Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold246
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: 1425817
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
File 7 of 8
Found at i:1004705 original size:21 final size:21
Alignment explanation
Indices: 1004679--1004726 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1004669 ATATTATACT
*
1004679 ACAATAGTAATAATAATAATA
1 ACAATAGTAATAATAAAAATA
*
1004700 ACAATAGTAGTAATAAAAATA
1 ACAATAGTAATAATAAAAATA
*
1004721 ATAATA
1 ACAATA
1004727 TTTTTTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (21 bp):
ACAATAGTAATAATAAAAATA
Found at i:1009129 original size:17 final size:17
Alignment explanation
Indices: 1009107--1009141 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1009097 TTAAAAAATT
1009107 ATATAAATATAAATTAA
1 ATATAAATATAAATTAA
*
1009124 ATATAAATATCAATTAA
1 ATATAAATATAAATTAA
1009141 A
1 A
1009142 AATACTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAATATAAATTAA
Found at i:1010498 original size:20 final size:19
Alignment explanation
Indices: 1010443--1010518 Score: 70
Period size: 18 Copynumber: 4.1 Consensus size: 19
1010433 GTGCCCGAGT
*
1010443 TTTAAT-AA-TTTATATATT
1 TTTAATAAATTTTAT-TATA
* *
1010461 TTTATTAAATTATAATTATA
1 TTTAATAAATT-TTATTATA
1010481 TTTAAATAAATTTTATTATA
1 TTT-AATAAATTTTATTATA
1010501 -TTAATAAATTTTA-TATA
1 TTTAATAAATTTTATTATA
1010518 T
1 T
1010519 AAATTATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.08
18 16 0.33
19 4 0.08
20 14 0.29
21 10 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATAAATTTTATTATA
Found at i:1016250 original size:3 final size:3
Alignment explanation
Indices: 1016244--1016270 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1016234 CAACAACAAC
1016244 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1016271 TTTATCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1022326 original size:70 final size:70
Alignment explanation
Indices: 1022213--1022353 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
1022203 ATTATGATTT
1022213 AAATAATTAGCCTTTCAATCTTTATTCTAAATCTGTGTTTTTAATCTATCAGTTATATATTTCCA
1 AAATAATTAGCCTTTCAATCTTTATTCTAAATCTGTGTTTTTAATCTATCAGTTATATATTTCCA
1022278 CGACC
66 CGACC
1022283 AAATAATTAGCCTTTCAATCTTTATTCTAAATCTGTGTTTTTAATCTATCAGTTATATATTTCCA
1 AAATAATTAGCCTTTCAATCTTTATTCTAAATCTGTGTTTTTAATCTATCAGTTATATATTTCCA
1022348 CGACC
66 CGACC
1022353 A
1 A
1022354 GGACCAGATG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.44
Consensus pattern (70 bp):
AAATAATTAGCCTTTCAATCTTTATTCTAAATCTGTGTTTTTAATCTATCAGTTATATATTTCCA
CGACC
Found at i:1022497 original size:17 final size:17
Alignment explanation
Indices: 1022475--1022512 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1022465 TATATAAATG
*
1022475 ATTTATAATATATTTA-A
1 ATTTAT-ATACATTTATA
1022492 ATTTATATACATTTATA
1 ATTTATATACATTTATA
1022509 ATTT
1 ATTT
1022513 TTTAAACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTATATACATTTATA
Found at i:1026573 original size:5 final size:5
Alignment explanation
Indices: 1026563--1026588 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1026553 TTAATTTCGT
1026563 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
1026589 ATAAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:1026869 original size:17 final size:18
Alignment explanation
Indices: 1026833--1026877 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1026823 ATTTGATTAT
1026833 ATTTATTTATTTAATAAA
1 ATTTATTTATTTAATAAA
* *
1026851 ATTTATTT-TTTATTTAA
1 ATTTATTTATTTAATAAA
1026868 ATTTAATTTA
1 ATTT-ATTTA
1026878 AAAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATTTATTTAATAAA
Found at i:1026951 original size:17 final size:17
Alignment explanation
Indices: 1026917--1026957 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1026907 TTTTATGACT
1026917 TATTATTATTCTTTTAA
1 TATTATTATTCTTTTAA
*
1026934 TATTTTTATT-TTTATAA
1 TATTATTATTCTTT-TAA
1026951 T-TTATTA
1 TATTATTA
1026958 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTATTATTCTTTTAA
Found at i:1026990 original size:17 final size:17
Alignment explanation
Indices: 1026946--1026998 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 17
1026936 TTTTTATTTT
*
1026946 TATAATTTATTAAAAAA
1 TATAATTTAATAAAAAA
*
1026963 TAAAAATATTTAATAAAAAA
1 T--ATA-ATTTAATAAAAAA
1026983 TATAATTT-ATAAAAAA
1 TATAATTTAATAAAAAA
1026999 ACATATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.27
17 5 0.17
18 2 0.07
19 2 0.07
20 13 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATTTAATAAAAAA
Found at i:1029633 original size:2 final size:2
Alignment explanation
Indices: 1029626--1029660 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1029616 CATTATTCAG
1029626 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 T
1029661 TCATCCACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1030489 original size:6 final size:6
Alignment explanation
Indices: 1030457--1030486 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1030447 TATTAAAAGA
*
1030457 TTATAT TTATAT TTATAT TTATAT ATATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT
1030487 ATAATCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTATAT
Found at i:1031310 original size:115 final size:115
Alignment explanation
Indices: 1031105--1031327 Score: 419
Period size: 115 Copynumber: 1.9 Consensus size: 115
1031095 CATAAATTAT
*
1031105 GAATAGAGGTCTTCAACTTTTCAAGTTTTTCCTTAGTCATTTAAGAGAGTACTTGACTGATCCTA
1 GAATAAAGGTCTTCAACTTTTCAAGTTTTTCCTTAGTCATTTAAGAGAGTACTTGACTGATCCTA
1031170 TTCTTCTGCTTATTATTTGTCTTAATCAAGGTTGTTCAACTAACTAATAA
66 TTCTTCTGCTTATTATTTGTCTTAATCAAGGTTGTTCAACTAACTAATAA
*
1031220 GAATAAAGGTCTTCAACTTTTCAAGTTTTTCCTTAGTCTTTTAAGAGAGTACTTGACTGATCCTA
1 GAATAAAGGTCTTCAACTTTTCAAGTTTTTCCTTAGTCATTTAAGAGAGTACTTGACTGATCCTA
*
1031285 TTCTTCTGCTTATTATTTGTGTTAATCAAGGTTGTTCAACTAA
66 TTCTTCTGCTTATTATTTGTCTTAATCAAGGTTGTTCAACTAA
1031328 AAATTAATGG
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (115 bp):
GAATAAAGGTCTTCAACTTTTCAAGTTTTTCCTTAGTCATTTAAGAGAGTACTTGACTGATCCTA
TTCTTCTGCTTATTATTTGTCTTAATCAAGGTTGTTCAACTAACTAATAA
Found at i:1033856 original size:2 final size:2
Alignment explanation
Indices: 1033849--1033881 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1033839 TCAGATACAG
1033849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1033882 GCTATGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1034494 original size:2 final size:2
Alignment explanation
Indices: 1034487--1034516 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1034477 CCTTGTCTCC
1034487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1034517 TAATGTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1036106 original size:25 final size:25
Alignment explanation
Indices: 1036078--1036148 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 25
1036068 ATTTTATATG
1036078 TTAATATATTATATTTTAATTATTT
1 TTAATATATTATATTTTAATTATTT
*
1036103 TT-A-ATATTATA-TTT-A-TATAT
1 TTAATATATTATATTTTAATTATTT
* *
1036123 TTAATTATATTATATATAAATTATTT
1 TTAA-TATATTATATTTTAATTATTT
1036149 GATTATCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
20 6 0.17
21 2 0.06
22 3 0.08
23 16 0.44
24 2 0.06
25 3 0.08
26 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTAATATATTATATTTTAATTATTT
Found at i:1036132 original size:23 final size:20
Alignment explanation
Indices: 1036024--1036137 Score: 79
Period size: 23 Copynumber: 5.3 Consensus size: 20
1036014 CACTTAAAAC
* *
1036024 TTATAATTTATGTTTTTATTA
1 TTATATTTTATATTTTTA-TA
*
1036045 TTATATTAATATATTTTTATA
1 TTATATT-TTATATTTTTATA
* *
1036066 --AAATTTTATATGTTAATATA
1 TTATATTTTATAT-TT-TTATA
1036086 TTATATTTTAATTATTTTTAATA
1 TTATATTTT-A-TATTTTT-ATA
1036109 TTATATTTATATATTTAATTATA
1 TTATATTT-TATATTT--TTATA
1036132 TTATAT
1 TTATAT
1036138 ATAAATTATT
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
18 5 0.07
19 6 0.08
20 4 0.05
21 8 0.11
22 21 0.28
23 24 0.32
24 6 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATATTTTATATTTTTATA
Found at i:1036300 original size:48 final size:48
Alignment explanation
Indices: 1036198--1036299 Score: 179
Period size: 47 Copynumber: 2.1 Consensus size: 48
1036188 TTTATCCTAG
* *
1036198 TTTTTGTCAAAACCTTTTCCCTTAACCTTAAAATTTTAATTGTGTTTT
1 TTTTTTTCAAAACCTTTTCCCTTAACCTTAAAATTTTAATGGTGTTTT
1036246 TTTTTTTC-AAACCTTTTCCCTTAACCTTAAAATTTTAATGGTGTTTT
1 TTTTTTTCAAAACCTTTTCCCTTAACCTTAAAATTTTAATGGTGTTTT
1036293 TTTTTTT
1 TTTTTTT
1036300 TAAATTTTCC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 45 0.87
48 7 0.13
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.56
Consensus pattern (48 bp):
TTTTTTTCAAAACCTTTTCCCTTAACCTTAAAATTTTAATGGTGTTTT
Found at i:1037472 original size:34 final size:34
Alignment explanation
Indices: 1037434--1037506 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
1037424 TGCATACTTG
1037434 AAAAAATTATACAATTTTAATAAATTTACATTAA
1 AAAAAATTATACAATTTTAATAAATTTACATTAA
* *
1037468 AAAAAATTATATAATTTTATTAAATTTACATTAA
1 AAAAAATTATACAATTTTAATAAATTTACATTAA
1037502 AAAAA
1 AAAAA
1037507 TAATACATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (34 bp):
AAAAAATTATACAATTTTAATAAATTTACATTAA
Found at i:1037638 original size:2 final size:2
Alignment explanation
Indices: 1037631--1037664 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1037621 AAAGTGTTAA
1037631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1037665 GAAATTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1038973 original size:2 final size:2
Alignment explanation
Indices: 1038968--1039013 Score: 67
Period size: 2 Copynumber: 23.0 Consensus size: 2
1038958 ACTTAACCCC
*
1038968 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT GA- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
1039010 AT AT
1 AT AT
1039014 TTCCGTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 38 0.95
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1041120 original size:16 final size:17
Alignment explanation
Indices: 1041090--1041121 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1041080 ATTTAAATAT
1041090 AAATTAAATATATAAAA
1 AAATTAAATATATAAAA
1041107 AAATTAAA-ATATAAA
1 AAATTAAATATATAAA
1041122 TATATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATTAAATATATAAAA
Found at i:1041141 original size:2 final size:2
Alignment explanation
Indices: 1041136--1041177 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
1041126 TTTTATGTTT
* *
1041136 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA GA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
1041178 TCACGTGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1045126 original size:30 final size:30
Alignment explanation
Indices: 1045092--1045153 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
1045082 CTCGAAAAGG
*
1045092 TAGTGATGTATGCCTTGGCCTCGTAGCACT
1 TAGTGATGTATGCCCTGGCCTCGTAGCACT
1045122 TAGTGATGTATGCCCTGGCCTCGTAGCACT
1 TAGTGATGTATGCCCTGGCCTCGTAGCACT
1045152 TA
1 TA
1045154 AAATTATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (30 bp):
TAGTGATGTATGCCCTGGCCTCGTAGCACT
Found at i:1045197 original size:49 final size:49
Alignment explanation
Indices: 1045125--1045269 Score: 263
Period size: 49 Copynumber: 3.0 Consensus size: 49
1045115 TAGCACTTAG
* *
1045125 TGATGTATGCCCTGGCCTCGTAGCACTTAAAATTATATGGAAATAATGT
1 TGATGTATGCCTTGGCCTCGTAGCACTTAAAATTATCTGGAAATAATGT
*
1045174 TGATGTATGCCTTGGCCTCGTAGCACTTAAAATTATCCGGAAATAATGT
1 TGATGTATGCCTTGGCCTCGTAGCACTTAAAATTATCTGGAAATAATGT
1045223 TGATGTATGCCTTGGCCTCGTAGCACTTAAAATTATCTGGAAATAAT
1 TGATGTATGCCTTGGCCTCGTAGCACTTAAAATTATCTGGAAATAAT
1045270 CATTGTTGAG
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 92 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (49 bp):
TGATGTATGCCTTGGCCTCGTAGCACTTAAAATTATCTGGAAATAATGT
Found at i:1046932 original size:2 final size:2
Alignment explanation
Indices: 1046925--1046949 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1046915 ATGGCCTGCT
1046925 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 T
1046950 TTGGCTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1049206 original size:2 final size:2
Alignment explanation
Indices: 1049199--1049229 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1049189 AATTAAAAAT
1049199 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1049230 CACGTATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1049676 original size:24 final size:26
Alignment explanation
Indices: 1049624--1049679 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
1049614 TTTATGTTTG
*
1049624 AAATATATTTTTATATATAAATATAA
1 AAATATAATTTTATATATAAATATAA
1049650 AAATATAATTTT-T-TA-AAATATATA
1 AAATATAATTTTATATATAAATATA-A
1049674 AAATAT
1 AAATAT
1049680 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 7 0.25
24 9 0.32
25 1 0.04
26 11 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATATAATTTTATATATAAATATAA
Found at i:1049682 original size:17 final size:17
Alignment explanation
Indices: 1049635--1049697 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
1049625 AATATATTTT
1049635 TATATATAAATA-TAAAA
1 TATATA-AAATATTAAAA
** *
1049652 -ATATAATTTTTTAAAA
1 TATATAAAATATTAAAA
1049668 TATATAAAATATTAAAA
1 TATATAAAATATTAAAA
* *
1049685 TAAATTAAATATT
1 TATATAAAATATT
1049698 TTTATATTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
15 2 0.06
16 10 0.28
17 24 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATAAAATATTAAAA
Found at i:1049708 original size:15 final size:15
Alignment explanation
Indices: 1049688--1049730 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
1049678 ATTAAAATAA
1049688 ATTAAATATTTTTAT
1 ATTAAATATTTTTAT
*
1049703 ATTAAAAATATATTTAT
1 ATT--AAATATTTTTAT
*
1049720 ATTTAATATTT
1 ATTAAATATTT
1049731 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTAAATATTTTTAT
Found at i:1049717 original size:19 final size:19
Alignment explanation
Indices: 1049693--1049743 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 19
1049683 AATAAATTAA
1049693 ATATTTTTATATTAAAAAT
1 ATATTTTTATATTAAAAAT
* *
1049712 ATA--TTTATATTTAATAT
1 ATATTTTTATATTAAAAAT
* *
1049729 TTATTTTTAAATTAA
1 ATATTTTTATATTAA
1049744 GATAATATAG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 14 0.56
19 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTTATATTAAAAAT
Found at i:1051554 original size:17 final size:17
Alignment explanation
Indices: 1051518--1051559 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1051508 AACTTTAGAT
*
1051518 TATATTAAATATAAATA
1 TATATTAAATATAAAAA
1051535 TATATTAAATA-AGAAAA
1 TATATTAAATATA-AAAA
1051552 TAT-TTAAA
1 TATATTAAA
1051560 ATTAAATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TATATTAAATATAAAAA
Found at i:1052532 original size:2 final size:2
Alignment explanation
Indices: 1052525--1052560 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1052515 TCTTCCAGCA
*
1052525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1052561 GTATTTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1053865 original size:14 final size:15
Alignment explanation
Indices: 1053834--1053869 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
1053824 GTAACAATAA
1053834 TTCTATTCCTCTCTTT
1 TTCT-TTCCTCTCTTT
1053850 TTCTTTCCTC-CTTT
1 TTCTTTCCTCTCTTT
1053864 TTCTTT
1 TTCTTT
1053870 GCCAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.50
15 6 0.30
16 4 0.20
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTTTCCTCTCTTT
Found at i:1054432 original size:24 final size:25
Alignment explanation
Indices: 1054389--1054446 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
1054379 TAATGTTCTA
* *
1054389 AATATTT-TTAATTATTTTAT-TTT
1 AATATTTATTAAATATATTATATTT
1054412 AATATTTATTAAATATATTATATTT
1 AATATTTATTAAATATATTATATTT
1054437 -ATACTTTATT
1 AATA-TTTATT
1054447 TCATATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.23
24 14 0.47
25 9 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
AATATTTATTAAATATATTATATTT
Found at i:1055530 original size:19 final size:20
Alignment explanation
Indices: 1055506--1055551 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 20
1055496 TTTATTAAAT
1055506 TAATAAATATGATTAT-ATA
1 TAATAAATATGATTATGATA
1055525 TAAT-AA-A-GATTATGATA
1 TAATAAATATGATTATGATA
*
1055542 TATTAAATAT
1 TAATAAATAT
1055552 TATCATACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 4 0.18
19 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TAATAAATATGATTATGATA
Found at i:1055925 original size:14 final size:14
Alignment explanation
Indices: 1055889--1055935 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
1055879 AATTTTATTC
1055889 ATTTAATC-A-TAA
1 ATTTAATCAATTAA
1055901 ATATTAA-CAATTAA
1 AT-TTAATCAATTAA
1055915 ATTTAATCAATCTAA
1 ATTTAATCAAT-TAA
1055930 ATTTAA
1 ATTTAA
1055936 ATTAATCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.10
13 9 0.30
14 9 0.30
15 9 0.30
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTAATCAATTAA
Found at i:1055944 original size:16 final size:15
Alignment explanation
Indices: 1055893--1055946 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
1055883 TTATTCATTT
1055893 AATCATAAATATTAA-C
1 AATC-TAAAT-TTAATC
1055909 AAT-TAAATTTAATC
1 AATCTAAATTTAATC
*
1055923 AATCTAAATTTAAATT
1 AATCTAAATTT-AATC
1055939 AATCTAAA
1 AATCTAAA
1055947 CTGATATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
13 4 0.12
14 9 0.26
15 7 0.21
16 14 0.41
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (15 bp):
AATCTAAATTTAATC
Found at i:1056842 original size:4 final size:4
Alignment explanation
Indices: 1056825--1056867 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
1056815 TGAGCAATCA
* *
1056825 ATTT GTTT ATTTT ATTT ACTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1056868 GCTTTTGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:1060695 original size:17 final size:18
Alignment explanation
Indices: 1060673--1060707 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1060663 TGAGCATGAT
1060673 ATATAATTAT-TTTATTA
1 ATATAATTATATTTATTA
*
1060690 ATATAATTTTATTTATTA
1 ATATAATTATATTTATTA
1060708 TTATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATAATTATATTTATTA
Found at i:1068376 original size:28 final size:27
Alignment explanation
Indices: 1068307--1068387 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
1068297 TATACAAATA
* *
1068307 AAATTTTAAATAAATA-AAAAATATTT
1 AAATATTAAATATATATAAAAATATTT
* * *
1068333 AAATATTTATTTTATATAAAAATATTT
1 AAATATTAAATATATATAAAAATATTT
*
1068360 AAGTCATTAAATATATATTAAAAATATT
1 AAAT-ATTAAATATATA-TAAAAATATT
1068388 AATGTTCTCA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
26 11 0.26
27 13 0.30
28 9 0.21
29 10 0.23
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
AAATATTAAATATATATAAAAATATTT
Found at i:1070997 original size:27 final size:27
Alignment explanation
Indices: 1070922--1070997 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
1070912 AAATCGAATT
*
1070922 AATTATTTTTTAAA-AAT-TATTATTTA
1 AATTA-TTTTTAAATAATATATTTTTTA
* * *
1070948 AATTATTTTTAATTATTAAATTTTTTA
1 AATTATTTTTAAATAATATATTTTTTA
**
1070975 TTTTATTTTTAAATAATATATTT
1 AATTATTTTTAAATAATATATTT
1070998 AATAAAATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 7 0.18
26 7 0.18
27 25 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
AATTATTTTTAAATAATATATTTTTTA
Found at i:1081595 original size:2 final size:2
Alignment explanation
Indices: 1081588--1081627 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1081578 CCTGAGGAGC
1081588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1081628 GTTTCCATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1082221 original size:16 final size:16
Alignment explanation
Indices: 1082200--1082230 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1082190 ACCAATTTTA
*
1082200 AAATATAATATTTAAT
1 AAATATAAAATTTAAT
1082216 AAATATAAAATTTAA
1 AAATATAAAATTTAA
1082231 ATTTCTACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAAATTTAAT
Found at i:1082601 original size:2 final size:2
Alignment explanation
Indices: 1082594--1082624 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1082584 GTAATCTTAG
1082594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1082625 AGACAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1082639 original size:12 final size:12
Alignment explanation
Indices: 1082624--1082651 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1082614 ATATATATAT
1082624 AAGACAATGAAA
1 AAGACAATGAAA
1082636 AAGACAATGAAA
1 AAGACAATGAAA
1082648 AAGA
1 AAGA
1082652 TTGCAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.07, G:0.18, T:0.07
Consensus pattern (12 bp):
AAGACAATGAAA
Found at i:1086286 original size:41 final size:41
Alignment explanation
Indices: 1086241--1086322 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
1086231 TAAGTTTAAT
* *
1086241 GTTTCGCATTCTTTAAAAATATCTTTTTTCTGTTTTGTGGG
1 GTTTCCCATTCTTTAAAAATATCTTCTTTCTGTTTTGTGGG
*
1086282 GTTTCCCATTTTTTAAAAATATCTTCTTTCTGTTTTGTGGG
1 GTTTCCCATTCTTTAAAAATATCTTCTTTCTGTTTTGTGGG
1086323 ACAAAATTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.17, C:0.13, G:0.16, T:0.54
Consensus pattern (41 bp):
GTTTCCCATTCTTTAAAAATATCTTCTTTCTGTTTTGTGGG
Found at i:1090003 original size:19 final size:21
Alignment explanation
Indices: 1089979--1090017 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1089969 CGCGACAATA
1089979 TTAAAA-TTATATAA-ATATT
1 TTAAAATTTATATAATATATT
1089998 TTAAAATTTATATAATATAT
1 TTAAAATTTATATAATATAT
1090018 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAAATTTATATAATATATT
Found at i:1090027 original size:22 final size:20
Alignment explanation
Indices: 1089979--1090038 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
1089969 CGCGACAATA
1089979 TTAAAA-TTATATAAATATT
1 TTAAAATTTATATAAATATT
1089998 TTAAAATTTATATAATATATAT
1 TTAAAATTTATATAA-ATAT-T
**
1090020 TTTTAATTTAT-TAAA-ATT
1 TTAAAATTTATATAAATATT
1090038 T
1 T
1090039 ATATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 9 0.25
21 7 0.19
22 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAATTTATATAAATATT
Found at i:1090041 original size:23 final size:23
Alignment explanation
Indices: 1089993--1090042 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1089983 AATTATATAA
*
1089993 ATATTTTAAAATTTATATAATAT
1 ATATTTTAAAATTTATAAAATAT
* *
1090016 ATATTTT-TAATTTATTAAAATTT
1 ATATTTTAAAATTTA-TAAAATAT
1090039 ATAT
1 ATAT
1090043 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATATTTTAAAATTTATAAAATAT
Found at i:1090063 original size:16 final size:17
Alignment explanation
Indices: 1090031--1090066 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1090021 TTTAATTTAT
*
1090031 TAAAATTTATATAAAAA
1 TAAAATATATATAAAAA
1090048 TAAAATATAT-TAAAAA
1 TAAAATATATATAAAAA
1090064 TAA
1 TAA
1090067 TTATAATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATATATATAAAAA
Found at i:1090424 original size:17 final size:18
Alignment explanation
Indices: 1090404--1090440 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1090394 TAAGTATTTA
*
1090404 TTTAATTT-AAATTTATT
1 TTTAATTTGAAAATTATT
1090421 TTTAATTTGAAAATTATT
1 TTTAATTTGAAAATTATT
1090439 TT
1 TT
1090441 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTAATTTGAAAATTATT
Found at i:1090910 original size:7 final size:7
Alignment explanation
Indices: 1090898--1090923 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1090888 TATGGACGGC
1090898 GGCCAAT
1 GGCCAAT
1090905 GGCCAAT
1 GGCCAAT
1090912 GGCCAAT
1 GGCCAAT
1090919 GGCCA
1 GGCCA
1090924 CAGTCCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.31, T:0.12
Consensus pattern (7 bp):
GGCCAAT
Found at i:1091435 original size:24 final size:24
Alignment explanation
Indices: 1091387--1091435 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1091377 TTAAAATTCA
* *
1091387 TTCTCTTTCAATTTTTTTTTCTTT
1 TTCTCTTTCAATTCTTTTATCTTT
1091411 TTCTCTTATCAATTCTTTTAT-TTT
1 TTCTCTT-TCAATTCTTTTATCTTT
1091435 T
1 T
1091436 CCACGTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (24 bp):
TTCTCTTTCAATTCTTTTATCTTT
Found at i:1091971 original size:18 final size:18
Alignment explanation
Indices: 1091932--1091971 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1091922 TAATATAATT
* *
1091932 ATATAATAAAAATTTAAT
1 ATATAATAAAAATATAAA
1091950 ATATAATAAAAATATAAA
1 ATATAATAAAAATATAAA
1091968 ATAT
1 ATAT
1091972 TAACATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATAATAAAAATATAAA
Found at i:1095547 original size:3 final size:3
Alignment explanation
Indices: 1095539--1095574 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1095529 ACTGAAAATA
1095539 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1095575 GAAAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1095680 original size:19 final size:19
Alignment explanation
Indices: 1095649--1095686 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1095639 TCCACAATAT
*
1095649 AATATTTGACAAAATATTA
1 AATATTTGACAAAAGATTA
1095668 AATATTT-ATCAAAAGATTA
1 AATATTTGA-CAAAAGATTA
1095687 TTAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
AATATTTGACAAAAGATTA
Found at i:1095851 original size:17 final size:17
Alignment explanation
Indices: 1095829--1095883 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
1095819 TATTTAAAAT
1095829 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
* *
1095846 ATTTTA-ATATATTATGA
1 ATTTTATATTTA-TATAA
1095863 A-TTTATA-TTATATAA
1 ATTTTATATTTATATAA
1095878 ATTTTA
1 ATTTTA
1095884 AATAATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 5 0.16
16 14 0.45
17 12 0.39
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:1095874 original size:18 final size:18
Alignment explanation
Indices: 1095831--1095875 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
1095821 TTTAAAATAT
1095831 TTTATATT-TA-TATAAA
1 TTTATATTATATTATAAA
* *
1095847 TTT-TAATATATTATGAA
1 TTTATATTATATTATAAA
1095864 TTTATATTATAT
1 TTTATATTATAT
1095876 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.13
16 5 0.22
17 8 0.35
18 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTATATTATATTATAAA
Found at i:1096146 original size:2 final size:2
Alignment explanation
Indices: 1096139--1096180 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1096129 TTACTCTGAC
*
1096139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1096181 GCTTTTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1106900 original size:2 final size:2
Alignment explanation
Indices: 1106893--1106924 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1106883 TCCATTAACT
1106893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1106925 GTGGTGGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1107104 original size:15 final size:13
Alignment explanation
Indices: 1107087--1107116 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1107077 GGGATACAAG
*
1107087 AGAGGGATGCTTA
1 AGAGAGATGCTTA
1107100 AGAGAGATGCTTA
1 AGAGAGATGCTTA
1107113 AGAG
1 AGAG
1107117 GGATACAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.20
Consensus pattern (13 bp):
AGAGAGATGCTTA
Found at i:1107253 original size:26 final size:26
Alignment explanation
Indices: 1107196--1107282 Score: 72
Period size: 28 Copynumber: 3.3 Consensus size: 26
1107186 AGTCACCAAT
* * *
1107196 TTTGACAAAC-AA-CAAGCCACCATT
1 TTTGACAAACAAAGAAAACCACCATA
* *
1107220 TTTTACAAACAAA-AATAACTACCATA
1 TTTGACAAACAAAGAA-AACCACCATA
*
1107246 TTTGACAAATACAAAGGAAACCACCATA
1 TTTGAC-AA-ACAAAGAAAACCACCATA
1107274 TTTGACAAA
1 TTTGACAAA
1107283 TACAAAGGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
24 9 0.18
25 3 0.06
26 13 0.26
27 4 0.08
28 20 0.40
29 1 0.02
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.23
Consensus pattern (26 bp):
TTTGACAAACAAAGAAAACCACCATA
Found at i:1112698 original size:17 final size:16
Alignment explanation
Indices: 1112676--1112710 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1112666 ATCGAATTAA
1112676 TTAAAATTTAATAAATT
1 TTAAAATTTAA-AAATT
*
1112693 TTAAAATTTTAAAATT
1 TTAAAATTTAAAAATT
1112709 TT
1 TT
1112711 GATAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAATTTAAAAATT
Found at i:1112701 original size:8 final size:8
Alignment explanation
Indices: 1112676--1112710 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
1112666 ATCGAATTAA
1112676 TTAAAATT
1 TTAAAATT
*
1112684 TAATAAATT
1 TTA-AAATT
1112693 TTAAAATT
1 TTAAAATT
1112701 TTAAAATT
1 TTAAAATT
1112709 TT
1 TT
1112711 GATAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTAAAATT
Found at i:1120754 original size:21 final size:20
Alignment explanation
Indices: 1120714--1120754 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1120704 AAATATTAAA
*
1120714 ATATTAAAATAATATTTTTT
1 ATATTAAAATAATATATTTT
*
1120734 ATATTAATAATTATATATTTT
1 ATATTAA-AATAATATATTTT
1120755 TTATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTAAAATAATATATTTT
Found at i:1120755 original size:23 final size:20
Alignment explanation
Indices: 1120714--1120759 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 20
1120704 AAATATTAAA
1120714 ATATTAAAATAATATTTTTT
1 ATATTAAAATAATATTTTTT
1120734 ATATTAATAATTATATATTTTTT
1 ATATTAA-AA-TA-ATATTTTTT
1120757 ATA
1 ATA
1120760 ATTTATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
22 2 0.09
23 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTAAAATAATATTTTTT
Found at i:1127043 original size:21 final size:22
Alignment explanation
Indices: 1127013--1127105 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 22
1127003 AGTTTGATAG
*
1127013 AATTTTTTTA-AAAAATTTTTT
1 AATTTATTTATAAAAATTTTTT
* *
1127034 AATTTATTTATATAAATTTTAATAAC
1 AATTTATTTATAAAAATTTT--T--T
1127060 ATATTTAATTTTATATAAAATTTTTT
1 A-ATTT-A-TTTATA-AAAATTTTTT
*
1127086 AATTTATTTATATAAATTTT
1 AATTTATTTATAAAAATTTT
1127106 AATAACATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
21 9 0.16
22 15 0.26
23 6 0.11
24 2 0.04
25 4 0.07
26 2 0.04
27 4 0.07
28 2 0.04
29 6 0.11
30 7 0.12
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTATTTATAAAAATTTTTT
Found at i:1127085 original size:52 final size:52
Alignment explanation
Indices: 1127024--1127150 Score: 229
Period size: 52 Copynumber: 2.4 Consensus size: 52
1127014 ATTTTTTTAA
1127024 AAAATTTTTTAATTTATTTATATAAATTTTAATAACATATTTAATTTTATAT
1 AAAATTTTTTAATTTATTTATATAAATTTTAATAACATATTTAATTTTATAT
1127076 AAAATTTTTTAATTTATTTATATAAATTTTAATAACATATTTAATTTTATAT
1 AAAATTTTTTAATTTATTTATATAAATTTTAATAACATATTTAATTTTATAT
*
1127128 AAAA-TTTTTATATTTATTAATAT
1 AAAATTTTTTA-ATTTATTTATAT
1127151 TATTTTTTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
51 6 0.08
52 67 0.92
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (52 bp):
AAAATTTTTTAATTTATTTATATAAATTTTAATAACATATTTAATTTTATAT
Found at i:1127088 original size:20 final size:22
Alignment explanation
Indices: 1127063--1127105 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
1127053 TAATAACATA
1127063 TTTAATTT-TATATA-AAATTT
1 TTTAATTTATATATATAAATTT
*
1127083 TTTAATTTATTTATATAAATTT
1 TTTAATTTATATATATAAATTT
1127105 T
1 T
1127106 AATAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 5 0.25
22 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTAATTTATATATATAAATTT
Found at i:1127093 original size:29 final size:32
Alignment explanation
Indices: 1127026--1127095 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 32
1127016 TTTTTTAAAA
*
1127026 AATTT-TTTAATTTATTTATATAAATTTTAAT
1 AATTTATTTAATTTATATATATAAATTTTAAT
** *
1127057 AACATATTTAATTT-TATATA-AAATTTT-TT
1 AATTTATTTAATTTATATATATAAATTTTAAT
1127086 AATTTATTTA
1 AATTTATTTA
1127096 TATAAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 9 0.28
30 7 0.22
31 8 0.25
32 8 0.25
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
AATTTATTTAATTTATATATATAAATTTTAAT
Found at i:1127116 original size:23 final size:23
Alignment explanation
Indices: 1127038--1127118 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
1127028 TTTTTTAATT
1127038 TATTTATATAAATTTTAATAACATA
1 TATTTATATAAATTTTAATAAC--A
* **
1127063 TTTAATTTTATATAAAATTTT-TTAATT
1 --T-A-TTTATAT-AAATTTTAATAACA
1127090 TATTTATATAAATTTTAATAACA
1 TATTTATATAAATTTTAATAACA
1127113 TATTTA
1 TATTTA
1127119 ATTTTATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
22 7 0.16
23 16 0.36
24 1 0.02
25 1 0.02
27 1 0.02
28 1 0.02
29 10 0.23
30 7 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTATATAAATTTTAATAACA
Found at i:1127137 original size:19 final size:19
Alignment explanation
Indices: 1127048--1127142 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 19
1127038 TATTTATATA
* *
1127048 AATTTTA-ATAACATATTT
1 AATTTTATATAAAATTTTT
1127066 AATTTTATATAAAATTTTTT
1 AATTTTATATAAAA-TTTTT
* * *
1127086 AA-TTTAT-T--TA-TATA
1 AATTTTATATAAAATTTTT
* *
1127100 AATTTTA-ATAACATATTT
1 AATTTTATATAAAATTTTT
1127118 AATTTTATATAAAATTTTT
1 AATTTTATATAAAATTTTT
1127137 ATATTT
1 A-ATTT
1127143 ATTAATATTA
Statistics
Matches: 57, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
14 4 0.07
15 5 0.09
16 1 0.02
17 1 0.02
18 16 0.28
19 20 0.35
20 10 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTTATATAAAATTTTT
Found at i:1131825 original size:137 final size:134
Alignment explanation
Indices: 1131547--1131811 Score: 365
Period size: 137 Copynumber: 2.0 Consensus size: 134
1131537 AAAAATTTTT
* *
1131547 ATTTAAATTTAATTATAAAATTTATTAATATTAATAGAAAATAATTTTATTCAATATATTTTGTC
1 ATTTAGATTTAATTATAAAATTTATTAATATTAATAGAAAATAATTTTATTCAATATATTGTGTC
* * *
1131612 ATTTAAATAGTAAAGCAAGTCACTGGGTGAGTTCGGATTTGGTTTGATATAGTTTTGGAGAAAAA
66 ATTTAAATAGTAAAG--AGTAACT--GTGAGTTCGGATTTGGTTTGATATAGTTTGGGAAAAAAA
1131677 AGATTTAG
127 AGATTTAG
* * *
1131685 ATTT-GATTTAATTATAAAATTTATTAATATTAATATAAAATGATTTTATTTAATATATTGTGTC
1 ATTTAGATTTAATTATAAAATTTATTAATATTAATAGAAAATAATTTTATTCAATATATTGTGTC
* *
1131749 ATTTAAATAGTAAAG-TTAACT-TGAGTTCGGATTTGGTTTGATTATGGTGTTGGGAAAAAAAAG
66 ATTTAAATAGTAAAGAGTAACTGTGAGTTCGGATTTGGTTTGA-TATAGT-TTGGGAAAAAAAAG
1131812 TTCGGATTTG
Statistics
Matches: 115, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
131 20 0.17
132 5 0.04
133 12 0.10
134 4 0.03
137 70 0.61
138 4 0.03
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.43
Consensus pattern (134 bp):
ATTTAGATTTAATTATAAAATTTATTAATATTAATAGAAAATAATTTTATTCAATATATTGTGTC
ATTTAAATAGTAAAGAGTAACTGTGAGTTCGGATTTGGTTTGATATAGTTTGGGAAAAAAAAGAT
TTAG
Found at i:1138301 original size:13 final size:13
Alignment explanation
Indices: 1138285--1138309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1138275 ATGTTGCCAA
1138285 TTTTTGTTTTGAC
1 TTTTTGTTTTGAC
1138298 TTTTTGTTTTGA
1 TTTTTGTTTTGA
1138310 ACAACTTTTT
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:0.08, C:0.04, G:0.16, T:0.72
Consensus pattern (13 bp):
TTTTTGTTTTGAC
Found at i:1141113 original size:2 final size:2
Alignment explanation
Indices: 1141106--1141131 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1141096 CATTTGAGCA
1141106 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
1141132 CCCCTCAGAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1142150 original size:14 final size:15
Alignment explanation
Indices: 1142116--1142148 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1142106 AAATATTTTT
1142116 ATTTAAAATTAATTA
1 ATTTAAAATTAATTA
1142131 ATTTAAAA-TAATGTA
1 ATTTAAAATTAAT-TA
1142146 ATT
1 ATT
1142149 AATAAGCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTTAAAATTAATTA
Found at i:1142757 original size:16 final size:16
Alignment explanation
Indices: 1142738--1142785 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
1142728 AATAAATACT
*
1142738 TATATAAATTTTATTA
1 TATATAAATTTTAATA
**
1142754 TATATATTTTTTAATA
1 TATATAAATTTTAATA
*
1142770 TAT-TTAATTTTAATA
1 TATATAAATTTTAATA
1142785 T
1 T
1142786 CAAATACTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATAAATTTTAATA
Found at i:1142770 original size:12 final size:14
Alignment explanation
Indices: 1142737--1142774 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1142727 AAATAAATAC
*
1142737 TTATATAAATTTTA
1 TTATATATATTTTA
1142751 TTATATATATTTT-
1 TTATATATATTTTA
1142764 TTA-ATATATTT
1 TTATATATATTT
1142775 AATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.35
13 3 0.13
14 12 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATATATATTTTA
Found at i:1145871 original size:6 final size:6
Alignment explanation
Indices: 1145846--1145916 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
1145836 AGATTTTAAA
* * * *
1145846 AAATTT AAAGATT AAGTTT AAATTT AAATTT -AATTT -AATTT TAATTA
1 AAATTT AAA-TTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
1145893 AAAGTTT AAATTT ATTATTT AAAT
1 AAA-TTT AAATTT A-AATTT AAAT
1145917 ATATTAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
5 10 0.19
6 28 0.54
7 14 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (6 bp):
AAATTT
Found at i:1145969 original size:22 final size:22
Alignment explanation
Indices: 1145944--1146010 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 22
1145934 TTATAAATAA
*
1145944 ATTTAAATAAAAATATTATTTT
1 ATTTAAATAAAAATATTATATT
*
1145966 ATTT-TATAAATAATAATTTATATT
1 ATTTAAATAAA-AAT-A-TTATATT
1145990 ATTTTAAATCATAAAATATTA
1 A-TTTAAAT-A-AAAATATTA
1146011 ACATATTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
21 5 0.14
22 7 0.20
23 1 0.03
24 7 0.20
25 6 0.17
26 3 0.09
27 4 0.11
28 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTAAATAAAAATATTATATT
Found at i:1145991 original size:24 final size:25
Alignment explanation
Indices: 1145947--1145995 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
1145937 TAAATAAATT
*
1145947 TAAATAAAAATATTATTTTATTTTA
1 TAAATAAAAATATTATATTATTTTA
*
1145972 TAAATAATAAT-TTATATTATTTTA
1 TAAATAAAAATATTATATTATTTTA
1145996 AATCATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAAATAAAAATATTATATTATTTTA
Found at i:1147269 original size:2 final size:2
Alignment explanation
Indices: 1147262--1147294 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1147252 ATACAAAAAT
1147262 TA TA TA TA TA TA T- 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
1147295 AACTACAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1155018 original size:16 final size:14
Alignment explanation
Indices: 1154976--1155030 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
1154966 TTTGTACATC
1154976 ATAAAAGTAAT-TAA
1 ATAAAA-TAATATAA
1154990 A-AAAATAATATAA
1 ATAAAATAATATAA
1155003 ATAAAAT-ATAT-A
1 ATAAAATAATATAA
*
1155015 ATAAATATGATATAA
1 ATAAA-ATAATATAA
1155030 A
1 A
1155031 AATATTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 10 0.28
13 14 0.39
14 10 0.28
15 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (14 bp):
ATAAAATAATATAA
Found at i:1155033 original size:13 final size:12
Alignment explanation
Indices: 1154987--1155041 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
1154977 TAAAAGTAAT
1154987 TAAAAAAATAATA
1 TAAAAAAAT-ATA
1155000 TAAATAAAATATA
1 TAAA-AAAATATA
*
1155013 T-AATAAATATGA
1 TAAAAAAATAT-A
*
1155025 TATAAAAATAT-
1 TAAAAAAATATA
1155036 TAAAAA
1 TAAAAA
1155042 TTATATCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 11 0.31
12 4 0.11
13 15 0.43
14 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAAAAAAATATA
Found at i:1156070 original size:33 final size:31
Alignment explanation
Indices: 1156033--1156105 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
1156023 TTTAAAATAT
1156033 TTTATATTTATATAAAATTTATTAAA-ATTTTAA
1 TTTATATTTATATAAAA-TT-TTAAATA-TTTAA
*
1156066 TTTATAATTATATAAAATTTTAAATATTTAA
1 TTTATATTTATATAAAATTTTAAATATTTAA
*
1156097 ATTATATTT
1 TTTATATTT
1156106 TAATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 17 0.47
32 3 0.08
33 16 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTATATTTATATAAAATTTTAAATATTTAA
Found at i:1156102 original size:31 final size:33
Alignment explanation
Indices: 1156034--1156102 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
1156024 TTAAAATATT
* *
1156034 TTATATTTATATAAAATTTATTAAAATTTTAAT
1 TTATAATTATATAAAATTTATTAAAATTTTAAA
1156067 TTATAATTATATAAAA-TT-TT-AAATATTTAAA
1 TTATAATTATATAAAATTTATTAAAAT-TTTAAA
1156098 TTATA
1 TTATA
1156103 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 4 0.12
31 12 0.36
32 2 0.06
33 15 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TTATAATTATATAAAATTTATTAAAATTTTAAA
Found at i:1160584 original size:13 final size:11
Alignment explanation
Indices: 1160554--1160623 Score: 61
Period size: 11 Copynumber: 6.1 Consensus size: 11
1160544 ATAAATATAA
*
1160554 TAAATTTGAAT
1 TAAATTTAAAT
*
1160565 AAAATTTAAGAT
1 TAAATTTAA-AT
1160577 TAATATTTTAAAT
1 TAA-A-TTTAAAT
1160590 TAAATTTAAA-
1 TAAATTTAAAT
*
1160600 TAAATATAAAT
1 TAAATTTAAAT
*
1160611 TATATTATAAAT
1 TAAATT-TAAAT
1160623 T
1 T
1160624 TAATAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
10 9 0.19
11 17 0.35
12 11 0.23
13 6 0.12
14 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:1160602 original size:36 final size:33
Alignment explanation
Indices: 1160554--1160638 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
1160544 ATAAATATAA
* * *
1160554 TAAATTTGAATAAAATTTAAGATTAATATTTTAAAT
1 TAAATTTAAAT-AAATATAA-ATT-ATATTATAAAT
1160590 TAAATTTAAATAAATATAAATTATATTATAAAT
1 TAAATTTAAATAAATATAAATTATATTATAAAT
*
1160623 TTAA--TAAA-AAATATAA
1 TAAATTTAAATAAATATAA
1160639 CATTTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 8 0.18
31 4 0.09
33 13 0.29
34 3 0.07
35 7 0.16
36 10 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (33 bp):
TAAATTTAAATAAATATAAATTATATTATAAAT
Found at i:1168627 original size:3 final size:3
Alignment explanation
Indices: 1168619--1168647 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1168609 AATTTAGGGT
1168619 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1168648 GTTTATGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1184126 original size:35 final size:34
Alignment explanation
Indices: 1184087--1184223 Score: 102
Period size: 33 Copynumber: 3.9 Consensus size: 34
1184077 ACATAATAAA
1184087 AAAATTAATATAAAATATAAATGTATAAATAATTT
1 AAAATTAATATAAAATATAAAT-TATAAATAATTT
* * * *
1184122 AAAATT--TATATAATATAAATTATTATTATTTT
1 AAAATTAATATAAAATATAAATTATAAATAATTT
* *
1184154 AAAATTTATAT-AAATATAAAATTTATTAAATATAATT
1 AAAATTAATATAAAATAT-AAA-TTA-TAAATA-ATTT
* *
1184191 ATAATATATTA-AAAATATAAATATATAATATAA
1 AAAAT-TAATATAAAATATAAAT-TATAA-ATAA
1184224 ATACATTAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
32 15 0.19
33 18 0.22
34 6 0.08
35 9 0.11
36 9 0.11
37 14 0.17
38 9 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
AAAATTAATATAAAATATAAATTATAAATAATTT
Found at i:1184137 original size:33 final size:32
Alignment explanation
Indices: 1184095--1184173 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 32
1184085 AAAAAATTAA
*
1184095 TATAAAATATAAATGTATAAATAATTTAAAATT
1 TATATAATATAAAT-TATAAATAATTTAAAATT
* * *
1184128 TATATAATATAAATTATTATTATTTTAAAATT
1 TATATAATATAAATTATAAATAATTTAAAATT
1184160 TATATAAATATAAA
1 TATAT-AATATAAA
1184174 ATTTATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 20 0.49
33 21 0.51
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
TATATAATATAAATTATAAATAATTTAAAATT
Found at i:1184160 original size:32 final size:32
Alignment explanation
Indices: 1184095--1184182 Score: 106
Period size: 32 Copynumber: 2.7 Consensus size: 32
1184085 AAAAAATTAA
* * *
1184095 TATAAAATATAAATGTATAAATAATTTAAAATT
1 TATATAATATAAAT-TATTATTAATTTAAAATT
*
1184128 TATATAATATAAATTATTATTATTTTAAAATT
1 TATATAATATAAATTATTATTAATTTAAAATT
*
1184160 TATATAAATATAAAAT-TTATTAA
1 TATAT-AATATAAATTATTATTAA
1184183 ATATAATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 26 0.54
33 22 0.46
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
TATATAATATAAATTATTATTAATTTAAAATT
Found at i:1184170 original size:6 final size:6
Alignment explanation
Indices: 1184161--1184226 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
1184151 TTTAAAATTT
** * * *
1184161 ATATAA ATATAA A-ATTT AT-TAA ATATAA TTAT-A ATAT-A TTAAAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1184205 ATATAA ATATATA ATATAA ATA
1 ATATAA ATATA-A ATATAA ATA
1184227 CATTAAATTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
5 13 0.28
6 27 0.59
7 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAA
Found at i:1184173 original size:17 final size:17
Alignment explanation
Indices: 1184087--1184188 Score: 79
Period size: 17 Copynumber: 6.1 Consensus size: 17
1184077 ACATAATAAA
*
1184087 AAAATTAATATAAA-AT
1 AAAATTTATATAAATAT
* * *
1184103 ATAAATGTATAAATAATTT
1 A-AAATTTATATA-AATAT
1184122 AAAATTTATAT-AATAT
1 AAAATTTATATAAATAT
* * *
1184138 -AAA-TTATTATTATTTT
1 AAAATTTA-TATAAATAT
1184154 AAAATTTATATAAATAT
1 AAAATTTATATAAATAT
1184171 AAAATTTAT-TAAATAT
1 AAAATTTATATAAATAT
1184187 AA
1 AA
1184189 TTATAATATA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
14 3 0.04
15 6 0.09
16 17 0.25
17 26 0.39
18 13 0.19
19 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:1184186 original size:49 final size:44
Alignment explanation
Indices: 1184121--1184215 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 44
1184111 ATAAATAATT
* *
1184121 TAAAATTTATATAATATAAATTATTATTATTTTAAAATTTATATAAATA
1 TAAAATTTATATAATAT-AATTA-TAATATATTAAAA---ATATAAATA
1184170 TAAAATTTAT-TAAATATAATTATAATATATTAAAAATATAAATA
1 TAAAATTTATAT-AATATAATTATAATATATTAAAAATATAAATA
1184214 TA
1 TA
1184216 TAATATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
44 11 0.26
47 11 0.26
48 6 0.14
49 15 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (44 bp):
TAAAATTTATATAATATAATTATAATATATTAAAAATATAAATA
Found at i:1184222 original size:24 final size:22
Alignment explanation
Indices: 1184161--1184222 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
1184151 TTTAAAATTT
* *
1184161 ATATAAATATAAAATTTATTAA
1 ATATAAATATATAATATATTAA
1184183 ATAT-AAT-TATAATATATTAAAA
1 ATATAAATATATAATATATT--AA
1184205 ATATAAATATATAATATA
1 ATATAAATATATAATATA
1184223 AATACATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 10 0.29
23 3 0.09
24 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAAATATATAATATATTAA
Found at i:1188723 original size:2 final size:2
Alignment explanation
Indices: 1188718--1188751 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1188708 TAGAGGATAC
1188718 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1188752 TGGCATTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1190715 original size:20 final size:20
Alignment explanation
Indices: 1190681--1190726 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1190671 AAGAATTGAA
*
1190681 GAGGGATACAAGAGAAGGAT
1 GAGGGATACAAGAGAAGGAG
** *
1190701 GAGGGATACTTGAGATGGAG
1 GAGGGATACAAGAGAAGGAG
1190721 GAGGGA
1 GAGGGA
1190727 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.46, T:0.13
Consensus pattern (20 bp):
GAGGGATACAAGAGAAGGAG
Found at i:1195283 original size:20 final size:20
Alignment explanation
Indices: 1195249--1195294 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1195239 AAGAATTGAA
*
1195249 GAGGGATACAAGAGAAGGAT
1 GAGGGATACAAGAGAAGGAG
** *
1195269 GAGGGATACTTGAGATGGAG
1 GAGGGATACAAGAGAAGGAG
1195289 GAGGGA
1 GAGGGA
1195295 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.46, T:0.13
Consensus pattern (20 bp):
GAGGGATACAAGAGAAGGAG
Found at i:1197940 original size:23 final size:23
Alignment explanation
Indices: 1197914--1197960 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1197904 AATACTCTCA
1197914 AATTTCGATTGTTAAGCGGAAGG
1 AATTTCGATTGTTAAGCGGAAGG
1197937 AATTTCGATTGTTAAGCGGAAGG
1 AATTTCGATTGTTAAGCGGAAGG
1197960 A
1 A
1197961 GGATCCGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (23 bp):
AATTTCGATTGTTAAGCGGAAGG
Found at i:1202978 original size:11 final size:11
Alignment explanation
Indices: 1202962--1203004 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
1202952 CTCTTCATTC
1202962 ATTTTCAATTT
1 ATTTTCAATTT
*
1202973 ATTTTC-ATTC
1 ATTTTCAATTT
*
1202983 ATTTTTAATTT
1 ATTTTCAATTT
*
1202994 ATTTTAAATTT
1 ATTTTCAATTT
1203005 TGTATTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTCAATTT
Found at i:1202979 original size:21 final size:21
Alignment explanation
Indices: 1202955--1202998 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1202945 TAGCAACCTC
1202955 TTCATTCATTTTCAATTTATT
1 TTCATTCATTTTCAATTTATT
*
1202976 TTCATTCATTTTTAATTTATT
1 TTCATTCATTTTCAATTTATT
1202997 TT
1 TT
1202999 AAATTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (21 bp):
TTCATTCATTTTCAATTTATT
Found at i:1210580 original size:16 final size:16
Alignment explanation
Indices: 1210561--1210593 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1210551 TTTAAATTTT
1210561 TATTTATTAA-ATAAAA
1 TATTT-TTAATATAAAA
1210577 TATTTTTAATATAAAA
1 TATTTTTAATATAAAA
1210593 T
1 T
1210594 TATATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTTTAATATAAAA
Found at i:1217304 original size:16 final size:16
Alignment explanation
Indices: 1217285--1217315 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1217275 GTCTTGCATC
1217285 TCTTAGTTTTAGTATT
1 TCTTAGTTTTAGTATT
1217301 TCTTAGTTTTAGTAT
1 TCTTAGTTTTAGTAT
1217316 AATTATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (16 bp):
TCTTAGTTTTAGTATT
Found at i:1217446 original size:25 final size:22
Alignment explanation
Indices: 1217400--1217447 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
1217390 TATTTTTAGG
*
1217400 AATTAATTAATTGATCCACCTA
1 AATTAATTAATTGATCAACCTA
1217422 AATTAATTAATGATCGATCAACCTA
1 AATTAATTAAT--T-GATCAACCTA
1217447 A
1 A
1217448 TTTTGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (22 bp):
AATTAATTAATTGATCAACCTA
Found at i:1217987 original size:2 final size:2
Alignment explanation
Indices: 1217980--1218011 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1217970 ATAAATTCGA
1217980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1218012 GTAGTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1220521 original size:30 final size:30
Alignment explanation
Indices: 1220485--1220583 Score: 198
Period size: 30 Copynumber: 3.3 Consensus size: 30
1220475 CAAGCATGCA
1220485 TTTCATGTTGACATGCATGCCTCTCCTGCT
1 TTTCATGTTGACATGCATGCCTCTCCTGCT
1220515 TTTCATGTTGACATGCATGCCTCTCCTGCT
1 TTTCATGTTGACATGCATGCCTCTCCTGCT
1220545 TTTCATGTTGACATGCATGCCTCTCCTGCT
1 TTTCATGTTGACATGCATGCCTCTCCTGCT
1220575 TTTCATGTT
1 TTTCATGTT
1220584 TAAACTTCAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.13, C:0.28, G:0.16, T:0.42
Consensus pattern (30 bp):
TTTCATGTTGACATGCATGCCTCTCCTGCT
Found at i:1222281 original size:17 final size:17
Alignment explanation
Indices: 1222250--1222292 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
1222240 AATTAATAAA
*
1222250 AAAATATTTAATATATTT
1 AAAAT-TTTAATATAATT
*
1222268 AAAATTTTATTATAATT
1 AAAATTTTAATATAATT
1222285 AATAATTT
1 AA-AATTT
1222293 ATGTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTTTAATATAATT
Found at i:1231252 original size:3 final size:3
Alignment explanation
Indices: 1231244--1231275 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1231234 TGAGGTTTTG
1231244 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1231276 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1232512 original size:6 final size:7
Alignment explanation
Indices: 1232494--1232520 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1232484 CCCAACAGTT
1232494 TAAAAAA
1 TAAAAAA
1232501 TAAAAAA
1 TAAAAAA
1232508 TAAAAAA
1 TAAAAAA
1232515 TAAAAA
1 TAAAAA
1232521 CGGTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:1235709 original size:3 final size:3
Alignment explanation
Indices: 1235701--1235746 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
1235691 TATGATTAAT
*
1235701 TAA TAA TAA TAA TAA TAA TAA T-A TAT TGAA T-A TAA TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
1235746 T
1 T
1235747 TTTATTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 4 0.11
3 28 0.76
4 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1238496 original size:27 final size:26
Alignment explanation
Indices: 1238466--1238535 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
1238456 AAGTAGCTAA
1238466 TTAAATTAAAATATTTAAAAATATATT
1 TTAAATT-AAATATTTAAAAATATATT
* * *
1238493 TTAAATT-AATATTTATATATATTTT
1 TTAAATTAAATATTTAAAAATATATT
1238518 TTATAATTAAAT-TTTAAA
1 TTA-AATTAAATATTTAAA
1238536 TTTTTTATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 18 0.49
26 9 0.24
27 10 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAAATTAAATATTTAAAAATATATT
Found at i:1238538 original size:22 final size:26
Alignment explanation
Indices: 1238475--1238552 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 26
1238465 ATTAAATTAA
* * *
1238475 AATATTTAAAAATATATTTTA-AATT
1 AATATTTATATATATTTTTTATAATT
1238500 AATATTTATATATATTTTTTATAATT
1 AATATTTATATATATTTTTTATAATT
*
1238526 AA-ATTT-TA-A-ATTTTTTATCATTT
1 AATATTTATATATATTTTTTAT-AATT
1238549 AATA
1 AATA
1238553 AAAATATTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 9 0.20
23 6 0.13
24 3 0.07
25 22 0.48
26 6 0.13
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (26 bp):
AATATTTATATATATTTTTTATAATT
Found at i:1240278 original size:16 final size:16
Alignment explanation
Indices: 1240257--1240288 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1240247 TGATAGGGAA
1240257 TAGAATAAATGGTTTC
1 TAGAATAAATGGTTTC
*
1240273 TAGAATAGATGGTTTC
1 TAGAATAAATGGTTTC
1240289 CAAATCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (16 bp):
TAGAATAAATGGTTTC
Found at i:1245235 original size:24 final size:24
Alignment explanation
Indices: 1245208--1245253 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1245198 TAAGTTGTAT
* * *
1245208 TTAACTAAGTTATCTGTTTATAAA
1 TTAAATAAGTTATATATTTATAAA
*
1245232 TTAAATAATTTATATATTTATA
1 TTAAATAAGTTATATATTTATA
1245254 TTATATTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (24 bp):
TTAAATAAGTTATATATTTATAAA
Found at i:1245255 original size:6 final size:6
Alignment explanation
Indices: 1245244--1245289 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
1245234 AAATAATTTA
*
1245244 TATATT TATA-T TATA-T TATATT TATATT T-T-TT TATATT TATTTT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1245288 TA
1 TA
1245290 ATTCAAAGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
4 3 0.08
5 12 0.33
6 21 0.58
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TATATT
Found at i:1245263 original size:16 final size:16
Alignment explanation
Indices: 1245244--1245284 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
1245234 AAATAATTTA
1245244 TATATTTATATTATAT
1 TATATTTATATTATAT
* *
1245260 TATATTTATATTTTTT
1 TATATTTATATTATAT
1245276 TATATTTAT
1 TATATTTAT
1245285 TTTTAATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTTATATTATAT
Found at i:1245769 original size:39 final size:37
Alignment explanation
Indices: 1245700--1245779 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 37
1245690 TCATATTATA
* *
1245700 TTTTTTTAAATTTAAATAAAAATATTTTTAATTTAAT
1 TTTTTTTAAATTTAAATAAAAATATATTTAATATAAT
* *
1245737 TTTTTATTAAAATTTAAAATATAAATA-ATTTAATATACT
1 TTTTT-TT-AAATTT-AAATAAAAATATATTTAATATAAT
1245776 TTTT
1 TTTT
1245780 AATATTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 5 0.14
38 2 0.06
39 19 0.53
40 10 0.28
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (37 bp):
TTTTTTTAAATTTAAATAAAAATATATTTAATATAAT
Found at i:1250257 original size:2 final size:2
Alignment explanation
Indices: 1250250--1250276 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1250240 TCTGGTTTCC
1250250 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1250277 GCGAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Done.