ATATTTTTTGGTGGAGCCATTCTAAATGGCGTCACCAATACGT-TTTTTTAATTTATTTTTTATA
* *
23663261 TTTAAAATTTTTAAAATATAATATTTTATTTGGTAGAGCCATTCTATTTGGCATGACCAAATTTA
195 TTTAAAATTTTTAAAAAATAATATTTTATTTGGTAGAGCCATTCTATTTGGCGTGACCAAATTTA
*
23663326 TATATATAAGCCTCTCAATGACACATGAATCTGAGTTGAAAAAAAAATACTTATACTTTGTTAGA
260 TATATATAAGCCTCTCAATGACACATGAATCTAAGTTGAAAAAAAAATACTTATACTTTGTTAGA
* *
23663391 GGATGAATAGGATGAAAAAATGGGGAGTTTTAAACAAATA
325 GGATGAATAGGATG-AAAAAGGGGGAGCTTTAAACAAATA
** *
23663431 TTCCTTTTTCTAGTGGAGCCAAATAATTTGGCGCCACCAAATTCCAATGCCTCTACTACCTTTTG
1 TTCCTTTTTCTAGTGGAGCCAAATAATTTGGCGCCACCAAATTCCAACACCTCTACTACCATTTG
*
23663496 TCATTTTTCTATTTTTTATTTGTTTTTCTTTATTTTTTTATTATTTGTTTTATAATATTTTATGT
66 TCATTTTTCTATTTTTTATTTGTTTTTCTTTATTTGTTTATTATTTGTTTTATAATATTTTATGT
* * *
23663561 ATATTTTTTTGGTGGAGCCATTTTAAATGGCGACACCAATGCGTTCTTTTTTAATTTATTTTTTA
131 ATA-TTTTTTGGTGGAGCCATTCTAAATGGCGTCACCAATACG-T-TTTTTTAATTTATTTTTTA
* *
23663626 TATTTAAAATTTTT-AAAAATAATATTTTATTTAGTGGAGCCATTCTATTTGGCGTGACCAAATT
193 TATTTAAAATTTTTAAAAAATAATATTTTATTTGGTAGAGCCATTCTATTTGGCGTGACCAAATT
* *
23663690 TGTATATATAAGTCTCTCAATGACACATGAAT
258 TATATATATAAGCCTCTCAATGACACATGAAT
23663722 TGAGTCGAAA
Statistics
Matches: 588, Mismatches: 44, Indels: 31
0.89 0.07 0.05
Matches are distributed among these distances:
357 43 0.07
358 2 0.00
359 32 0.05
360 10 0.02
361 75 0.13
362 182 0.31
363 12 0.02
364 69 0.12
365 6 0.01
366 123 0.21
367 34 0.06
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (363 bp):
TTCCTTTTTCTAGTGGAGCCAAATAATTTGGCGCCACCAAATTCCAACACCTCTACTACCATTTG
TCATTTTTCTATTTTTTATTTGTTTTTCTTTATTTGTTTATTATTTGTTTTATAATATTTTATGT
ATATTTTTTGGTGGAGCCATTCTAAATGGCGTCACCAATACGTTTTTTTAATTTATTTTTTATAT
TTAAAATTTTTAAAAAATAATATTTTATTTGGTAGAGCCATTCTATTTGGCGTGACCAAATTTAT
ATATATAAGCCTCTCAATGACACATGAATCTAAGTTGAAAAAAAAATACTTATACTTTGTTAGAG
GATGAATAGGATGAAAAAGGGGGAGCTTTAAACAAATA
Found at i:23672133 original size:13 final size:13
Alignment explanation
Indices: 23672115--23672140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23672105 ATATTATAAA
23672115 ACATTTAAAATAT
1 ACATTTAAAATAT
23672128 ACATTTAAAATAT
1 ACATTTAAAATAT
23672141 TATAAAACAA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATTTAAAATAT
Found at i:23675293 original size:20 final size:20
Alignment explanation
Indices: 23675268--23675308 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23675258 TCCAATATTG
23675268 ACACGGCAATACTCGTGAAT
1 ACACGGCAATACTCGTGAAT
23675288 ACACGGCAATACTCGTGAAT
1 ACACGGCAATACTCGTGAAT
23675308 A
1 A
23675309 ACTCACAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ACACGGCAATACTCGTGAAT
Found at i:23676173 original size:25 final size:25
Alignment explanation
Indices: 23676144--23676203 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
23676134 GAAACTCTTT
23676144 AGAGCCATATAACGAGAAGCTC-ATG
1 AGAGCCATATAACGAGAAGCTCTA-G
* * * *
23676169 TGAGCTAAATAACGGGAAGCTCTAG
1 AGAGCCATATAACGAGAAGCTCTAG
23676194 AGAGCCATAT
1 AGAGCCATAT
23676204 TTTAGGAAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (25 bp):
AGAGCCATATAACGAGAAGCTCTAG
Found at i:23677816 original size:20 final size:20
Alignment explanation
Indices: 23677782--23677823 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23677772 AACTATTTAA
** *
23677782 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
23677802 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
23677822 AT
1 AT
23677824 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:23683282 original size:22 final size:23
Alignment explanation
Indices: 23683257--23683316 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
23683247 TGGACTGAAT
23683257 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
23683279 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
23683301 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
23683317 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:23683284 original size:4 final size:4
Alignment explanation
Indices: 23683266--23683299 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
23683256 TATAAAAATT
23683266 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
23683300 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:23684705 original size:23 final size:22
Alignment explanation
Indices: 23684653--23684705 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
23684643 TCCACGTCTT
*
23684653 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
23684675 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
23684698 TTTCTTTT
1 TTTCTTTT
23684706 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:23693540 original size:50 final size:50
Alignment explanation
Indices: 23693398--23693639 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
23693388 GATAATAACA
* ** * *
23693398 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATATTTCTTATAC--
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* ** *
23693447 TGCCAATGTCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** *
23693497 TGCCCATGTCATGTCCCAGATATGGTTTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
23693547 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
23693603 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
23693640 TCTCATCACC
Statistics
Matches: 156, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
49 41 0.26
50 78 0.50
53 2 0.01
56 35 0.22
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:23708152 original size:22 final size:23
Alignment explanation
Indices: 23708127--23708183 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
23708117 TGCACTAATG
23708127 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTATAAGTGCTA
*
23708149 AACAGAGAGCAC-ATATGTGCTA
1 AACAGAGAGCACTATAAGTGCTA
* *
23708171 AACGGAGAACACT
1 AACAGAGAGCACT
23708184 TCCTGCTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (23 bp):
AACAGAGAGCACTATAAGTGCTA
Found at i:23709230 original size:24 final size:24
Alignment explanation
Indices: 23709203--23709249 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
23709193 ATAAGTAAAT
23709203 TATACATATTATTACAAATGTATG
1 TATACATATTATTACAAATGTATG
* * *
23709227 TATATATTTTATTACACATGTAT
1 TATACATATTATTACAAATGTAT
23709250 TTTATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (24 bp):
TATACATATTATTACAAATGTATG
Found at i:23709809 original size:16 final size:16
Alignment explanation
Indices: 23709788--23709819 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23709778 TTTGTTGAGT
23709788 ATGACTCATATTTCAG
1 ATGACTCATATTTCAG
23709804 ATGACTCATATTTCAG
1 ATGACTCATATTTCAG
23709820 TTAAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
ATGACTCATATTTCAG
Found at i:23712233 original size:2 final size:2
Alignment explanation
Indices: 23712226--23712354 Score: 258
Period size: 2 Copynumber: 64.5 Consensus size: 2
23712216 TCCGTCATCC
23712226 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23712268 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23712310 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23712352 CT C
1 CT C
23712355 GACTTCCTTT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 127 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23714671 original size:27 final size:27
Alignment explanation
Indices: 23714641--23714728 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
23714631 CCTAAACCCC
* *
23714641 AATGTAAAAACTTTATGATTTCATTAA
1 AATGTAAAAACCTTATGGTTTCATTAA
*
23714668 AATGTAAAAACCCTATGGTTTCATTAA
1 AATGTAAAAACCTTATGGTTTCATTAA
*
23714695 AATGTAAAAACCTTATGGTTTTATTAA
1 AATGTAAAAACCTTATGGTTTCATTAA
23714722 AATGTAA
1 AATGTAA
23714729 CACCTACTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (27 bp):
AATGTAAAAACCTTATGGTTTCATTAA
Found at i:23716089 original size:19 final size:19
Alignment explanation
Indices: 23716064--23716104 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23716054 TCTATGGCAT
* *
23716064 AAAAAAAGAGATAGAAATAG
1 AAAAAAA-AGAAAAAAATAG
23716084 AAAAAAAAGAAAAAAATAG
1 AAAAAAAAGAAAAAAATAG
23716103 AA
1 AA
23716105 TGATTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAATAG
Found at i:23727202 original size:471 final size:471
Alignment explanation
Indices: 23726320--23727262 Score: 1886
Period size: 471 Copynumber: 2.0 Consensus size: 471
23726310 TTTTGGGTTC
23726320 AACTCGAATATGAATTACACAATTCGAGTTATCCAAAAATCTGAATAAGAAAAGGAAAAACTTTG
1 AACTCGAATATGAATTACACAATTCGAGTTATCCAAAAATCTGAATAAGAAAAGGAAAAACTTTG
23726385 TCGTTTAGATAAATGTTTACCTATTAAGTTAAAAGACAAAACCATTATATTGTTTATGTAGTTAA
66 TCGTTTAGATAAATGTTTACCTATTAAGTTAAAAGACAAAACCATTATATTGTTTATGTAGTTAA
23726450 ATAATATTGTCATTCGTCTACTAGTTAAATAATCGGTCCATGCAAACACAACATTGAGTTTAAAT
131 ATAATATTGTCATTCGTCTACTAGTTAAATAATCGGTCCATGCAAACACAACATTGAGTTTAAAT
23726515 AATAGGATTCATTAACTCGACTCGACTTGACTCGAAATTTTTTGACTCGATTAGTGTAACACCCC
196 AATAGGATTCATTAACTCGACTCGACTTGACTCGAAATTTTTTGACTCGATTAGTGTAACACCCC
23726580 AAACCCGGCCTAGACGTTATGGCCGAATCTGGCGATGTCACATGGAAAGGGATTCAAAGACAAGA
261 AAACCCGGCCTAGACGTTATGGCCGAATCTGGCGATGTCACATGGAAAGGGATTCAAAGACAAGA
23726645 TTGTCGAGTTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTCGAAACAAAACTAGTTGAT
326 TTGTCGAGTTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTCGAAACAAAACTAGTTGAT
23726710 TTGCTTTAAAACTTGTCTCTTAGCGGAAGCTTTTGTAACCAATTAATTTAGGGGAAATCGTTTCT
391 TTGCTTTAAAACTTGTCTCTTAGCGGAAGCTTTTGTAACCAATTAATTTAGGGGAAATCGTTTCT
23726775 ATTTACGAAAAACCTT
456 ATTTACGAAAAACCTT
23726791 AACTCGAATATGAATTACACAATTCGAGTTATCCAAAAATCTGAATAAGAAAAGGAAAAACTTTG
1 AACTCGAATATGAATTACACAATTCGAGTTATCCAAAAATCTGAATAAGAAAAGGAAAAACTTTG
23726856 TCGTTTAGATAAATGTTTACCTATTAAGTTAAAAGACAAAACCATTATATTGTTTATGTAGTTAA
66 TCGTTTAGATAAATGTTTACCTATTAAGTTAAAAGACAAAACCATTATATTGTTTATGTAGTTAA
23726921 ATAATATTGTCATTCGTCTACTAGTTAAATAATCGGTCCATGCAAACACAACATTGAGTTTAAAT
131 ATAATATTGTCATTCGTCTACTAGTTAAATAATCGGTCCATGCAAACACAACATTGAGTTTAAAT
23726986 AATAGGATTCATTAACTCGACTCGACTTGACTCGAAATTTTTTGACTCGATTAGTGTAACACCCC
196 AATAGGATTCATTAACTCGACTCGACTTGACTCGAAATTTTTTGACTCGATTAGTGTAACACCCC
23727051 AAACCCGGCCTAGACGTTATGGCCGAATCTGGCGATGTCACATGGAAAGGGATTCAAAGACAAGA
261 AAACCCGGCCTAGACGTTATGGCCGAATCTGGCGATGTCACATGGAAAGGGATTCAAAGACAAGA
23727116 TTGTCGAGTTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTCGAAACAAAACTAGTTGAT
326 TTGTCGAGTTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTCGAAACAAAACTAGTTGAT
23727181 TTGCTTTAAAACTTGTCTCTTAGCGGAAGCTTTTGTAACCAATTAATTTAGGGGAAATCGTTTCT
391 TTGCTTTAAAACTTGTCTCTTAGCGGAAGCTTTTGTAACCAATTAATTTAGGGGAAATCGTTTCT
23727246 ATTTACGAAAAACCTT
456 ATTTACGAAAAACCTT
23727262 A
1 A
23727263 GGGTGCGTTT
Statistics
Matches: 472, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
471 472 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (471 bp):
AACTCGAATATGAATTACACAATTCGAGTTATCCAAAAATCTGAATAAGAAAAGGAAAAACTTTG
TCGTTTAGATAAATGTTTACCTATTAAGTTAAAAGACAAAACCATTATATTGTTTATGTAGTTAA
ATAATATTGTCATTCGTCTACTAGTTAAATAATCGGTCCATGCAAACACAACATTGAGTTTAAAT
AATAGGATTCATTAACTCGACTCGACTTGACTCGAAATTTTTTGACTCGATTAGTGTAACACCCC
AAACCCGGCCTAGACGTTATGGCCGAATCTGGCGATGTCACATGGAAAGGGATTCAAAGACAAGA
TTGTCGAGTTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTCGAAACAAAACTAGTTGAT
TTGCTTTAAAACTTGTCTCTTAGCGGAAGCTTTTGTAACCAATTAATTTAGGGGAAATCGTTTCT
ATTTACGAAAAACCTT
Found at i:23727302 original size:16 final size:16
Alignment explanation
Indices: 23727280--23727347 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
23727270 TTTGGTTCGC
*
23727280 TGTATTGGATTAGACG
1 TGTATTGGATTAGAGG
* *
23727296 CGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
23727312 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23727328 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23727344 TGTA
1 TGTA
23727348 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23727604 original size:18 final size:17
Alignment explanation
Indices: 23727583--23727617 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23727573 TTATTATTAA
*
23727583 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23727601 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23727618 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23727724 original size:18 final size:17
Alignment explanation
Indices: 23727703--23727737 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23727693 TTATTATTAA
*
23727703 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23727721 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23727738 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23727779 original size:120 final size:120
Alignment explanation
Indices: 23727566--23727881 Score: 587
Period size: 120 Copynumber: 2.6 Consensus size: 120
23727556 ATCATATTTA
23727566 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
23727631 TATTCTTATATGAATTTACTCAAATCATAATATATGATACAGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACAGTAAAATATAAATT
23727686 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
23727751 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACAGTAAAATATAAATT
* *
23727806 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
23727871 TATTCTTATAT
66 TATTCTTATAT
23727882 NNNNNNNNNN
Statistics
Matches: 191, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 191 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACAGTAAAATATAAATT
Found at i:23727851 original size:14 final size:15
Alignment explanation
Indices: 23727802--23727853 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23727792 GTAAAATATA
23727802 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
23727817 TATTAAATATATTAT
1 AATTAAATATATTAT
23727832 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
23727845 AATTTAATA
1 AATTAAATA
23727854 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:23733259 original size:17 final size:18
Alignment explanation
Indices: 23733227--23733261 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23733217 TTACCCTTGC
*
23733227 TACAAATATTAATTTATT
1 TACAAATATGAATTTATT
23733245 TACAAAT-TGAATTTATT
1 TACAAATATGAATTTATT
23733262 GTTTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (18 bp):
TACAAATATGAATTTATT
Found at i:23733300 original size:17 final size:15
Alignment explanation
Indices: 23733270--23733306 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
23733260 TTGTTTTAAT
23733270 TTATTAAATAAAATA
1 TTATTAAATAAAATA
23733285 TTATTAGAATTAAAATA
1 TTATTA-AA-TAAAATA
23733302 TTATT
1 TTATT
23733307 TTAAGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TTATTAAATAAAATA
Found at i:23734688 original size:19 final size:19
Alignment explanation
Indices: 23734651--23734688 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23734641 CTAATTAAGT
*
23734651 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
23734670 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
23734689 GAAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:23734960 original size:13 final size:13
Alignment explanation
Indices: 23734944--23734975 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
23734934 TGTTTGAATG
23734944 AAATTTCATAGTT
1 AAATTTCATAGTT
23734957 AAATTTCATAGTT
1 AAATTTCATAGTT
23734970 AAATTT
1 AAATTT
23734976 GAGTTTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
AAATTTCATAGTT
Found at i:23735572 original size:23 final size:22
Alignment explanation
Indices: 23735545--23735609 Score: 89
Period size: 23 Copynumber: 3.0 Consensus size: 22
23735535 GCCTTGCCGA
23735545 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
*
23735568 TCAGGCACCTCATGTGTCG--TT
1 TCAGGCA-CTTATGTGTCGTATT
23735589 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTTATGTGTCGTAT
23735610 ACTGATCAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 10 0.27
21 9 0.24
22 1 0.03
23 16 0.43
24 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:23737868 original size:17 final size:18
Alignment explanation
Indices: 23737836--23737870 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23737826 TTACCCTTGC
*
23737836 TACAAATATTAATTTATT
1 TACAAATATGAATTTATT
23737854 TACAAAT-TGAATTTATT
1 TACAAATATGAATTTATT
23737871 GTTTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (18 bp):
TACAAATATGAATTTATT
Found at i:23737909 original size:17 final size:15
Alignment explanation
Indices: 23737879--23737915 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
23737869 TTGTTTTAAT
23737879 TTATTAAATAAAATA
1 TTATTAAATAAAATA
23737894 TTATTAGAATTAAAATA
1 TTATTA-AA-TAAAATA
23737911 TTATT
1 TTATT
23737916 TTAAGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TTATTAAATAAAATA
Found at i:23739297 original size:19 final size:19
Alignment explanation
Indices: 23739260--23739297 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23739250 CTAATTAAGT
*
23739260 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
23739279 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
23739298 GAAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:23739569 original size:13 final size:13
Alignment explanation
Indices: 23739553--23739584 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
23739543 TGTTTGAATG
23739553 AAATTTCATAGTT
1 AAATTTCATAGTT
23739566 AAATTTCATAGTT
1 AAATTTCATAGTT
23739579 AAATTT
1 AAATTT
23739585 GAGTTTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
AAATTTCATAGTT
Found at i:23740181 original size:23 final size:22
Alignment explanation
Indices: 23740154--23740218 Score: 89
Period size: 23 Copynumber: 3.0 Consensus size: 22
23740144 GCCTTGCCGA
23740154 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
*
23740177 TCAGGCACCTCATGTGTCG--TT
1 TCAGGCA-CTTATGTGTCGTATT
23740198 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTTATGTGTCGTAT
23740219 ACTGATCAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 10 0.27
21 9 0.24
22 1 0.03
23 16 0.43
24 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:23745537 original size:23 final size:22
Alignment explanation
Indices: 23745485--23745549 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
23745475 CCTGATCAGT
*
23745485 ATACAACACATAAGTGCCTG-A
1 ATACGACACATAAGTGCCTGAA
*
23745506 A-ACGACACATGAGGTGCCTGAA
1 ATACGACACAT-AAGTGCCTGAA
23745528 ATACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
23745550 TCGGTAAGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.22
21 9 0.24
22 2 0.05
23 18 0.49
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTGAA
Found at i:23746495 original size:9 final size:9
Alignment explanation
Indices: 23746477--23746525 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
23746467 CTGCTGCTCT
*
23746477 TTTTGTTTC
1 TTTTCTTTC
23746486 TTTTAC-TTC
1 TTTT-CTTTC
23746495 TTTTCTTTC
1 TTTTCTTTC
23746504 TTTTCTTTC
1 TTTTCTTTC
**
23746513 TTTAGTTTC
1 TTTTCTTTC
23746522 TTTT
1 TTTT
23746526 TATTTACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 1 0.03
9 33 0.97
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:23746498 original size:18 final size:18
Alignment explanation
Indices: 23746477--23746525 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
23746467 CTGCTGCTCT
23746477 TTTTGTTTCTTTTAC-TTC
1 TTTTGTTTCTTTT-CTTTC
*
23746495 TTTTCTTTCTTTTCTTTC
1 TTTTGTTTCTTTTCTTTC
*
23746513 TTTAGTTTCTTTT
1 TTTTGTTTCTTTT
23746526 TATTTACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTGTTTCTTTTCTTTC
Found at i:23746781 original size:24 final size:24
Alignment explanation
Indices: 23746749--23746810 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
23746739 ATATCATCTA
* *
23746749 TACCATACACTTGTATTAAATCAT
1 TACCATACATTTGTATTAAACCAT
23746773 TACCATACATTTGTATTAAACCAT
1 TACCATACATTTGTATTAAACCAT
23746797 TACCATACATTTGT
1 TACCATACATTTGT
23746811 CTTTATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (24 bp):
TACCATACATTTGTATTAAACCAT
Found at i:23749336 original size:46 final size:46
Alignment explanation
Indices: 23749200--23749340 Score: 212
Period size: 46 Copynumber: 3.1 Consensus size: 46
23749190 ACATTGCTAT
* * *
23749200 AACTCAGTATGGGTTTCTTCACTGAAATACCATACCTAATTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACATACTTTTCAC
* * *
23749246 AACTCAGTATGGTTTTCTTTACCGAAATACCATACTTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACATACTTTTCAC
*
23749292 AACTCAGTATGGTTTTCTTCACTGAAATACCATACATACGTTTCA-
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACATACTTTTCAC
23749337 AACT
1 AACT
23749341 TTTCCATGGA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.05
46 82 0.95
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACATACTTTTCAC
Found at i:23750607 original size:17 final size:17
Alignment explanation
Indices: 23750587--23750632 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
23750577 ATTCTTTTTA
23750587 AAATTACAAAATTCAAT
1 AAATTACAAAATTCAAT
* *
23750604 AAATCACAAAATTCACT
1 AAATTACAAAATTCAAT
*
23750621 AATTTA-AAAATT
1 AAATTACAAAATT
23750633 ATTCTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATTACAAAATTCAAT
Found at i:23751227 original size:21 final size:21
Alignment explanation
Indices: 23751175--23751221 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23751165 ATTTTCTTGT
* * *
23751175 TGCCTCTACTGCCCTTGCTGC
1 TGCCTCTGCTTCCCTCGCTGC
23751196 TGCCTCTGCTTCCCTCGCTGC
1 TGCCTCTGCTTCCCTCGCTGC
23751217 TGCCT
1 TGCCT
23751222 TCGCTTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.45, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCCTCTGCTTCCCTCGCTGC
Found at i:23752347 original size:21 final size:21
Alignment explanation
Indices: 23752323--23752363 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23752313 GCCTAAGATG
23752323 TGAATTGGATTGA-ATTGAGTA
1 TGAATTGGATT-ACATTGAGTA
*
23752344 TGAATTGTATTACATTGAGT
1 TGAATTGGATTACATTGAGT
23752364 TAAATTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.41
Consensus pattern (21 bp):
TGAATTGGATTACATTGAGTA
Found at i:23752905 original size:26 final size:26
Alignment explanation
Indices: 23752851--23752920 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
23752841 GATATATGGT
* *
23752851 TCTTCGTGAGCTTCCTGATTAAAGGC
1 TCTTTGTGAGCTTCCCGATTAAAGGC
* *
23752877 TCTTTGTGAGCTTCCCGATTAATGTC
1 TCTTTGTGAGCTTCCCGATTAAAGGC
* *
23752903 TCTCT-AGAGCTTCCCGAT
1 TCTTTGTGAGCTTCCCGAT
23752921 ATGGCTCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
25 12 0.32
26 26 0.68
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (26 bp):
TCTTTGTGAGCTTCCCGATTAAAGGC
Found at i:23753092 original size:25 final size:25
Alignment explanation
Indices: 23753026--23753085 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
23753016 TATGGCTCTT
**
23753026 ATGAGCTTCCCGTTATACAGCCCGG
1 ATGAGCTTCCCGTTATACAGCCCAC
* *
23753051 ATAAGCTTCCCGTTATACAGCTCAC
1 ATGAGCTTCCCGTTATACAGCCCAC
23753076 ATGAGCTTCC
1 ATGAGCTTCC
23753086 TATTATATGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCCCAC
Found at i:23764824 original size:42 final size:42
Alignment explanation
Indices: 23764778--23764867 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
23764768 GTGTCCTTAC
* * *
23764778 CCGTGTAACTCACTGAGATGCCCCACACACCCGTGTGCCAGG
1 CCGTGTAACTCACTAAGATGCCACACACACCCATGTGCCAGG
** * *
23764820 CCGTGTAACTCTTTAAGTTGCCACACACGCCCATGTGCCAGG
1 CCGTGTAACTCACTAAGATGCCACACACACCCATGTGCCAGG
*
23764862 TCGTGT
1 CCGTGT
23764868 GTTGGGCCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.22
Consensus pattern (42 bp):
CCGTGTAACTCACTAAGATGCCACACACACCCATGTGCCAGG
Found at i:23766036 original size:43 final size:43
Alignment explanation
Indices: 23765760--23766036 Score: 396
Period size: 43 Copynumber: 6.4 Consensus size: 43
23765750 TTAAAGTCAA
* * * *
23765760 GACCTTTAGCGACAC-TTTCACCACAAACGCCGCTAAAGATCAA
1 GACCTTTAGCGGCGCTTTTC-CCACAAACGCCGCTAAAGACCAT
* * *
23765803 GACCTTTAGCGGCGCTCTTCCCACAAACGTCGCTAAAGACCAG
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAT
*
23765846 GACCTTTAGCGGCGGTTTTCCCACAAACGCCGCTAAAGACCAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAT
* *
23765889 GACTTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAAGACCAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT-AAAGACCAT
* *
23765933 GACCTCTAGCGGCGCTTTTCCAAC-AACGCCGCTAAAGACCAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAT
*
23765975 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACCAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAT
*
23766018 GACCTTTGGCGGCGCTTTT
1 GACCTTTAGCGGCGCTTTT
23766037 TTTAAAATCG
Statistics
Matches: 210, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
42 31 0.15
43 147 0.70
44 32 0.15
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAT
Found at i:23769002 original size:15 final size:15
Alignment explanation
Indices: 23768960--23769006 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
23768950 AACCCTTAAT
*
23768960 TAAA-CCATAACCCC
1 TAAATCCATAATCCC
*
23768974 T-AATCTATAATCCC
1 TAAATCCATAATCCC
*
23768988 TAAATCCATACTCCC
1 TAAATCCATAATCCC
23769003 TAAA
1 TAAA
23769007 CCTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 10 0.37
15 15 0.56
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:23769537 original size:85 final size:85
Alignment explanation
Indices: 23769395--23769659 Score: 399
Period size: 85 Copynumber: 3.1 Consensus size: 85
23769385 CGCTGTTGCT
* *
23769395 AACACCGCTATAGATCAGGACCTTTAGCGGTGC-TTCCCCACAAACGCCACTATAGATCAAGACC
1 AACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTCCCCACAAACGCCACTATAGATCAAGACC
23769459 TTTAGCGGCGCTTTTCCACA
66 TTTAGCGGCGCTTTTCCACA
* *
23769479 AACACCGCTATAGCTCAAGATCTTTAGCGGCGCTTTCCCCACAAACGCCACTATAGATCAAGACC
1 AACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTCCCCACAAACGCCACTATAGATCAAGACC
23769544 TTTAGCGGCGCTTTTCCCACA
66 TTTAGCGGCGCTTTT-CCACA
** * * * * *
23769565 AATGCCGCTATAGAGC-AGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGATCAGGACC
1 AACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTCCCCACAAACGCCACTATAGATCAAGACC
23769629 TTTAGCGGCGCTTTTCACACA
66 TTTAGCGGCGCTTTTC-CACA
23769650 AACACCGCTA
1 AACACCGCTA
23769660 AAAACATATC
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
84 30 0.18
85 116 0.71
86 17 0.10
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (85 bp):
AACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTCCCCACAAACGCCACTATAGATCAAGACC
TTTAGCGGCGCTTTTCCACA
Found at i:23769540 original size:43 final size:43
Alignment explanation
Indices: 23769399--23769659 Score: 366
Period size: 42 Copynumber: 6.1 Consensus size: 43
23769389 GTTGCTAACA
* * *
23769399 CCGCTATAGATCAGGACCTTTAGCGGTGC-TTCCCCACAAACG
1 CCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
23769441 CCACTATAGATCAAGACCTTTAGCGGCGCTTTT-CCACAAACA
1 CCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACG
* * *
23769483 CCGCTATAGCTCAAGATCTTTAGCGGCGCTTTCCCCACAAACG
1 CCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
23769526 CCACTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAATG
1 CCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
23769569 CCGCTATAGAGC-AGACCTTTAGCGACGCTTTTCCCACAAACG
1 CCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACG
* * *
23769611 CCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCACACAAACA
1 CCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACG
23769654 CCGCTA
1 CCGCTA
23769660 AAAACATATC
Statistics
Matches: 192, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
42 102 0.53
43 90 0.47
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (43 bp):
CCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:23773505 original size:10 final size:10
Alignment explanation
Indices: 23773463--23773522 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
23773453 AAAATAAAAG
*
23773463 TTTAAAATCTT
1 TTTAAAAT-AT
23773474 TTTAAAA-AT
1 TTTAAAATAT
* *
23773483 TCTAAAAAAT
1 TTTAAAATAT
*
23773493 TTTAAAATCT
1 TTTAAAATAT
23773503 TTTAAAATTGAT
1 TTTAAAA-T-AT
23773515 TTTAAAAT
1 TTTAAAAT
23773523 TTTAAATCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 7 0.17
10 16 0.40
11 9 0.22
12 8 0.20
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (10 bp):
TTTAAAATAT
Found at i:23774264 original size:21 final size:21
Alignment explanation
Indices: 23774234--23774273 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23774224 ATTCACACAT
*
23774234 AACCTCTAAACCTTAAACCCC
1 AACCTCTAAACCATAAACCCC
*
23774255 AACCTTTAAACCATAAACC
1 AACCTCTAAACCATAAACC
23774274 ATAAACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCTCTAAACCATAAACCCC
Found at i:23774271 original size:7 final size:7
Alignment explanation
Indices: 23774261--23774321 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
23774251 CCCCAACCTT
23774261 TAAACCA
1 TAAACCA
23774268 TAAACCA
1 TAAACCA
23774275 TAAACCA
1 TAAACCA
*
23774282 TAACCCA
1 TAAACCA
* *
23774289 TAATCCC
1 TAAACCA
23774296 TAAACCCA
1 TAAA-CCA
*
23774304 TAATCCA
1 TAAACCA
*
23774311 TAAACCT
1 TAAACCA
23774318 TAAA
1 TAAA
23774322 ATGGCAACAC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
7 40 0.89
8 5 0.11
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:23774303 original size:15 final size:15
Alignment explanation
Indices: 23774265--23774316 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
23774255 AACCTTTAAA
*
23774265 CCATAAA-CCATAAA
1 CCATAAACCCATAAT
23774279 CCAT-AACCCATAAT
1 CCATAAACCCATAAT
*
23774293 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
23774308 CCATAAACC
1 CCATAAACC
23774317 TTAAAATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 2 0.06
14 13 0.39
15 18 0.55
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:23774552 original size:66 final size:66
Alignment explanation
Indices: 23774446--23774579 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
23774436 CCCTAAACTA
*
23774446 TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
1 TAGTGATAATTAATTCAATAGTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
23774511 T
66 T
23774512 TAGTGATAATTAATTCAATAGTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
1 TAGTGATAATTAATTCAATAGTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
23774577 T
66 T
23774578 TA
1 TA
23774580 ATATATAAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (66 bp):
TAGTGATAATTAATTCAATAGTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
T
Found at i:23774760 original size:41 final size:41
Alignment explanation
Indices: 23774699--23774977 Score: 436
Period size: 41 Copynumber: 6.8 Consensus size: 41
23774689 CCACAGCATT
* *
23774699 ATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGGCCTGGAC
1 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCTGGAC
*
23774740 ATTAGCGGCGCTTTCACAAAAACGACGCTAAAGGCCTGGAC
1 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCTGGAC
*
23774781 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCTGGGC
1 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCTGGAC
*
23774822 ATTAGCGGCGCTTTCACAAAACCGCCGCTAAAGGCCTGGAC
1 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCTGGAC
* *
23774863 ATTAGCGGCGCTTTCACAAAAAGGCTGCTAAAGGCCTAGG-C
1 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCT-GGAC
* *
23774904 ATTAGCGGCACTTTCACAAAAACGCCGCTAAAGGCCTGGGGC
1 ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCT-GGAC
23774946 ATTAGCGGCGCTTTC-CTAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTCAC-AAAAACGCCGCTAAA
23774978 TCCTTGAAAG
Statistics
Matches: 220, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
41 188 0.85
42 32 0.15
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCCTGGAC
Found at i:23775110 original size:40 final size:40
Alignment explanation
Indices: 23775041--23775150 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
23775031 TATTGAAAAT
* *
23775041 GCCGCTAATGCT-TAT-TATTAGCGGCGTTTTCCATAAAGC
1 GCCGCTAATGCTCGATCT-TTAGCGGCGTTTTCCAAAAAGC
*
23775080 GCCGCTAAAT-CTCGATCTTTAGCGGTGTTTTCCAAAAAGC
1 GCCGCT-AATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGC
*
23775120 GCCGCTAATGCTCGATCTTTAGGGGCGTTTT
1 GCCGCTAATGCTCGATCTTTAGCGGCGTTTT
23775151 TTATCCAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
39 11 0.18
40 50 0.81
41 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (40 bp):
GCCGCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGC
Found at i:23775732 original size:114 final size:113
Alignment explanation
Indices: 23775515--23775939 Score: 539
Period size: 117 Copynumber: 3.7 Consensus size: 113
23775505 ATATTTTTTA
* * *
23775515 CCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTTGTTGGGCTTAGGTTTTTTTTGCAGCGCTTTC
1 CCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTTGCGGCGCTTTC
* *
23775580 TCAAAAACGCCGTTAAAGCCTTGAGCATTAGCGACGCTTTTTAAAAAACG
65 TCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTTT-AAAAACG
* * * * *
23775630 CCGCTAAATCCACGAAAGCTCAGAAAGCCGCGTCATTGGGCTTAGGTTTTTTTGCGGCGCTTTCT
1 CCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCT
* * * * *
23775695 CAAAAACGACGCGAAATCCCTGAGCATTAGCGGCGCTTTCTTAGAAACG
66 CAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTT-TTAAAAACG
* * *
23775744 CCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTGGGCTTATGTTTTTTTTTTGCGGCGCTT
1 CCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA-G--GTTTTTTTGCGGCGCTT
* * *
23775809 TATCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGTTTTCTTAAAAACC
63 TCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTT-TTAAAAACG
* *
23775861 CCGCTAAATCCCCAAAAGCTC-GAAAAACGGCGTGGTTGGGCTTAGG-TTTTTTCCGGCGCTTTC
1 CCGCTAAATCCCCAAAAGCTCAG-AAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
**
23775924 TGGAAAACGCCGCTAA
65 TCAAAAACGCCGCTAA
23775940 TGCTTATTTT
Statistics
Matches: 268, Mismatches: 37, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
113 29 0.11
114 94 0.35
115 44 0.16
116 1 0.00
117 100 0.37
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (113 bp):
CCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCT
CAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTTTAAAAACG
Found at i:23781292 original size:45 final size:45
Alignment explanation
Indices: 23781228--23781316 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
23781218 CACGCATGAG
23781228 GTGGAGATCGAAGAGCCTGATGATCACG-GAACTACCATTCTCAAC
1 GTGGAGATCGAAGAGCCTGATGATCACGCG-ACTACCATTCTCAAC
*
23781273 GTGGAGATCGAAGAGCCTGATGATCACGCGGCTACCATTCTCAA
1 GTGGAGATCGAAGAGCCTGATGATCACGCGACTACCATTCTCAA
23781317 ACGAGTATGC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (45 bp):
GTGGAGATCGAAGAGCCTGATGATCACGCGACTACCATTCTCAAC
Found at i:23782237 original size:9 final size:9
Alignment explanation
Indices: 23782218--23782272 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
23782208 TCGGGTATTT
23782218 TTCGG-TAA
1 TTCGGTTAA
23782226 TTCGGTTAA
1 TTCGGTTAA
*
23782235 TTCAGTTAA
1 TTCGGTTAA
23782244 TTCGGTTAA
1 TTCGGTTAA
*
23782253 TTCGGGTAA
1 TTCGGTTAA
*
23782262 TTCGGGTAA
1 TTCGGTTAA
23782271 TT
1 TT
23782273 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
8 5 0.12
9 38 0.88
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:23782449 original size:12 final size:12
Alignment explanation
Indices: 23782432--23782456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23782422 AGTAATTTCG
23782432 GGTCGGTTAACC
1 GGTCGGTTAACC
23782444 GGTCGGTTAACC
1 GGTCGGTTAACC
23782456 G
1 G
23782457 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:23784077 original size:30 final size:30
Alignment explanation
Indices: 23784043--23784101 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
23784033 TACGAGCTTT
23784043 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
23784073 GGGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
23784102 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:23784317 original size:18 final size:17
Alignment explanation
Indices: 23784284--23784322 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23784274 TTTTATAAAT
23784284 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23784302 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23784319 TGTG
1 TGTG
23784323 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23784577 original size:23 final size:23
Alignment explanation
Indices: 23784551--23784692 Score: 248
Period size: 23 Copynumber: 6.2 Consensus size: 23
23784541 GTTATTGATT
23784551 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
*
23784574 AGTGGTAGCTTCGGCTACGTATC
1 AGTGGTAGCTTCGGCTACATATC
*
23784597 AGTGGTAGCTTCGGCTACGTATC
1 AGTGGTAGCTTCGGCTACATATC
23784620 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
*
23784643 AGTGGTAGCTTCGGCTACGTATC
1 AGTGGTAGCTTCGGCTACATATC
*
23784666 AGTGGTAGCTTCAGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
23784689 AGTG
1 AGTG
23784693 TGGCACTTAT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 114 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:23786272 original size:30 final size:30
Alignment explanation
Indices: 23786238--23786331 Score: 118
Period size: 30 Copynumber: 3.0 Consensus size: 30
23786228 TCCCCTTTAC
23786238 ATAACAAACAAACTTATTTTTATGACTCAT
1 ATAACAAACAAACTTATTTTTATGACTCAT
*
23786268 ATAACAAATAAACTTACTTTTT-TGACTCATACT
1 ATAACAAACAAACTTA-TTTTTATGACTC--A-T
* *
23786301 ATAACAAACAAACTTACTTTTATAACTCAT
1 ATAACAAACAAACTTATTTTTATGACTCAT
23786331 A
1 A
23786332 CAAAATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
30 23 0.42
31 6 0.11
32 5 0.09
33 21 0.38
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (30 bp):
ATAACAAACAAACTTATTTTTATGACTCAT
Found at i:23786314 original size:33 final size:33
Alignment explanation
Indices: 23786238--23786332 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
23786228 TCCCCTTTAC
23786238 ATAACAAACAAACTTA-TTTTTATGACTC--A-T
1 ATAACAAACAAACTTACTTTTT-TGACTCATACT
*
23786268 ATAACAAATAAACTTACTTTTTTGACTCATACT
1 ATAACAAACAAACTTACTTTTTTGACTCATACT
* *
23786301 ATAACAAACAAACTTACTTTTATAACTCATAC
1 ATAACAAACAAACTTACTTTTTTGACTCATAC
23786333 AAAATAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
30 21 0.37
31 5 0.09
32 1 0.02
33 30 0.53
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (33 bp):
ATAACAAACAAACTTACTTTTTTGACTCATACT
Found at i:23796264 original size:35 final size:35
Alignment explanation
Indices: 23796218--23796288 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
23796208 TACGACCAGT
23796218 TTTCAATCCAACCAAACTAAACGAATGATTCAATC
1 TTTCAATCCAACCAAACTAAACGAATGATTCAATC
23796253 TTTCAATCCAACCAAACTAAACGAATGATTCAATC
1 TTTCAATCCAACCAAACTAAACGAATGATTCAATC
23796288 T
1 T
23796289 GATTCAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (35 bp):
TTTCAATCCAACCAAACTAAACGAATGATTCAATC
Found at i:23808221 original size:2 final size:2
Alignment explanation
Indices: 23808214--23808361 Score: 296
Period size: 2 Copynumber: 74.0 Consensus size: 2
23808204 CATATTGATT
23808214 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
23808256 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
23808298 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
23808340 CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA
23808362 TATATATATA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 146 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:23809893 original size:29 final size:29
Alignment explanation
Indices: 23809825--23809893 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
23809815 TGGCTATACT
* * *
23809825 ACCAAAACTCCCATATTAGTGGATTAATC
1 ACCAGAACTCCCATATTAGTGGATAAACC
* * *
23809854 GCCAGAGCTCCCATATTTGTGGATAAACC
1 ACCAGAACTCCCATATTAGTGGATAAACC
*
23809883 ACTAGAACTCC
1 ACCAGAACTCC
23809894 ATAGAATTCC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (29 bp):
ACCAGAACTCCCATATTAGTGGATAAACC
Found at i:23810093 original size:42 final size:40
Alignment explanation
Indices: 23810015--23810093 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
23810005 TGATTTAGTA
* * *
23810015 ACAATTACATGCTTTACATGCAATCATTATACAGTAACAG
1 ACAATGACATGCTTTACATGCAATCATAACACAGTAACAG
* *
23810055 ACAATGACATGCTTTTTTCATGCAATCATAACATAGTAA
1 ACAATGACATGC--TTTACATGCAATCATAACACAGTAA
23810094 TAATCATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 11 0.34
42 21 0.66
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (40 bp):
ACAATGACATGCTTTACATGCAATCATAACACAGTAACAG
Found at i:23814118 original size:64 final size:64
Alignment explanation
Indices: 23814034--23814210 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
23814024 ATATATATTT
*
23814034 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
23814098 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
23814162 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
23814211 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:23814389 original size:41 final size:41
Alignment explanation
Indices: 23814330--23814487 Score: 187
Period size: 41 Copynumber: 3.9 Consensus size: 41
23814320 ATATGAGATT
* * * *
23814330 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
23814371 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
23814412 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * *
23814454 -TC-GAGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGA-CTTTATGTCTAGCAGGCTTGATGCCGGTG
23814488 TTTTATATAG
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 4 0.04
41 91 0.88
42 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:23815176 original size:14 final size:15
Alignment explanation
Indices: 23815152--23815186 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
23815142 TACTTTAATC
23815152 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
23815167 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
23815182 ATGGT
1 ATGGT
23815187 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:23821014 original size:64 final size:64
Alignment explanation
Indices: 23820930--23821106 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
23820920 ATATATATTT
*
23820930 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
23820994 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
23821058 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
23821107 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:23821285 original size:41 final size:41
Alignment explanation
Indices: 23821226--23821383 Score: 185
Period size: 41 Copynumber: 3.9 Consensus size: 41
23821216 ATATGAGATT
* * * *
23821226 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
23821267 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
23821308 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
23821350 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
23821384 TTTTATATAG
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 92 0.90
42 8 0.08
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:23822072 original size:14 final size:16
Alignment explanation
Indices: 23822048--23822083 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
23822038 TACTTTAATC
23822048 ATGGATTAGTATTT-T
1 ATGGATTAGTATTTAT
23822063 ATGG-TTAGTATTTAT
1 ATGGATTAGTATTTAT
23822078 ATGGAT
1 ATGGAT
23822084 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.47
15 9 0.47
16 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (16 bp):
ATGGATTAGTATTTAT
Found at i:23830586 original size:34 final size:34
Alignment explanation
Indices: 23830543--23830610 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
23830533 CCATGTTGCA
23830543 GGATCAATATACTAGTCACCATACAGACCAATAT
1 GGATCAATATACTAGTCACCATACAGACCAATAT
*
23830577 GGATCAATATACTAGTCACTATACAGACCAATAT
1 GGATCAATATACTAGTCACCATACAGACCAATAT
23830611 AATTAGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (34 bp):
GGATCAATATACTAGTCACCATACAGACCAATAT
Found at i:23836885 original size:40 final size:40
Alignment explanation
Indices: 23836831--23836909 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
23836821 AAAATGTTTA
* *
23836831 AAATTTTTATAT-AAACTTTAAAAA-TACAAAAAAAAATTT
1 AAATTATTATATAAAAC-TTAAAAACTAAAAAAAAAAATTT
23836870 AAATTATTATAATAAAACTTAAAAACTAAAAAAAAAAATT
1 AAATTATTAT-ATAAAACTTAAAAACTAAAAAAAAAAATT
23836910 GACGGTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 9 0.26
40 9 0.26
41 17 0.49
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (40 bp):
AAATTATTATATAAAACTTAAAAACTAAAAAAAAAAATTT
Found at i:23837611 original size:17 final size:17
Alignment explanation
Indices: 23837576--23837611 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23837566 TTAAGATAAG
**
23837576 TATTAAATTTAATTTAA
1 TATTAAATTTAATAAAA
23837593 TATTAAATTTAATAAAA
1 TATTAAATTTAATAAAA
23837610 TA
1 TA
23837612 ATAATATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTAAATTTAATAAAA
Found at i:23867428 original size:18 final size:21
Alignment explanation
Indices: 23867389--23867432 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23867379 ACATGTATAA
23867389 GTATGTGTATTGATTAAAAAT
1 GTATGTGTATTGATTAAAAAT
23867410 GTATGTGTATT-A-T-AAAAT
1 GTATGTGTATTGATTAAAAAT
23867428 GTATG
1 GTATG
23867433 CATGTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.43
19 1 0.04
20 1 0.04
21 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (21 bp):
GTATGTGTATTGATTAAAAAT
Found at i:23870730 original size:16 final size:16
Alignment explanation
Indices: 23870709--23870744 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
23870699 CAATGATGAC
23870709 TGTTGAAGGATATTTT
1 TGTTGAAGGATATTTT
23870725 TGTTGAAGGATATTTT
1 TGTTGAAGGATATTTT
23870741 TGTT
1 TGTT
23870745 AAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (16 bp):
TGTTGAAGGATATTTT
Found at i:23871623 original size:55 final size:55
Alignment explanation
Indices: 23871560--23871704 Score: 236
Period size: 55 Copynumber: 2.6 Consensus size: 55
23871550 TCTTCTTAAT
* *
23871560 TGTTGGAATACTGCTTCTTTTGAATTGATTTTTTATATGTTTAAATCGATTGTCA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTTTTTATATGTTTAAATCGATTATCA
* * *
23871615 TGTTGGAATACTGCTTCTTTTAAATCGATTATTTATATGTTTAAATCGATTATTA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTTTTTATATGTTTAAATCGATTATCA
23871670 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTT
1 TGTTGGAATACTGCTTCTTTTGAATCGATT-TTTT
23871705 TACATAGCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 79 0.96
56 3 0.04
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATCGATTTTTTATATGTTTAAATCGATTATCA
Found at i:23880263 original size:98 final size:98
Alignment explanation
Indices: 23880094--23880290 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
23880084 GTACAATAAA
*
23880094 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACGATT
23880159 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
*
23880192 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACGATT
23880257 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
23880290 A
1 A
23880291 TTATTTTTAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACGATT
CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:23882546 original size:38 final size:37
Alignment explanation
Indices: 23882504--23882653 Score: 113
Period size: 38 Copynumber: 3.9 Consensus size: 37
23882494 TTACAAGTGC
23882504 CATTTTTAAGGTTCACCTGATATTCATATCGCGGTTGT
1 CATTTTTAAGGTTC-CCTGATATTCATATCGCGGTTGT
* * * * ***
23882542 CATTTTTACGGTTCGCTTAGTATTCATATTGCAACCT-T
1 CATTTTTAAGGTTCCCTGA-TATTCATATCGC-GGTTGT
* *
23882580 CAATGTTTTAACAGTTCGCTTGATATTCATATCGCGGTTGT
1 C-AT-TTTTAA-GGTTC-CCTGATATTCATATCGCGGTTGT
* * *
23882621 CATTTTTACGGTTCGCTCAATATTCATATCGCG
1 CATTTTTAAGGTTCCCT-GATATTCATATCGCG
23882654 ACCTTCGATA
Statistics
Matches: 83, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
37 4 0.05
38 44 0.53
39 8 0.10
40 8 0.10
41 17 0.20
42 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (37 bp):
CATTTTTAAGGTTCCCTGATATTCATATCGCGGTTGT
Found at i:23882658 original size:79 final size:79
Alignment explanation
Indices: 23882521--23882715 Score: 248
Period size: 79 Copynumber: 2.5 Consensus size: 79
23882511 AAGGTTCACC
* * * *
23882521 TGATATTCATATCGCGGTTGTCATTTTTACGGTTCGCTTAGTATTCATATTGCAACCTTCAATGT
1 TGATATTCATATCGCGGTTGTCATTTTTACGGTTCGCTCAATATTCATATCGCAACCTTCAATAT
* *
23882586 TTTAACAGTTCGCT
66 TCTAACAATTCGCT
* *
23882600 TGATATTCATATCGCGGTTGTCATTTTTACGGTTCGCTCAATATTCATATCGCGACCTTCGATAT
1 TGATATTCATATCGCGGTTGTCATTTTTACGGTTCGCTCAATATTCATATCGCAACCTTCAATAT
23882665 TCTAACAATTCGCT
66 TCTAACAATTCGCT
* * * *** *
23882679 CGAT-TTAAGATCGCAACTGTCATTTTCACGGTTCGCT
1 TGATATTCATATCGCGGTTGTCATTTTTACGGTTCGCT
23882716 GATTTTAACT
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 27 0.27
79 74 0.73
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (79 bp):
TGATATTCATATCGCGGTTGTCATTTTTACGGTTCGCTCAATATTCATATCGCAACCTTCAATAT
TCTAACAATTCGCT
Found at i:23883938 original size:6 final size:7
Alignment explanation
Indices: 23883919--23883946 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23883909 TTAGATGTCG
23883919 TATTTTT
1 TATTTTT
23883926 TATTTTT
1 TATTTTT
23883933 TATTTTT
1 TATTTTT
23883940 TATTTTT
1 TATTTTT
23883947 CAATTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:23901845 original size:15 final size:16
Alignment explanation
Indices: 23901825--23901858 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23901815 ACGGATTGGG
23901825 TTTTTATT-TTTCTAT
1 TTTTTATTATTTCTAT
*
23901840 TTTTTATTATTTTTAT
1 TTTTTATTATTTCTAT
23901856 TTT
1 TTT
23901859 CTTCTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATTATTTCTAT
Found at i:23903809 original size:15 final size:16
Alignment explanation
Indices: 23903789--23903822 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23903779 ACGGATTGGG
23903789 TTTTTATT-TTTCTAT
1 TTTTTATTATTTCTAT
*
23903804 TTTTTATTATTTTTAT
1 TTTTTATTATTTCTAT
23903820 TTT
1 TTT
23903823 CTTCTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATTATTTCTAT
Found at i:23903966 original size:11 final size:11
Alignment explanation
Indices: 23903950--23903975 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23903940 TTTCAGATTT
23903950 TTTTTATTTTA
1 TTTTTATTTTA
23903961 TTTTTATTTTA
1 TTTTTATTTTA
23903972 TTTT
1 TTTT
23903976 CTTTCCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:23907143 original size:4 final size:4
Alignment explanation
Indices: 23907136--23907165 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
23907126 AATAAGTACG
23907136 TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
23907166 GCATCAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:23910288 original size:21 final size:23
Alignment explanation
Indices: 23910264--23910308 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
23910254 GGCTGTAATG
*
23910264 AGAATTT-CTAGAAATTTT-AAA
1 AGAATTTAATAGAAATTTTCAAA
23910285 AGAATTTAATAGAAATTTTCAAA
1 AGAATTTAATAGAAATTTTCAAA
23910308 A
1 A
23910309 ATCCTATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (23 bp):
AGAATTTAATAGAAATTTTCAAA
Found at i:23910945 original size:13 final size:13
Alignment explanation
Indices: 23910927--23910990 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
23910917 AGTTCTTCAT
23910927 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
23910940 TGCTTTAGAAAAG
1 TGCTTTTGAAAAG
*
23910953 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* * *
23910966 TACTTCTCAGAAA-
1 TGCTTTTGA-AAAG
23910979 TGCTTTTGAAAA
1 TGCTTTTGAAAA
23910991 ATTTGAGTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
12 5 0.13
13 29 0.74
14 5 0.13
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Done.