Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 87 of 325
Found at i:25048489 original size:22 final size:21
Alignment explanation
Indices: 25048443--25048490 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
25048433 TAAACAAAAA
* *
25048443 AAAATAAAAAGACTTAAGAGC
1 AAAATAAAAAAAATTAAGAGC
25048464 AAAATAAAAAAAATATAA-AGC
1 AAAATAAAAAAAAT-TAAGAGC
25048485 GAAAAT
1 -AAAAT
25048491 CACCTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATAAAAAAAATTAAGAGC
Found at i:25048683 original size:13 final size:13
Alignment explanation
Indices: 25048665--25048690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25048655 CAGGTACGGA
25048665 TGGCGACGTGGAG
1 TGGCGACGTGGAG
25048678 TGGCGACGTGGAG
1 TGGCGACGTGGAG
25048691 CGTACAGAGG
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:0.15, C:0.15, G:0.54, T:0.15
Consensus pattern (13 bp):
TGGCGACGTGGAG
Found at i:25053303 original size:28 final size:28
Alignment explanation
Indices: 25053234--25053334 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25053224 GACAAGATTG
* * * *
25053234 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
25053264 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25053292 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
25053321 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25053335 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25061253 original size:28 final size:28
Alignment explanation
Indices: 25061184--25061284 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25061174 GACAAGATTG
* * * *
25061184 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
25061214 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25061242 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
25061271 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25061285 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25063603 original size:38 final size:38
Alignment explanation
Indices: 25063552--25063641 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
25063542 AACATAGACA
25063552 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
25063590 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
25063628 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
25063642 TAGGTAGCCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
Found at i:25064321 original size:40 final size:40
Alignment explanation
Indices: 25064238--25064383 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
25064228 TCGAATGATG
* * *
25064238 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
25064278 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25064318 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
25064359 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25064384 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25064390 original size:80 final size:80
Alignment explanation
Indices: 25064238--25064406 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
25064228 TCGAATGATG
* * *
25064238 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCAAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
25064303 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
25064318 TCCGGGTTAAGTCCCAAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
*
25064381 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
25064398 TCC-GGTTAA
1 TCCGGGTTAA
25064407 ACTCCGAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
79 9 0.12
80 60 0.79
81 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCAAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:25068642 original size:19 final size:19
Alignment explanation
Indices: 25068618--25068656 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25068608 CCTTTGAGAA
25068618 GGTGGATGAATGTTAGAGT
1 GGTGGATGAATGTTAGAGT
25068637 GGTGGATGAATGTTAGAGT
1 GGTGGATGAATGTTAGAGT
25068656 G
1 G
25068657 AAGAGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.31
Consensus pattern (19 bp):
GGTGGATGAATGTTAGAGT
Found at i:25071063 original size:15 final size:15
Alignment explanation
Indices: 25071043--25071081 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
25071033 AATAAGAATA
25071043 ATTAATTTAAAA-ATT
1 ATTAA-TTAAAATATT
25071058 ATTAATTAAAATATT
1 ATTAATTAAAATATT
25071073 ATT-ATTAAA
1 ATTAATTAAA
25071082 TCTTCAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATTAAAATATT
Found at i:25076993 original size:16 final size:18
Alignment explanation
Indices: 25076972--25077004 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
25076962 TCAAAGCGAA
25076972 AAATAA-AGT-CCAAAAC
1 AAATAACAGTCCCAAAAC
25076988 AAATAACAGTCCCAAAA
1 AAATAACAGTCCCAAAA
25077005 AGTCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.61, C:0.21, G:0.06, T:0.12
Consensus pattern (18 bp):
AAATAACAGTCCCAAAAC
Found at i:25077130 original size:61 final size:61
Alignment explanation
Indices: 25077035--25077162 Score: 229
Period size: 61 Copynumber: 2.1 Consensus size: 61
25077025 GAAAATAATA
25077035 CTTAAACTCAACAGAATTTAAAATCAATAATTTAAACCGAGCTCCTACTACATCGATCCGT
1 CTTAAACTCAACAGAATTTAAAATCAATAATTTAAACCGAGCTCCTACTACATCGATCCGT
* *
25077096 CTTAAACTCAACAGAATTTAAAATTAATAATTTAAACCGAGCTCCTACTACATCGATCTGT
1 CTTAAACTCAACAGAATTTAAAATCAATAATTTAAACCGAGCTCCTACTACATCGATCCGT
*
25077157 CCTAAA
1 CTTAAA
25077163 TTTGTTGGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (61 bp):
CTTAAACTCAACAGAATTTAAAATCAATAATTTAAACCGAGCTCCTACTACATCGATCCGT
Found at i:25083368 original size:8 final size:9
Alignment explanation
Indices: 25083347--25083371 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25083337 TGGTGTTAGT
25083347 TTTTTGATG
1 TTTTTGATG
25083356 TTTTTGATG
1 TTTTTGATG
25083365 TTTTTGA
1 TTTTTGA
25083372 GATCCTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (9 bp):
TTTTTGATG
Found at i:25084172 original size:42 final size:42
Alignment explanation
Indices: 25084091--25084249 Score: 142
Period size: 42 Copynumber: 3.8 Consensus size: 42
25084081 GATATGGAAT
* * * *
25084091 TGGCATCGTTATGTG-TTATCATGTAAGACCATATTTGGGATA
1 TGGCATCGATATGAGATT-TCATGTAAGACCACATCTGGGATA
* * * *
25084133 TGGCGTTGATATGAGATTTCATGTAAGACCACGTCTGGGACA
1 TGGCATCGATATGAGATTTCATGTAAGACCACATCTGGGATA
* * * * *
25084175 TAGCATCGAAATGAGATTTTCGTATAAGACCATATCTGGGATA
1 TGGCATCGATATGAGA-TTTCATGTAAGACCACATCTGGGATA
* *
25084218 TGGCATCGATGTGAGA-TCCGATGTAAGACCAC
1 TGGCATCGATATGAGATTTC-ATGTAAGACCAC
25084250 GTCTAGGACA
Statistics
Matches: 90, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 2 0.02
42 52 0.58
43 36 0.40
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGGCATCGATATGAGATTTCATGTAAGACCACATCTGGGATA
Found at i:25084233 original size:43 final size:43
Alignment explanation
Indices: 25084064--25084234 Score: 139
Period size: 42 Copynumber: 3.9 Consensus size: 43
25084054 TGAGATCCCG
* * *
25084064 TATAAGACCATATCTGGGATATGGAATTGGCATCGTTATGTG-TTATCA
1 TATAAGACCATATCTGGG--AT---A-TGGCATCGATATGAGATTTTCA
* * * *
25084112 TGTAAGACCATATTTGGGATATGGCGTTGATATGAGA-TTTCA
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGATTTTCA
* ** * * * *
25084154 TGTAAGACCACGTCTGGGACATAGCATCGAAATGAGATTTTCG
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGATTTTCA
*
25084197 TATAAGACCATATCTGGGATATGGCATCGATGTGAGAT
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGAT
25084235 CCGATGTAAG
Statistics
Matches: 98, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
42 44 0.45
43 36 0.37
46 2 0.02
48 16 0.16
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (43 bp):
TATAAGACCATATCTGGGATATGGCATCGATATGAGATTTTCA
Found at i:25092601 original size:42 final size:43
Alignment explanation
Indices: 25092542--25092641 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
25092532 TGTGTTATCA
* * * ** *
25092542 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGA-TTTCG
1 TGTAAGACCACATCTGGGACATGGCATCAAAATGAGATTTTCG
*
25092584 TGTAAGACCACGTCTGGGACATGGCATCAAAATGAGATTTTCG
1 TGTAAGACCACATCTGGGACATGGCATCAAAATGAGATTTTCG
* *
25092627 TATAAGACCATATCT
1 TGTAAGACCACATCT
25092642 AGGATATAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 30 0.64
43 17 0.36
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATGGCATCAAAATGAGATTTTCG
Found at i:25095673 original size:4 final size:4
Alignment explanation
Indices: 25095666--25095696 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
25095656 TATTTGAATG
25095666 ATAA ATAA ATAA ATAA ATAA ATAA AGTAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA A-TAA AT
25095697 TTCACATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:25095731 original size:15 final size:15
Alignment explanation
Indices: 25095711--25095742 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25095701 CATTTCACTA
*
25095711 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
25095726 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
25095741 TT
1 TT
25095743 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:25104924 original size:20 final size:20
Alignment explanation
Indices: 25104901--25104950 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
25104891 ATTACTTATT
*
25104901 TATAAAATTTATTTTAAATA
1 TATAAAATATATTTTAAATA
*
25104921 TATAAACTATATTTTAAATA
1 TATAAAATATATTTTAAATA
*
25104941 T-TTAAATATA
1 TATAAAATATA
25104951 ACCATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAAAATATATTTTAAATA
Found at i:25105489 original size:20 final size:21
Alignment explanation
Indices: 25105455--25105496 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
25105445 TAACAATAAT
* *
25105455 TCTATAAAATTTAAAATTATA
1 TCTATAAAATATAAAAATATA
25105476 TCTA-AAAATATAAAAATATA
1 TCTATAAAATATAAAAATATA
25105496 T
1 T
25105497 ATCTTTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TCTATAAAATATAAAAATATA
Found at i:25106019 original size:37 final size:37
Alignment explanation
Indices: 25105969--25106045 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
25105959 AAACTGCTTC
25105969 TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
1 TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
25106006 TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
1 TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
25106043 TAA
1 TAA
25106046 CTTCAGAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (37 bp):
TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
Found at i:25110392 original size:3 final size:3
Alignment explanation
Indices: 25110373--25110408 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
25110363 AAATTGGATG
*
25110373 TTA TTG TTA TTA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
25110409 CCGTAGGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25111441 original size:18 final size:17
Alignment explanation
Indices: 25111420--25111474 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
25111410 ACAATTCTTT
25111420 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
25111438 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
25111455 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
25111472 TCT
1 TCT
25111475 ATAGCCGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 19 0.59
19 3 0.09
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:25112738 original size:28 final size:28
Alignment explanation
Indices: 25112698--25112778 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
25112688 GGAGGAAGCG
25112698 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTAT
* *
25112726 TTCTGATGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTAT
* * *
25112754 ATCTGGTGACTCTGTCAC-AATATCT
1 TTCTGGTGGCTCTGCCACAAATATCT
25112779 GTTCTGGCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 7 0.15
28 40 0.85
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTAT
Found at i:25113767 original size:43 final size:43
Alignment explanation
Indices: 25113720--25114035 Score: 261
Period size: 43 Copynumber: 7.4 Consensus size: 43
25113710 CGATGCCGAT
25113720 TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCTC
1 TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCTC
* ** * ** ** **
25113763 TGTCCCAGACAGGGTCTTTTATG-AAAACAG-ATACAATGCCGA
1 TGTCCCAGACATGGTCTTACACGTAATTCAGTAT-CGTTGCCTC
*
25113805 TGTCCCAGACATGGTCTTACACGTAATTCAATATCGTTGCCTC
1 TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCTC
* ** ** * * *
25113848 TGTCCCAGACAGGGTCTTTTACG-AAAACAG-ATACGATG-TTGA
1 TGTCCCAGACATGGTCTTACACGTAATTCAGTAT-CGTTGCCT-C
* *
25113890 TGTCCCAAACATGGTCTTACACGTAATTCAGTATCATTGCCTC
1 TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCTC
** * * * **
25113933 TGTCCCAGACA-GAGTCTTTTACGAAAAT-AG-ATACGATGCCGA
1 TGTCCCAGACATG-GTCTTACACGTAATTCAGTAT-CGTTGCCTC
25113975 TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCTC
1 TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCTC
* *
25114018 TATCCCAGACAGGGTCTT
1 TGTCCCAGACATGGTCTT
25114036 TTACGAAAAC
Statistics
Matches: 202, Mismatches: 58, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
41 7 0.03
42 86 0.43
43 102 0.50
44 7 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCTC
Found at i:25113834 original size:85 final size:85
Alignment explanation
Indices: 25113690--25114087 Score: 661
Period size: 85 Copynumber: 4.7 Consensus size: 85
25113680 GGGTGTTACA
*
25113690 GTCTTATACGAAAACAGATACGATGCCGATTGTCCCAGACATGGTCTTACACGTAATTCAGTATC
1 GTCTTTTACGAAAACAGATACGATGCCGA-TGTCCCAGACATGGTCTTACACGTAATTCAGTATC
25113755 GTTGCCTCTGTCCCAGACAGG
65 GTTGCCTCTGTCCCAGACAGG
* * *
25113776 GTCTTTTATGAAAACAGATACAATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAATATCG
1 GTCTTTTACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCG
25113841 TTGCCTCTGTCCCAGACAGG
66 TTGCCTCTGTCCCAGACAGG
** * *
25113861 GTCTTTTACGAAAACAGATACGATGTTGATGTCCCAAACATGGTCTTACACGTAATTCAGTATCA
1 GTCTTTTACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCG
*
25113926 TTGCCTCTGTCCCAGACAGA
66 TTGCCTCTGTCCCAGACAGG
*
25113946 GTCTTTTACGAAAATAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCG
1 GTCTTTTACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCG
*
25114011 TTGCCTCTATCCCAGACAGG
66 TTGCCTCTGTCCCAGACAGG
* * *
25114031 GTCTTTTACGAAAACAGATACGATGCCGATGCCCCAGGCATGGTCTTACATGTAATT
1 GTCTTTTACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATT
25114088 TAGATCATTA
Statistics
Matches: 289, Mismatches: 23, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
85 263 0.91
86 26 0.09
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (85 bp):
GTCTTTTACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCG
TTGCCTCTGTCCCAGACAGG
Found at i:25119948 original size:25 final size:25
Alignment explanation
Indices: 25119914--25119963 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25119904 TTTTAGAGTA
25119914 TACCAAAATGTTGTTGATGAATACC
1 TACCAAAATGTTGTTGATGAATACC
25119939 TACCAAAATGTTGTTGATGAATACC
1 TACCAAAATGTTGTTGATGAATACC
25119964 ACGATGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
TACCAAAATGTTGTTGATGAATACC
Found at i:25124244 original size:19 final size:19
Alignment explanation
Indices: 25124216--25124264 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
25124206 AATAAAATAA
* *
25124216 AATAAAATAATAGTATTTT
1 AATAAAATAACACTATTTT
*
25124235 AATAATATAACACTATTTT
1 AATAAAATAACACTATTTT
*
25124254 ATTTAAAATAA
1 A-ATAAAATAA
25124265 AATCAAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AATAAAATAACACTATTTT
Found at i:25124921 original size:7 final size:7
Alignment explanation
Indices: 25124906--25124936 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
25124896 CCACATAAAC
*
25124906 ATTAACA
1 ATTACCA
25124913 ATTACCA
1 ATTACCA
25124920 ATTACCA
1 ATTACCA
25124927 ATTACCA
1 ATTACCA
25124934 ATT
1 ATT
25124937 TTCTCTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (7 bp):
ATTACCA
Found at i:25129750 original size:139 final size:140
Alignment explanation
Indices: 25129531--25130132 Score: 642
Period size: 139 Copynumber: 4.2 Consensus size: 140
25129521 GATGATAAGG
25129531 ATAATAATACTAGCAATAATAATGAAATACAAAAAGCAAATATAACATAATAACAATATTAAAAT
1 ATAATAATACTAGCAATAATAATGAAATACAAAAAGCAAATAT-A-ATAAT-A-AATATTAAAAT
* * * * **
25129596 AAAGTAATTAGAAATAATACTATGTATAAATATATATACATATATACCTATATAGTAAAAACT-T
62 AAAGTAATTAAAAATAATACTATATATAAATATATATATATATATACATATATAACAAAAA-TAT
*
25129660 ACACTAATATTAATA
126 ACACTAACATTAATA
*
25129675 ATAATAATACTAGCAATAATAATGAAATACAAAAACCAAATATAATAAT-AATATTAAAATAAAG
1 ATAATAATACTAGCAATAATAATGAAATACAAAAAGCAAATATAATAATAAATATTAAAATAAAG
25129739 TAATTAAAAATAATACTATATATAAATATATACT-TATATATACATATATAACAAAAATATACAC
66 TAATTAAAAATAATACTATATATAAATATATA-TATATATATACATATATAACAAAAATATACAC
25129803 TAACATTAATA
130 TAACATTAATA
* * * * *
25129814 ATAATAATGATAATAGTAATAATATTAAAATAAAAAAAAGCAAATATAAT-ATAAATATTAAAAT
1 ATAAT-A--ATACTAGCAATAATAATGAAAT-ACAAAAAGCAAATATAATAATAAATATTAAAAT
* *
25129878 AAAATAATAAAAAATAATACTATATATAAATATATATATATATATATATATACATATACACATAT
62 AAAGTAATTAAAAATAATAC--TATAT--ATA-A-ATATATATATATATATAC--AT----ATAT
25129943 AACAAAAATATACACTAACATTAATA
115 AACAAAAATATACACTAACATTAATA
* * * *
25129969 ATAATAATGATAATAGTAATAATATTAAAATACAAAAAGCAAATATAAT-ATAAATATTAAAATA
1 ATAAT-A--ATACTAGCAATAATAATGAAATACAAAAAGCAAATATAATAATAAATATTAAAATA
* * * * * * * *
25130033 AAGTAATAAAAAATAATACTATATAT-AA-ACATACATACATATACGTATATAATAAAAGTGTAC
63 AAGTAATTAAAAATAATACTATATATAAATATATATATATATATACATATATAACAAAAATATAC
*
25130096 ACTAATATATAATA
128 ACTAACAT-TAATA
* **
25130110 ATAATAATAATAATAATAATAAT
1 ATAATAATACTAGCAATAATAAT
25130133 AATAATAATA
Statistics
Matches: 409, Mismatches: 28, Indels: 48
0.84 0.06 0.10
Matches are distributed among these distances:
138 16 0.04
139 84 0.21
140 24 0.06
141 10 0.02
142 25 0.06
143 46 0.11
144 43 0.11
145 5 0.01
146 13 0.03
147 4 0.01
148 3 0.01
149 16 0.04
150 2 0.00
151 2 0.00
152 5 0.01
154 50 0.12
155 61 0.15
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.30
Consensus pattern (140 bp):
ATAATAATACTAGCAATAATAATGAAATACAAAAAGCAAATATAATAATAAATATTAAAATAAAG
TAATTAAAAATAATACTATATATAAATATATATATATATATACATATATAACAAAAATATACACT
AACATTAATA
Found at i:25129764 original size:18 final size:18
Alignment explanation
Indices: 25129743--25129780 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25129733 ATAAAGTAAT
25129743 TAAAAATAATAC-TATATA
1 TAAAAAT-ATACTTATATA
*
25129761 TAAATATATACTTATATA
1 TAAAAATATACTTATATA
25129779 TA
1 TA
25129781 CATATATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAATATACTTATATA
Found at i:25129903 original size:2 final size:2
Alignment explanation
Indices: 25129898--25129935 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
25129888 AAAATAATAC
* *
25129898 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25129936 CACATATAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:25129958 original size:155 final size:154
Alignment explanation
Indices: 25129750--25130075 Score: 546
Period size: 155 Copynumber: 2.1 Consensus size: 154
25129740 AATTAAAAAT
* * *
25129750 AATACTATATATAAATATATACTTATATATACATATATAACAAAAATATACACTAACATTAATAA
1 AATA-TATATATATATATATACTTACATATACACATATAACAAAAATATACACTAACATTAATAA
25129815 TAATAATGATAATAGTAATAATATTAAAATAAAAAAAAGCAAATATAATATAAATATTAAAATAA
65 TAATAATGATAATAGTAATAATATTAAAAT-AAAAAAAGCAAATATAATATAAATATTAAAATAA
25129880 AATAATAAAAAATAATACTATATATA
129 AATAATAAAAAATAATACTATATATA
25129906 AATATATATATATATATATA-TATACATATACACATATAACAAAAATATACACTAACATTAATAA
1 AATATATATATATATATATACT-TACATATACACATATAACAAAAATATACACTAACATTAATAA
*
25129970 TAATAATGATAATAGTAATAATATTAAAATACAAAAAGCAAATATAATATAAATATTAAAATAAA
65 TAATAATGATAATAGTAATAATATTAAAATAAAAAAAGCAAATATAATATAAATATTAAAATAAA
*
25130035 GTAATAAAAAATAATACTATATATA
130 ATAATAAAAAATAATACTATATATA
* * *
25130060 AACATACATACATATA
1 AATATATATATATATA
25130076 CGTATATAAT
Statistics
Matches: 161, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
154 72 0.45
155 85 0.53
156 4 0.02
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (154 bp):
AATATATATATATATATATACTTACATATACACATATAACAAAAATATACACTAACATTAATAAT
AATAATGATAATAGTAATAATATTAAAATAAAAAAAGCAAATATAATATAAATATTAAAATAAAA
TAATAAAAAATAATACTATATATA
Found at i:25130112 original size:3 final size:3
Alignment explanation
Indices: 25130098--25130494 Score: 276
Period size: 3 Copynumber: 134.7 Consensus size: 3
25130088 AAGTGTACAC
25130098 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
25130144 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TGA -AA TACA -AA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
** * * * *
25130187 GCA -AA T-A TAA TAA AAA TAT TAA -AA TAA -AG TAA TTAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* *
25130229 TAC T-A TGTA TAA -ATA TAAA TACA T-A TACA TATA TAA TAA -AA -AA
1 TAA TAA T-AA TAA TA-A T-AA TA-A TAA TA-A TA-A TAA TAA TAA TAA
* *
25130272 TATA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * *
25130318 TAA TAA TGA TAA TGG TGA TAGA AAA TAA -AA -AA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
25130361 TAC TAG CAA TAG CAA TAA AAA TAA AAA TAA TAG TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25130409 T-A TAA TAA TAA T-A TACA T-A TGAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * *
25130453 TAA TAA TAA TAA TAA T-A TAA -AA AAA TAA AAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
25130495 GTGTTAGACA
Statistics
Matches: 313, Mismatches: 52, Indels: 58
0.74 0.12 0.14
Matches are distributed among these distances:
2 34 0.11
3 250 0.80
4 28 0.09
5 1 0.00
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:25130182 original size:180 final size:180
Alignment explanation
Indices: 25129964--25130330 Score: 592
Period size: 180 Copynumber: 2.0 Consensus size: 180
25129954 ACACTAACAT
* * *
25129964 TAATAATAATAATGATAATAGTAATAATATTAAAATACAAAAAGCAAATATAATATAAATATTAA
1 TAATAATAATAATAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAAATATTAA
* * * *
25130029 AATAAAGTAATAAAAAATAATACTATATATAAACATACATACATATACGTATATAAT-AAAAGTG
66 AATAAAGTAATAAAAAATAATACTATATATAAACATAAATACATATACATATATAATAAAAAATA
25130093 TACACTAATATATAATAATAATAATAATAATAATAATAATAATAATAATAA
131 TACACTAATA-ATAATAATAATAATAATAATAATAATAATAATAATAATAA
*
25130144 TAATAATAATAATAATAATAATAATAATATTGAAATACAAAAAGCAAATATAATAAAAATATTAA
1 TAATAATAATAATAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAAATATTAA
* * *
25130209 AATAAAGTAATTAAAAATAATACTATGTATAAATATAAATACATATACATATATAATAAAAAATA
66 AATAAAGTAATAAAAAATAATACTATATATAAACATAAATACATATACATATATAATAAAAAATA
* *
25130274 TATACTAATAATAATAATAATAATAATAATAATAATAATAATGATAATAA
131 TACACTAATAATAATAATAATAATAATAATAATAATAATAATAATAATAA
*
25130324 TGATAAT
1 TAATAAT
25130331 GGTGATAGAA
Statistics
Matches: 172, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
180 158 0.92
181 14 0.08
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (180 bp):
TAATAATAATAATAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAAATATTAA
AATAAAGTAATAAAAAATAATACTATATATAAACATAAATACATATACATATATAATAAAAAATA
TACACTAATAATAATAATAATAATAATAATAATAATAATAATAATAATAA
Found at i:25132152 original size:28 final size:27
Alignment explanation
Indices: 25132109--25132215 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
25132099 GAATTTAGTG
25132109 TTAA-CTGGGCCTTAGCCCATATCAGTA
1 TTAATCTGGGCC-TAGCCCATATCAGTA
*
25132136 TTAATCTGGGCCATAGCCC-TATTACAATA
1 TTAATCTGGGCC-TAGCCCATA-T-CAGTA
*
25132165 TCAGAGCATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAGTA
* *
25132197 TCAGTCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
25132216 TATTACAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
27 13 0.20
28 21 0.33
29 5 0.08
30 1 0.02
31 1 0.02
32 5 0.08
33 9 0.14
34 9 0.14
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAGTA
Found at i:25132287 original size:19 final size:20
Alignment explanation
Indices: 25132244--25132299 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
25132234 ATTGGGTCTT
25132244 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
25132264 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
25132283 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
25132300 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:25134255 original size:20 final size:22
Alignment explanation
Indices: 25134217--25134256 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
25134207 TTCAAATACG
*
25134217 ATAATATATATATATTTTCCTA
1 ATAATATATATATAATTTCCTA
25134239 ATAATA-AT-TATAATTTCC
1 ATAATATATATATAATTTCC
25134257 ATAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATATATAATTTCCTA
Found at i:25138556 original size:21 final size:22
Alignment explanation
Indices: 25138532--25138607 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 22
25138522 ATTTTGAGCC
25138532 TCTTAATAT-TTATTTTAAATT
1 TCTTAATATATTATTTTAAATT
*
25138553 TCTTTATATATTATTTTAAACTT
1 TCTTAATATATTATTTTAAA-TT
*
25138576 GTCTTTACATATATTTATTTAAAATT
1 -TC-TTA-ATATA-TTATTTTAAATT
25138602 ATCTTA
1 -TCTTA
25138608 TACAACTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.18
22 10 0.22
23 2 0.04
24 2 0.04
25 5 0.11
26 9 0.20
27 9 0.20
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (22 bp):
TCTTAATATATTATTTTAAATT
Found at i:25138568 original size:26 final size:26
Alignment explanation
Indices: 25138433--25138568 Score: 81
Period size: 25 Copynumber: 5.4 Consensus size: 26
25138423 AATTTTCATG
* * *
25138433 TATAATATTTAATTTAAACTAT-TTTA
1 TATATTATTTATTTTAAA-TTTCTTTA
* * *
25138459 TATGTTATTCACTTTAAATTT-TTTA
1 TATATTATTTATTTTAAATTTCTTTA
25138484 TATATTATTTATTTTAAATTTCTCTTTTA
1 TATATTATTTATTTTAAA-TT-TC-TTTA
* * ** *
25138513 CATATTA-TTATTTT-GA-GCCTCT-
1 TATATTATTTATTTTAAATTTCTTTA
25138535 TA-A-TATTTATTTTAAATTTCTTTA
1 TATATTATTTATTTTAAATTTCTTTA
25138559 TATATTATTT
1 TATATTATTT
25138569 TAAACTTGTC
Statistics
Matches: 82, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
20 2 0.02
21 8 0.10
22 2 0.02
23 5 0.06
24 3 0.04
25 22 0.27
26 21 0.26
27 2 0.02
28 7 0.09
29 10 0.12
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (26 bp):
TATATTATTTATTTTAAATTTCTTTA
Found at i:25138596 original size:26 final size:23
Alignment explanation
Indices: 25138471--25138606 Score: 80
Period size: 26 Copynumber: 5.5 Consensus size: 23
25138461 TGTTATTCAC
*
25138471 TTTAAATTTTTTATATATTATTTAT
1 TTTAAATTTCTT-TATA-TATTTAT
*
25138496 TTTAAATTTCTCTTTTACATATTATTAT
1 TTTAAA-TT-TC-TTTATATA-T-TTAT
* ***
25138524 TTTGAGCCTC-TTA-ATATTTAT
1 TTTAAATTTCTTTATATATTTAT
25138545 TTTAAATTTCTTTATATA-TTAT
1 TTTAAATTTCTTTATATATTTAT
25138567 TTTAAACTTGTCTTTACATATATTTAT
1 TTTAAA-TT-TCTTT--ATATATTTAT
*
25138594 TTAAAATTATCTT
1 TTTAAATT-TCTT
25138607 ATACAACTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
21 10 0.11
22 14 0.16
23 8 0.09
24 8 0.09
25 6 0.07
26 17 0.20
27 14 0.16
28 10 0.11
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAAATTTCTTTATATATTTAT
Found at i:25143068 original size:22 final size:23
Alignment explanation
Indices: 25143034--25143093 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
25143024 AAATTTAATA
25143034 ATTATAAAA-ATTAATAAACA-TC
1 ATTA-AAAATATTAATAAACATTC
*
25143056 ATTAAAAATATT-ATAAAGATTC
1 ATTAAAAATATTAATAAACATTC
*
25143078 A-TAAATATATTAATAA
1 ATTAAAAATATTAATAA
25143094 TTTATAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (23 bp):
ATTAAAAATATTAATAAACATTC
Found at i:25143071 original size:31 final size:30
Alignment explanation
Indices: 25143034--25143101 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
25143024 AAATTTAATA
25143034 ATTATAAAAATTAATAAACATCATTAAAAAT
1 ATTATAAAAATTAATAAACAT-ATTAAAAAT
* * * *
25143065 ATTATAAAGATTCATAAATATATTAATAAT
1 ATTATAAAAATTAATAAACATATTAAAAAT
25143095 -TTATAAA
1 ATTATAAA
25143102 GTAAAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 7 0.21
30 8 0.24
31 18 0.55
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (30 bp):
ATTATAAAAATTAATAAACATATTAAAAAT
Found at i:25143902 original size:18 final size:18
Alignment explanation
Indices: 25143879--25143914 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
25143869 AATGTATTCA
25143879 TATCATATGATA-TATATT
1 TATCATAT-ATATTATATT
25143897 TATCATATATATTATATT
1 TATCATATATATTATATT
25143915 ATAAGGTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TATCATATATATTATATT
Found at i:25148949 original size:13 final size:13
Alignment explanation
Indices: 25148931--25148959 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25148921 AAGAAATTTT
25148931 ACATAGATAAAAC
1 ACATAGATAAAAC
25148944 ACATAGATAAAAC
1 ACATAGATAAAAC
25148957 ACA
1 ACA
25148960 CCCATTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.17, G:0.07, T:0.14
Consensus pattern (13 bp):
ACATAGATAAAAC
Found at i:25152648 original size:15 final size:14
Alignment explanation
Indices: 25152628--25152658 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
25152618 TGTTAATAAG
25152628 TTAGTATTAAAGTTT
1 TTAGTATTAAA-TTT
25152643 TTAGTATTAAATTT
1 TTAGTATTAAATTT
25152657 TT
1 TT
25152659 GTTAGGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (14 bp):
TTAGTATTAAATTT
Found at i:25154373 original size:7 final size:7
Alignment explanation
Indices: 25154361--25154385 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25154351 GTTGTCTTCT
25154361 TGTTTGA
1 TGTTTGA
25154368 TGTTTGA
1 TGTTTGA
25154375 TGTTTGA
1 TGTTTGA
25154382 TGTT
1 TGTT
25154386 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:25155317 original size:27 final size:28
Alignment explanation
Indices: 25155261--25155330 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
25155251 AAATTTGTAC
25155261 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
25155289 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
25155316 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25155331 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:25162190 original size:7 final size:7
Alignment explanation
Indices: 25162178--25162202 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25162168 GTTGTCTTCT
25162178 TGTTTGA
1 TGTTTGA
25162185 TGTTTGA
1 TGTTTGA
25162192 TGTTTGA
1 TGTTTGA
25162199 TGTT
1 TGTT
25162203 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:25163131 original size:27 final size:28
Alignment explanation
Indices: 25163075--25163143 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
25163065 AAATTTGTAC
25163075 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
25163103 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
25163130 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
25163144 ACTCACTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:25164785 original size:53 final size:47
Alignment explanation
Indices: 25164656--25164788 Score: 131
Period size: 47 Copynumber: 2.7 Consensus size: 47
25164646 GATATGTGAT
* * *
25164656 TTTCGTATAAGACCATATCAAGGATATGGTATCGGTGTGATAGGTGC
1 TTTCGTATAAGACCATATCTAGGATATGGCATCGGTGTGATAGATGC
* * * * *
25164703 TCTCGTATAAGACCTTAACTAGGCTATGGCATTGGTGTGATGAGATTATATGC
1 TTTCGTATAAGACCATATCTAGGATATGGCATCGGTGTGAT-AG-----ATGC
*
25164756 TTTCGTATAAGACCATATCTAGTATATGGCATC
1 TTTCGTATAAGACCATATCTAGGATATGGCATC
25164789 AGTGATATAT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
47 34 0.52
48 2 0.03
53 30 0.45
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (47 bp):
TTTCGTATAAGACCATATCTAGGATATGGCATCGGTGTGATAGATGC
Found at i:25164863 original size:47 final size:47
Alignment explanation
Indices: 25164764--25164866 Score: 111
Period size: 47 Copynumber: 2.2 Consensus size: 47
25164754 GCTTTCGTAT
* * *
25164764 AAGACCATATCTAGTATATGGCATCAGTGATATATGTACTTTTATGT
1 AAGACCATATCTAGGATATGGCATCAGTGATATATGTACTTATATGC
* * * *
25164811 TAGACCATTTCTGGGATATGGCATCAGTG-TGATATGTGAC-TATGTGC
1 AAGACCATATCTAGGATATGGCATCAGTGAT-ATATGT-ACTTATATGC
25164858 AAGACCATA
1 AAGACCATA
25164867 GTTTTACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
46 1 0.02
47 42 0.93
48 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (47 bp):
AAGACCATATCTAGGATATGGCATCAGTGATATATGTACTTATATGC
Found at i:25169392 original size:299 final size:299
Alignment explanation
Indices: 25168854--25169444 Score: 1056
Period size: 299 Copynumber: 2.0 Consensus size: 299
25168844 CCCAGTGTCG
*
25168854 ACTCAACCTGAGTCAGGTGTGTCATATGTGCTATATAGTGATATGTCTCTGAATGGTTTAGGCTG
1 ACTCAACCTGAGTCAGGTGTGTCATATGTGCTATATAGTGATACGTCTCTGAATGGTTTAGGCTG
25168919 TGTACTGATGCAGTCAGGAAAAGTTGTAGCATATGCTTCTCAGCAGTTGAAATCACATGAGAGGA
66 TGTACTGATGCAGTCAGGAAAAGTTGTAGCATATGCTTCTCAGCAGTTGAAATCACATGAGAGGA
* * *
25168984 ACTACCCTACACATGATTTTGAGTTAGTTGCTATCGTTTTTACTTTAAAAATTTGGAGGCACTAC
131 ACTACCCTACACATGATCTTGAGTTAGCTGCTATCGTTTTTACTTTAAAAATTTGGAGACACTAC
* *
25169049 CTCTATGGTGAGAAATGTTATGTGTATATAGACCATAAAAGTTTGAAGTATTTAATGTCACAGAA
196 CTCTATGGTGAGAAATGTTATGTGTATACAGACCATAAAAGTTTGAAGTATTTAATATCACAGAA
*
25169114 AGAGCTGAACTTGAGACAGAGAAGATGGCTAGCTTGTTA
261 AGAGCTGAACTTAAGACAGAGAAGATGGCTAGCTTGTTA
* *
25169153 ACTCAACCTGAGTCAGGTGTGTTATATGTGCTATATAGTGATACGTCTCTGAATGGTTTAGGTTG
1 ACTCAACCTGAGTCAGGTGTGTCATATGTGCTATATAGTGATACGTCTCTGAATGGTTTAGGCTG
* *
25169218 TGTACTGATGCAGTCAGGAAAAGTTGTAGCATATGCTTCTCGGCAGTTGAAATCACATGATAGGA
66 TGTACTGATGCAGTCAGGAAAAGTTGTAGCATATGCTTCTCAGCAGTTGAAATCACATGAGAGGA
*
25169283 ACTACCCTACACATGATCTTGAGTTAGCTGCTATCGTTTTTGCTTTAAAAATTTGGAGACACTAC
131 ACTACCCTACACATGATCTTGAGTTAGCTGCTATCGTTTTTACTTTAAAAATTTGGAGACACTAC
*
25169348 CTCTATGGTGAGAAATGTTATGTGTATACAGACCATAAAAGTTTGAAGTATTTAATATCGCAGAA
196 CTCTATGGTGAGAAATGTTATGTGTATACAGACCATAAAAGTTTGAAGTATTTAATATCACAGAA
*
25169413 AGAGCTGAACTTAAGACAGAGACGATGGCTAG
261 AGAGCTGAACTTAAGACAGAGAAGATGGCTAG
25169445 AGCTACTGAA
Statistics
Matches: 278, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
299 278 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (299 bp):
ACTCAACCTGAGTCAGGTGTGTCATATGTGCTATATAGTGATACGTCTCTGAATGGTTTAGGCTG
TGTACTGATGCAGTCAGGAAAAGTTGTAGCATATGCTTCTCAGCAGTTGAAATCACATGAGAGGA
ACTACCCTACACATGATCTTGAGTTAGCTGCTATCGTTTTTACTTTAAAAATTTGGAGACACTAC
CTCTATGGTGAGAAATGTTATGTGTATACAGACCATAAAAGTTTGAAGTATTTAATATCACAGAA
AGAGCTGAACTTAAGACAGAGAAGATGGCTAGCTTGTTA
Found at i:25184897 original size:13 final size:13
Alignment explanation
Indices: 25184879--25184919 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
25184869 ATAGTTTAAT
25184879 AATAAAATAAATA
1 AATAAAATAAATA
*
25184892 AATAAAATAAAGA
1 AATAAAATAAATA
25184905 AAT-AAATGAAATA
1 AATAAAAT-AAATA
25184918 AA
1 AA
25184920 AGAAATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (13 bp):
AATAAAATAAATA
Found at i:25184909 original size:17 final size:18
Alignment explanation
Indices: 25184879--25184925 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
25184869 ATAGTTTAAT
*
25184879 AATAAAATAAATAAATAA
1 AATAAAAGAAATAAATAA
*
25184897 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATAA
25184914 AATAAAAGAAAT
1 AATAAAAGAAAT
25184926 GAAAGCAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
AATAAAAGAAATAAATAA
Found at i:25184924 original size:9 final size:9
Alignment explanation
Indices: 25184879--25184930 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
25184869 ATAGTTTAAT
*
25184879 AATAAAATA
1 AATAAAAGA
25184888 AATAAATA-A
1 AATAAA-AGA
25184897 AAT-AAAGA
1 AATAAAAGA
*
25184905 AATAAATGA
1 AATAAAAGA
25184914 AATAAAAGA
1 AATAAAAGA
*
25184923 AATGAAAG
1 AATAAAAG
25184931 CAAACGAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 1 0.03
8 6 0.16
9 29 0.78
10 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (9 bp):
AATAAAAGA
Found at i:25184965 original size:4 final size:4
Alignment explanation
Indices: 25184956--25184989 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
25184946 AGAACAGGGG
*
25184956 AGAA AGAA AGGAA AGAA AGAA AGAA AGAG AGAA A
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A
25184990 AGGGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:25186344 original size:469 final size:467
Alignment explanation
Indices: 25185342--25186735 Score: 2608
Period size: 469 Copynumber: 3.0 Consensus size: 467
25185332 TAAAGTATGA
25185342 ATTAAGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGTAGAAAATCAACA
1 ATTAAGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGTAGAAAATCAACA
25185407 TTTTACACTAAGACTATTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATCAAAAATTGTA
66 TTTTACACTAAGACTATTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATCAAAAATTGTA
* *
25185472 GAAACTGAATTAGAGAATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTTATAAAA
131 GAAATTGAATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTTATAAAA
*
25185537 GAAACGGTTTAAGTAATTGAATTGTAAATTATGAGATATAATGAATTTTGTGAGACAAGGTCAGA
196 GAAACGGTTTAAGCAATTGAATTGTAAATTATGAGATATAATGAATTTTGTGAGACAAGGTCAGA
* *
25185602 ATAAATTCGGGTTCCCCTGTTCTGACTTTGGAAAATCACCAAAAATTGGAAAAAAATAATTAGAG
261 ATGAATTCGGGTTCCCCTGTTCTGACTTTGGAAAATCACCAAAAATTGGAGAAAAATAATTAGAG
*
25185667 GGTTAAAGTTATATGTTTAGAATCCCTAATGAGTCTATTTTTAGGAGAAATAAACAGGAATATTA
326 GGTTAAAGTTATATGTTTAGAATCCCTAATGAGTCTATTTTTAGGAGAAATCAACAGGAATATTA
*
25185732 TCCGAGTTCTGTACTGTGAGATAATTAATTTTTAGTGAAGAAGGATCGAAACTGTCAAACAGCAG
391 TCCGAGTTCTGTACTGTGAGATAATTAATTTTTAGTGAAGAAGGATCGAAACTGTCAGACAGCAG
25185797 AATTTAGTTAGG
456 AATTTAGTTAGG
25185809 ATTAAGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGTAGAAAATCAACA
1 ATTAAGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGTAGAAAATCAACA
*
25185874 TTTTTCACTAAGACTATTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATCAAAAATTGTA
66 TTTTACACTAAGACTATTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATCAAAAATTGTA
25185939 GAAATTGAATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTTATAAAA
131 GAAATTGAATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTTATAAAA
25186004 GAAACGGTTTAAGCAATTGAATTGTAAATTATGAGATATAATGAATTTTGTGAGACAAGGTCAGA
196 GAAACGGTTTAAGCAATTGAATTGTAAATTATGAGATATAATGAATTTTGTGAGACAAGGTCAGA
25186069 ATGAATTCGGGTTCCCCTGTGTTCTGACTTTGGAAAATCACCAAAAATTGGAGAAAAATAATTAG
261 ATGAATTCGGGTTCCCC--TGTTCTGACTTTGGAAAATCACCAAAAATTGGAGAAAAATAATTAG
25186134 AGGGTTAAAGTTATATGTTTAGAATCCCTAATGAGTCTATTTTTAGGAGAAATCAACAGGAATAT
324 AGGGTTAAAGTTATATGTTTAGAATCCCTAATGAGTCTATTTTTAGGAGAAATCAACAGGAATAT
*
25186199 TATCCGAGTTCTGTACTGTGAGATAATTAATTTTTAGTGAAGAAGGGTCGAAACTGTCAGACAGC
389 TATCCGAGTTCTGTACTGTGAGATAATTAATTTTTAGTGAAGAAGGATCGAAACTGTCAGACAGC
25186264 AGAATTTAGTTAGG
454 AGAATTTAGTTAGG
25186278 ATTAAGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGTAGAAAATCAACA
1 ATTAAGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGTAGAAAATCAACA
* * * *
25186343 TTTTGCACTAAGACTATTTTGGACAACAGCAGTAGTCTAACTTTGAAAAATCATTAAAAATTTTA
66 TTTTACACTAAGACTATTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATCAAAAATTGTA
25186408 GAAATTGAATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTTATAAAA
131 GAAATTGAATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTTATAAAA
*
25186473 GAAACAGTTTAAGCAATTGAATTGTAAATTATGAGATATAATGAATTTTGTGAGACAAGGTCAGA
196 GAAACGGTTTAAGCAATTGAATTGTAAATTATGAGATATAATGAATTTTGTGAGACAAGGTCAGA
*
25186538 ATGAATTCGGGTTCCCCTGTTCTGAATTTGGAAAATCACCAAAAATTGGAGAAAAATAATTAGAG
261 ATGAATTCGGGTTCCCCTGTTCTGACTTTGGAAAATCACCAAAAATTGGAGAAAAATAATTAGAG
*
25186603 GGTTAAAGTTATATGTTTAGAATCCTTAATGAGTCTATTTTTAGGAGAAATCAACAGGAATATTA
326 GGTTAAAGTTATATGTTTAGAATCCCTAATGAGTCTATTTTTAGGAGAAATCAACAGGAATATTA
* *
25186668 TTCGAGTTATGTACTGTGAGATAATTAATTTTTAGTGAAGAAGGATCGAAACTGTCAGACAGCAG
391 TCCGAGTTCTGTACTGTGAGATAATTAATTTTTAGTGAAGAAGGATCGAAACTGTCAGACAGCAG
25186733 AAT
456 AAT
25186736 AGGGGTGAAT
Statistics
Matches: 906, Mismatches: 19, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
467 448 0.49
469 458 0.51
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (467 bp):
ATTAAGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGTAGAAAATCAACA
TTTTACACTAAGACTATTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATCAAAAATTGTA
GAAATTGAATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTTATAAAA
GAAACGGTTTAAGCAATTGAATTGTAAATTATGAGATATAATGAATTTTGTGAGACAAGGTCAGA
ATGAATTCGGGTTCCCCTGTTCTGACTTTGGAAAATCACCAAAAATTGGAGAAAAATAATTAGAG
GGTTAAAGTTATATGTTTAGAATCCCTAATGAGTCTATTTTTAGGAGAAATCAACAGGAATATTA
TCCGAGTTCTGTACTGTGAGATAATTAATTTTTAGTGAAGAAGGATCGAAACTGTCAGACAGCAG
AATTTAGTTAGG
Found at i:25187112 original size:15 final size:15
Alignment explanation
Indices: 25187071--25187117 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25187061 GAATTTATCA
*
25187071 AATTTATATTGATTG
1 AATTTTTATTGATTG
**
25187086 AAATCATT-TTGATTG
1 -AATTTTTATTGATTG
25187101 AATTTTTATTGATTG
1 AATTTTTATTGATTG
25187116 AA
1 AA
25187118 ATATATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 5 0.20
15 16 0.64
16 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (15 bp):
AATTTTTATTGATTG
Found at i:25187753 original size:18 final size:19
Alignment explanation
Indices: 25187732--25187772 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
25187722 AATGAAATGA
25187732 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
25187750 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
25187769 GAAA
1 GAAA
25187773 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:25191726 original size:41 final size:37
Alignment explanation
Indices: 25191620--25191726 Score: 88
Period size: 38 Copynumber: 2.8 Consensus size: 37
25191610 TCGGATAGTT
* * **
25191620 CGAAGCAAAGTTGACACCCAGTGTCTCATTGGCTTAGC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAATTAGC
** ** *
25191658 CGAAGTAAAGTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAAT-TAGC
25191696 CGAAGTAAAATAGTGACACCCAGTGTCTCAT
1 CGAAGT--AA-AGTGACACCCAGTGTCTCAT
25191727 AGACTCAAGG
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
37 16 0.31
38 18 0.35
40 2 0.04
41 16 0.31
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (37 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAATTAGC
Found at i:25192444 original size:22 final size:24
Alignment explanation
Indices: 25192404--25192447 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
25192394 TAACTAAGTT
25192404 TACTTACTATTCTAACTTAATTCG
1 TACTTACTATTCTAACTTAATTCG
*
25192428 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTATTCTAACTTAATT
25192448 TCTTGCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.25, C:0.20, G:0.02, T:0.52
Consensus pattern (24 bp):
TACTTACTATTCTAACTTAATTCG
Found at i:25192857 original size:2 final size:2
Alignment explanation
Indices: 25192850--25192888 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25192840 CTTTATGACT
25192850 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25192889 TATTTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25194602 original size:84 final size:81
Alignment explanation
Indices: 25194514--25194757 Score: 278
Period size: 84 Copynumber: 2.9 Consensus size: 81
25194504 TACGTCTTTG
* * * * *
25194514 TTTGGAAACAAAACAATATCGAATAAAATCTTGTTAAATAGAGGGAATAAATATTGAAACATATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATAG-GGGAATAAAT-TCGAAACAAATT
25194579 TTATTTAATTTAGTT-TGAA
64 TTATTTAATTTA-TTCT-AA
* * * *
25194598 TTTGGAAACAAAATAAAATCAAATTAAATCTTGTTAAAT-GGTGAGAATAAATCCCGAAATAGAT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATAGG-G-GAATAAAT-TCGAAACAAAT
25194662 TTTATTTAATTCTATTCTAA
63 TTTATTTAATT-TATTCTAA
*
25194682 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAA-CGGGGAAATAAATTCCGAAACAAATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATAGGGG-AATAAATT-CGAAACAAATT
*
25194746 TTATTTTATTTA
64 TTATTTAATTTA
25194758 ATTTCTTGTT
Statistics
Matches: 139, Mismatches: 14, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
82 4 0.03
83 28 0.20
84 104 0.75
85 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.35
Consensus pattern (81 bp):
TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATAGGGGAATAAATTCGAAACAAATTTT
ATTTAATTTATTCTAA
Found at i:25195024 original size:77 final size:78
Alignment explanation
Indices: 25194766--25195076 Score: 435
Period size: 80 Copynumber: 4.0 Consensus size: 78
25194756 TAATTTCTTG
* * *
25194766 TTTTTGGAAATAAACCAAATTTGGAATGAAATCATTGAATGGCGGGAATCAATCCCGAAACGATT
1 TTTTTAGAAATAAAACAAATTTGGAATAAAATCATTGAATGGCGGGAATCAATCCCGAAACGATT
25194831 TTTATTTTACTCA
66 TTTATTTTACTCA
* * * * *
25194844 TTTTTTTGGAAATAAAACAAATGTAGAATAAAATCATTGAACGGCGAGAATCAATCCCGAAACGA
1 --TTTTTAGAAATAAAACAAATTTGGAATAAAATCATTGAATGGCGGGAATCAATCCCGAAACGA
* *
25194909 TTTTTATATTACTCG
64 TTTTTATTTTACTCA
* * * *
25194924 TTTTTAGTAATAAAACAAATTTGGAATAAAATCATTGAATGGTGGGAATCGATCCTGAAACGA-T
1 TTTTTAGAAATAAAACAAATTTGGAATAAAATCATTGAATGGCGGGAATCAATCCCGAAACGATT
25194988 TTTATTTTACTCA
66 TTTATTTTACTCA
* * * *
25195001 TTTTTAGAAATAAAACAATTTTGGAATAAAATCGTTGAATGGCGGGAATCAATCTCGAAATGATT
1 TTTTTAGAAATAAAACAAATTTGGAATAAAATCATTGAATGGCGGGAATCAATCCCGAAACGATT
25195066 TTTATTTTACT
66 TTTATTTTACT
25195077 TTTAATTTCC
Statistics
Matches: 203, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
77 67 0.33
78 66 0.33
80 70 0.34
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (78 bp):
TTTTTAGAAATAAAACAAATTTGGAATAAAATCATTGAATGGCGGGAATCAATCCCGAAACGATT
TTTATTTTACTCA
Found at i:25197658 original size:2 final size:2
Alignment explanation
Indices: 25197647--25197681 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
25197637 ATTAAGTTAT
25197647 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25197682 AAAAGTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25197706 original size:15 final size:15
Alignment explanation
Indices: 25197679--25197722 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
25197669 ATATATATAT
*
25197679 ATAAAAAGTAAAAGGA
1 ATAAAAAG-AAAAAGA
25197695 ATAAAAAGAAAAAGA
1 ATAAAAAGAAAAAGA
25197710 ATAGAAAAAGAAA
1 AT--AAAAAGAAA
25197723 GAAAGGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (15 bp):
ATAAAAAGAAAAAGA
Found at i:25198583 original size:12 final size:12
Alignment explanation
Indices: 25198566--25198590 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25198556 GCCGACTACT
25198566 GTTACTGTTACC
1 GTTACTGTTACC
25198578 GTTACTGTTACC
1 GTTACTGTTACC
25198590 G
1 G
25198591 ATTCGGCACT
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:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:25198696 original size:47 final size:47
Alignment explanation
Indices: 25198621--25198737 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
25198611 GATGTTGTTA
* * *
25198621 CTGT-TACCATTACTGTTATTGTTTTGGATTTGTTCCGATGAGGTATT
1 CTGTGTACCA-TACTGTTACTGTTCTGGATTTGTTCCGATGAGGTACT
* *
25198668 GTGTGTACCATACTGTTACTGTTCTGGATTTGTTCCGGTGAGGTACT
1 CTGTGTACCATACTGTTACTGTTCTGGATTTGTTCCGATGAGGTACT
25198715 CTGTGTACCATACTGTTACTGTT
1 CTGTGTACCATACTGTTACTGTT
25198738 ACTGTTACTG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 58 0.92
48 5 0.08
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (47 bp):
CTGTGTACCATACTGTTACTGTTCTGGATTTGTTCCGATGAGGTACT
Found at i:25198736 original size:6 final size:6
Alignment explanation
Indices: 25198725--25198755 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
25198715 CTGTGTACCA
*
25198725 TACTGT TACTGT TACTGT TACTGT CACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
25198756 CCGGCTTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:25198938 original size:18 final size:18
Alignment explanation
Indices: 25198865--25198932 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
25198855 AACTGGAAAG
25198865 ATTGACTGTTACTGAATA
1 ATTGACTGTTACTGAATA
* * *
25198883 ATTTAATTGTTACTGTATA
1 A-TTGACTGTTACTGAATA
* * *
25198902 TTTGATTTTTACTGAATA
1 ATTGACTGTTACTGAATA
25198920 ATTGACTGTTACT
1 ATTGACTGTTACT
25198933 AGATAACCGA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (18 bp):
ATTGACTGTTACTGAATA
Found at i:25199811 original size:13 final size:13
Alignment explanation
Indices: 25199787--25199830 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
25199777 TTCCTGTAAA
*
25199787 CATTTCACATAAC
1 CATTTCATATAAC
**
25199800 CATTTTGTATAAC
1 CATTTCATATAAC
*
25199813 CAATTCATATAAC
1 CATTTCATATAAC
25199826 CATTT
1 CATTT
25199831 GTCATCTGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:25200229 original size:46 final size:46
Alignment explanation
Indices: 25199913--25200224 Score: 419
Period size: 46 Copynumber: 6.7 Consensus size: 46
25199903 TTATCTTCGA
* * * * *
25199913 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTT-ATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TTCATTTCCTGT
25199959 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CCTGT
** *
25200006 CATGTTGCTGTGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCCTGT
*
25200053 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * *
25200099 CACGTTGCCATGGTATCTTTTAACCATGGTCTTATTCATTTCTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* ** * * *
25200145 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
25200191 CATGTTGCCATGGTATCTTTCAACCATTGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
25200225 CACATTTCAT
Statistics
Matches: 241, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 2 0.01
46 156 0.65
47 80 0.33
48 3 0.01
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:25209072 original size:33 final size:33
Alignment explanation
Indices: 25209035--25209112 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
25209025 ATAACCCGAT
* *
25209035 TATGGTCTTTTTAGTCGATTGTCATAGTCC-AGC
1 TATGGTCTTATTAGTCGATTGCCATAG-CCAAGC
*
25209068 TATGGTCTTATTATTCGATTGCCATAGCCAAGC
1 TATGGTCTTATTAGTCGATTGCCATAGCCAAGC
*
25209101 TATGATCTTATT
1 TATGGTCTTATT
25209113 TGGCAACTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.05
33 38 0.95
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (33 bp):
TATGGTCTTATTAGTCGATTGCCATAGCCAAGC
Found at i:25209708 original size:43 final size:43
Alignment explanation
Indices: 25209588--25209708 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
25209578 TCTCATATCG
* * * *
25209588 ATGCTAATGTCCTAGACACGGTCTTACACGAAATCATAAAACG
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCATAAAACA
* **
25209631 ATGCCAATGTCCTAGACATGGTCTTACACATAATCATAGTACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCATAAAACA
* * *
25209674 ATGGCAATGTCCTAGACATGGTTTTACATGTAATC
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATC
25209709 TCATCTCGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGTAATCATAAAACA
Found at i:25218734 original size:13 final size:13
Alignment explanation
Indices: 25218716--25218740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25218706 GGACGTGTGA
25218716 GTCCACACGGGTT
1 GTCCACACGGGTT
25218729 GTCCACACGGGT
1 GTCCACACGGGT
25218741 GTGTGAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
GTCCACACGGGTT
Found at i:25220552 original size:22 final size:22
Alignment explanation
Indices: 25220526--25220604 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
25220516 TCAAAAATAA
25220526 AGTTTAGTTTAAAACTACTTCT
1 AGTTTAGTTTAAAACTACTTCT
*****
25220548 AGTTTAGTTTAAAACTAAAAGAA
1 AGTTTAGTTTAAAACT-ACTTCT
25220571 AGTTTAGTTTAAAACTACTTCT
1 AGTTTAGTTTAAAACTACTTCT
* *
25220593 TGTTTAGATTAA
1 AGTTTAGTTTAA
25220605 TTAGAATTCT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
22 27 0.61
23 17 0.39
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (22 bp):
AGTTTAGTTTAAAACTACTTCT
Found at i:25220578 original size:45 final size:45
Alignment explanation
Indices: 25220519--25220604 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
25220509 TTTTATTTCA
* *
25220519 AAAATAAAGTTTAGTTTAAAACTACTTCTAGTTTAGTTTAAAACT
1 AAAAGAAAGTTTAGTTTAAAACTACTTCTAGTTTAGATTAAAACT
*
25220564 AAAAGAAAGTTTAGTTTAAAACTACTTCTTGTTTAGATTAA
1 AAAAGAAAGTTTAGTTTAAAACTACTTCTAGTTTAGATTAA
25220605 TTAGAATTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (45 bp):
AAAAGAAAGTTTAGTTTAAAACTACTTCTAGTTTAGATTAAAACT
Found at i:25220936 original size:11 final size:11
Alignment explanation
Indices: 25220920--25220944 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25220910 ATGTTCTAAA
25220920 AGATTGTTAAT
1 AGATTGTTAAT
25220931 AGATTGTTAAT
1 AGATTGTTAAT
25220942 AGA
1 AGA
25220945 ACCACCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (11 bp):
AGATTGTTAAT
Found at i:25222881 original size:42 final size:42
Alignment explanation
Indices: 25222813--25223017 Score: 266
Period size: 42 Copynumber: 4.9 Consensus size: 42
25222803 GTTTCCGTTC
* * * *
25222813 AACCCTAATAGGTTTCTGTTCTGCTCTTTTGAGCTTCTATTT
1 AACCCTTATGGGTTTCTATTCAGCTCTTTTGAGCTTCTATTT
* *
25222855 AACCCTTATGGGTTTTTATTCAGCTCTTTTGAGCTTCCATTT
1 AACCCTTATGGGTTTCTATTCAGCTCTTTTGAGCTTCTATTT
* * *
25222897 AACTCTTATGGGTTTTTATTCAGCTCTTTTGAGCTTCTGTTT
1 AACCCTTATGGGTTTCTATTCAGCTCTTTTGAGCTTCTATTT
** * * *
25222939 AACTTTTATGGGTTTCTGTTAAGCTCTTTTGAGCTTCTGTTT
1 AACCCTTATGGGTTTCTATTCAGCTCTTTTGAGCTTCTATTT
* *
25222981 AACCCTTATGGATTTCTATTCAGCTCTTATGAGCTTC
1 AACCCTTATGGGTTTCTATTCAGCTCTTTTGAGCTTC
25223018 CAATCAGCCT
Statistics
Matches: 144, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 144 1.00
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.48
Consensus pattern (42 bp):
AACCCTTATGGGTTTCTATTCAGCTCTTTTGAGCTTCTATTT
Found at i:25222923 original size:21 final size:21
Alignment explanation
Indices: 25222859--25222924 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
25222849 CTATTTAACC
25222859 CTTATGGGTTTTTATTCAGCT
1 CTTATGGGTTTTTATTCAGCT
* * * ** * *
25222880 CTTTTGAGCTTCCATTTAACT
1 CTTATGGGTTTTTATTCAGCT
25222901 CTTATGGGTTTTTATTCAGCT
1 CTTATGGGTTTTTATTCAGCT
25222922 CTT
1 CTT
25222925 TTGAGCTTCT
Statistics
Matches: 31, Mismatches: 14, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (21 bp):
CTTATGGGTTTTTATTCAGCT
Found at i:25222956 original size:21 final size:21
Alignment explanation
Indices: 25222931--25222997 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
25222921 TCTTTTGAGC
25222931 TTCTGTTTAACTTTTATGGGT
1 TTCTGTTTAACTTTTATGGGT
* *
25222952 TTCTG-TTAAGCTCTTT-TGAGC
1 TTCTGTTTAA-CT-TTTATGGGT
** *
25222973 TTCTGTTTAACCCTTATGGAT
1 TTCTGTTTAACTTTTATGGGT
25222994 TTCT
1 TTCT
25222998 ATTCAGCTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
20 6 0.17
21 22 0.63
22 7 0.20
ACGTcount: A:0.15, C:0.16, G:0.16, T:0.52
Consensus pattern (21 bp):
TTCTGTTTAACTTTTATGGGT
Found at i:25223039 original size:42 final size:42
Alignment explanation
Indices: 25222823--25223042 Score: 253
Period size: 42 Copynumber: 5.2 Consensus size: 42
25222813 AACCCTAATA
* * *
25222823 GGTTTCTGTTCTGCTCTTTTGAGCTTCTATTTAACCCTTATG
1 GGTTTCTATTCAGCTCTTTTGAGCTTCTATTTAACCTTTATG
* *
25222865 GGTTTTTATTCAGCTCTTTTGAGCTTCCATTTAA-CTCTTATG
1 GGTTTCTATTCAGCTCTTTTGAGCTTCTATTTAACCT-TTATG
* * *
25222907 GGTTTTTATTCAGCTCTTTTGAGCTTCTGTTTAACTTTTATG
1 GGTTTCTATTCAGCTCTTTTGAGCTTCTATTTAACCTTTATG
* * * *
25222949 GGTTTCTGTTAAGCTCTTTTGAGCTTCTGTTTAACCCTTATG
1 GGTTTCTATTCAGCTCTTTTGAGCTTCTATTTAACCTTTATG
* * * * * * *
25222991 GATTTCTATTCAGCTCTTATGAGCTTCCAATCAGCCTTTACG
1 GGTTTCTATTCAGCTCTTTTGAGCTTCTATTTAACCTTTATG
25223033 GGTTTCTATT
1 GGTTTCTATT
25223043 TAGCATTTAT
Statistics
Matches: 151, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
41 1 0.01
42 149 0.99
43 1 0.01
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (42 bp):
GGTTTCTATTCAGCTCTTTTGAGCTTCTATTTAACCTTTATG
Found at i:25225385 original size:49 final size:49
Alignment explanation
Indices: 25225313--25225410 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
25225303 ACCAATACAC
*
25225313 TTAACTTATCACATAATTCACTTTAGTCCTTTGAAAAATAACAAGAATT
1 TTAACTTATCACAAAATTCACTTTAGTCCTTTGAAAAATAACAAGAATT
25225362 TTAACTTATCACAAAATTCACTTTAGTCCTTTGAAAAATAACAAGAATT
1 TTAACTTATCACAAAATTCACTTTAGTCCTTTGAAAAATAACAAGAATT
25225411 ATTTAAAGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (49 bp):
TTAACTTATCACAAAATTCACTTTAGTCCTTTGAAAAATAACAAGAATT
Found at i:25231507 original size:25 final size:24
Alignment explanation
Indices: 25231478--25231525 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
25231468 TTTTAAAAAT
*
25231478 ATATAAAATATAAATATATCAATAC
1 ATATAAAATAAAAATATAT-AATAC
*
25231503 ATATAAATTAAAAATATATAATA
1 ATATAAAATAAAAATATATAATA
25231526 AAAAACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
ATATAAAATAAAAATATATAATAC
Found at i:25231657 original size:39 final size:39
Alignment explanation
Indices: 25231604--25231685 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
25231594 AAATTAAAAA
25231604 TATATATAAATAAATAAAACAACTAAAATTTTATGATTT
1 TATATATAAATAAATAAAACAACTAAAATTTTATGATTT
25231643 TATATATAAATAAATAAAACAACTAAAATTTTATGATTT
1 TATATATAAATAAATAAAACAACTAAAATTTTATGATTT
25231682 TATA
1 TATA
25231686 AATTTATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (39 bp):
TATATATAAATAAATAAAACAACTAAAATTTTATGATTT
Found at i:25232606 original size:37 final size:37
Alignment explanation
Indices: 25232564--25232637 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
25232554 CACATGATGA
25232564 GTTATGATACGCATTTTGGAGATTTATGTATGGGTTT
1 GTTATGATACGCATTTTGGAGATTTATGTATGGGTTT
25232601 GTTATGATACGCATTTTGGAGATTTATGTATGGGTTT
1 GTTATGATACGCATTTTGGAGATTTATGTATGGGTTT
25232638 ACAATTCCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.05, G:0.27, T:0.46
Consensus pattern (37 bp):
GTTATGATACGCATTTTGGAGATTTATGTATGGGTTT
Found at i:25250169 original size:13 final size:14
Alignment explanation
Indices: 25250142--25250174 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
25250132 TAGATCTGTA
25250142 AATTAAAAAACAAT
1 AATTAAAAAACAAT
*
25250156 AATTAAAATA-AAT
1 AATTAAAAAACAAT
25250169 AATTAA
1 AATTAA
25250175 GATGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTAAAAAACAAT
Found at i:25258472 original size:42 final size:42
Alignment explanation
Indices: 25258392--25258521 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
25258382 CGTGTGCCCA
* * * *
25258392 TGTGAACCACACGGGCATACGACATGGGCGTGT-TCCAGGCCG
1 TGTGAGCCACACGAGCA-AGGACATGGCCGTGTGTCCAGGCCG
* **
25258434 TGTGAGCCATACGAGCAAGGACATGGCCGTGTGTCCAGGCTA
1 TGTGAGCCACACGAGCAAGGACATGGCCGTGTGTCCAGGCCG
*
25258476 TGTGAGCCACACGAGCAAGGACATGGCCGTGTGTCTAGGCCG
1 TGTGAGCCACACGAGCAAGGACATGGCCGTGTGTCCAGGCCG
25258518 TGTG
1 TGTG
25258522 GCATCTAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 13 0.17
42 63 0.83
ACGTcount: A:0.22, C:0.25, G:0.35, T:0.18
Consensus pattern (42 bp):
TGTGAGCCACACGAGCAAGGACATGGCCGTGTGTCCAGGCCG
Found at i:25263872 original size:14 final size:14
Alignment explanation
Indices: 25263853--25263886 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25263843 TTATTTCATT
25263853 GAAAATAACTTTCA
1 GAAAATAACTTTCA
* *
25263867 GAAAATAATTTTTA
1 GAAAATAACTTTCA
25263881 GAAAAT
1 GAAAAT
25263887 GATTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (14 bp):
GAAAATAACTTTCA
Found at i:25263958 original size:33 final size:33
Alignment explanation
Indices: 25263909--25264000 Score: 114
Period size: 32 Copynumber: 2.8 Consensus size: 33
25263899 TAGAAAAGTT
* *
25263909 AATATTTTTTGGTGTTTAGTTGAATTTGTGCAA
1 AATATTTTCTGGTGTTTAGTTGAATTTGTGAAA
* * * * *
25263942 AATATTTTCTGTTGTTTGGTAG-ATTTTTTAAA
1 AATATTTTCTGGTGTTTAGTTGAATTTGTGAAA
25263974 AATATTTTCTGGTGTTTAGTTGAATTT
1 AATATTTTCTGGTGTTTAGTTGAATTT
25264001 ATTTTTATCT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
32 26 0.54
33 22 0.46
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.54
Consensus pattern (33 bp):
AATATTTTCTGGTGTTTAGTTGAATTTGTGAAA
Found at i:25264321 original size:15 final size:15
Alignment explanation
Indices: 25264301--25264352 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
25264291 ACTACAAAAC
25264301 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
25264316 ATTTATAATTGCAATAAAT
1 ATTTATTATT--AAT--AT
*
25264335 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
25264350 ATT
1 ATT
25264353 AATATTGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 14 0.47
17 5 0.17
19 11 0.37
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:25264410 original size:15 final size:17
Alignment explanation
Indices: 25264385--25264421 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
25264375 ATGTGAATAA
25264385 TATTATTTAAAATT-AT
1 TATTATTTAAAATTAAT
25264401 TATT-TTTAAAATTAAT
1 TATTATTTAAAATTAAT
25264417 TATTA
1 TATTA
25264422 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATTTAAAATTAAT
Found at i:25264471 original size:22 final size:22
Alignment explanation
Indices: 25264445--25264488 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25264435 ATATTAAGTA
25264445 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
25264467 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
25264489 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:25265033 original size:6 final size:6
Alignment explanation
Indices: 25265018--25265048 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25265008 TAGATAATAA
25265018 AAAT-T AAATCT AAATCT AAATCT AAATCT AA
1 AAATCT AAATCT AAATCT AAATCT AAATCT AA
25265049 CTTAAAACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATCT
Found at i:25268836 original size:2 final size:2
Alignment explanation
Indices: 25268829--25268874 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
25268819 CATTTATCTC
*
25268829 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25268871 AT AT
1 AT AT
25268875 TACAAGGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25269555 original size:2 final size:2
Alignment explanation
Indices: 25269550--25269575 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25269540 TTTTATCTTT
25269550 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25269576 GTTATTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25271319 original size:7 final size:7
Alignment explanation
Indices: 25271307--25271343 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
25271297 TTGTTTCAAG
25271307 ATTTTTA
1 ATTTTTA
25271314 ATTTTTA
1 ATTTTTA
25271321 A-TTTTA
1 ATTTTTA
25271327 ATTTTT-
1 ATTTTTA
*
25271333 ATCTTTA
1 ATTTTTA
25271340 ATTT
1 ATTT
25271344 ATGTTTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTTA
Found at i:25271352 original size:13 final size:13
Alignment explanation
Indices: 25271307--25271359 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
25271297 TTGTTTCAAG
*
25271307 ATTTTTAATTTTT
1 ATTTTTAATTTAT
* *
25271320 AATTTTAATTTTT
1 ATTTTTAATTTAT
*
25271333 ATCTTTAATTTAT
1 ATTTTTAATTTAT
* *
25271346 GTTTTTAGTTTAT
1 ATTTTTAATTTAT
25271359 A
1 A
25271360 AATGTGTTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (13 bp):
ATTTTTAATTTAT
Found at i:25272220 original size:26 final size:27
Alignment explanation
Indices: 25272166--25272220 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
25272156 TTAAAAAGTA
25272166 AAAATTAAAATAAGAAAAAAGCTTGAAAC
1 AAAATTAAAAT-A-AAAAAAGCTTGAAAC
*
25272195 AAAATTAAAAT-AAAAAAGCTTTAAAC
1 AAAATTAAAATAAAAAAAGCTTGAAAC
25272221 CACATGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 14 0.56
29 11 0.44
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.20
Consensus pattern (27 bp):
AAAATTAAAATAAAAAAAGCTTGAAAC
Found at i:25272235 original size:26 final size:26
Alignment explanation
Indices: 25272177--25272236 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
25272167 AAATTAAAAT
*
25272177 AAGAAAAAAGCTTGAAACAAAATTAA
1 AAGAAAAAAGCTTGAAACAAAATGAA
* * * *
25272203 AATAAAAAAGCTTTAAACCACATGAA
1 AAGAAAAAAGCTTGAAACAAAATGAA
*
25272229 TAGAAAAA
1 AAGAAAAA
25272237 CCTAAAATGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (26 bp):
AAGAAAAAAGCTTGAAACAAAATGAA
Found at i:25277096 original size:6 final size:6
Alignment explanation
Indices: 25277085--25277110 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25277075 AGAGGAAAAC
25277085 AAAGGA AAAGGA AAAGGA AAAGGA AA
1 AAAGGA AAAGGA AAAGGA AAAGGA AA
25277111 GAGCGAAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:25277967 original size:24 final size:24
Alignment explanation
Indices: 25277922--25277967 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25277912 ATATTTTCTC
**
25277922 ATAAACAAATTTATGTAAAATTAT
1 ATAAACAAAAATATGTAAAATTAT
25277946 ATAAACAAAAATAT-TAATAATT
1 ATAAACAAAAATATGTAA-AATT
25277968 GATTTTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAAACAAAAATATGTAAAATTAT
Found at i:25285395 original size:43 final size:43
Alignment explanation
Indices: 25285348--25285494 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 43
25285338 TATCCCAAAT
* * *
25285348 ATGGTCTTACATGTTATCATATATCGATGCCAACGTCCCAGAC
1 ATGGTCTTACACGTAATCATATATCGATGCCAATGTCCCAGAC
* *
25285391 ATGGTCTTACACGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCATATATCGATGCCAATGTCCCAGAC
* * *
25285434 ATGGTCTTACACATAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCATATAT-CGATGCCAATGTCCCAGAC
* *
25285477 CTGGTCTTACATGTAATC
1 ATGGTCTTACACGTAATC
25285495 CAATCTCGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 89 0.99
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCATATATCGATGCCAATGTCCCAGAC
Found at i:25292956 original size:43 final size:43
Alignment explanation
Indices: 25292900--25293132 Score: 219
Period size: 43 Copynumber: 5.5 Consensus size: 43
25292890 CAATGTCATA
** *
25292900 TCCCAGATATGGTCTTACAAGTTATCATATATCGATGCCAATG
1 TCCCAGACGTGGTCTTACATGTTATCATATATCGATGCCAATG
* **
25292943 TTCCAGACGTGGTCTTACATGAAATCATATAAT-GATGCCAATG
1 TCCCAGACGTGGTCTTACATGTTATCATAT-ATCGATGCCAATG
** **
25292986 TCCCAGAAATGGTCTTACATGTTATCATATATCGATGCCAACA
1 TCCCAGACGTGGTCTTACATGTTATCATATATCGATGCCAATG
** * *
25293029 TCCCAGACGTGGTCTTACATGAAATCACATAAT-AATGCCAATG
1 TCCCAGACGTGGTCTTACATGTTATCATAT-ATCGATGCCAATG
** * *
25293072 TCCCAGAAATGGTC--AC--GTAATCAGA-ATACGATGCCAATG
1 TCCCAGACGTGGTCTTACATGTTATCATATAT-CGATGCCAATG
*
25293111 TCCCAGACATGGTCTTACATGT
1 TCCCAGACGTGGTCTTACATGT
25293133 AATCTCATCT
Statistics
Matches: 154, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
37 2 0.01
39 29 0.19
41 4 0.03
42 2 0.01
43 113 0.73
44 4 0.03
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGTTATCATATATCGATGCCAATG
Found at i:25293045 original size:86 final size:85
Alignment explanation
Indices: 25292900--25293136 Score: 329
Period size: 86 Copynumber: 2.8 Consensus size: 85
25292890 CAATGTCATA
* *
25292900 TCCCAGATATGGTCTTACAAGTTATCATATATCGATGCCAATGTTCCAGACGTGGTCTTACATGA
1 TCCCAGAAATGGTCTTAC-AGTTATCATATATCGATGCCAATGTCCCAGACGTGGTCTTACATGA
* *
25292965 AATCATATAATGATGCCAATG
65 AATCACATAATAATGCCAATG
**
25292986 TCCCAGAAATGGTCTTACATGTTATCATATATCGATGCCAACATCCCAGACGTGGTCTTACATGA
1 TCCCAGAAATGGTCTTACA-GTTATCATATATCGATGCCAATGTCCCAGACGTGGTCTTACATGA
25293051 AATCACATAATAATGCCAATG
65 AATCACATAATAATGCCAATG
* * * *
25293072 TCCCAGAAATGGTC--AC-GTAATCAGA-ATACGATGCCAATGTCCCAGACATGGTCTTACATGT
1 TCCCAGAAATGGTCTTACAGTTATCATATAT-CGATGCCAATGTCCCAGACGTGGTCTTACATGA
25293133 AATC
65 AATC
25293137 TCATCTCGAT
Statistics
Matches: 137, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
81 2 0.01
82 40 0.29
84 2 0.01
85 1 0.01
86 92 0.67
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (85 bp):
TCCCAGAAATGGTCTTACAGTTATCATATATCGATGCCAATGTCCCAGACGTGGTCTTACATGAA
ATCACATAATAATGCCAATG
Found at i:25303471 original size:17 final size:17
Alignment explanation
Indices: 25303449--25303483 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25303439 TATTAGTGTG
25303449 TGAAAAATTTGGTGAGT
1 TGAAAAATTTGGTGAGT
25303466 TGAAAAATTTGGTGAGT
1 TGAAAAATTTGGTGAGT
25303483 T
1 T
25303484 AATTTTGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (17 bp):
TGAAAAATTTGGTGAGT
Found at i:25309921 original size:46 final size:44
Alignment explanation
Indices: 25309707--25309923 Score: 174
Period size: 46 Copynumber: 4.7 Consensus size: 44
25309697 ATTGTGAGCT
* * * * *
25309707 AGTGTGAGACATGTCTGGGACGTGCATCGGCCATATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TATGA-GATGTGTC
*
25309753 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACAAGTG-C
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAG--ATGTGTC
** * *
25309800 TAGTGTAAGACATGTCTGGGACATGCATCAACCT-CGAGATGTAAGTT
1 -AGTGTAAGACATGTCTGGGACATGCATC-GGCTATGAGATGT--GTC
25309847 AGTGTAAGACATG-CTTGGGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTC-TGGGACATGCATCGGCTATGAGATGTGTC
25309891 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
25309924 ACAAATATGC
Statistics
Matches: 141, Mismatches: 13, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
44 14 0.10
45 17 0.12
46 61 0.43
47 31 0.22
48 18 0.13
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGTC
Found at i:25312289 original size:43 final size:43
Alignment explanation
Indices: 25312162--25312290 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
25312152 GTTACATGAA
* * * **
25312162 TCGCATCCATTATGAACTCAAACCTCTCAACGAGTTCAAATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
* * *
25312205 TCGCATCCATAATGAGCTC-GAACCTCTCAACTAGCTTGGATGC
1 TCGCATCCATAATGAACTCAG-ACCTCTCAACGAGCTCGGATGC
**
25312248 TCGCATCCATAACAAACTCAGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
25312291 CACATATCTC
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
43 70 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
Found at i:25319194 original size:47 final size:46
Alignment explanation
Indices: 25319089--25319207 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 46
25319079 TCATTTGTGC
25319089 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGG-CACATTGTGAGA
* *
25319135 GCCAATGAAAGACCATGTCTGGGACATGGCATC-G-AC-TTGATAGATGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACATTG-T-GA-GA
* *
25319182 GCTAGTGTAAGACCAGGTCTGGGACA
1 GCCAGTGTAAGACCATGTCTGGGACA
25319208 GGGAATTGGC
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
44 3 0.05
45 3 0.05
46 12 0.19
47 39 0.63
48 5 0.08
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCACATTGTGAGA
Found at i:25355311 original size:11 final size:11
Alignment explanation
Indices: 25355287--25355321 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
25355277 AAGCTCTTTT
25355287 TTTTTAATTAAA
1 TTTTTAATT-AA
25355299 TTTTTAATTAA
1 TTTTTAATTAA
25355310 TTTTTAATTAA
1 TTTTTAATTAA
25355321 T
1 T
25355322 AAACATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTAATTAA
Found at i:25355927 original size:109 final size:112
Alignment explanation
Indices: 25355734--25355958 Score: 277
Period size: 109 Copynumber: 2.1 Consensus size: 112
25355724 ATTATTTGAA
*
25355734 ATAT-TTTACATAAAA--AATGATATTTGAAATAATCATTTGATTTTTTTAATATTAGAATCTAC
1 ATATATTTAC-TAAAATCAATGATATTTGAAATAATCAATTGATTTTTTTAATATTAGAATCTAC
* ** * *
25355796 CATACCTACAATGTAGGTGGAAAAATATAAATATTT-ACATATAAAATT
65 AATACCTACAATGTACATGGAAAAA-ATAAACATTTAACATAAAAAATT
* * *
25355844 -TATATTTACTAAAATCAATGATATTTGAAATGATTAATTGA-TTTTTT-ATATTAGAATTTACA
1 ATATATTTACTAAAATCAATGATATTTGAAATAATCAATTGATTTTTTTAATATTAGAATCTACA
*
25355906 ATA-CTCACAATGTACATGGAAAAAATAAGCATTTAACATAAAAAATT
66 ATACCT-ACAATGTACATGGAAAAAATAAACATTTAACATAAAAAATT
25355953 ATATAT
1 ATATAT
25355959 AAAGAAAAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
108 10 0.10
109 51 0.52
110 16 0.16
111 22 0.22
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (112 bp):
ATATATTTACTAAAATCAATGATATTTGAAATAATCAATTGATTTTTTTAATATTAGAATCTACA
ATACCTACAATGTACATGGAAAAAATAAACATTTAACATAAAAAATT
Found at i:25356328 original size:27 final size:29
Alignment explanation
Indices: 25356295--25356371 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 29
25356285 AATAAAGAAA
*
25356295 TTATTAATTAAAAAATTAAAA-A-CATAT
1 TTATTAATTAAAAAATTAAAATAGCATAC
* *
25356322 TTGTTAATTAAAAACTTGAAAATAGCATAC
1 TTATTAATTAAAAAATT-AAAATAGCATAC
25356352 TTATTAATTAAAAAAATTAA
1 TTATTAATT-AAAAAATTAA
25356372 TTAAAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 15 0.37
28 4 0.10
29 1 0.02
30 14 0.34
31 7 0.17
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (29 bp):
TTATTAATTAAAAAATTAAAATAGCATAC
Found at i:25360488 original size:29 final size:29
Alignment explanation
Indices: 25360456--25360512 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
25360446 CACACGGTCG
25360456 TGTCCTTGCCCGTGTGACTCACACAGCCA
1 TGTCCTTGCCCGTGTGACTCACACAGCCA
*
25360485 TGTCTTTGCCCGTGTGACTCACACAGCC
1 TGTCCTTGCCCGTGTGACTCACACAGCC
25360513 TGGGGCACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.37, G:0.21, T:0.26
Consensus pattern (29 bp):
TGTCCTTGCCCGTGTGACTCACACAGCCA
Found at i:25360628 original size:42 final size:42
Alignment explanation
Indices: 25360569--25360656 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
25360559 ACAAGGAGTT
*
25360569 ACACGGCTTGGACACACGGCCGTGCCCTTGCCCGTGTGACTC
1 ACACGGCTTGGACACACGGCCGTGCCCTTGCCCGTGTAACTC
* ** **
25360611 ACACGGCTTGGACACACGGTCGTTTCCTTGCTTGTGTAACTC
1 ACACGGCTTGGACACACGGCCGTGCCCTTGCCCGTGTAACTC
25360653 ACAC
1 ACAC
25360657 AGCCTGGGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.17, C:0.34, G:0.25, T:0.24
Consensus pattern (42 bp):
ACACGGCTTGGACACACGGCCGTGCCCTTGCCCGTGTAACTC
Found at i:25361908 original size:483 final size:483
Alignment explanation
Indices: 25360941--25361909 Score: 1722
Period size: 483 Copynumber: 2.0 Consensus size: 483
25360931 TAGGGTTTCC
* *
25360941 AATATGCACCTGGAAAGATTTCGAAGTAACAACAACCCTAAAGATCCTCGAAGCCTAAAATAAGC
1 AATATGCACCTGGAAAGATTTCGAAATAACAACAACCCTAAAGATCCTCGAAGCCTAAAACAAGC
25361006 ATTCAGTAACACAATTTAGCCAATTAATCAGCAAAACTTCTCGATTACTCACTTAATACCCACGT
66 ATTCAGTAACACAATTTAGCCAATTAATCAGCAAAACTTCTCGATTACTCACTTAATACCCACGT
* *
25361071 CGAAAGTTTCGACACGAAACCTTCAAATGTCACAAACTTATCGAAACTTCAGCAACAATCACAAA
131 CGAAAGTTTCGACACGAAACCTTCAAATATCACAAACTTACCGAAACTTCAGCAACAATCACAAA
*
25361136 GATTGTCTTCTTGCTATTCCTTGCTGTTAATAGCTATGCCTGCTAAGTAAATACACACTCGTTTA
196 GATTGTCTTCTTGCTATTCATTGCTGTTAATAGCTATGCCTGCTAAGTAAATACACACTCGTTTA
* *
25361201 GAAAACATTCTCGAAACTCACAAAAATCCTTCATTCCAAATAATTTACAAAACGAAAGAAAATTC
261 GAAAACATTCTCGAAACTCACAAAAATCCTCCATTCCAAATAATTTACAAAACGAAAAAAAATTC
* * *
25361266 ACGGAGATGCTTGCATTGACAGTTACTTACGACAGTCTTCTGACCGATGACTAACAAAAGAACTT
326 ACGGAGATGCTCGCATTGACAGTTACTTACGACAGTCTTCTAACCGATGACAAACAAAAGAACTT
*
25361331 CCATTGATCCCGTATCCCCTCACCATTTCTGGTTAACAGCAAAAATATAAACGAAAAGAAGAACA
391 CCATTAATCCCGTATCCCCTCACCATTTCTGGTTAACAGCAAAAATATAAACGAAAAGAAGAACA
*
25361396 AAAATTTACAAAAATAGGAAGGAAAAAA
456 AAAATTTAAAAAAATAGGAAGGAAAAAA
*
25361424 AATATGCACCTGGAAAGATTTCGAAATGACAACAACCCTAAAGATCCTCGAAGCCTAAAACAAGC
1 AATATGCACCTGGAAAGATTTCGAAATAACAACAACCCTAAAGATCCTCGAAGCCTAAAACAAGC
*
25361489 ATTCGGTAACACAATTTAGCCAATTAATCAGCAAAACTTCTCGATTACTCACTTAATACCCACGT
66 ATTCAGTAACACAATTTAGCCAATTAATCAGCAAAACTTCTCGATTACTCACTTAATACCCACGT
*
25361554 CGAAAGTTTCGACACGAAACCTTCAGATATCACAAACTTACCGAAACTTCAGCAACAATCACAAA
131 CGAAAGTTTCGACACGAAACCTTCAAATATCACAAACTTACCGAAACTTCAGCAACAATCACAAA
25361619 GATTGTCTTCTTGCTATTCATTGCTGTTAATAGCTATGCCTGCTAAGTAAATACACACTCGTTTA
196 GATTGTCTTCTTGCTATTCATTGCTGTTAATAGCTATGCCTGCTAAGTAAATACACACTCGTTTA
* *
25361684 GAAAACATTCTCGAAACTCACAAAAATCCTCCGTTCCAAATAATTTACAAAATGAAAAAAAATTC
261 GAAAACATTCTCGAAACTCACAAAAATCCTCCATTCCAAATAATTTACAAAACGAAAAAAAATTC
** *
25361749 ACGGAGATGCTCGCATTGACAGTTACTTACCGACAGTCTTCTAATTGGTGACAAACAAAAGAACT
326 ACGGAGATGCTCGCATTGACAGTTACTTA-CGACAGTCTTCTAACCGATGACAAACAAAAGAACT
* *
25361814 TCCGTTAATCTCGTATCCCCTCACCATTTCTGGTTAACAGCAAAAATATAAACGAAAAGAAGAAC
390 TCCATTAATCCCGTATCCCCTCACCATTTCTGGTTAACAGCAAAAATATAAACGAAAAGAAGAAC
*
25361879 AAAAATTTAAAAAAATGGGAAGGAAAAAA
455 AAAAATTTAAAAAAATAGGAAGGAAAAAA
25361908 AA
1 AA
25361910 ACTATCGTTA
Statistics
Matches: 462, Mismatches: 23, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
483 341 0.74
484 121 0.26
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (483 bp):
AATATGCACCTGGAAAGATTTCGAAATAACAACAACCCTAAAGATCCTCGAAGCCTAAAACAAGC
ATTCAGTAACACAATTTAGCCAATTAATCAGCAAAACTTCTCGATTACTCACTTAATACCCACGT
CGAAAGTTTCGACACGAAACCTTCAAATATCACAAACTTACCGAAACTTCAGCAACAATCACAAA
GATTGTCTTCTTGCTATTCATTGCTGTTAATAGCTATGCCTGCTAAGTAAATACACACTCGTTTA
GAAAACATTCTCGAAACTCACAAAAATCCTCCATTCCAAATAATTTACAAAACGAAAAAAAATTC
ACGGAGATGCTCGCATTGACAGTTACTTACGACAGTCTTCTAACCGATGACAAACAAAAGAACTT
CCATTAATCCCGTATCCCCTCACCATTTCTGGTTAACAGCAAAAATATAAACGAAAAGAAGAACA
AAAATTTAAAAAAATAGGAAGGAAAAAA
Found at i:25370866 original size:42 final size:41
Alignment explanation
Indices: 25370806--25370901 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 41
25370796 ATAGCCCAGC
* * *
25370806 TATGGTCTTACACGAAATCTCATATCGATGTCATATCCCAAA
1 TATGGTCTTACACAAAATCGCATATAGATGTCA-ATCCCAAA
* * * *
25370848 TATGGTCTTATACAAAATCGCATATAGATTTCAATTCCAGA
1 TATGGTCTTACACAAAATCGCATATAGATGTCAATCCCAAA
25370889 TATGGTCTTACAC
1 TATGGTCTTACAC
25370902 GTAATCTCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 18 0.39
42 28 0.61
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (41 bp):
TATGGTCTTACACAAAATCGCATATAGATGTCAATCCCAAA
Found at i:25374069 original size:10 final size:10
Alignment explanation
Indices: 25374048--25374108 Score: 60
Period size: 9 Copynumber: 6.4 Consensus size: 10
25374038 CTTAAATAAA
25374048 TTTTAT-ATT
1 TTTTATAATT
*
25374057 TTTTATGATT
1 TTTTATAATT
25374067 TTTTAATAATT
1 TTTT-ATAATT
25374078 TTTT-TAATT
1 TTTTATAATT
25374087 TTTTGA-AA-T
1 TTTT-ATAATT
25374096 TTTTAT-ATT
1 TTTTATAATT
25374105 TTTT
1 TTTT
25374109 GAATTTGTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
8 2 0.04
9 25 0.56
10 9 0.20
11 9 0.20
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTATAATT
Found at i:25374070 original size:19 final size:19
Alignment explanation
Indices: 25374054--25374122 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 19
25374044 TAAATTTTAT
25374054 ATTTTTTATGATTTTTT-A
1 ATTTTTTATGATTTTTTGA
* *
25374072 ATAATTTTTTTAATTTTTTGA
1 AT--TTTTTATGATTTTTTGA
*
25374093 AATTTTTAT-ATTTTTTGA
1 ATTTTTTATGATTTTTTGA
25374111 ATTTGTTTATGA
1 ATTT-TTTATGA
25374123 AAAATCAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 14 0.34
19 11 0.27
20 14 0.34
21 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
ATTTTTTATGATTTTTTGA
Found at i:25374100 original size:17 final size:18
Alignment explanation
Indices: 25374056--25374111 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 18
25374046 AATTTTATAT
*
25374056 TTTTTATGATTTTTTAATAA
1 TTTTTAT-ATTTTTTGA-AA
*
25374076 TTTTTTTAATTTTTTGAAA
1 TTTTTAT-ATTTTTTGAAA
25374095 TTTTTATATTTTTTGAA
1 TTTTTATATTTTTTGAA
25374112 TTTGTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 10 0.31
19 8 0.25
20 14 0.44
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTTATATTTTTTGAAA
Found at i:25374124 original size:30 final size:31
Alignment explanation
Indices: 25374054--25374124 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
25374044 TAAATTTTAT
* *
25374054 ATTTTTTATG-ATTTTTTAATAATTTTTTTA
1 ATTTTTTATGAAATTTTTAATAATTTTTTGA
25374084 A-TTTTT-TGAAATTTTT-AT-ATTTTTTGA
1 ATTTTTTATGAAATTTTTAATAATTTTTTGA
25374111 ATTTGTTTATGAAA
1 ATTT-TTTATGAAA
25374125 AATCAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 9 0.26
28 6 0.17
29 14 0.40
30 6 0.17
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (31 bp):
ATTTTTTATGAAATTTTTAATAATTTTTTGA
Done.