Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 89 of 199
Found at i:24903770 original size:25 final size:25
Alignment explanation
Indices: 24903723--24903772 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
24903713 GCATGTACCC
* *
24903723 ATTTATATATATTTTATATTCTATA
1 ATTTATATATAATTTAGATTCTATA
24903748 ATTTATATATACATTTAGA-TCTATA
1 ATTTATATATA-ATTTAGATTCTATA
24903773 TATATTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTATATATAATTTAGATTCTATA
Found at i:24904419 original size:108 final size:108
Alignment explanation
Indices: 24904230--24904519 Score: 521
Period size: 108 Copynumber: 2.7 Consensus size: 108
24904220 TTTCAAAAAG
24904230 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
24904295 TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
66 TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
24904338 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
24904403 TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
66 TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
* * * * *
24904446 GGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCG-ATTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
24904509 TTTAACCAAAT
66 TTTAACCAAAT
24904520 TGCCAAATAT
Statistics
Matches: 177, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
106 18 0.10
107 24 0.14
108 135 0.76
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (108 bp):
GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
Found at i:24909198 original size:5 final size:5
Alignment explanation
Indices: 24909188--24909212 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24909178 AATTCAGGCT
24909188 GGGCC GGGCC GGGCC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGGCC GGGCC
24909213 CGAGCCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:24927287 original size:41 final size:40
Alignment explanation
Indices: 24927187--24927377 Score: 166
Period size: 41 Copynumber: 4.6 Consensus size: 40
24927177 TCTTTGAATG
** * * *
24927187 TAAGGGGTTGCTAAGTGCAAATTCCTCGAATCATTGATCAA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TA
* * *
24927228 AAAGGGGTTGCTATGTGCTCATTCCCCGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * *
24927268 TAAGGTGGTTTCTAAGTGCTGATTCCACCATATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* * *
24927310 TGAAAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
24927352 TAAGGTGGTTGGTAACTGTTGATTCC
1 TAAGG-GGTTGCTAAGTGCTGATTCC
24927378 ACTGGGATTC
Statistics
Matches: 120, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
40 9 0.08
41 64 0.53
42 26 0.22
43 17 0.14
44 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:24931964 original size:13 final size:13
Alignment explanation
Indices: 24931946--24931978 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
24931936 TGAGAGTTTA
24931946 TGGTTTTAACTGT
1 TGGTTTTAACTGT
24931959 TGGTTTTAACTGT
1 TGGTTTTAACTGT
24931972 TGGTTTT
1 TGGTTTT
24931979 GGTTTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.58
Consensus pattern (13 bp):
TGGTTTTAACTGT
Found at i:24932953 original size:108 final size:105
Alignment explanation
Indices: 24932841--24933060 Score: 350
Period size: 108 Copynumber: 2.1 Consensus size: 105
24932831 TAAATTCATA
* * * **
24932841 TTCTTTTGGTGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACTATGAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAAATTGACACCACAAATTCCA
24932906 AATGTAAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
66 AATG--AAAAAAAAAAAATCAAAATTTAAAATTGAGAATGA-T
24932949 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAAATTGACACCACAAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAAATTGACACCACAAATTCCA
* *
24933014 AATGCAAAAAAAAAAATCAAAATTTAAATTTGAGAATGAT
66 AATGAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGAT
24933054 TTCTTTT
1 TTCTTTT
24933061 TGAAAAAGAA
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
105 8 0.08
106 33 0.31
108 64 0.61
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.34
Consensus pattern (105 bp):
TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAAATTGACACCACAAATTCCA
AATGAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGAT
Found at i:24936979 original size:27 final size:27
Alignment explanation
Indices: 24936912--24936979 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
24936902 TATCTCTAAG
24936912 ACTG-TATTTGAATGGGCTAAGGCCCAA
1 ACTGATATTTG-ATGGGCTAAGGCCCAA
*
24936939 ACTGAT-TCTGTGATGGGCTAAGGCCC-T
1 ACTGATAT-T-TGATGGGCTAAGGCCCAA
24936966 ACTGCATATTTGAT
1 ACTG-ATATTTGAT
24936980 ACTGATACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
27 13 0.37
28 19 0.54
29 3 0.09
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (27 bp):
ACTGATATTTGATGGGCTAAGGCCCAA
Found at i:24937133 original size:41 final size:41
Alignment explanation
Indices: 24936939--24937125 Score: 313
Period size: 41 Copynumber: 4.6 Consensus size: 41
24936929 TAAGGCCCAA
*
24936939 ACTGATTCTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
*
24936980 ACTGATACTGTGATGGGTTAAGGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* *
24937021 ACTGATCCTGTGATGGGCTAAAGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
*
24937062 ACTGATACTGTGATGGGCTAAGGCCCAACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
*
24937103 ACTG-TACTGAGATGGGCTAAGGC
1 ACTGATACTGTGATGGGCTAAGGC
24937126 TCAAACTGTT
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 18 0.13
41 119 0.87
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
Found at i:24942368 original size:51 final size:51
Alignment explanation
Indices: 24942301--24942399 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
24942291 TATACTTTCA
24942301 AGATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAAC
1 AGATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAAC
* *
24942352 AGATTTGATTTTGAAATTTCGTTATTAATTAGGTCATTTGATTACTTG
1 AGATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTG
24942400 GACAAGTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (51 bp):
AGATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAAC
Found at i:24949095 original size:14 final size:14
Alignment explanation
Indices: 24949072--24949107 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
24949062 TTTTTTTAAA
*
24949072 ATAAATATATTCAT
1 ATAAATATATACAT
*
24949086 ATATATATATACAT
1 ATAAATATATACAT
24949100 ATAAATAT
1 ATAAATAT
24949108 CATAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATATATACAT
Found at i:24949267 original size:23 final size:24
Alignment explanation
Indices: 24949240--24949285 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
24949230 GGTACGAAAA
24949240 AATATATAAAAAATAA-TAATAAT
1 AATATATAAAAAATAATTAATAAT
*
24949263 AATATATAAAAATTAATTAATAA
1 AATATATAAAAAATAATTAATAA
24949286 AAAAATAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AATATATAAAAAATAATTAATAAT
Found at i:24951064 original size:44 final size:44
Alignment explanation
Indices: 24951015--24951454 Score: 199
Period size: 44 Copynumber: 10.0 Consensus size: 44
24951005 ATGATTTGCC
* *
24951015 GTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * **
24951059 ATCTTCAACCTACTCCGCTGCTGCTTAGGGAGACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * *
24951101 GTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCC
1 GT--CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACA
*
24951147 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * * * **
24951191 ATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG-GCT-TG
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* ** * * *
24951233 GTGGCTTAAATCTGCTTCCCACTA-T-CTTAGAAAGATAAGATTTGCC
1 GT--CTTCAATCTGC-T-CCACTACTGCTTAGGGAGATAAGATCTACA
*
24951279 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * **
24951323 ATCTTCAA-CTTACTCCACTGCTGCTCAGGGAGACAAG-GCT-TG
1 GTCTTCAATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * *
24951365 GTGGCTTAAATCTGCTTCTCACTA-T-CTT-GGAAAGATAATATTTGCT
1 GT--CTTCAATCTGC-TC-CACTACTGCTTAGG-GAGATAAGATCTACA
*
24951411 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
24951455 ATCTCCAACC
Statistics
Matches: 277, Mismatches: 89, Indels: 60
0.65 0.21 0.14
Matches are distributed among these distances:
42 20 0.07
43 18 0.06
44 206 0.74
45 15 0.05
46 18 0.06
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
Found at i:24951190 original size:132 final size:132
Alignment explanation
Indices: 24950977--24951499 Score: 938
Period size: 132 Copynumber: 4.0 Consensus size: 132
24950967 ATCGGCTTTT
* *
24950977 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGCCGTCTTCGATTTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
24951042 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24951107 TA
131 TA
24951109 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
24951174 GGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24951239 TA
131 TA
*
24951241 AATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
24951306 GGGAGATAAGATCTACAATCTTCAACTTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24951371 TA
131 TA
* * *
24951373 AATCTGCTTCTCACTATCTTGGAAAGATAATATTTGCTGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
24951438 GGGAGATAAGATCTACAATCTCCAACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTTGGTG
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
24951500 TTTCACCGGT
Statistics
Matches: 375, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 375 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:24963847 original size:25 final size:24
Alignment explanation
Indices: 24963790--24963847 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 24
24963780 TATAGGTACG
24963790 AAAAAATATAAAATAATAATAATA
1 AAAAAATATAAAATAATAATAATA
*
24963814 ATAATAATATAAAA-AATTAATTAATA
1 A-AAAAATATAAAATAA-TAA-TAATA
24963840 AAAAAATA
1 AAAAAATA
24963848 AGGAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 3 0.10
25 20 0.69
26 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAAAATATAAAATAATAATAATA
Found at i:24971118 original size:22 final size:22
Alignment explanation
Indices: 24971070--24971120 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24971060 AAAAATTGAA
*
24971070 TAATTTAAATAATAGTAAAAGTG
1 TAATTTAAATAATAG-AAAAGTC
*
24971093 TAATTTAACATGATAG-AAAGTC
1 TAATTTAA-ATAATAGAAAAGTC
24971115 TAATTT
1 TAATTT
24971121 TAGCTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
TAATTTAAATAATAGAAAAGTC
Found at i:24976300 original size:22 final size:22
Alignment explanation
Indices: 24976274--24976325 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
24976264 TTTTGGTATT
24976274 GTTGATGAATTTAAAATTTGCC
1 GTTGATGAATTTAAAATTTGCC
24976296 GTTGATGAATTTAAAATTTGCC
1 GTTGATGAATTTAAAATTTGCC
*
24976318 ATTGATGA
1 GTTGATGA
24976326 TAGCTAGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (22 bp):
GTTGATGAATTTAAAATTTGCC
Found at i:24981941 original size:43 final size:43
Alignment explanation
Indices: 24981771--24981942 Score: 107
Period size: 43 Copynumber: 4.0 Consensus size: 43
24981761 CATAGGATTC
* * * * * * **
24981771 CGATATGTGATTACGTGTAAGACCACTTTTGAGATGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
* ** * *
24981814 CGAT-TTGCGATTTACATGTAAGACCATTTCTGGGACATCGACAT
1 CGATATT-TGATTT-CATGTAAGACCACGTCTGGGACATTGGCAT
** * * * *
24981858 CG-TATAGGAGTTCGTGTAAGACC-CTGTCAGGGACAATGGCAT
1 CGATATTTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCAT
**
24981900 CGATATTTGATTTCATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
24981943 TGAATGAGCT
Statistics
Matches: 94, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 25 0.27
43 43 0.46
44 26 0.28
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
Found at i:24997630 original size:21 final size:22
Alignment explanation
Indices: 24997606--24997647 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24997596 GTTCTCCCCG
*
24997606 GCCACGTGCA-CCTCCGTACGT
1 GCCACGTCCACCCTCCGTACGT
*
24997627 GCCACGTCCACCCTCTGTACG
1 GCCACGTCCACCCTCCGTACG
24997648 CCGTACCTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.14, C:0.45, G:0.21, T:0.19
Consensus pattern (22 bp):
GCCACGTCCACCCTCCGTACGT
Found at i:24997954 original size:11 final size:11
Alignment explanation
Indices: 24997938--24997965 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24997928 CTTATTCGGT
24997938 GAAAAGAGGAA
1 GAAAAGAGGAA
24997949 GAAAAGAGGAA
1 GAAAAGAGGAA
24997960 GAAAAG
1 GAAAAG
24997966 CTTATCGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (11 bp):
GAAAAGAGGAA
Found at i:25001011 original size:17 final size:17
Alignment explanation
Indices: 25000968--25001011 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25000958 AATTCGTCTG
*
25000968 TTTATTTATCGTTATTTA
1 TTTATTT-TTGTTATTTA
**
25000986 TTTCCTTTTGTTATTTA
1 TTTATTTTTGTTATTTA
25001003 TTTATTTTT
1 TTTATTTTT
25001012 ATTCCTCTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTATTTTTGTTATTTA
Found at i:25004544 original size:75 final size:75
Alignment explanation
Indices: 25004465--25004641 Score: 219
Period size: 75 Copynumber: 2.4 Consensus size: 75
25004455 TTCACTTTAC
* * * * *
25004465 AGGCTTTCCAAATAACTCGCCACAAAGGCTTCCCAAACAATATGCCACATAGGTTCTTCAGATGA
1 AGGCTTTACAAATAACTCGCCACAAAGGCTTCCCAAACAATACGCCACATAGGCTCTTCAAATAA
25004530 TTCACCACAA
66 TTCACCACAA
* * * * * * * * * *
25004540 AGGCTTTATAGATAATTCACTAGAATGGCTTCCTAAATAATACGCCACATAGGCTCTTTAAATAA
1 AGGCTTTACAAATAACTCGCCACAAAGGCTTCCCAAACAATACGCCACATAGGCTCTTCAAATAA
25004605 TTCACCACAA
66 TTCACCACAA
25004615 AGGCTTTACAAATAACTCGCCACAAAG
1 AGGCTTTACAAATAACTCGCCACAAAG
25004642 ATTTAGTTTG
Statistics
Matches: 80, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
75 80 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (75 bp):
AGGCTTTACAAATAACTCGCCACAAAGGCTTCCCAAACAATACGCCACATAGGCTCTTCAAATAA
TTCACCACAA
Found at i:25004552 original size:25 final size:25
Alignment explanation
Indices: 25004529--25004641 Score: 102
Period size: 25 Copynumber: 4.5 Consensus size: 25
25004519 TCTTCAGATG
*
25004529 ATTCACCACAAAGGCTTTATAGATA
1 ATTCACCACAAAGGCTTTATAAATA
* * * **
25004554 ATTCACTAGAATGGCTTCCTAAATA
1 ATTCACCACAAAGGCTTTATAAATA
* * *
25004579 ATACGCCACATAGGCTCTT-TAAATA
1 ATTCACCACAAAGGCT-TTATAAATA
*
25004604 ATTCACCACAAAGGCTTTACAAATA
1 ATTCACCACAAAGGCTTTATAAATA
* *
25004629 ACTCGCCACAAAG
1 ATTCACCACAAAG
25004642 ATTTAGTTTG
Statistics
Matches: 67, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
24 2 0.03
25 64 0.96
26 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.26
Consensus pattern (25 bp):
ATTCACCACAAAGGCTTTATAAATA
Found at i:25008186 original size:27 final size:28
Alignment explanation
Indices: 25008162--25008214 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
25008152 CAAAATTTAT
*
25008162 ACTTTAATTA-TAAAATAATTAATTTGA
1 ACTTAAATTATTAAAATAATTAATTTGA
* *
25008189 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAATTAATTT
25008215 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTGA
Found at i:25010216 original size:27 final size:25
Alignment explanation
Indices: 25010186--25010241 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
25010176 TGGTTTACCA
*
25010186 ATTTAGTT-CGTTTGTTTATTTATCATT
1 ATTTAGTTCCTTTTG-TTA-TT-TCATT
*
25010213 ATTTATTTCCTTTTGTTATTTCATT
1 ATTTAGTTCCTTTTGTTATTTCATT
25010238 ATTT
1 ATTT
25010242 TTATTCCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 10 0.38
28 5 0.19
ACGTcount: A:0.18, C:0.09, G:0.07, T:0.66
Consensus pattern (25 bp):
ATTTAGTTCCTTTTGTTATTTCATT
Found at i:25010898 original size:20 final size:20
Alignment explanation
Indices: 25010875--25010917 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
25010865 ATTTTCATGA
25010875 TTCAAGATCAATTTAATTTT
1 TTCAAGATCAATTTAATTTT
25010895 TTC-AGATCAATTTAATTTT
1 TTCAAGATCAATTTAATTTT
25010914 TTCA
1 TTCA
25010918 TATTTGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.51
Consensus pattern (20 bp):
TTCAAGATCAATTTAATTTT
Found at i:25014491 original size:36 final size:36
Alignment explanation
Indices: 25014451--25014525 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
25014441 TGTGGCACAG
* * *
25014451 TCTTGAACATGCCCTTGAGTTTGTCTTGAAATAGTT
1 TCTTGAACATGCCATTGAGTCTGTCGTGAAATAGTT
25014487 TCTTGAACATGCCATTGAGTCTGTCGTGAAATAGTT
1 TCTTGAACATGCCATTGAGTCTGTCGTGAAATAGTT
25014523 TCT
1 TCT
25014526 AACTTGTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (36 bp):
TCTTGAACATGCCATTGAGTCTGTCGTGAAATAGTT
Found at i:25015664 original size:32 final size:31
Alignment explanation
Indices: 25015619--25015714 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
25015609 CTTAGATAAT
25015619 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
25015650 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
25015682 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
25015713 TT
1 TT
25015715 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:25016064 original size:4 final size:4
Alignment explanation
Indices: 25016019--25016048 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
25016009 AAATCTATCC
25016019 TTAT TTAT TTAT TTAT TTAT TTA- TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
25016049 ACTAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:25018074 original size:7 final size:7
Alignment explanation
Indices: 25018062--25018091 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
25018052 TATTAATTTC
25018062 TTTTCCT
1 TTTTCCT
25018069 TTTTCCT
1 TTTTCCT
25018076 TTTTCCT
1 TTTTCCT
25018083 TTTTCCT
1 TTTTCCT
25018090 TT
1 TT
25018092 ATTTTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCCT
Found at i:25018114 original size:18 final size:17
Alignment explanation
Indices: 25018062--25018114 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
25018052 TATTAATTTC
25018062 TTTTCCTTTTT-C--CT
1 TTTTCCTTTTTCCTTCT
25018076 TTTTCCTTTTTCCTT-T
1 TTTTCCTTTTTCCTTCT
25018092 ATTTTCTCTTTTTCCTTCT
1 -TTTTC-CTTTTTCCTTCT
25018111 TTTT
1 TTTT
25018115 TGTTCATTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 1 0.03
17 5 0.15
18 14 0.42
19 1 0.03
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCCTTTTTCCTTCT
Found at i:25025629 original size:24 final size:24
Alignment explanation
Indices: 25025600--25025646 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
25025590 TAAAAGCTGT
* *
25025600 TAATACGTTGTGTATGAACCACTG
1 TAATACATTGTGGATGAACCACTG
25025624 TAATACATTGTGGATGAACCACT
1 TAATACATTGTGGATGAACCACT
25025647 AGTCGTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (24 bp):
TAATACATTGTGGATGAACCACTG
Found at i:25025700 original size:48 final size:48
Alignment explanation
Indices: 25025625--25025719 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
25025615 GAACCACTGT
*
25025625 AATACATTGTGGATGAACCACTAGTCGTGCAAATAGACTGCCGACTAA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
* * * * *
25025673 AATACGTTGTGGATGAAGCATTGGTCGTGCAAATAAATTGCCGACTA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTA
25025720 CTTCCTCGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (48 bp):
AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
Found at i:25025848 original size:34 final size:32
Alignment explanation
Indices: 25025775--25026002 Score: 117
Period size: 34 Copynumber: 6.9 Consensus size: 32
25025765 TGTTTATAAC
*
25025775 AGATCAATACGGTAGCAA-TAGCATTCTTATA
1 AGATCAATACGGTAGCAATTAGCATGCTTATA
* *
25025806 ACGAATCAATTCGGTAGCAATTATCATGCTTATGA
1 A-G-ATCAATACGGTAGCAATTAGCATGCTTAT-A
**
25025841 TAGATCAATACGGTAGCAA-TAAAATGCTTATAA
1 -AGATCAATACGGTAGCAATTAGCATGCTTAT-A
* * * *
25025874 CAAATCGATACAGTAGC-ATTTGTCATGCTTATA
1 -AGATCAATACGGTAGCAATTAG-CATGCTTATA
* *
25025907 GTAGATCAGTACGGT-G-AA-TAACATGCTTATA
1 --AGATCAATACGGTAGCAATTAGCATGCTTATA
* * * * * * *
25025938 ACAAGTCGATACAGTAGCATTTATCATGTTTGTAA
1 A-GA-TCAATACGGTAGCAATTAGCATGCTTAT-A
* *
25025973 TAGATCAATACGGTAGCAATAAACATGCTT
1 -AGATCAATACGGTAGCAATTAGCATGCTT
25026003 GGCATGTATT
Statistics
Matches: 145, Mismatches: 36, Indels: 29
0.69 0.17 0.14
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 18 0.12
32 4 0.03
33 44 0.30
34 71 0.49
35 4 0.03
36 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (32 bp):
AGATCAATACGGTAGCAATTAGCATGCTTATA
Found at i:25025890 original size:67 final size:66
Alignment explanation
Indices: 25025775--25026002 Score: 280
Period size: 67 Copynumber: 3.4 Consensus size: 66
25025765 TGTTTATAAC
** * * * * * *
25025775 AGATCAATACGGTAGCAATAGCATTCTTATAACGAATCAATTCGGTAGCAATTATCATGCTTATG
1 AGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATACAGTAGCATTTATCATGCTTAT-
25025840 AT
65 AT
*
25025842 AGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATACAGTAGCATTTGTCATGCTTATA
1 AGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATACAGTAGCATTTATCATGCTTATA
25025907 GT
66 -T
* * * * *
25025909 AGATCAGTACGGT-G-AATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGTTTGTA
1 AGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATACAGTAGCATTTATCATGCTTAT-
25025972 AT
65 AT
25025974 AGATCAATACGGTAGCAATAAACATGCTT
1 AGATCAATACGGTAGCAATAAA-ATGCTT
25026003 GGCATGTATT
Statistics
Matches: 139, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
65 56 0.40
66 4 0.03
67 73 0.53
68 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (66 bp):
AGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATACAGTAGCATTTATCATGCTTATA
T
Found at i:25027511 original size:20 final size:21
Alignment explanation
Indices: 25027471--25027511 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
25027461 GTTTGGGATG
**
25027471 GTTATATTTAAAAATTTTAAA
1 GTTATATTTAAAAATCCTAAA
25027492 GTTATA-TTAAAAATCCTAAA
1 GTTATATTTAAAAATCCTAAA
25027512 AAATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTATATTTAAAAATCCTAAA
Found at i:25030603 original size:11 final size:11
Alignment explanation
Indices: 25030559--25030607 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
25030549 TATATTTATA
25030559 TAAA-AAATAT
1 TAAATAAATAT
25030569 T--ATAAATAT
1 TAAATAAATAT
*
25030578 TAAATAATGAGAT
1 TAAATAA--ATAT
25030591 TAAATAAATAT
1 TAAATAAATAT
25030602 TAAATA
1 TAAATA
25030608 TAAAATACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 1 0.03
11 13 0.41
13 10 0.31
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:25040066 original size:21 final size:23
Alignment explanation
Indices: 25040042--25040089 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
25040032 TTGAAATGAA
25040042 AAATATTAA-AT-ATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
25040063 AAATA--AATATCATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
25040084 -AATATT
1 AAATATT
25040090 GTAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 15 0.65
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATATTAATATCATTTTTAAAT
Found at i:25044933 original size:12 final size:12
Alignment explanation
Indices: 25044916--25044941 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25044906 TGTTTTCCTG
25044916 AATGATTTGGTT
1 AATGATTTGGTT
25044928 AATGATTTGGTT
1 AATGATTTGGTT
25044940 AA
1 AA
25044942 CACATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (12 bp):
AATGATTTGGTT
Found at i:25047557 original size:108 final size:106
Alignment explanation
Indices: 25047368--25047567 Score: 292
Period size: 108 Copynumber: 1.9 Consensus size: 106
25047358 TGGATTGAGA
* ** *
25047368 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAACGCATTAAGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTAATCAAACGAGAAATCGAAACCCAACACATTAAGGCACGTTT
* *
25047433 TCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
* * *
25047474 TTTAAAAGGATATTTGGCTATTTAATCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTAATCAAACGAG--AAATCGAAACCCAACACATTAAGGCACGT
*
25047539 TTTCTCGAATCTCTAAACGCAAAACATTG
64 TTTCTCGAATCTCCAAACGCAAAACATTG
25047568 CCTTTATTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
106 30 0.37
108 52 0.63
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTAATCAAACGAGAAATCGAAACCCAACACATTAAGGCACGTTT
TCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:25050171 original size:44 final size:44
Alignment explanation
Indices: 25050123--25050228 Score: 158
Period size: 44 Copynumber: 2.4 Consensus size: 44
25050113 CCCCACTGTG
* * * *
25050123 ACTTCAGGGGGATAAGACTTGTTTTCTCATTCTGCTCCGCTGCA
1 ACTTCAGGGAGATAAGACTTATTTTCTCAGTCTACTCCGCTGCA
*
25050167 ACTTCAGGGAGATAAGACTTATTTTCTCAGTCTACTTCGCTGCA
1 ACTTCAGGGAGATAAGACTTATTTTCTCAGTCTACTCCGCTGCA
*
25050211 ACTTCAAGGAGATAAGAC
1 ACTTCAGGGAGATAAGAC
25050229 CCAATGCAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
ACTTCAGGGAGATAAGACTTATTTTCTCAGTCTACTCCGCTGCA
Found at i:25050621 original size:87 final size:87
Alignment explanation
Indices: 25050474--25050793 Score: 496
Period size: 87 Copynumber: 3.7 Consensus size: 87
25050464 GCTAGTGCTT
* * * * *
25050474 AGGAAGACAAGATCTGCTATCTTTAATCAGTTCTACTGCAACCGATGGAGTCAAGACTTTGTTTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
25050539 CGATCTACTTCGCCGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
25050561 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
25050626 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
25050648 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
25050713 CGGTCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* ** * *
25050735 AAGAAGGTAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTT
25050794 GATGTGATCT
Statistics
Matches: 218, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 218 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (87 bp):
AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:25051114 original size:44 final size:45
Alignment explanation
Indices: 25051066--25051182 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
25051056 ATTTCGATCC
* * *
25051066 GCTCCACTACAACTTCAGGGAGATAGGATT-ACCAGCTACAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCAACAGCTACAATCT
* * * *
25051110 GCTCCACTGCAAAC-TCAGAGAGATAAGATTCAACATCTTCAGTCT
1 GCTCCACTGC-AACTTCAGGGAGATAAGATTCAACAGCTACAATCT
* *
25051155 GCCCCACTGCAACTTCAGGGGGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
25051183 CTTGCTTCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 26 0.43
45 34 0.57
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTCAACAGCTACAATCT
Found at i:25051171 original size:218 final size:217
Alignment explanation
Indices: 25050793--25051360 Score: 915
Period size: 218 Copynumber: 2.6 Consensus size: 217
25050783 AGGCAAGGCT
* *
25050793 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAAATCTATTATTTCAATCCGCTCCACTGC
1 TGATGTGATCTACTCTACTGAAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
*
25050858 AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTTCACTGCAAACTCAGGGAGATAAGATTC
66 AACTTCAGGGAGATAGGATTATC-GCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
* ** *
25050923 ACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCTGCTCTGC
130 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCACTCCGC
*
25050988 T-CTAACCTCAGGGAGATAAGACC
195 TGC-AACCTCAGAGAGATAAGACC
* *
25051011 TGATGTGATCTACTCTACTGAAACTTCAGAGAGATAAGATCTATTATTTCGATCCGCTCCACTAC
1 TGATGTGATCTACTCTACTGAAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
* *
25051076 AACTTCAGGGAGATAGGATTACCAGCTACAATCTGCTCCACTGCAAACTCAGAGAGATAAGATTC
66 AACTTCAGGGAGATAGGATTATC-GCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
25051141 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCACTCCGC
130 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCACTCCGC
25051206 TGCAACCTCAGAGAGATAAGACC
195 TGCAACCTCAGAGAGATAAGACC
* *
25051229 TGATGTGATCTACTTTACTGTAAAC-TCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACTG
1 TGATGTGATCTACTCTACTG-AAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTG
* * *
25051293 CAACTTCAAGGAGATAGGATTATCGTCTACAATCTGCTCCACTGCAATCTCAGGGAAAGTAAGAT
65 CAACTTCAGGGAGATAGGATTATCG-CTACAATCTGCTCCACTGCAAACTCAGGGAGA-TAAGAT
25051358 TCA
128 TCA
25051361 TCGTTGTGAC
Statistics
Matches: 324, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
217 1 0.00
218 309 0.95
219 14 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (217 bp):
TGATGTGATCTACTCTACTGAAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
AACTTCAGGGAGATAGGATTATCGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTCA
ACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCACTCCGCT
GCAACCTCAGAGAGATAAGACC
Found at i:25051545 original size:100 final size:100
Alignment explanation
Indices: 25051323--25051550 Score: 251
Period size: 100 Copynumber: 2.3 Consensus size: 100
25051313 TATCGTCTAC
* ** * *
25051323 AATCTGCTCCACTGCAAT-CTCAGGGAAAGTAAGATTCATCGTTGTGACTTTAATCTTTTTAATT
1 AATCTGCTCCACTGCAATGC-CA-GGAAAATAAGATTCATCGTTACGACTTCAATCTTTTAAATT
** *
25051387 GCAATGTCAGGGAAACAAGATTCGCCGTCGTAGATTT
64 GCAAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
* * * * * * *
25051424 AATCTGTTTCACTACATTGCCAGGAAAATAAGATTCGTCGTTACGGCTTCGATCTTTTAAATTGC
1 AATCTGCTCCACTGCAATGCCAGGAAAATAAGATTCATCGTTACGACTTCAATCTTTTAAATTGC
* * *
25051489 AAAATCAGGGAAGCAAGATTCATCGTCGTAGCTTT
66 AAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
*
25051524 AATCTGCTCCACTGCACTGCCAAGGAA
1 AATCTGCTCCACTGCAATGCC-AGGAA
25051551 GGTAACTTCA
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
100 81 0.79
101 21 0.20
102 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (100 bp):
AATCTGCTCCACTGCAATGCCAGGAAAATAAGATTCATCGTTACGACTTCAATCTTTTAAATTGC
AAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
Found at i:25052714 original size:6 final size:6
Alignment explanation
Indices: 25052705--25052766 Score: 63
Period size: 6 Copynumber: 9.7 Consensus size: 6
25052695 CATTTTTACT
*
25052705 TTTTCA TTTT-T TTTTCA TTTTTCA TTTTTCA TTTTCA TTTTATCA TTTTTCA
1 TTTTCA TTTTCA TTTTCA -TTTTCA -TTTTCA TTTTCA -TTT-TCA -TTTTCA
25052757 TTTTCA TTTT
1 TTTTCA TTTT
25052767 TTTTGACTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
5 4 0.08
6 20 0.40
7 19 0.38
8 7 0.14
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCA
Found at i:25052714 original size:7 final size:7
Alignment explanation
Indices: 25052695--25052767 Score: 86
Period size: 7 Copynumber: 11.0 Consensus size: 7
25052685 TTAGCCTCAC
25052695 CATTTTT
1 CATTTTT
25052702 -ACTTTTT
1 CA-TTTTT
25052709 CA-TTTT
1 CATTTTT
25052715 --TTTTT
1 CATTTTT
25052720 CATTTTT
1 CATTTTT
25052727 CATTTTT
1 CATTTTT
25052734 CA-TTTT
1 CATTTTT
25052740 CATTTTAT
1 CATTTT-T
25052748 CATTTTT
1 CATTTTT
25052755 CA-TTTT
1 CATTTTT
25052761 CATTTTT
1 CATTTTT
25052768 TTTGACTCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
5 4 0.07
6 17 0.29
7 29 0.50
8 8 0.14
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:25052714 original size:14 final size:13
Alignment explanation
Indices: 25052695--25052767 Score: 80
Period size: 13 Copynumber: 5.5 Consensus size: 13
25052685 TTAGCCTCAC
25052695 CATTTTTACTTTTT
1 CATTTTT-CTTTTT
25052709 CA-TTTT-TTTTT
1 CATTTTTCTTTTT
25052720 CATTTTTCATTTTT
1 CATTTTTC-TTTTT
25052734 CA-TTTTCATTTTAT
1 CATTTTTC-TTTT-T
*
25052748 CATTTTTCATTTT
1 CATTTTTCTTTTT
25052761 CATTTTT
1 CATTTTT
25052768 TTTGACTCAA
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
11 7 0.13
12 4 0.08
13 22 0.42
14 15 0.28
15 5 0.09
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:25057326 original size:108 final size:106
Alignment explanation
Indices: 25057139--25057338 Score: 319
Period size: 108 Copynumber: 1.9 Consensus size: 106
25057129 TGGATTGAGA
* **
25057139 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGACCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
* *
25057204 CCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
*
25057245 TTTAAAAGGATATTTGGCTATTTGACCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGACCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACGT
*
25057310 TTTCTCGAATCTCCAAACGCAAAACATTG
64 TTCCTCGAATCTCCAAACGCAAAACATTG
25057339 CCTTTATTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
106 30 0.35
108 55 0.65
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGACCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTT
CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:25059452 original size:21 final size:20
Alignment explanation
Indices: 25059428--25059518 Score: 50
Period size: 23 Copynumber: 4.5 Consensus size: 20
25059418 TGCTTATAGC
25059428 TAATCTTAAAAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
** *
25059449 TAA--TAATTATATTA--TA
1 TAATTTAAAAAAATTATGTA
25059465 -AATCTTA-AAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
25059484 TATATTATAAAAAAATTTATGTA
1 TA-ATT-TAAAAAAA-TTATGTA
25059507 TATATTATAAAA
1 TA-ATT-TAAAA
25059519 TGATAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 5 0.09
18 10 0.19
19 2 0.04
20 2 0.04
21 7 0.13
22 5 0.09
23 19 0.35
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (20 bp):
TAATTTAAAAAAATTATGTA
Found at i:25059497 original size:23 final size:23
Alignment explanation
Indices: 25059471--25059518 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
25059461 TATAAATCTT
25059471 AAAAAATTATGTATATATTATAA
1 AAAAAATTATGTATATATTATAA
*
25059494 AAAAATTTATGTATATATTATAA
1 AAAAAATTATGTATATATTATAA
25059517 AA
1 AA
25059519 TGATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
AAAAAATTATGTATATATTATAA
Found at i:25062993 original size:66 final size:66
Alignment explanation
Indices: 25062913--25063045 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
25062903 ATTAAAGATA
25062913 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
25062978 T
66 T
* * * * **
25062979 TCCTATGAGGGTAATGTTGGGAAACGTGTTCATATTGTAGTAAACATGTAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
25063044 T
66 T
25063045 T
1 T
25063046 TGAACGATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (66 bp):
TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
T
Found at i:25067887 original size:19 final size:19
Alignment explanation
Indices: 25067867--25067952 Score: 118
Period size: 19 Copynumber: 4.5 Consensus size: 19
25067857 ATCTTTTAAT
* *
25067867 ATTGCATATTATATCTAAT
1 ATTGCATATCATATCTAAG
* *
25067886 ATTACATATCATATCCAAG
1 ATTGCATATCATATCTAAG
*
25067905 ATTGCATATTATATCTAAG
1 ATTGCATATCATATCTAAG
*
25067924 ATTACATATCATATCTAAG
1 ATTGCATATCATATCTAAG
25067943 ATTGCATATC
1 ATTGCATATC
25067953 CTTGAAGATT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 57 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (19 bp):
ATTGCATATCATATCTAAG
Found at i:25067916 original size:38 final size:38
Alignment explanation
Indices: 25067867--25067951 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
25067857 ATCTTTTAAT
*
25067867 ATTGCATATTATATCTAATATTACATATCATATCCAAG
1 ATTGCATATTATATCTAAGATTACATATCATATCCAAG
*
25067905 ATTGCATATTATATCTAAGATTACATATCATATCTAAG
1 ATTGCATATTATATCTAAGATTACATATCATATCCAAG
25067943 ATTGCATAT
1 ATTGCATAT
25067952 CCTTGAAGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (38 bp):
ATTGCATATTATATCTAAGATTACATATCATATCCAAG
Found at i:25075558 original size:16 final size:16
Alignment explanation
Indices: 25075526--25075575 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
25075516 AATGTTAAAT
*
25075526 AATATTCTAATATTTTA
1 AATATTTTAA-ATTTTA
* *
25075543 AATTTTTTAGATTTTA
1 AATATTTTAAATTTTA
*
25075559 TATATTTTAAATTTTA
1 AATATTTTAAATTTTA
25075575 A
1 A
25075576 GACAATAATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
AATATTTTAAATTTTA
Found at i:25075744 original size:6 final size:6
Alignment explanation
Indices: 25075733--25075760 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25075723 ATTTTAAATA
25075733 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
25075761 TACCATGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:25080083 original size:28 final size:28
Alignment explanation
Indices: 25080043--25080102 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
25080033 GCAGATTCAT
* *
25080043 ACTTGTAAGACAGTCTTGACGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
*
25080071 ACTTATAAGACAGTCCTGATGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
25080099 ACTT
1 ACTT
25080103 GAAAGATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
ACTTATAAGACAGTCCTGACGGACTCTC
Found at i:25080429 original size:23 final size:22
Alignment explanation
Indices: 25080374--25080429 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
25080364 TAGACTCCTC
* *
25080374 AGACTCTCATACTACCTTTAAA
1 AGACTTTCATACTACCTTAAAA
* *
25080396 GGGCTTTCATACTACCTATAAAA
1 AGACTTTCATACTACCT-TAAAA
25080419 AGACTTTCATA
1 AGACTTTCATA
25080430 TCTATGTGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
AGACTTTCATACTACCTTAAAA
Found at i:25084579 original size:4 final size:4
Alignment explanation
Indices: 25084570--25084598 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
25084560 CCACCATGAT
25084570 CAGA CAGA CAGA CAGA CAGA CAGA CAGA C
1 CAGA CAGA CAGA CAGA CAGA CAGA CAGA C
25084599 GGTACCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.24, T:0.00
Consensus pattern (4 bp):
CAGA
Found at i:25089430 original size:15 final size:15
Alignment explanation
Indices: 25089410--25089438 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25089400 CCTGAGCCAC
25089410 TGCTGTTGTTGTTGA
1 TGCTGTTGTTGTTGA
25089425 TGCTGTTGTTGTTG
1 TGCTGTTGTTGTTG
25089439 TTGAAAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.07, G:0.34, T:0.55
Consensus pattern (15 bp):
TGCTGTTGTTGTTGA
Found at i:25089448 original size:21 final size:21
Alignment explanation
Indices: 25089409--25089477 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 21
25089399 GCCTGAGCCA
25089409 CTGCTGTTGTTGTTG---ATG
1 CTGCTGTTGTTGTTGAAAATG
*
25089427 CTGTTGTTGTTGTTGAAAATG
1 CTGCTGTTGTTGTTGAAAATG
*
25089448 CTGCTGATTGTGTTGTTGAAACTG
1 CTGCTG--T-TGTTGTTGAAAATG
25089472 CTGCTG
1 CTGCTG
25089478 ATTATGAACC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 14 0.33
21 8 0.19
23 1 0.02
24 19 0.45
ACGTcount: A:0.13, C:0.12, G:0.30, T:0.45
Consensus pattern (21 bp):
CTGCTGTTGTTGTTGAAAATG
Found at i:25089452 original size:24 final size:24
Alignment explanation
Indices: 25089425--25089480 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
25089415 TTGTTGTTGA
25089425 TGCTG-TTGTTGTTGTTGAAAATGC
1 TGCTGATTG-TGTTGTTGAAAATGC
*
25089449 TGCTGATTGTGTTGTTGAAACTGC
1 TGCTGATTGTGTTGTTGAAAATGC
25089473 TGCTGATT
1 TGCTGATT
25089481 ATGAACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.16, C:0.11, G:0.29, T:0.45
Consensus pattern (24 bp):
TGCTGATTGTGTTGTTGAAAATGC
Found at i:25090737 original size:12 final size:12
Alignment explanation
Indices: 25090720--25090752 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
25090710 ACTTAATCTT
25090720 TTTAATATTAAA
1 TTTAATATTAAA
25090732 TTTAATATT-AA
1 TTTAATATTAAA
*
25090743 TCTAATATTA
1 TTTAATATTA
25090753 GATTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:25092690 original size:20 final size:23
Alignment explanation
Indices: 25092655--25092699 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
25092645 GAACAAATTA
25092655 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
25092677 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
25092698 TT
1 TT
25092700 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:25092755 original size:21 final size:23
Alignment explanation
Indices: 25092731--25092773 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
25092721 TTAATTTTTT
*
25092731 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
25092752 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
25092774 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:25097033 original size:13 final size:13
Alignment explanation
Indices: 25097000--25097037 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
25096990 GATATATTTG
*
25097000 TAATTTGAAAACT
1 TAATTTGAAAAAT
25097013 TAAATTTGAAAAAT
1 T-AATTTGAAAAAT
25097027 TAATTTGAAAA
1 TAATTTGAAAA
25097038 TTTGTAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAAAT
Found at i:25097325 original size:35 final size:35
Alignment explanation
Indices: 25097274--25097380 Score: 144
Period size: 35 Copynumber: 3.1 Consensus size: 35
25097264 TTCACTTGTC
* *
25097274 TTTTCTTGCAGGGAATCTTTCCTGTTCATGCATTA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* *
25097309 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* * *
25097344 -TTTCTTACAGGGAATCTCTCCTATTCATACATCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
25097378 TTT
1 TTT
25097381 CTGGTATTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 29 0.47
35 33 0.53
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
Found at i:25097360 original size:34 final size:34
Alignment explanation
Indices: 25097275--25097382 Score: 144
Period size: 34 Copynumber: 3.1 Consensus size: 34
25097265 TCACTTGTCT
* *
25097275 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* *
25097309 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* * *
25097344 TTTCTTACAGGGAATCTCTCCTATTCATACATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
25097378 TTTCT
1 TTTCT
25097383 GGTATTATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
34 34 0.53
35 30 0.47
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
Found at i:25098488 original size:37 final size:37
Alignment explanation
Indices: 25098394--25098501 Score: 102
Period size: 37 Copynumber: 2.9 Consensus size: 37
25098384 GTAGATAAAC
*
25098394 ATTAAATTTAAT-TT-AA-TATTAAGATAAACACTTTAAT
1 ATTAAATTTAATATTAAACTATTAAGAT-AATA--TTAAT
*
25098431 ATTAAA-TTAATA-AAATACTATTAAGATAAGTATTAA-
1 ATTAAATTTAATATTAA-ACTATTAAGATAA-TATTAAT
*
25098467 ATTAAATTTAATATTAAACTATTAAAATAATATTA
1 ATTAAATTTAATATTAAACTATTAAGATAATATTA
25098502 TTTTTTGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
36 16 0.27
37 29 0.48
38 5 0.08
39 10 0.17
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (37 bp):
ATTAAATTTAATATTAAACTATTAAGATAATATTAAT
Found at i:25105165 original size:18 final size:18
Alignment explanation
Indices: 25105138--25105182 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
25105128 CTCTACTATT
*
25105138 TCAAGGTTAGTGATCGTC
1 TCAAGTTTAGTGATCGTC
25105156 TCAAGTTTAGTGATCGTC
1 TCAAGTTTAGTGATCGTC
25105174 TCAAGTTTA
1 TCAAGTTTA
25105183 ATAGTTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (18 bp):
TCAAGTTTAGTGATCGTC
Found at i:25105896 original size:5 final size:5
Alignment explanation
Indices: 25105884--25105956 Score: 139
Period size: 5 Copynumber: 14.8 Consensus size: 5
25105874 AAAAGTTAAG
25105884 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
25105933 TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATA
25105957 AAAACAAACA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.06
5 64 0.94
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:25106960 original size:22 final size:22
Alignment explanation
Indices: 25106925--25106981 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
25106915 CTAGCACGAC
* * *
25106925 AGTGTTCTCCGTTTAGTACATTT
1 AGTGCTCTCTGTTTAGCAC-TTT
25106948 -GTGCTCTCTGTTTAGCACTTT
1 AGTGCTCTCTGTTTAGCACTTT
25106969 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
25106982 CATTAGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTTT
Found at i:25109262 original size:43 final size:43
Alignment explanation
Indices: 25109108--25109263 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
25109098 ATGTATTTTT
*
25109108 GTGTAAGAACACGTCTGGGACGTTGGCATCGA-ATTGTG-TATAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATA-TGTGAT-TAC
* * * * * * *
25109151 GTGTAAGGCTATGGCTGGGACATTGGCATCG-TATTTGATT-T
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
*
25109192 GTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTAC
* *
25109235 CTGTAAGACCACATCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
25109264 TGTATGAGCC
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
41 23 0.27
42 13 0.15
43 49 0.57
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
Found at i:25115580 original size:51 final size:51
Alignment explanation
Indices: 25115504--25115615 Score: 224
Period size: 51 Copynumber: 2.2 Consensus size: 51
25115494 CCCCTTTTAG
25115504 CAGATCAGGAAATAAAAAATAGAAATTTATCTGATGAAGAAAAAACTTCAA
1 CAGATCAGGAAATAAAAAATAGAAATTTATCTGATGAAGAAAAAACTTCAA
25115555 CAGATCAGGAAATAAAAAATAGAAATTTATCTGATGAAGAAAAAACTTCAA
1 CAGATCAGGAAATAAAAAATAGAAATTTATCTGATGAAGAAAAAACTTCAA
25115606 CAGATCAGGA
1 CAGATCAGGA
25115616 TGAAGACATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.21
Consensus pattern (51 bp):
CAGATCAGGAAATAAAAAATAGAAATTTATCTGATGAAGAAAAAACTTCAA
Found at i:25115617 original size:27 final size:27
Alignment explanation
Indices: 25115536--25115621 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
25115526 AAATTTATCT
25115536 GATGAAGAAAAAACTTCAACAGATCAG
1 GATGAAGAAAAAACTTCAACAGATCAG
* ** * *
25115563 GA--AATAAAAAA-TAGAA-ATTTATC-T
1 GATGAAGAAAAAACTTCAACA--GATCAG
25115587 GATGAAGAAAAAACTTCAACAGATCAG
1 GATGAAGAAAAAACTTCAACAGATCAG
25115614 GATGAAGA
1 GATGAAGA
25115622 CATAAAAGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
23 1 0.02
24 5 0.12
25 11 0.26
26 11 0.26
27 13 0.31
28 1 0.02
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.19
Consensus pattern (27 bp):
GATGAAGAAAAAACTTCAACAGATCAG
Found at i:25119043 original size:18 final size:17
Alignment explanation
Indices: 25119020--25119053 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25119010 TTTTAATTAA
*
25119020 ATAAATTATTAAATATTT
1 ATAAATT-TAAAATATTT
25119038 ATAAATTTAAAATATT
1 ATAAATTTAAAATATT
25119054 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAATTTAAAATATTT
Found at i:25119851 original size:17 final size:17
Alignment explanation
Indices: 25119829--25119895 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 17
25119819 AGATTATTAT
25119829 TATAAATAAATATAAAA
1 TATAAATAAATATAAAA
**
25119846 TATAAATTTATA-AAAA
1 TATAAATAAATATAAAA
* *
25119862 TAGAAA-AATATATACAA
1 TATAAATAA-ATATAAAA
* *
25119879 TAAAAATATATATAAAA
1 TATAAATAAATATAAAA
25119896 AGCGTATAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
16 12 0.32
17 25 0.66
18 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (17 bp):
TATAAATAAATATAAAA
Found at i:25119996 original size:19 final size:20
Alignment explanation
Indices: 25119967--25120005 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
25119957 AAAATTTTAT
25119967 CAAATTATAAAAGAAATAAA
1 CAAATTATAAAAGAAATAAA
*
25119987 CAAA-TATAAAAGAACTAAA
1 CAAATTATAAAAGAAATAAA
25120006 AAGCACATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (20 bp):
CAAATTATAAAAGAAATAAA
Found at i:25125952 original size:18 final size:18
Alignment explanation
Indices: 25125925--25125991 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
25125915 CTTGCCGATA
*
25125925 GTTGATTCTCATCTCAAT
1 GTTGACTCTCATCTCAAT
* *
25125943 GTTGACTCTCCTGCTCACGTT
1 GTTGACTCTCAT-CTCA--AT
*
25125964 GTTGACCCTCATC-CTAAT
1 GTTGACTCTCATCTC-AAT
25125982 GTTGACTCTC
1 GTTGACTCTC
25125992 CTGCTCACGT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 20 0.53
19 5 0.13
20 2 0.05
21 11 0.29
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.39
Consensus pattern (18 bp):
GTTGACTCTCATCTCAAT
Found at i:25125968 original size:21 final size:21
Alignment explanation
Indices: 25125942--25126003 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
25125932 CTCATCTCAA
25125942 TGTTGACTCTCCTGCTCACGT
1 TGTTGACTCTCCTGCTCACGT
* * * *
25125963 TGTTGACCCTCATCCT-A--A
1 TGTTGACTCTCCTGCTCACGT
25125981 TGTTGACTCTCCTGCTCACGT
1 TGTTGACTCTCCTGCTCACGT
25126002 TG
1 TG
25126004 GGTCTAATAG
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 1 0.03
21 15 0.50
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (21 bp):
TGTTGACTCTCCTGCTCACGT
Found at i:25126003 original size:18 final size:18
Alignment explanation
Indices: 25125943--25126003 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
25125933 TCATCTCAAT
25125943 GTTGACTCTCCTGCTCAC
1 GTTGACTCTCCTGCTCAC
* * * * *
25125961 GTTGTTGACCCTCATCCTAAT
1 ---GTTGACTCTCCTGCTCAC
25125982 GTTGACTCTCCTGCTCAC
1 GTTGACTCTCCTGCTCAC
25126000 GTTG
1 GTTG
25126004 GGTCTAATAG
Statistics
Matches: 30, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
18 17 0.57
21 13 0.43
ACGTcount: A:0.13, C:0.33, G:0.18, T:0.36
Consensus pattern (18 bp):
GTTGACTCTCCTGCTCAC
Found at i:25129236 original size:8 final size:8
Alignment explanation
Indices: 25129223--25129263 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
25129213 TTTTATGATA
25129223 ATAATTTT
1 ATAATTTT
25129231 ATAATTTT
1 ATAATTTT
25129239 AATAA-TTT
1 -ATAATTTT
25129247 AT-ATATTT
1 ATAAT-TTT
25129255 ATAATTTT
1 ATAATTTT
25129263 A
1 A
25129264 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 1 0.03
7 2 0.07
8 20 0.69
9 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATAATTTT
Found at i:25141907 original size:18 final size:19
Alignment explanation
Indices: 25141875--25141917 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
25141865 TATATTTATA
*
25141875 TTTTTATTTCAAGCT-TTG
1 TTTTTATTTCAAGCTACTG
**
25141893 TTTTTATTTTTAGCTACTG
1 TTTTTATTTCAAGCTACTG
25141912 TTTTTA
1 TTTTTA
25141918 ACACATTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTTTATTTCAAGCTACTG
Found at i:25151719 original size:4 final size:4
Alignment explanation
Indices: 25151710--25151743 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
25151700 AAGTTTTATT
25151710 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
25151744 AATTTTTATA
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:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:25151751 original size:22 final size:22
Alignment explanation
Indices: 25151693--25151752 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
25151683 AAGTGGCCCA
*
25151693 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
25151717 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
25151738 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
25151753 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:25154712 original size:8 final size:8
Alignment explanation
Indices: 25154690--25154722 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
25154680 GAGTAAAATC
25154690 ATGTA-AT
1 ATGTATAT
*
25154697 ATGCATAT
1 ATGTATAT
25154705 ATGTATAT
1 ATGTATAT
25154713 ATGTATAT
1 ATGTATAT
25154721 AT
1 AT
25154723 TTCAGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (8 bp):
ATGTATAT
Found at i:25157490 original size:29 final size:29
Alignment explanation
Indices: 25157449--25157579 Score: 87
Period size: 30 Copynumber: 4.6 Consensus size: 29
25157439 ACTATTTTTG
* *
25157449 AAAGGATGTCTTTGTGGCTATCTCAGTTA
1 AAAGGAAGCCTTTGTGGCTATCTCAGTTA
* *
25157478 AAAGTG-AGCCTTTGTGG-TAGTTTCCG-T-
1 AAAG-GAAGCCTTTGTGGCTA-TCTCAGTTA
*
25157505 -AAGGAAGCCTTTGTGGCTATCTCTGTTAA
1 AAAGGAAGCCTTTGTGGCTATCTCAGTT-A
* *
25157534 AAAGGAAGTCC-TTGTGGCAATCTCTA-ATA
1 AAAGGAAG-CCTTTGTGGCTATCTC-AGTTA
*
25157563 AAAAGAATGCCTTTGTG
1 AAAGGAA-GCCTTTGTG
25157580 ACTTTTTCTG
Statistics
Matches: 80, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
25 1 0.01
26 18 0.22
27 3 0.04
28 3 0.04
29 26 0.32
30 27 0.34
31 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAGGAAGCCTTTGTGGCTATCTCAGTTA
Found at i:25157541 original size:30 final size:29
Alignment explanation
Indices: 25157421--25157640 Score: 113
Period size: 26 Copynumber: 7.8 Consensus size: 29
25157411 TTATTTTTCG
* *
25157421 TAAAAGGATGCCTTTGTGACTAT-T-T-T
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* * * *
25157447 TGAAAGGATGTCTTTGTGGCTATCTCAGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* *
25157476 TAAAAGTG-AGCCTTTGTGG-TAGTTTCCG-
1 TAAAAG-GAAGCCTTTGTGGCTA-TCTCTGT
25157504 T--AAGGAAGCCTTTGTGGCTATCTCTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* **
25157531 TAAAAAGGAAGTCC-TTGTGGCAATCTCTAA
1 T-AAAAGGAAG-CCTTTGTGGCTATCTCTGT
* * * *
25157561 TAAAAAGAATGCCTTTGTGACTTTTTCTGT
1 TAAAAGGAA-GCCTTTGTGGCTATCTCTGT
* * *** *
25157591 TAGAAGGATGCC-TTGTGG-TAAGACT-C
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
25157617 TAAAAGGAAAGCCTTTGTGGCTAT
1 TAAAAGG-AAGCCTTTGTGGCTAT
25157641 TTTTGGAAGG
Statistics
Matches: 144, Mismatches: 33, Indels: 31
0.69 0.16 0.15
Matches are distributed among these distances:
25 1 0.01
26 44 0.31
27 11 0.08
28 14 0.10
29 33 0.23
30 39 0.27
31 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (29 bp):
TAAAAGGAAGCCTTTGTGGCTATCTCTGT
Found at i:25165090 original size:45 final size:45
Alignment explanation
Indices: 25165026--25165119 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
25165016 ATTAGTAATA
* * *
25165026 TAAAACTTAATATTATCTTGCTTTTATTATTAAACATACGAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTAGTAAACATACCAAAAT
* *
25165071 TAAAACTTAATATTATCTTGCATTTATTAGTAGATATACCAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTAGTAAACATACCAAAAT
25165116 TAAA
1 TAAA
25165120 GTACCTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (45 bp):
TAAAACTTAATATTATCTTGCATTTATTAGTAAACATACCAAAAT
Found at i:25166487 original size:13 final size:13
Alignment explanation
Indices: 25166469--25166499 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25166459 ATTTTAAAAA
*
25166469 ATAAATATTAATT
1 ATAAATATTAAAT
25166482 ATAAATATTAAAT
1 ATAAATATTAAAT
25166495 ATAAA
1 ATAAA
25166500 AACATCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAAATATTAAAT
Found at i:25167776 original size:31 final size:31
Alignment explanation
Indices: 25167740--25167803 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
25167730 TCCATCAAAG
*
25167740 TTTTACCACTCTCATATGTACGAAGACGGGT
1 TTTTACCACTCTCATATGCACGAAGACGGGT
25167771 TTTTACCACTCTCATATGCACGAAGACGGGT
1 TTTTACCACTCTCATATGCACGAAGACGGGT
25167802 TT
1 TT
25167804 GATTCCACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (31 bp):
TTTTACCACTCTCATATGCACGAAGACGGGT
Found at i:25168854 original size:19 final size:19
Alignment explanation
Indices: 25168830--25168877 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
25168820 CACATCTACG
*
25168830 AGCTCATCCAAAGATGCAA
1 AGCTCATCCAAAGATACAA
**
25168849 AGCTCA-CCAAATTTACAA
1 AGCTCATCCAAAGATACAA
25168867 A-CTCATCCAAA
1 AGCTCATCCAAA
25168878 ATTGTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.44, C:0.29, G:0.08, T:0.19
Consensus pattern (19 bp):
AGCTCATCCAAAGATACAA
Found at i:25171584 original size:18 final size:19
Alignment explanation
Indices: 25171557--25171594 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
25171547 AAGCAAATAA
*
25171557 ATTATTAAAA-ATAAAAAT
1 ATTATAAAAATATAAAAAT
25171575 ATTATAAAAATTATAAAAAT
1 ATTATAAAAA-TATAAAAAT
25171595 CGGTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTATAAAAATATAAAAAT
Found at i:25174652 original size:19 final size:19
Alignment explanation
Indices: 25174628--25174664 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
25174618 TCTCTCAACA
25174628 AAAATAATTT-TAAAAATTC
1 AAAAT-ATTTATAAAAATTC
25174647 AAAATATTTATAAAAATT
1 AAAATATTTATAAAAATT
25174665 TTAAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATATTTATAAAAATTC
Found at i:25174673 original size:18 final size:18
Alignment explanation
Indices: 25174633--25174676 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
25174623 CAACAAAAAT
25174633 AATTT-TAAAAATTCAAA
1 AATTTATAAAAATTCAAA
**
25174650 ATATTTATAAAAATTTTAA
1 A-ATTTATAAAAATTCAAA
25174669 AATTTATA
1 AATTTATA
25174677 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 11 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTATAAAAATTCAAA
Found at i:25175399 original size:17 final size:18
Alignment explanation
Indices: 25175377--25175431 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
25175367 TTCATATTTT
25175377 AAATAAAAAAT-TTTAAA
1 AAATAAAAAATATTTAAA
**
25175394 AAATAAAAAAATATGAAAA
1 AAAT-AAAAAATATTTAAA
* *
25175413 AAATAAAAACTCTTTAAA
1 AAATAAAAAATATTTAAA
25175431 A
1 A
25175432 TTCAAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 4 0.13
18 18 0.60
19 8 0.27
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAAAAAATATTTAAA
Found at i:25175455 original size:17 final size:17
Alignment explanation
Indices: 25175377--25175456 Score: 58
Period size: 17 Copynumber: 4.7 Consensus size: 17
25175367 TTCATATTTT
*
25175377 AAATA-AAAAATTTTAAA
1 AAATATAAAAA-TATAAA
*
25175394 AAATAAAAAAATATGAAA
1 AAATATAAAAATAT-AAA
* **
25175412 AAA-ATAAAAACTCTTTA
1 AAATATAAAAA-TATAAA
*
25175429 AAAT-TCAAAATATAAA
1 AAATATAAAAATATAAA
25175445 AAATATAAAAAT
1 AAATATAAAAAT
25175457 TCTAACATTC
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
16 7 0.15
17 28 0.58
18 13 0.27
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (17 bp):
AAATATAAAAATATAAA
Found at i:25175467 original size:32 final size:34
Alignment explanation
Indices: 25175401--25175468 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
25175391 AAAAAATAAA
*
25175401 AAAATATGAAAAAAATAAAAACTCTTTAAAATTC
1 AAAATATGAAAAAAATAAAAACTCTCTAAAATTC
*
25175435 AAAATAT-AAAAAATATAAAAA-T-TCTAACATTC
1 AAAATATGAAAAAA-ATAAAAACTCTCTAAAATTC
25175467 AA
1 AA
25175469 TATTATCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 10 0.32
33 7 0.23
34 14 0.45
ACGTcount: A:0.63, C:0.09, G:0.01, T:0.26
Consensus pattern (34 bp):
AAAATATGAAAAAAATAAAAACTCTCTAAAATTC
Found at i:25175867 original size:24 final size:25
Alignment explanation
Indices: 25175839--25175885 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
25175829 GATAACATTG
25175839 AATTTTTATATATTTA-AAAAAGAT
1 AATTTTTATATATTTATAAAAAGAT
* *
25175863 AATTTTTATTTTTTTATAAAAAG
1 AATTTTTATATATTTATAAAAAG
25175886 TTCTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
AATTTTTATATATTTATAAAAAGAT
Found at i:25176134 original size:14 final size:15
Alignment explanation
Indices: 25176107--25176138 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25176097 TTTTTAGAAT
25176107 TTTTTAATATTTTTA
1 TTTTTAATATTTTTA
25176122 TTTTTAATA-TTTTA
1 TTTTTAATATTTTTA
25176136 TTT
1 TTT
25176139 GCTTTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTAATATTTTTA
Found at i:25176362 original size:241 final size:241
Alignment explanation
Indices: 25176076--25176807 Score: 1430
Period size: 241 Copynumber: 3.0 Consensus size: 241
25176066 TGAAACCAAG
25176076 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTA-ATATTTTTATTTTTAATATTTTATTTG
1 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAGA-ATTTTTATTTTTAATATTTTATTTG
25176140 CTTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAA
65 CTTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAA
* *
25176205 TTGCTAATTCAATTGATTTTAGCTCGGTTCAACCAATTTATACCGGTTCGCTTATTTACTTTCAA
130 TTGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAA
25176270 AGTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
195 AGTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
25176317 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAGAATTTTTATTTTTAATATTTTATTTGC
1 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAGAATTTTTATTTTTAATATTTTATTTGC
25176382 TTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
66 TTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
25176447 TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
131 TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
25176512 GTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
196 GTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
25176558 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAGAATTTTTATTTTTAATATTTTATTTGC
1 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAGAATTTTTATTTTTAATATTTTATTTGC
25176623 TTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
66 TTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
25176688 TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
131 TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
25176753 GTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
196 GTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
25176799 TTAAAAAAC
1 TTAAAAAAC
25176808 TAAAAATAAT
Statistics
Matches: 488, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
241 487 1.00
242 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (241 bp):
TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAGAATTTTTATTTTTAATATTTTATTTGC
TTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
GTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
Found at i:25184257 original size:21 final size:20
Alignment explanation
Indices: 25184211--25184284 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
25184201 CCTGATCAGT
*
25184211 ATACGACACATAAGTGCCTG
1 ATACGACACAGAAGTGCCTG
* * *
25184231 AAACGACACACGAGGTGTCTG
1 ATACGACACA-GAAGTGCCTG
25184252 ATACGACAC-GTAAAGTGCCTGAG
1 ATACGACACAG--AAGTGCCT--G
25184275 ATACGACACA
1 ATACGACACA
25184285 TAAAATGCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 1 0.02
20 9 0.22
21 21 0.51
23 10 0.24
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (20 bp):
ATACGACACAGAAGTGCCTG
Found at i:25184281 original size:23 final size:23
Alignment explanation
Indices: 25184251--25184296 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25184241 CGAGGTGTCT
* *
25184251 GATACGACACGTAAAGTGCCTGA
1 GATACGACACATAAAATGCCTGA
25184274 GATACGACACATAAAATGCCTGA
1 GATACGACACATAAAATGCCTGA
25184297 TCGGCAAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (23 bp):
GATACGACACATAAAATGCCTGA
Found at i:25184297 original size:44 final size:41
Alignment explanation
Indices: 25184211--25184297 Score: 93
Period size: 44 Copynumber: 2.0 Consensus size: 41
25184201 CCTGATCAGT
* ** *
25184211 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGTCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAATGCCTG
* *
25184252 ATACGACACGTAAAGTGCCTGAGATACGACACATAAAATGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAATGCCTG
25184296 AT
1 AT
25184298 CGGCAAAGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
41 10 0.27
42 10 0.27
43 1 0.03
44 16 0.43
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAATGCCTG
Found at i:25184624 original size:16 final size:17
Alignment explanation
Indices: 25184603--25184634 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25184593 TAATAATAAT
25184603 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
25184619 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
25184635 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:25185329 original size:14 final size:14
Alignment explanation
Indices: 25185287--25185321 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
25185277 TCCTCTGTTC
25185287 TTTCTTTCTTTT-T
1 TTTCTTTCTTTTGT
25185300 GTTTCTTTCTTTTGT
1 -TTTCTTTCTTTTGT
25185315 TTTCTTT
1 TTTCTTT
25185322 TATTTGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTGT
Found at i:25185493 original size:14 final size:17
Alignment explanation
Indices: 25185474--25185511 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
25185464 ATTTATTTCT
25185474 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
25185488 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
25185505 TAATATA
1 TAATATA
25185512 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:25185529 original size:11 final size:11
Alignment explanation
Indices: 25185491--25185529 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
25185481 ATATTTATAA
25185491 TATAATTAATT
1 TATAATTAATT
*
25185502 TAATAATATACTT
1 T-ATAAT-TAATT
25185515 TATAATTAATT
1 TATAATTAATT
25185526 TATA
1 TATA
25185530 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:25201151 original size:8 final size:8
Alignment explanation
Indices: 25201138--25201163 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25201128 AATGCAATCT
25201138 TCAACTTG
1 TCAACTTG
25201146 TCAACTTG
1 TCAACTTG
25201154 TCAACTTG
1 TCAACTTG
25201162 TC
1 TC
25201164 TTTAGAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (8 bp):
TCAACTTG
Found at i:25206683 original size:14 final size:14
Alignment explanation
Indices: 25206664--25206691 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25206654 GGTACAATCA
25206664 AAGTCTATTTGGTT
1 AAGTCTATTTGGTT
25206678 AAGTCTATTTGGTT
1 AAGTCTATTTGGTT
25206692 GGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
AAGTCTATTTGGTT
Found at i:25207238 original size:13 final size:13
Alignment explanation
Indices: 25207220--25207246 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25207210 TTTATTTAGT
25207220 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
25207233 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
25207246 G
1 G
25207247 GTTAAGAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:25209375 original size:3 final size:3
Alignment explanation
Indices: 25209367--25209418 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
25209357 TATTTTAGTG
* * * *
25209367 TTA TTA TTA TTA TTA CTG TTA TTA TTA TTA CTA CTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
25209413 TTA TTA
1 TTA TTA
25209419 GTTTTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:25209386 original size:18 final size:18
Alignment explanation
Indices: 25209355--25209418 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
25209345 TGTTTAATTA
*
25209355 ATTATT-TTAGTGTTATT
1 ATTATTATTACTGTTATT
25209372 ATTATTATTACTGTTATT
1 ATTATTATTACTGTTATT
* *
25209390 ATTATTACTACTATTATT
1 ATTATTATTACTGTTATT
25209408 AATTATTATTA
1 -ATTATTATTA
25209419 GTTTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.15
18 26 0.63
19 9 0.22
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTATTATTACTGTTATT
Found at i:25209390 original size:15 final size:15
Alignment explanation
Indices: 25209368--25209418 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
25209358 ATTTTAGTGT
25209368 TATTATTATTATTAC
1 TATTATTATTATTAC
*
25209383 TGTTATTATTATTAC
1 TATTATTATTATTAC
* *
25209398 TACTATTATTAATTAT
1 TATTATTATT-ATTAC
25209414 TATTA
1 TATTA
25209419 GTTTTATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:25219231 original size:9 final size:9
Alignment explanation
Indices: 25219214--25219250 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25219204 TGAGTTTTCG
25219214 AATTCGAAT
1 AATTCGAAT
*
25219223 AACTCGAAT
1 AATTCGAAT
25219232 AATTCGAAT
1 AATTCGAAT
25219241 AATTCGAAT
1 AATTCGAAT
25219250 A
1 A
25219251 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25228896 original size:23 final size:23
Alignment explanation
Indices: 25228869--25228915 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25228859 TCAAATCGAG
25228869 TTAGGATGATAAAATACGATTTT
1 TTAGGATGATAAAATACGATTTT
*
25228892 TTAGGATGATAAAATATGATTTT
1 TTAGGATGATAAAATACGATTTT
25228915 T
1 T
25228916 CAACTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (23 bp):
TTAGGATGATAAAATACGATTTT
Found at i:25230691 original size:17 final size:17
Alignment explanation
Indices: 25230669--25230705 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
25230659 AATGACATGA
*
25230669 GTTCACATATCATAAGG
1 GTTCACATATCACAAGG
25230686 GTTCACATATCACAAGG
1 GTTCACATATCACAAGG
25230703 GTT
1 GTT
25230706 TGCAAATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (17 bp):
GTTCACATATCACAAGG
Found at i:25235173 original size:169 final size:170
Alignment explanation
Indices: 25234893--25235272 Score: 412
Period size: 169 Copynumber: 2.2 Consensus size: 170
25234883 TACCGAAAAA
*
25234893 CTATACTAGCACACACAATGCATCATCGAATATACTGAAACAACTATACTAGCACACACAATGCA
1 CTATACTAGCACACACAATGCATCATCGAATATACTCAAACAACTATACTAGCACACACAATGCA
* * * * * *
25234958 TTATCGAATATACTAAAGCAACTATACTGGCACACACAGTGCATCATCGGATAAACTGAAGCAAA
66 TCATCGAATAAACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACTGAAGCAAA
*
25235023 TATACTGGCACACAGTGCATAATCAGATATGTCAAAGCAT
131 TATACTGACACACAGTGCATAATCAGATATGTCAAAGCAT
* * * * *
25235063 CTATACTGGCACACATAGTGCATCATCGAAT-TAC-CAAAGCAACTATAC-AGGCACACATAGTG
1 CTATACTAGCACACACAATGCATCATCGAATATACTCAAA-CAACTATACTA-GCACACACAATG
* * * * *
25235125 CATCATC-AGATAAACCAAAGTAAATATACTAGCACATACAGTGCATCATCATATATATTGAAGC
64 CATCATCGA-ATAAACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACTGAAGC
* * ** ** *
25235189 AACTATACTGACACACATAGTGCATCATTGGATATACCGAAA-CAA
128 AAATATACTGACACAC--AGTGCATAATCAGATATGTC-AAAGCAT
* * *
25235234 CTATACTAGCACACACAATGTATCATTGGATATAC-CAAA
1 CTATACTAGCACACACAATGCATCATCGAATATACTCAAA
25235273 GGACACAGTG
Statistics
Matches: 172, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
168 5 0.03
169 87 0.51
170 28 0.16
171 42 0.24
172 10 0.06
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (170 bp):
CTATACTAGCACACACAATGCATCATCGAATATACTCAAACAACTATACTAGCACACACAATGCA
TCATCGAATAAACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACTGAAGCAAA
TATACTGACACACAGTGCATAATCAGATATGTCAAAGCAT
Found at i:25235248 original size:212 final size:212
Alignment explanation
Indices: 25234852--25235248 Score: 491
Period size: 212 Copynumber: 1.9 Consensus size: 212
25234842 ATACGAAGTG
* *
25234852 TATACTAGCACACATAATGCTTCATCGGATATACCGAAAAACTATACTAGCACACACAATGCATC
1 TATACTAGCACACATAATGCATCATCGAATATACCGAAAAACTATACTAGCACACACAATGCATC
* * * *
25234917 ATCGAATATACTGAAACAACTATACTAGCACACACAATGCATTATCGAATATACTAAAGCAACTA
66 ATCGAATAAACTCAAACAAATATACTAGCACACACAATGCATCATCGAATATACTAAAGCAACTA
* * * *
25234982 TACTGGCACACACAGTGCATCATCGGATAAACTGAAGCAAATATACTGGCACACAGTGCATAATC
131 TACTGACACACACAGTGCATCATCGGATAAACCGAAACAAATATACTAGCACACAGTGCATAATC
25235047 AGATATGTCAAAGCATC
196 AGATATGTCAAAGCATC
* * * *
25235064 TATACTGGCACACATAGTGCATCATCGAAT-TACC-AAAGCAACTATAC-AGGCACACATAGTGC
1 TATACTAGCACACATAATGCATCATCGAATATACCGAAA--AACTATACTA-GCACACACAATGC
* * * * *
25235126 ATCATC-AGATAAAC-CAAAGTAAATATACTAGCACATACAGTGCATCATC-ATATATATTGAAG
63 ATCATCGA-ATAAACTCAAA-CAAATATACTAGCACACACAATGCATCATCGA-ATATACTAAAG
* * * *
25235188 CAACTATACTGACACACATAGTGCATCATTGGATATACCGAAACAACTATACTAGCACACA
125 CAACTATACTGACACACACAGTGCATCATCGGATAAACCGAAACAAATATACTAGCACACA
25235249 CAATGTATCA
Statistics
Matches: 156, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
210 3 0.02
211 10 0.06
212 143 0.92
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.22
Consensus pattern (212 bp):
TATACTAGCACACATAATGCATCATCGAATATACCGAAAAACTATACTAGCACACACAATGCATC
ATCGAATAAACTCAAACAAATATACTAGCACACACAATGCATCATCGAATATACTAAAGCAACTA
TACTGACACACACAGTGCATCATCGGATAAACCGAAACAAATATACTAGCACACAGTGCATAATC
AGATATGTCAAAGCATC
Found at i:25235269 original size:43 final size:43
Alignment explanation
Indices: 25234852--25235269 Score: 336
Period size: 43 Copynumber: 9.8 Consensus size: 43
25234842 ATACGAAGTG
* *
25234852 TATACTAGCACACATAATGCTTCATCGGATATACCGAAA-AAC
1 TATACTAGCACACACAATGCATCATCGGATATACCGAAACAAC
* *
25234894 TATACTAGCACACACAATGCATCATCGAATATACTGAAACAAC
1 TATACTAGCACACACAATGCATCATCGGATATACCGAAACAAC
* * *
25234937 TATACTAGCACACACAATGCATTATCGAATATA-CTAAAGCAAC
1 TATACTAGCACACACAATGCATCATCGGATATACCGAAA-CAAC
* * * * * *
25234980 TATACTGGCACACACAGTGCATCATCGGATAAACTGAAGCAAA
1 TATACTAGCACACACAATGCATCATCGGATATACCGAAACAAC
* * * * ** *
25235023 TATACT-G-GCACACAGTGCATAATCAGATATGTC-AAAGCATC
1 TATACTAGCACACACAATGCATCATCGGATATACCGAAA-CAAC
* * * *
25235064 TATACTGGCACACATAGTGCATCATCGAAT-TACC-AAAGCAAC
1 TATACTAGCACACACAATGCATCATCGGATATACCGAAA-CAAC
* * * * * *
25235106 TATAC-AGGCACACATAGTGCATCATCAGATAAACC-AAAGTAAA
1 TATACTA-GCACACACAATGCATCATCGGATATACCGAAA-CAAC
* * ** ** *
25235149 TATACTAGCACATACAGTGCATCATCATATATATTGAAGCAAC
1 TATACTAGCACACACAATGCATCATCGGATATACCGAAACAAC
*
25235192 TATACT-G-ACACACATAGTGCATCATTGGATATACCGAAACAAC
1 TATACTAGCACACACA-A-TGCATCATCGGATATACCGAAACAAC
* *
25235235 TATACTAGCACACACAATGTATCATTGGATATACC
1 TATACTAGCACACACAATGCATCATCGGATATACC
25235270 AAAGGACACA
Statistics
Matches: 304, Mismatches: 58, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.01
41 33 0.11
42 76 0.25
43 179 0.59
44 7 0.02
45 7 0.02
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (43 bp):
TATACTAGCACACACAATGCATCATCGGATATACCGAAACAAC
Found at i:25235318 original size:72 final size:72
Alignment explanation
Indices: 25235207--25235347 Score: 158
Period size: 72 Copynumber: 2.0 Consensus size: 72
25235197 TGACACACAT
** * ** * *
25235207 AGTGCATCATTGGATATACCGAAACAACTATACTAGCACACACAATGTATCATTGGATATACCAA
1 AGTGCATCATTAAATATACCGAAACAAATATACTAGCACACACAATACATCATCGAATATACCAA
25235272 AGGACAC
66 AGGACAC
* * * * *
25235279 AGTGCATCATTAAATATATCGAAGA-AAATATATTGGCACACATAGTACATCATCGAATATACCA
1 AGTGCATCATTAAATATACCGAA-ACAAATATACTAGCACACACAATACATCATCGAATATACCA
25235343 AAGGA
65 AAGGA
25235348 TAACCTGTAC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
72 55 0.98
73 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (72 bp):
AGTGCATCATTAAATATACCGAAACAAATATACTAGCACACACAATACATCATCGAATATACCAA
AGGACAC
Done.