Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007963.1 Hibiscus syriacus cultivar Beakdansim tig00110392_pilon, whole genome shotgun sequence
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: 1627826
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:986 original size:2 final size:2
Alignment explanation
Indices: 979--1014 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
969 TCCAGTTCTT
979 TA TA TA TA TA T- TA TA T- TA TA TA TA T- 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
1015 TTCATTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:998 original size:14 final size:13
Alignment explanation
Indices: 979--1014 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
969 TCCAGTTCTT
979 TATATATATATTA
1 TATATATATATTA
992 TATTATATATATTA
1 TA-TATATATATTA
1006 TATATATAT
1 TATATATAT
1015 TTCATTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATATATTA
Found at i:1002 original size:9 final size:9
Alignment explanation
Indices: 978--1012 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
968 ATCCAGTTCT
978 TTATATATA
1 TTATATATA
987 -TAT-TATA
1 TTATATATA
994 TTATATATA
1 TTATATATA
1003 TTATATATA
1 TTATATATA
1012 T
1 T
1013 ATTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 4 0.17
8 6 0.25
9 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:1045 original size:6 final size:6
Alignment explanation
Indices: 1024--1185 Score: 53
Period size: 6 Copynumber: 25.3 Consensus size: 6
1014 TTTCATTTCA
* *
1024 TTTTAT TTTATTT TTTTAT TTTTAT TTTTATT CTTTTAT TCTTT-T TTACTAT
1 TTTTAT TTT-TAT TTTTAT TTTTAT TTTTA-T -TTTTAT T-TTTAT TT-TTAT
* * * * * *
1076 TTTTCTT TCTTTAT TATTAT TATTAT TATTAT CATTATAT TTTTCT TATTT-T
1 TTTT-AT T-TTTAT TTTTAT TTTTAT TTTTAT --TTTTAT TTTTAT T-TTTAT
* ** **
1128 TTTTAAT TTATT-T TACTTAT TTTTAT TTTT-T TCACTAT TTTTAT TTTTGG
1 TTTT-AT TT-TTAT T-TTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT
1178 TTTTAT TT
1 TTTTAT TT
1186 ATTTATTTGT
Statistics
Matches: 117, Mismatches: 21, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
5 6 0.05
6 70 0.60
7 27 0.23
8 14 0.12
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:1052 original size:20 final size:20
Alignment explanation
Indices: 1024--1157 Score: 78
Period size: 20 Copynumber: 6.5 Consensus size: 20
1014 TTTCATTTCA
1024 TTTTA-TTTTATTTTTTTAT
1 TTTTATTTTTATTTTTTTAT
*
1043 TTTTATTTTTATTCTTTTAT
1 TTTTATTTTTATTTTTTTAT
*
1063 TCTTT-TTTACTATTTTTCTT-T
1 T-TTTATTT-TTATTTTT-TTAT
* * *
1084 CTTTATTATTATTATTATTAT
1 TTTTATTTTTATT-TTTTTAT
* * *
1105 TATCA-TTATATTTTTCTTAT
1 TTTTATTTTTATTTTT-TTAT
* *
1125 TTTTTTTAATTTATTTTACTTAT
1 TTTTATT--TTTATTTT-TTTAT
1148 TTTTATTTTT
1 TTTTATTTTT
1158 TTCACTATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
19 7 0.08
20 37 0.44
21 21 0.25
22 2 0.02
23 17 0.20
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTATTTTTATTTTTTTAT
Found at i:1159 original size:9 final size:9
Alignment explanation
Indices: 1023--1175 Score: 67
Period size: 9 Copynumber: 15.7 Consensus size: 9
1013 ATTTCATTTC
1023 ATTTTATTTT
1 ATTTT-TTTT
1033 A-TTTTTTT
1 ATTTTTTTT
1041 ATTTTTATTT
1 ATTTTT-TTT
1051 -TTATTCTTTT
1 ATT-TT-TTTT
1061 ATTCTTTTTT
1 ATT-TTTTTT
* *
1071 ACTATTTTT
1 ATTTTTTTT
*
1080 CTTTCTTTATT
1 ATTT-TTT-TT
1091 ATTATTATTATT
1 ATT-TT-TT-TT
* *
1103 ATTATCATTAT
1 ATT-T-TTTTT
*
1114 ATTTTTCTT
1 ATTTTTTTT
1123 ATTTTTTTT
1 ATTTTTTTT
*
1132 AATTTATTTT
1 -ATTTTTTTT
*
1142 ACTTATTTTT
1 A-TTTTTTTT
*
1152 ATTTTTTTC
1 ATTTTTTTT
* *
1161 ACTATTTTT
1 ATTTTTTTT
1170 ATTTTT
1 ATTTTT
1176 GGTTTTATTT
Statistics
Matches: 108, Mismatches: 23, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
8 5 0.05
9 42 0.39
10 34 0.31
11 14 0.13
12 13 0.12
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.75
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:1166 original size:18 final size:18
Alignment explanation
Indices: 1024--1175 Score: 79
Period size: 18 Copynumber: 8.6 Consensus size: 18
1014 TTTCATTTCA
**
1024 TTTTATTTTATTTTTTTAT
1 TTTTATTTT-TTTACTTAT
1043 TTTTATTTTTATT-CTT-T
1 TTTTATTTTT-TTACTTAT
* *
1060 TATT-CTTTTTTAC-TAT
1 TTTTATTTTTTTACTTAT
* *
1076 TTTTCTTTCTTTA-TTAT
1 TTTTATTTTTTTACTTAT
* * *
1093 TATTATTATTATTA-TCA-
1 TTTTATT-TTTTTACTTAT
* *
1110 TTATATTTTTCTTA-TTTT
1 TTTTATTTTT-TTACTTAT
1128 TTTTAATTTATTTTACTTAT
1 TTTT-ATTT-TTTTACTTAT
1148 TTTTATTTTTTTCAC-TAT
1 TTTTATTTTTTT-ACTTAT
1166 TTTTATTTTT
1 TTTTATTTTT
1176 GGTTTTATTT
Statistics
Matches: 103, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
15 3 0.03
16 11 0.11
17 27 0.26
18 29 0.28
19 24 0.23
20 9 0.09
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTTTACTTAT
Found at i:1169 original size:19 final size:17
Alignment explanation
Indices: 1029--1175 Score: 65
Period size: 17 Copynumber: 8.6 Consensus size: 17
1019 TTTCATTTTA
1029 TTTTATTTTTTTA---T
1 TTTTATTTTTTTACTTT
1043 TTTTATTTTTATT-CTTT
1 TTTTATTTTT-TTACTTT
* * *
1060 TATT-CTTTTTTACTAT
1 TTTTATTTTTTTACTTT
* *
1076 TTTTCTTTCTTTA-TTAT
1 TTTTATTTTTTTACTT-T
* * **
1093 TATTATTATTATTA-TCA
1 TTTTATT-TTTTTACTTT
* *
1110 TTATATTTTTCTTATTTT
1 TTTTATTTTT-TTACTTT
1128 TTTTAATTTATTTTACTTAT
1 TTTT-ATTT-TTTTACTT-T
*
1148 TTTTATTTTTTTCACTAT
1 TTTTATTTTTTT-ACTTT
1166 TTTTATTTTT
1 TTTTATTTTT
1176 GGTTTTATTT
Statistics
Matches: 98, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
14 10 0.10
15 4 0.04
16 13 0.13
17 24 0.24
18 24 0.24
19 16 0.16
20 7 0.07
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTTACTTT
Found at i:1222 original size:2 final size:2
Alignment explanation
Indices: 1217--1279 Score: 53
Period size: 2 Copynumber: 33.0 Consensus size: 2
1207 TTTTTCTGTA
* * *
1217 AT AT AT AT AT AT AT AT AT -T AT -T A- AT A- AT AT TT AT TT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1255 AT ACT AC AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT
1280 TCTCTTTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
1 4 0.08
2 42 0.88
3 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1410 original size:5 final size:5
Alignment explanation
Indices: 1371--1434 Score: 58
Period size: 5 Copynumber: 12.4 Consensus size: 5
1361 CATCCCTATC
* * * *
1371 TTATT CTATT TTACT TTATT CTATT TTATT ATTATT TTATT TT-TT TAATT
1 TTATT TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTATT
1421 TTAATT TTAATT TT
1 TT-ATT TT-ATT TT
1435 TAGCTACTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
4 3 0.06
5 29 0.60
6 16 0.33
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:2754 original size:2 final size:2
Alignment explanation
Indices: 2747--2771 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2737 GCCAATTGAT
2747 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
2772 TAAGCTGCTA
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:3319 original size:18 final size:18
Alignment explanation
Indices: 3296--3351 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
3286 AGGCATTTCA
3296 TCCTCTGGCTGTTCTTGT
1 TCCTCTGGCTGTTCTTGT
*
3314 TCCTCT-GCTCGTGCTTGT
1 TCCTCTGGCT-GTTCTTGT
*
3332 TCCTC-GTGCTGTTCTGGT
1 TCCTCTG-GCTGTTCTTGT
3350 TC
1 TC
3352 ATTGTTGGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.00, C:0.30, G:0.23, T:0.46
Consensus pattern (18 bp):
TCCTCTGGCTGTTCTTGT
Found at i:17172 original size:2 final size:2
Alignment explanation
Indices: 17165--17239 Score: 50
Period size: 2 Copynumber: 38.5 Consensus size: 2
17155 ATAAAGAGAA
* * *
17165 AT AT AT AT AT AT AT AT AT AT AT A- AT AT GT AGT AT AT AA AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
17207 AT GA- AA AG A- AA AT A- 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 AT A
17240 CATAAAAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
1 4 0.07
2 52 0.88
3 3 0.05
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (2 bp):
AT
Found at i:17295 original size:23 final size:24
Alignment explanation
Indices: 17269--17327 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
17259 GAAAACAAAT
*
17269 AAATAAATAAAAACA-AAAAAGAA
1 AAATAAGTAAAAACATAAAAAGAA
* *
17292 AAAT-AGTGAAAAATATAAAAATAA
1 AAATAAGT-AAAAACATAAAAAGAA
17316 AAATAAGTAAAA
1 AAATAAGTAAAA
17328 TAAATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 2 0.07
23 10 0.33
24 15 0.50
25 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (24 bp):
AAATAAGTAAAAACATAAAAAGAA
Found at i:17328 original size:23 final size:23
Alignment explanation
Indices: 17284--17353 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 23
17274 AATAAAAACA
*
17284 AAAAAGAAAAAT-AGTGAAAAATAT
1 AAAAATAAAAATAAGT--AAAATAT
17308 AAAAATAAAAATAAGTAAAATA-
1 AAAAATAAAAATAAGTAAAATAT
*
17330 AATAAAT--AAATAAGAAAAATAT
1 AA-AAATAAAAATAAGTAAAATAT
17352 AA
1 AA
17354 TGATGATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 13 0.32
22 4 0.10
23 10 0.24
24 11 0.27
25 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (23 bp):
AAAAATAAAAATAAGTAAAATAT
Found at i:17334 original size:25 final size:24
Alignment explanation
Indices: 17284--17335 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
17274 AATAAAAACA
*
17284 AAAAAGAAAAATAGTGAAAAATAT
1 AAAAAGAAAAATAGTGAAAAAAAT
*
17308 AAAAATAAAAATAAGT-AAAATAAAT
1 AAAAAGAAAAAT-AGTGAAAA-AAAT
17333 AAA
1 AAA
17336 TAAATAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAAGAAAAATAGTGAAAAAAAT
Found at i:17450 original size:3 final size:3
Alignment explanation
Indices: 17437--17496 Score: 111
Period size: 3 Copynumber: 19.7 Consensus size: 3
17427 GAAATAAATA
17437 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17483 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
17497 AAGGTCTGGA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21552 original size:12 final size:12
Alignment explanation
Indices: 21509--21558 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
21499 CAAAACATTT
21509 TTATTTTACTTG
1 TTATTTTACTTG
21521 TTTATTTT--TTG
1 -TTATTTTACTTG
21532 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
21546 TTATTTTCCTTG
1 TTATTTTACTTG
21558 T
1 T
21559 CTTTTTCAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 1 0.03
11 5 0.16
12 13 0.41
13 9 0.28
14 4 0.12
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.68
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:27165 original size:45 final size:45
Alignment explanation
Indices: 27110--27324 Score: 308
Period size: 45 Copynumber: 4.8 Consensus size: 45
27100 ATAACAGACA
*
27110 ACATCCTTTCATGCCTTTTATACACCATGATACAATTCATTTATG
1 ACATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATG
*
27155 ACATTCTTTCATGCCTTTTATACACCATGATACATTTCATTTATG
1 ACATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATG
* * * *
27200 ACATCCTTTCTTTCTTTTTATACACCATGATGCATTTCATTTATG
1 ACATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATG
* *
27245 ACATCCTTTCATGCCTTTTATACACCATTAAACATTTCATTTATG
1 ACATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATG
* * *
27290 GCA-CCTTTTCATG-TTTTTATACACCATTATACATT
1 ACATCC-TTTCATGCCTTTTATACACCATGATACATT
27325 GTTATCCATC
Statistics
Matches: 153, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.14
45 131 0.86
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (45 bp):
ACATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATG
Found at i:27701 original size:55 final size:55
Alignment explanation
Indices: 27564--28286 Score: 845
Period size: 55 Copynumber: 13.3 Consensus size: 55
27554 TTTATTAAGA
* * * *
27564 TGCACATATAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATT-TCGTGG-GT
1 TGCACACATAGTGCATGTACGGTTA-TTCATCAACTCATGATGAATTCT-GTGGATT
* * * *
27618 TGCACACATCGTTCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* *
27673 TGCACACATAGTGCATGTATGGTTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
27728 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* *
27783 TGCACACATAGTGTATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * ** * * *
27838 TGCATACATAGTGCTTGTATAGTTATTCATCAACTCTTGATGAATTCCGTGGAAT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* ** *
27893 TGCACACATAGTGCTTACACGGTTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * *
27948 TGAACACATAGTGCCTGCACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * *
28003 TACACACATAGTTCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-A
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * * * * * **
28057 TGCACGCTTAGTGCCTGTACGGTTATTCATCAACTTAAGATGAATTC-CTCGAAA
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * * *
28111 TGCACACTTAGTGCTTGTACGATTATTCATCAACTCATGATGAATTCCGTGGA-A
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * *
28165 TGCACACTTAGTGCCTGTATGGTTATTCATCAACTCATGATGAATT-TCGTGGA-A
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGATT
* ** * *
28219 TGCACACTTAGTGTGTGTACGGTTATTCGTCAACTCATGATGAATT-TCGTGGA-A
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGATT
*
28273 TGCACACTTAGTGC
1 TGCACACATAGTGC
28287 CTATTTGGTA
Statistics
Matches: 598, Mismatches: 65, Indels: 12
0.89 0.10 0.02
Matches are distributed among these distances:
53 3 0.01
54 239 0.40
55 356 0.60
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (55 bp):
TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
Found at i:29446 original size:7 final size:7
Alignment explanation
Indices: 29408--29454 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
29398 AAGAATATAA
29408 AATAAATT
1 AATAAA-T
* *
29416 ATTAAGT
1 AATAAAT
29423 AATAAAT
1 AATAAAT
*
29430 AATTAA-
1 AATAAAT
29436 AATAAAT
1 AATAAAT
29443 AATAAAT
1 AATAAAT
29450 AATAA
1 AATAA
29455 TTTTCTTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
6 5 0.16
7 23 0.72
8 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:29678 original size:26 final size:25
Alignment explanation
Indices: 29648--29703 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
29638 CCTTCACAGT
*
29648 TATTTAAAATTTTATTTCTTTTAAAAC
1 TATTTAAAATTTTA--ACTTTTAAAAC
**
29675 -ATTTCTAATTTTAACTTTTAAAAC
1 TATTTAAAATTTTAACTTTTAAAAC
29699 TATTT
1 TATTT
29704 TTTATGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 10 0.40
25 4 0.16
26 11 0.44
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTAAAATTTTAACTTTTAAAAC
Found at i:29748 original size:2 final size:2
Alignment explanation
Indices: 29741--29771 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29731 TTTAAACTAC
29741 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
29772 CAGACATATC
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:39672 original size:18 final size:17
Alignment explanation
Indices: 39618--39666 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
39608 TTGGACTCCT
* *
39618 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
39636 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
39654 AGTGCATTCGATG
1 AGTGCA-TCGATG
39667 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:39687 original size:64 final size:62
Alignment explanation
Indices: 39618--39797 Score: 177
Period size: 64 Copynumber: 2.8 Consensus size: 62
39608 TTGGACTCCT
* *
39618 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-TAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAG
* * * ** * *
39679 CCTGGTGCATCGATGCAT-GGCTTGTGCATCGATGCAACAAATGCATTTGATGTTTTAATTAAAT
1 ---AGTGCATCGATGCATAAG--AGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-TAAAT
39743 CAG
60 CAG
*
39746 AGTGCATCGATGCATGAAGAGTGCATCGGTGCATGAAATGCATTCGATGTTT
1 AGTGCATCGATGCAT-AAGAGTGCATCGATGCATGAAATGCATTCGATGTTT
39798 CAAATTATTC
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 84 0.90
66 5 0.05
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCATAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAG
Found at i:39768 original size:19 final size:19
Alignment explanation
Indices: 39744--39794 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
39734 TAATTAAATC
39744 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
*
39763 AGAGTGCATCGGTGCATGA
1 AGAGTGCATCGATGCATGA
39782 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
39795 TTTCAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGA
Found at i:39832 original size:21 final size:21
Alignment explanation
Indices: 39808--39847 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39798 CAAATTATTC
39808 ATTGATGCACCGATGCATGGT
1 ATTGATGCACCGATGCATGGT
* *
39829 ATTGATGCATCGGTGCATG
1 ATTGATGCACCGATGCATG
39848 CCTTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
ATTGATGCACCGATGCATGGT
Found at i:42231 original size:15 final size:16
Alignment explanation
Indices: 42195--42233 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
42185 AGAGCCTCTA
*
42195 AATCATTCAGCATTTG
1 AATCATTCAGCACTTG
*
42211 AATCATTCAGCGCTT-
1 AATCATTCAGCACTTG
42226 AATCATTC
1 AATCATTC
42234 TGAAATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (16 bp):
AATCATTCAGCACTTG
Found at i:47635 original size:21 final size:21
Alignment explanation
Indices: 47610--47652 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
47600 TAATAAATAA
47610 TAATAATAA-TATATATTATAT
1 TAATAATAATTAT-TATTATAT
*
47631 TAATAATTATTATTATTATAT
1 TAATAATAATTATTATTATAT
47652 T
1 T
47653 TATGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAATAATTATTATTATAT
Found at i:47825 original size:45 final size:45
Alignment explanation
Indices: 47774--49161 Score: 2488
Period size: 45 Copynumber: 30.8 Consensus size: 45
47764 GACGGAAATG
* *
47774 TTTGAAAATATCATGCACTGAAGGGCTTACAAATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
47819 TTTGAAAACATCAAGCATTGAAGGGCTTATAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
* *
47865 TTTGAAAATATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
*
47911 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
47956 TTTGATAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48001 TTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48046 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48091 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48136 TTTGATAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48181 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48226 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48271 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48316 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48361 TTTGAAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48406 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48451 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
48496 TTTGATAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
48541 TTTGAAAACATCATACACTGAAGGGCTTACAAATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48586 TTTGAAAACATCATGCACTGAAGGGCATACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48631 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCCGAAGGT
*
48677 TTTGAAAACATCATGCACTGAAAGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48722 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
48767 TTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48812 TTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
48857 TTTGATAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48902 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48947 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
48992 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
49037 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
49082 TTTGAAAACATCATGAACTGAAGGGCTTACATATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
49127 TTTGAAAACATCATGCACTGAAGGGTTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
49162 TTGGAAATAG
Statistics
Matches: 1287, Mismatches: 54, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
45 1159 0.90
46 128 0.10
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:49856 original size:22 final size:22
Alignment explanation
Indices: 49828--49906 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
49818 AATAAAGCTT
*
49828 TCATCTTTTAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
49850 TCATCTTT--AAAGAGATAGGCTA
1 TCATCTTTGAAAAGAGA-A-TCTA
* *
49872 TCATCTTTGAAGAA-ATAGTCTA
1 TCATCTTTGAA-AAGAGAATCTA
49894 TCATCTTTGAAAA
1 TCATCTTTGAAAA
49907 TTGTAGATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
20 7 0.15
21 3 0.06
22 33 0.69
24 3 0.06
25 2 0.04
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:51136 original size:18 final size:18
Alignment explanation
Indices: 51083--51149 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
51073 ATGTAATTTA
51083 TAAT-ATATATATT-TATT
1 TAATAATATATATTATA-T
51100 TAATAATA-A-A-TA-A-
1 TAATAATATATATTATAT
51113 TAATAATATATATTATAT
1 TAATAATATATATTATAT
51131 TAATAAT-TATTATTATAT
1 TAATAATATA-TATTATAT
51149 T
1 T
51150 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 8 0.19
14 1 0.02
15 3 0.07
16 3 0.07
17 8 0.19
18 19 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAATATATATTATAT
Found at i:51792 original size:18 final size:18
Alignment explanation
Indices: 51769--51822 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
51759 AAGATCCGAC
51769 CGCGATTTCGTCCGCGAT
1 CGCGATTTCGTCCGCGAT
*
51787 CGCGATTTCGTCCGCGAC
1 CGCGATTTCGTCCGCGAT
51805 CGCGATTTCGTCCGCGAT
1 CGCGATTTCGTCCGCGAT
51823 ATAGTGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.11, C:0.35, G:0.28, T:0.26
Consensus pattern (18 bp):
CGCGATTTCGTCCGCGAT
Found at i:52868 original size:32 final size:32
Alignment explanation
Indices: 52827--52891 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
52817 GTGAAGGACG
52827 CCATTCGAGAATTTCAAAAAATTAAAGCCAAA
1 CCATTCGAGAATTTCAAAAAATTAAAGCCAAA
52859 CCATTCGAGAATTTCAAAAAATTAAAGCCAAA
1 CCATTCGAGAATTTCAAAAAATTAAAGCCAAA
52891 C
1 C
52892 AATTAGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (32 bp):
CCATTCGAGAATTTCAAAAAATTAAAGCCAAA
Found at i:54565 original size:9 final size:9
Alignment explanation
Indices: 54551--54577 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
54541 CCCTTTTTCC
54551 CTTCTCATA
1 CTTCTCATA
54560 CTTCTCATA
1 CTTCTCATA
54569 CTTCTCATA
1 CTTCTCATA
54578 ATACTCCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTCTCATA
Found at i:55695 original size:21 final size:21
Alignment explanation
Indices: 55621--55696 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
55611 CTATTTCATT
* *
55621 ACCATCTTCATCTATACCTCC
1 ACCATCTTCATCTATTCCACC
* *
55642 ACAATCTTC-TAC-ACTTCCATC
1 ACCATCTTCAT-CTA-TTCCACC
**
55663 ACCATCACCATCTATTCCACC
1 ACCATCTTCATCTATTCCACC
55684 ACCATCTTCATCT
1 ACCATCTTCATCT
55697 CGTTCTGCTG
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.26, C:0.42, G:0.00, T:0.32
Consensus pattern (21 bp):
ACCATCTTCATCTATTCCACC
Found at i:56046 original size:18 final size:18
Alignment explanation
Indices: 56023--56057 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56013 AAATAAATGT
56023 AAATGAACACAAACGAAC
1 AAATGAACACAAACGAAC
*
56041 AAATGAACATAAACGAA
1 AAATGAACACAAACGAA
56058 TAAACATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.17, G:0.11, T:0.09
Consensus pattern (18 bp):
AAATGAACACAAACGAAC
Found at i:56196 original size:23 final size:23
Alignment explanation
Indices: 56153--56196 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
56143 TAATTGGGTT
*
56153 TTAAAATATTAATGAGTTTAAGG
1 TTAAAATATTAATAAGTTTAAGG
*
56176 TTAAAAT-TTATTAAGTCTTAA
1 TTAAAATATTAATAAGT-TTAA
56197 TATTTCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (23 bp):
TTAAAATATTAATAAGTTTAAGG
Found at i:56248 original size:14 final size:14
Alignment explanation
Indices: 56229--56255 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56219 TGGACTGAAT
56229 ATAAACGAACGAAC
1 ATAAACGAACGAAC
56243 ATAAACGAACGAA
1 ATAAACGAACGAA
56256 TTATCAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (14 bp):
ATAAACGAACGAAC
Found at i:65793 original size:21 final size:21
Alignment explanation
Indices: 65763--65803 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
65753 GTTCATTTAT
65763 TTGAAAGTGCATCGATACACA
1 TTGAAAGTGCATCGATACACA
*
65784 TTGAATGTGCATCGATACAC
1 TTGAAAGTGCATCGATACAC
65804 TTTGCCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (21 bp):
TTGAAAGTGCATCGATACACA
Found at i:70458 original size:33 final size:33
Alignment explanation
Indices: 70416--70496 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
70406 GTGGAGGCGG
70416 TGGTGGTGGAGGGGAGCTATAGTAGTAAGGAAT
1 TGGTGGTGGAGGGGAGCTATAGTAGTAAGGAAT
70449 TGGTGGTGGAGGGGAGCTATAGTAGTAAGGAAT
1 TGGTGGTGGAGGGGAGCTATAGTAGTAAGGAAT
* *
70482 TGGTGGCGGCGGGGA
1 TGGTGGTGGAGGGGA
70497 AAATAATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.23, C:0.05, G:0.49, T:0.22
Consensus pattern (33 bp):
TGGTGGTGGAGGGGAGCTATAGTAGTAAGGAAT
Found at i:70636 original size:15 final size:15
Alignment explanation
Indices: 70612--70664 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
70602 ATAAGTAGGG
*
70612 GGTGGGGGTGAAGGT
1 GGTGGAGGTGAAGGT
* *
70627 GGTGGAGGTGAGGGC
1 GGTGGAGGTGAAGGT
* *
70642 GGGGGAGGTGACGGT
1 GGTGGAGGTGAAGGT
70657 GGTGGAGG
1 GGTGGAGG
70665 CGGTGGAGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.13, C:0.04, G:0.68, T:0.15
Consensus pattern (15 bp):
GGTGGAGGTGAAGGT
Found at i:70701 original size:42 final size:42
Alignment explanation
Indices: 70654--70814 Score: 109
Period size: 36 Copynumber: 4.2 Consensus size: 42
70644 GGGAGGTGAC
* * *
70654 GGTGGTGGAGGCGGTGGAGAGTTAACAGGTGGAGGTGGAGGT
1 GGTGGTGGAGGAGGAGGAGAGTAAACAGGTGGAGGTGGAGGT
* *
70696 GGTGGTGGTGGAGGAGGCGAGTAAACAGGT----G-GG-GGT
1 GGTGGTGGAGGAGGAGGAGAGTAAACAGGTGGAGGTGGAGGT
* *
70732 GGTGGT-G-GG-GGAGGCGAGTAAAC---TGGAGGTGGCGGT
1 GGTGGTGGAGGAGGAGGAGAGTAAACAGGTGGAGGTGGAGGT
* * * *
70768 GATGGT---GGAGGTGGAGAGTAAACCGGTGGTGGTGGAGGT
1 GGTGGTGGAGGAGGAGGAGAGTAAACAGGTGGAGGTGGAGGT
*
70807 GGTAGTGG
1 GGTGGTGG
70815 CAAAACGACT
Statistics
Matches: 95, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
30 1 0.01
33 14 0.15
34 3 0.03
35 5 0.05
36 29 0.31
37 2 0.02
38 1 0.01
39 15 0.16
42 25 0.26
ACGTcount: A:0.19, C:0.06, G:0.57, T:0.19
Consensus pattern (42 bp):
GGTGGTGGAGGAGGAGGAGAGTAAACAGGTGGAGGTGGAGGT
Found at i:70726 original size:36 final size:36
Alignment explanation
Indices: 70686--70809 Score: 137
Period size: 36 Copynumber: 3.5 Consensus size: 36
70676 TAACAGGTGG
*
70686 AGGTGGAGGTGGTGGTGGTGGAGGAGGCGAGTAAAC
1 AGGTGGTGGTGGTGGTGGTGGAGGAGGCGAGTAAAC
*
70722 AGGT-G-GG-GGTGGTGGTGGGGGAGGCGAGTAAAC
1 AGGTGGTGGTGGTGGTGGTGGAGGAGGCGAGTAAAC
* * * * * *
70755 TGGAGGTGGCGGTGATGGTGGAGGTGGAGAGTAAAC
1 AGGTGGTGGTGGTGGTGGTGGAGGAGGCGAGTAAAC
* *
70791 CGGTGGTGGTGGAGGTGGT
1 AGGTGGTGGTGGTGGTGGT
70810 AGTGGCAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
33 27 0.37
34 3 0.04
35 3 0.04
36 40 0.55
ACGTcount: A:0.19, C:0.06, G:0.57, T:0.19
Consensus pattern (36 bp):
AGGTGGTGGTGGTGGTGGTGGAGGAGGCGAGTAAAC
Found at i:70730 original size:111 final size:111
Alignment explanation
Indices: 70612--70814 Score: 244
Period size: 111 Copynumber: 1.8 Consensus size: 111
70602 ATAAGTAGGG
* * **** * * *
70612 GGTGGGGGTGAAGGTGGTGGAGGTGAGGGCGGGGGAGGTGACGGTGGTGGAGGCGGTGGAGAGTT
1 GGTGGGGGTGAAGGTGGGGGAGGCGAGGAAACGGGAGGTGACGGTGATGGAGGAGGTGGAGAGTA
*
70677 AACAGGTGGAGGTGGAGGTGGTGGTGGTGGAGGAGGCGAGTAAACA
66 AACAGGTGGAGGTGGAGGTGGTAGTGGTGGAGGAGGCGAGTAAACA
** * * * *
70723 GGTGGGGGTGGTGGTGGGGGAGGCGAGTAAACTGGAGGTGGCGGTGATGGTGGAGGTGGAGAGTA
1 GGTGGGGGTGAAGGTGGGGGAGGCGAGGAAACGGGAGGTGACGGTGATGGAGGAGGTGGAGAGTA
* *
70788 AACCGGTGGTGGTGGAGGTGGTAGTGG
66 AACAGGTGGAGGTGGAGGTGGTAGTGG
70815 CAAAACGACT
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
111 74 1.00
ACGTcount: A:0.18, C:0.05, G:0.59, T:0.18
Consensus pattern (111 bp):
GGTGGGGGTGAAGGTGGGGGAGGCGAGGAAACGGGAGGTGACGGTGATGGAGGAGGTGGAGAGTA
AACAGGTGGAGGTGGAGGTGGTAGTGGTGGAGGAGGCGAGTAAACA
Found at i:70733 original size:33 final size:33
Alignment explanation
Indices: 70696--70808 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
70686 AGGTGGAGGT
*
70696 GGTGGTGGTGGAGGAGGCGAGTAAACAGGTGGG
1 GGTGGTGGTGGAGGAGGCGAGTAAACAGGTGGC
*
70729 GGTGGTGGTGGGGGAGGCGAGTAAACTGGAGGTGGC
1 GGTGGTGGTGGAGGAGGCGAGTAAAC---AGGTGGC
* * * * *
70765 GGTGATGGTGGAGGTGGAGAGTAAACCGGTGGT
1 GGTGGTGGTGGAGGAGGCGAGTAAACAGGTGGC
*
70798 GGTGGAGGTGG
1 GGTGGTGGTGG
70809 TAGTGGCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
33 39 0.58
36 28 0.42
ACGTcount: A:0.19, C:0.06, G:0.58, T:0.18
Consensus pattern (33 bp):
GGTGGTGGTGGAGGAGGCGAGTAAACAGGTGGC
Found at i:77896 original size:3 final size:3
Alignment explanation
Indices: 77869--77931 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
77859 TATATGCTCC
* * * * * * *
77869 TGA TGA CGA TGA CGA TGA TGG TGA TGA TGA TGA TGG TGG TGG TGG TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
77917 TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA
77932 GAGTGAGGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (3 bp):
TGA
Found at i:78240 original size:69 final size:69
Alignment explanation
Indices: 78113--78243 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 69
78103 TTAATTTATT
* * * **
78113 TTGTTAATTTCGTTTATTACTTAATTCAAGAGAATAATTTTATCATTTAGTGTTTTTTAATCATT
1 TTGTTAATTTCGTTAATTACTTAATTCAAGAGAATAAGTTTATCATTTACTGAATTTTAATCATT
78178 TTTC
66 TTTC
* * * * *
78182 TTGTTAATTTTGTTAATTACTTAATTGAAGCGAATGAGTTTATTATTTACTGAATTTTAATC
1 TTGTTAATTTCGTTAATTACTTAATTCAAGAGAATAAGTTTATCATTTACTGAATTTTAATC
78244 CCTTGTCTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 52 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (69 bp):
TTGTTAATTTCGTTAATTACTTAATTCAAGAGAATAAGTTTATCATTTACTGAATTTTAATCATT
TTTC
Found at i:100791 original size:21 final size:21
Alignment explanation
Indices: 100740--100793 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
100730 CGAGGAGCAA
*
100740 TTGGGAAATGAAGAACGAGGGT
1 TTGGGAATTGAAGAAC-AGGGT
*
100762 TAGGG-ATTGAAGAA-AGGGAT
1 TTGGGAATTGAAGAACAGGG-T
100782 TTGGGAATTGAA
1 TTGGGAATTGAA
100794 TCACATGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 14 0.52
22 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.39, T:0.22
Consensus pattern (21 bp):
TTGGGAATTGAAGAACAGGGT
Found at i:110154 original size:13 final size:12
Alignment explanation
Indices: 110127--110158 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
110117 ATATCTAAAA
110127 TTATATATTTAG
1 TTATATATTTAG
110139 TTATATATTATAG
1 TTATATATT-TAG
110152 TTATATA
1 TTATATA
110159 AATCTAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (12 bp):
TTATATATTTAG
Found at i:112632 original size:65 final size:64
Alignment explanation
Indices: 112563--112695 Score: 221
Period size: 65 Copynumber: 2.1 Consensus size: 64
112553 CACTAATTAT
*
112563 ATTCGATGTTTCAAAATAGCCAGGAGTGCATCGATGCATGGTCTGTGCATCGGTACACAAAATGC
1 ATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGT-TGTGCATCGGTACACAAAATGC
* **
112628 ATTCGATGTTTCAATATATTCAAGAGTGCATCGATGCATGGTTGTGCATCGGTACACAAAATGC
1 ATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGTTGTGCATCGGTACACAAAATGC
112692 ATTC
1 ATTC
112696 AAAATAGGGT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 26 0.41
65 38 0.59
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (64 bp):
ATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGTTGTGCATCGGTACACAAAATGC
Found at i:113069 original size:13 final size:12
Alignment explanation
Indices: 113037--113070 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
113027 TAAGATTTTC
113037 TTTGAAAATCAT
1 TTTGAAAATCAT
*
113049 TTTAAAAATCATT
1 TTTGAAAATCA-T
113062 TTTGAAAAT
1 TTTGAAAAT
113071 TACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (12 bp):
TTTGAAAATCAT
Found at i:114798 original size:13 final size:13
Alignment explanation
Indices: 114780--114813 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
114770 AATGGGCAAT
*
114780 TTTGAAAACTATG
1 TTTGAAAACGATG
114793 TTTGAAAACGATG
1 TTTGAAAACGATG
114806 TTTGAAAA
1 TTTGAAAA
114814 TTAATCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (13 bp):
TTTGAAAACGATG
Found at i:114866 original size:20 final size:21
Alignment explanation
Indices: 114828--114874 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
114818 TCTGAAGTTT
114828 TCAAAAACAACATAATT-AAA
1 TCAAAAACAACATAATTAAAA
*
114848 TCAAAAACAACA-ATTTTAAAA
1 TCAAAAACAACATA-ATTAAAA
114869 TCAAAA
1 TCAAAA
114875 CAATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 14 0.58
21 9 0.38
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (21 bp):
TCAAAAACAACATAATTAAAA
Found at i:114884 original size:20 final size:20
Alignment explanation
Indices: 114861--114903 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
114851 AAAACAACAA
*
114861 TTTTAAAATC-AAAACAATT
1 TTTTTAAATCGAAAACAATT
**
114880 TTTTTATTTCGAAAACAATT
1 TTTTTAAATCGAAAACAATT
114900 TTTT
1 TTTT
114904 ATTTCGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTTTAAATCGAAAACAATT
Found at i:114901 original size:19 final size:20
Alignment explanation
Indices: 114871--114913 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
114861 TTTTAAAATC
114871 AAAACAATTTTTTTATTTCG
1 AAAACAATTTTTTTATTTCG
114891 AAAACAA-TTTTTTATTTCG
1 AAAACAATTTTTTTATTTCG
114910 AAAA
1 AAAA
114914 TTAAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAACAATTTTTTTATTTCG
Found at i:115318 original size:15 final size:15
Alignment explanation
Indices: 115298--115340 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
115288 TTTAAATTTA
*
115298 GTTCGGATTGTTTCG
1 GTTCGGGTTGTTTCG
*
115313 GTTCGGGTTATTTCG
1 GTTCGGGTTGTTTCG
115328 GTTCGGGTTGTTT
1 GTTCGGGTTGTTT
115341 TCAATTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.05, C:0.12, G:0.35, T:0.49
Consensus pattern (15 bp):
GTTCGGGTTGTTTCG
Found at i:115702 original size:16 final size:16
Alignment explanation
Indices: 115664--115722 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
115654 AAATTTAAGA
*
115664 TACTTTCGGTTCAGAT
1 TACTTTCGGTTCGGAT
* * *
115680 TATTTTCAGTTCGGGT
1 TACTTTCGGTTCGGAT
115696 TACTTTCGGTTCGGAT
1 TACTTTCGGTTCGGAT
*
115712 TACTTTTGGTT
1 TACTTTCGGTT
115723 TGGTTAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.14, C:0.15, G:0.22, T:0.49
Consensus pattern (16 bp):
TACTTTCGGTTCGGAT
Found at i:126297 original size:15 final size:15
Alignment explanation
Indices: 126279--126307 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
126269 CCACGGTGCT
126279 CCGGAATCCTGCGCC
1 CCGGAATCCTGCGCC
126294 CCGGAATCCTGCGC
1 CCGGAATCCTGCGC
126308 GATTGTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.45, G:0.28, T:0.14
Consensus pattern (15 bp):
CCGGAATCCTGCGCC
Found at i:128868 original size:29 final size:29
Alignment explanation
Indices: 128826--128884 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
128816 ATTTTCACCT
128826 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
128855 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
128884 A
1 A
128885 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:133277 original size:29 final size:29
Alignment explanation
Indices: 133235--133293 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
133225 ATTTTCACCT
*
133235 AACTAAATTGATGTAAGCAATGGCATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
133264 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
133293 A
1 A
133294 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:135186 original size:19 final size:20
Alignment explanation
Indices: 135151--135188 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
135141 AATTACATAT
135151 TTAATTTATTATGATAATTA
1 TTAATTTATTATGATAATTA
*
135171 TTAATTT-TTATTATAATT
1 TTAATTTATTATGATAATT
135189 TTAGACAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTAATTTATTATGATAATTA
Found at i:138954 original size:37 final size:37
Alignment explanation
Indices: 138904--138983 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
138894 AAATGCTCAG
138904 ATAGTTTGAATTTGAGCTTAGAACTAACAATTCAAGC
1 ATAGTTTGAATTTGAGCTTAGAACTAACAATTCAAGC
138941 ATAGTTTGAATTTGAGCTTAGAACTAACAATTCAAGC
1 ATAGTTTGAATTTGAGCTTAGAACTAACAATTCAAGC
138978 AT-GTTT
1 ATAGTTT
138984 CATATTCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 4 0.09
37 39 0.91
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (37 bp):
ATAGTTTGAATTTGAGCTTAGAACTAACAATTCAAGC
Found at i:149827 original size:16 final size:15
Alignment explanation
Indices: 149790--149819 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
149780 AACATATAAT
149790 ATATAGTTTTTAAAA
1 ATATAGTTTTTAAAA
149805 ATATAGTTTTTAAAA
1 ATATAGTTTTTAAAA
149820 CGTATAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
ATATAGTTTTTAAAA
Found at i:149865 original size:34 final size:34
Alignment explanation
Indices: 149778--149979 Score: 199
Period size: 35 Copynumber: 5.8 Consensus size: 34
149768 AGGATTTTCA
* * *
149778 AAAACATATAATATATAGTTTTTAAAAATATAGTTTTT
1 AAAACGTATAATATATA-ATTTT-AAAATA-A-TTTTG
*
149816 AAAACGTATAGTATATAATTTTAAAATAATTTTG
1 AAAACGTATAATATATAATTTTAAAATAATTTTG
* *
149850 AAAACCTATAATATATAATTTTTAAAAATAGTTTTG
1 AAAACGTATAATATATAA-TTTT-AAAATAATTTTG
** * **
149886 AAAACGTATTCTATAT-AGTTTAAAACGATTTTG
1 AAAACGTATAATATATAATTTTAAAATAATTTTG
* * *
149919 AAAACATATAGTATATAGATTTTAAGATAATTTTG
1 AAAACGTATAATATATA-ATTTTAAAATAATTTTG
*
149954 AAAACGTATAATATAAAATTTTAAAA
1 AAAACGTATAATATATAATTTTAAAA
149980 AAATGGTTTT
Statistics
Matches: 135, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
33 22 0.16
34 31 0.23
35 33 0.24
36 30 0.22
37 4 0.03
38 15 0.11
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (34 bp):
AAAACGTATAATATATAATTTTAAAATAATTTTG
Found at i:149902 original size:70 final size:70
Alignment explanation
Indices: 149778--150041 Score: 241
Period size: 72 Copynumber: 3.7 Consensus size: 70
149768 AGGATTTTCA
* * * *
149778 AAAACATATAATATATAGTTTTTAAAAATATAGTTTTTAAAACGTATAGTATATAATTTTAAAAT
1 AAAACATATAATATATAATTTTT-AAAA-ATAGTTTTGAAAACGTATAATATATAATTTTAAAAC
149843 AATTTTG
64 AATTTTG
* ** * *
149850 AAAACCTATAATATATAATTTTTAAAAATAGTTTTGAAAACGTATTCTATAT-AGTTTAAAACGA
1 AAAACATATAATATATAATTTTTAAAAATAGTTTTGAAAACGTATAATATATAATTTTAAAACAA
149914 TTTTG
66 TTTTG
* * * * *
149919 AAAACATATAGTATATAGA-TTTT-AAGATAATTTTGAAAACGTATAATATAAAATTTTAAAAAA
1 AAAACATATAATATATA-ATTTTTAAAAATAGTTTTGAAAACGTATAATATATAATTTTAAAACA
149982 ATGGTTTTG
65 A---TTTTG
* * ** * * *
149991 AAAATATAT-ATAATATATTTTTTCGAAATGGTTTTG-AAGCATATAATATAT
1 AAAACATATAAT-ATATAATTTTTAAAAATAGTTTTGAAAACGTATAATATAT
150042 GGTTTTTAAA
Statistics
Matches: 156, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
68 23 0.15
69 42 0.27
70 23 0.15
71 5 0.03
72 55 0.35
73 8 0.05
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (70 bp):
AAAACATATAATATATAATTTTTAAAAATAGTTTTGAAAACGTATAATATATAATTTTAAAACAA
TTTTG
Found at i:149952 original size:35 final size:35
Alignment explanation
Indices: 149778--149979 Score: 198
Period size: 34 Copynumber: 5.8 Consensus size: 35
149768 AGGATTTTCA
* * *
149778 AAAACATATAATATATAGTTTTTAAAAATATAGTTTTT
1 AAAACGTATAATATATAGATTTT-AAAATA-A-TTTTG
*
149816 AAAACGTATAGTATATA-ATTTTAAAATAATTTTG
1 AAAACGTATAATATATAGATTTTAAAATAATTTTG
* *
149850 AAAACCTATAATATATA-ATTTTTAAAAATAGTTTTG
1 AAAACGTATAATATATAGA-TTTT-AAAATAATTTTG
** **
149886 AAAACGTATTCTATATAG--TTTAAAACGATTTTG
1 AAAACGTATAATATATAGATTTTAAAATAATTTTG
* * *
149919 AAAACATATAGTATATAGATTTTAAGATAATTTTG
1 AAAACGTATAATATATAGATTTTAAAATAATTTTG
*
149954 AAAACGTATAATATA-AAATTTTAAAA
1 AAAACGTATAATATATAGATTTTAAAA
149980 AAATGGTTTT
Statistics
Matches: 136, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
33 24 0.18
34 32 0.24
35 30 0.22
36 31 0.23
37 4 0.03
38 15 0.11
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (35 bp):
AAAACGTATAATATATAGATTTTAAAATAATTTTG
Found at i:151508 original size:13 final size:14
Alignment explanation
Indices: 151490--151518 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
151480 CTTTATTATT
151490 TTATTTAAT-TTTA
1 TTATTTAATATTTA
151503 TTATTTAATATTTA
1 TTATTTAATATTTA
151517 TT
1 TT
151519 TGGCTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTAATATTTA
Found at i:153703 original size:36 final size:36
Alignment explanation
Indices: 153603--153903 Score: 215
Period size: 35 Copynumber: 8.4 Consensus size: 36
153593 CGGATTTTCA
*
153603 AAAACATATAATATATAGTTTTTAGAAATATAGTTTTG
1 AAAACATATAATATATAGTTTTTA-AAA-ATAATTTTG
* *
153641 AAAACGTATAGTATATAG-TTTT-AAAATAATTTTG
1 AAAACATATAATATATAGTTTTTAAAAATAATTTTG
* *
153675 AAAACCTATAATATATAGTTTTTAAAAATAGTTTTG
1 AAAACATATAATATATAGTTTTTAAAAATAATTTTG
** **
153711 AAAACATATTCTATATAG--TTT-AAAACGATTTTG
1 AAAACATATAATATATAGTTTTTAAAAATAATTTTG
* *
153744 AAAACATATAGTATATA-TATTTT-AAGATAATTTTG
1 AAAACATATAATATATAGT-TTTTAAAAATAATTTTG
* * * * **
153779 AAAACGTATAATATAAAATTTTAAAAAAATGGTTTTG
1 AAAACATATAATATATAGTTTT-TAAAAATAATTTTG
* * * **
153816 AAAATATAT-ATAATATATTTTTTCAAAATGGTTTTG
1 AAAACATATAAT-ATATAGTTTTTAAAAATAATTTTG
* * * * * * *
153852 -AAGCGTATAATATATGGTTTATAAAGAAAAAGTATCG
1 AAAACATATAATATATAGTTTTTAAA-AATAA-TTTTG
153889 AAAACATATAATATA
1 AAAACATATAATATA
153904 ATATAGTCGT
Statistics
Matches: 206, Mismatches: 44, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
33 24 0.12
34 27 0.13
35 51 0.25
36 45 0.22
37 31 0.15
38 28 0.14
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (36 bp):
AAAACATATAATATATAGTTTTTAAAAATAATTTTG
Found at i:153728 original size:70 final size:70
Alignment explanation
Indices: 153603--153903 Score: 279
Period size: 72 Copynumber: 4.2 Consensus size: 70
153593 CGGATTTTCA
* *
153603 AAAACATATAATATATAGTTTTTAGAAATATAGTTTTGAAAACGTATAGTATATAGTTTTAAAAT
1 AAAACATATAATATATAGTTTTTA-AAA-ATAGTTTTGAAAACGTATAATATATAGTTTTAAAAA
153668 AATTTTG
64 AATTTTG
* * ** **
153675 AAAACCTATAATATATAGTTTTTAAAAATAGTTTTGAAAACATATTCTATATAG-TTTAAAACGA
1 AAAACATATAATATATAGTTTTTAAAAATAGTTTTGAAAACGTATAATATATAGTTTTAAAAAAA
153739 TTTTG
66 TTTTG
* * * * *
153744 AAAACATATAGTATATA-TATTTT-AAGATAATTTTGAAAACGTATAATATAAAATTTTAAAAAA
1 AAAACATATAATATATAGT-TTTTAAAAATAGTTTTGAAAACGTATAATATATAGTTTTAAAAAA
153807 ATGGTTTTG
65 A---TTTTG
* * * * * *
153816 AAAATATAT-ATAATATATTTTTTCAAAATGGTTTTG-AAGCGTATAATATATGGTTTATAAAGA
1 AAAACATATAAT-ATATAGTTTTTAAAAATAGTTTTGAAAACGTATAATATATAGTTT-T-AA-A
* *
153879 AAAAGTATCG
62 AAAA-TTTTG
153889 AAAACATATAATATA
1 AAAACATATAATATA
153904 ATATAGTCGT
Statistics
Matches: 188, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
68 24 0.13
69 40 0.21
70 24 0.13
71 4 0.02
72 61 0.32
73 26 0.14
74 4 0.02
75 5 0.03
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (70 bp):
AAAACATATAATATATAGTTTTTAAAAATAGTTTTGAAAACGTATAATATATAGTTTTAAAAAAA
TTTTG
Found at i:153768 original size:35 final size:35
Alignment explanation
Indices: 153603--153836 Score: 196
Period size: 34 Copynumber: 6.7 Consensus size: 35
153593 CGGATTTTCA
153603 AAAACATATAATATATAGT-TTTTAGAAATATAGTTTTG
1 AAAACATATAATATATA-TATTTTA-AAATA-A-TTTTG
* * *
153641 AAAACGTATAGTATATA-GTTTTAAAATAATTTTG
1 AAAACATATAATATATATATTTTAAAATAATTTTG
* *
153675 AAAACCTATAATATATAGT-TTTTAAAAATAGTTTTG
1 AAAACATATAATATATA-TATTTT-AAAATAATTTTG
* * **
153711 AAAACATAT--TCTATATAGTTTAAAACGATTTTG
1 AAAACATATAATATATATATTTTAAAATAATTTTG
* *
153744 AAAACATATAGTATATATATTTTAAGATAATTTTG
1 AAAACATATAATATATATATTTTAAAATAATTTTG
* * *
153779 AAAACGTATAATATA-AAATTTTAAAAAAATGGTTTTG
1 AAAACATATAATATATATATTTTAAAATAA---TTTTG
*
153816 AAAATATAT-ATA-ATATATTTT
1 AAAACATATAATATATATATTTT
153837 TTCAAAATGG
Statistics
Matches: 161, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
33 19 0.12
34 39 0.24
35 38 0.24
36 33 0.20
37 17 0.11
38 15 0.09
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (35 bp):
AAAACATATAATATATATATTTTAAAATAATTTTG
Found at i:153793 original size:104 final size:104
Alignment explanation
Indices: 153636--153824 Score: 281
Period size: 104 Copynumber: 1.8 Consensus size: 104
153626 AGAAATATAG
* * * * *
153636 TTTTGAAAACGTATAGTATATAGTTTTAAAATAATTTTGAAAACCTATAATATATAGTTTT-TAA
1 TTTTGAAAACATATAGTATATAATTTTAAAATAATTTTGAAAACCTATAATATAAAATTTTAAAA
153700 AAATAGTTTTGAAAACATATTCTATATAGTTTAAAACGA
66 AAATAGTTTTGAAAACATATTCTATATAGTTTAAAACGA
* *
153739 TTTTGAAAACATATAGTATATATATTTTAAGATAATTTTGAAAACGTATAATATAAAATTTTAAA
1 TTTTGAAAACATATAGTATATA-ATTTTAAAATAATTTTGAAAACCTATAATATAAAATTTTAAA
* *
153804 AAAATGGTTTTGAAAATATAT
65 AAAATAGTTTTGAAAACATAT
153825 ATAATATATT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
103 21 0.28
104 34 0.45
105 20 0.27
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.41
Consensus pattern (104 bp):
TTTTGAAAACATATAGTATATAATTTTAAAATAATTTTGAAAACCTATAATATAAAATTTTAAAA
AAATAGTTTTGAAAACATATTCTATATAGTTTAAAACGA
Found at i:155338 original size:13 final size:14
Alignment explanation
Indices: 155322--155350 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
155312 TTTTATTATT
155322 TTATTTAAT-TTTA
1 TTATTTAATATTTA
155335 TTATTTAATATTTA
1 TTATTTAATATTTA
155349 TT
1 TT
155351 TGGCTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTAATATTTA
Found at i:166683 original size:34 final size:33
Alignment explanation
Indices: 166630--166701 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
166620 CCTTACAAAC
*
166630 TCCCTAGTTTTTCCGGGCTAAACTAGAACC-TT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTTT
*
166662 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTTT
166697 TCCCT
1 TCCCT
166702 TTACAAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 7 0.20
33 5 0.14
34 16 0.46
35 7 0.20
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (33 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTTT
Found at i:167215 original size:35 final size:34
Alignment explanation
Indices: 167135--167219 Score: 136
Period size: 33 Copynumber: 2.5 Consensus size: 34
167125 AAACCATGCA
*
167135 GGGGGGAATCTGTACCCGGAGAATCGATACCCCT
1 GGGGGGAATCTGTTCCCGGAGAATCGATACCCCT
*
167169 -GGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 GGGGGGAATCTGTTCCCGGAGAATCGATA-CCCCT
167203 GGGGGGAATCTGTTCCC
1 GGGGGGAATCTGTTCCC
167220 CCTGGGGGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 26 0.55
34 5 0.11
35 16 0.34
ACGTcount: A:0.19, C:0.27, G:0.34, T:0.20
Consensus pattern (34 bp):
GGGGGGAATCTGTTCCCGGAGAATCGATACCCCT
Found at i:167227 original size:21 final size:21
Alignment explanation
Indices: 167185--167245 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
167175 ATCTGTTCCC
167185 GGGGAATC-GATACCCCCT-GG
1 GGGGAATCTG-TACCCCCTGGG
*
167205 GGGGAATCTGTTCCCCCTGGG
1 GGGGAATCTGTACCCCCTGGG
167226 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
167246 ACAATCTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.20
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:169199 original size:3 final size:3
Alignment explanation
Indices: 169191--169228 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
169181 TACGTCCTCA
* *
169191 TTC TTC TTC TTC TTC TTC TTC TTA TTT TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
169229 CCTTTCTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:170603 original size:21 final size:21
Alignment explanation
Indices: 170570--170609 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
170560 CCAGAATGGG
* * *
170570 GGGATTCGGTACCCCTTCAAA
1 GGGAATCGATACCACTTCAAA
170591 GGGAATCGATACCACTTCA
1 GGGAATCGATACCACTTCA
170610 TAATATTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.23
Consensus pattern (21 bp):
GGGAATCGATACCACTTCAAA
Found at i:170803 original size:35 final size:33
Alignment explanation
Indices: 170724--170807 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
170714 AAACCATGTA
*
170724 GGGGGAATCTGTACCCGGAGAATCGATACCCCT
1 GGGGGAATCTGTTCCCGGAGAATCGATACCCCT
*
170757 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 GGGGGAATCTGTTCCCGGAGAATCGATA-CCCCT
170791 GGGGGGAATCTGTTCCC
1 -GGGGGAATCTGTTCCC
170808 CCTGGGGGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 26 0.55
34 5 0.11
35 16 0.34
ACGTcount: A:0.19, C:0.27, G:0.33, T:0.20
Consensus pattern (33 bp):
GGGGGAATCTGTTCCCGGAGAATCGATACCCCT
Found at i:170815 original size:21 final size:21
Alignment explanation
Indices: 170773--170833 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
170763 ATCTGTTCCC
170773 GGGGAATC-GATACCCCCT-GG
1 GGGGAATCTG-TACCCCCTGGG
*
170793 GGGGAATCTGTTCCCCCTGGG
1 GGGGAATCTGTACCCCCTGGG
170814 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
170834 ACAATCTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.20
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:172364 original size:35 final size:35
Alignment explanation
Indices: 172252--172377 Score: 123
Period size: 32 Copynumber: 3.6 Consensus size: 35
172242 TTGAAGCCGT
172252 ATTTTCGAAAACATATAATATATAGTTTTTAAAAAATA
1 ATTTT-GAAAACATATAATATATAGTTTTT--AAAATA
* * * * *
172290 TTTTTAAAAACGTATACTATATAG---TTAAAACA
1 ATTTTGAAAACATATAATATATAGTTTTTAAAATA
* * *
172322 ATTTTGAAAACATATATTACATAGTTTTTAAGATA
1 ATTTTGAAAACATATAATATATAGTTTTTAAAATA
*
172357 ATTTTGAAAACGTATAATATA
1 ATTTTGAAAACATATAATATA
172378 GAATTTTAAA
Statistics
Matches: 70, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
32 24 0.34
34 2 0.03
35 24 0.34
37 16 0.23
38 4 0.06
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (35 bp):
ATTTTGAAAACATATAATATATAGTTTTTAAAATA
Found at i:172387 original size:69 final size:67
Alignment explanation
Indices: 172252--172410 Score: 158
Period size: 69 Copynumber: 2.3 Consensus size: 67
172242 TTGAAGCCGT
* * * * *
172252 ATTTTCGAAAACATATAATATATAGTTTTTAAAAAATATTTTTAAAAACGTATACTATATAGTTA
1 ATTTT-GAAAACATATATTACATAGTTTTT-AAAAATAATTTTAAAAACGTATAATATAAAGTTA
172317 AAACA
64 AAA-A
* * *
172322 ATTTTGAAAACATATATTACATAGTTTTT-AAGATAATTTTGAAAACGTATAATATAGAATTTTA
1 ATTTTGAAAACATATATTACATAGTTTTTAAAAATAATTTTAAAAACGTATAATATA-AA-GTTA
172386 AAAA
64 AAAA
*
172390 ATGGTTTTGAAAATATATATT
1 A---TTTTGAAAACATATATT
172411 TTTTCGAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
67 23 0.31
68 3 0.04
69 28 0.37
70 5 0.07
71 16 0.21
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (67 bp):
ATTTTGAAAACATATATTACATAGTTTTTAAAAATAATTTTAAAAACGTATAATATAAAGTTAAA
AA
Found at i:172497 original size:3 final size:3
Alignment explanation
Indices: 172489--172527 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
172479 AATATAGTTG
172489 TTA TTA TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
172528 TATCCCGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:174312 original size:20 final size:22
Alignment explanation
Indices: 174268--174324 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
174258 CCCGAAGGGG
*
174268 GTATCGATACCATAGTATAGTT
1 GTATCGATACCATAGTATAGGT
174290 GTATCGATACCAT-G-ATAGGT
1 GTATCGATACCATAGTATAGGT
* *
174310 GTATCAATACTATAG
1 GTATCGATACCATAG
174325 AGTCAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.52
21 2 0.06
22 13 0.42
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGGT
Found at i:174712 original size:57 final size:57
Alignment explanation
Indices: 174643--175055 Score: 652
Period size: 57 Copynumber: 7.3 Consensus size: 57
174633 TCCAAAGGGA
* *
174643 ACTAAGTGTATGAATTTCAGATAGGGCGTTTTC-TACGGTAAAATGTTAAGAAATCAC
1 ACTAAGTGTATGAATTTCAGATAGGGCG-TTTCGTACGCTAAAATGTTAAGAAATCAT
* *
174700 ACTAAGTGTATGAATTTCAGATATGGTGTTTCGTACGCTAAAATGTTAAGAAATCAT
1 ACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
* * *
174757 ACTAAGTGTATAAATTTCAGATAGGGTGTTTTGTACGCTAAAATGTTAAGAAATCAT
1 ACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
* *
174814 ACTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGTTAAGAAATCAT
1 ACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
*
174871 ACTAAGTG--TGAATTTCAGATAGAGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
1 ACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
* *
174926 ATTAATTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
1 ACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
**
174983 ACTAAGTGTATGAATTTCTTATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATTCAT
1 ACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAA-TCAT
*
175041 ATTAAGTGTATGAAT
1 ACTAAGTGTATGAAT
175056 ATATGTATTG
Statistics
Matches: 329, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
55 50 0.15
56 4 0.01
57 257 0.78
58 18 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (57 bp):
ACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
Found at i:174947 original size:169 final size:168
Alignment explanation
Indices: 174643--175049 Score: 627
Period size: 169 Copynumber: 2.4 Consensus size: 168
174633 TCCAAAGGGA
* * *
174643 ACTAAGTGTATGAATTTCAGATAGGGCGTTTTCTACGGTAAAATGTTAAGAAATCACACTAAGTG
1 ACTAAGTGTATGAATTTCAGATAGGGC-ATTTCTACGCTAAAATGTTAAGAAATCATACTAAGTG
*
174708 TATGAATTTCAGATATGGTGTTTCGTACGCTAAAATGTTAAGAAATCATACTAAGTGTATAAATT
65 --TGAATTTCAGATATGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACTAAGTGTATAAATT
* *
174773 TCAGATAGGGTGTTTTGTACGCTAAAATGTTAAGAAATCAT
128 TCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
174814 ACTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGTTAAGAAATCATACTAAGTG
1 ACTAAGTGTATGAATTTCAGATAGGGCATTTC-TACGCTAAAATGTTAAGAAATCATACTAAGTG
* * *
174879 TGAATTTCAGATA-GAGCGTTTCGTACGCTAAAATGTTAAGAAATCATATTAATTGTATGAATTT
65 TGAATTTCAGATATG-GCGTTTCGTACGCTAAAATGTTAAGAAATCATACTAAGTGTATAAATTT
174943 CAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
129 CAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
** * *
174983 ACTAAGTGTATGAATTTCTTATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATTCATATTAAGT
1 ACTAAGTGTATGAATTTCAGATAGGGCATTTC-TACGCTAAAATGTTAAGAAA-TCATACTAAGT
175048 GT
64 GT
175050 ATGAATATAT
Statistics
Matches: 219, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
168 1 0.00
169 145 0.66
170 16 0.07
171 57 0.26
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (168 bp):
ACTAAGTGTATGAATTTCAGATAGGGCATTTCTACGCTAAAATGTTAAGAAATCATACTAAGTGT
GAATTTCAGATATGGCGTTTCGTACGCTAAAATGTTAAGAAATCATACTAAGTGTATAAATTTCA
GATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCAT
Found at i:175681 original size:45 final size:45
Alignment explanation
Indices: 175608--175695 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
175598 GCATAATTGT
* * * * * * *
175608 ATGAAATGATGCCATAATTGAAATGTATAATAGTGTATCAAAGGC
1 ATGAAAGGAAGCCATAAATAAAAGGTATAATAGCGTATAAAAGGC
175653 ATGAAAGGAAGCCATAAATAAAAGGTATAATAGCGTATAAAAG
1 ATGAAAGGAAGCCATAAATAAAAGGTATAATAGCGTATAAAAG
175696 ACATAATGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (45 bp):
ATGAAAGGAAGCCATAAATAAAAGGTATAATAGCGTATAAAAGGC
Found at i:178986 original size:167 final size:166
Alignment explanation
Indices: 178712--179044 Score: 600
Period size: 167 Copynumber: 2.0 Consensus size: 166
178702 TGGGGTAATA
178712 TAACGAGAATTGAACACTTTGGGATAAAATCGAGTTGAAAACTAGAATTCTGGGCAGGGTATCGG
1 TAACGAGAATTGAACACTTTGGGATAAAATCGAGTTGAAAACTAGAATTCTGGGCAGGGTATCGG
178777 TACTGCTAAGAACAGTACCGATACTATAGGCTAAAATGGGATGAAATACCGAGTAG-TACGATAC
66 TACTGCTAAGAACAGTACCGATACTATAGGCTAAAATGGGATGAAATACCGAGTAGAT-CGATAC
178841 TGTTTGAATC-GTATCGATATCGACGAGGTAGTATCG
130 TGTTTGAATCAGTATCGATATCGACGAGGTAGTATCG
178877 TAACGAGAATTGAACACTTTGGGATAAAAATCGAGTTGAAAACTAGAAATTCTGGGCAGGGGTAT
1 TAACGAGAATTGAACACTTTGGGAT-AAAATCGAGTTGAAAACTAG-AATTCTGGGCA-GGGTAT
*
178942 CGGTACTGCTAAGAACAGTA-CGATACTATAGGCTAAAATGGGATGAAATACTGAGTAGATCGAT
63 CGGTACTGCTAAGAACAGTACCGATACTATAGGCTAAAATGGGATGAAATACCGAGTAGATCGAT
179006 ACTGTTTGAATCAGTATCGATATCGACGAGGTAGTATCG
128 ACTGTTTGAATCAGTATCGATATCGACGAGGTAGTATCG
179045 ATACCATGGT
Statistics
Matches: 162, Mismatches: 1, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
165 25 0.15
166 20 0.12
167 64 0.40
168 53 0.33
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (166 bp):
TAACGAGAATTGAACACTTTGGGATAAAATCGAGTTGAAAACTAGAATTCTGGGCAGGGTATCGG
TACTGCTAAGAACAGTACCGATACTATAGGCTAAAATGGGATGAAATACCGAGTAGATCGATACT
GTTTGAATCAGTATCGATATCGACGAGGTAGTATCG
Found at i:179459 original size:57 final size:57
Alignment explanation
Indices: 179398--179765 Score: 539
Period size: 57 Copynumber: 6.5 Consensus size: 57
179388 GTGCAAAATA
* *
179398 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* *
179455 TAAGAAATTATACTAAGTGTATGAATTTCATATAGGG-ATTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCA-TTTCGTACGCTAAAATGT
*
179512 TAAGAAATCATACTAAGTGTATGAATTTCATATAGGGC-TATTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCAT-TTCGTACGCTAAAATGT
* *
179569 TAAGAAATCATACTAAGTG--TGAATTTGAGATAGGGCATTTCGTACACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * *
179624 TAAGAAAATCATATTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
1 TAAG-AAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* *
179682 TAAGAAATCATACTAAGTGTATGGATTTTC-GATAGGGTATTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTAT-GAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
*
179739 TAAGAAATTCATAGTAAGTGTATGAAT
1 TAAGAAA-TCATACTAAGTGTATGAAT
179766 ATATATATTG
Statistics
Matches: 282, Mismatches: 20, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
55 35 0.12
56 16 0.06
57 175 0.62
58 56 0.20
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
Found at i:179683 original size:170 final size:169
Alignment explanation
Indices: 179398--179759 Score: 539
Period size: 170 Copynumber: 2.1 Consensus size: 169
179388 GTGCAAAATA
* *
179398 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTG--TGAATTTCAGATAGGGCATTTCATACACTAAAATGTTAAGAAAT
* * * *
179463 TATACTAAGTGTATGAATTTCATATAGGGATTTTCGTACGCTAAAATGTTAAGAAATCATACTAA
64 CATACTAAGTGTATGAATTTCAGATAGGGAGTTTCATACGCTAAAATGTTAAGAAATCATACTAA
*
179528 GTGTAT-GAATTTCATATAGGGCTA-TTCGTACGCTAAAATGT
129 GTGTATGGAATTTC-GATAGGG-TATTTCGTACGCTAAAATGT
* *
179569 TAAGAAATCATACTAAGTGTGAATTTGAGATAGGGCATTTCGTACACTAAAATGTTAAGAAAATC
1 TAAGAAATCATACTAAGTGTGAATTTCAGATAGGGCATTTCATACACTAAAATGTTAAG-AAATC
* *
179634 ATATTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGTTAAGAAATCATACTAAG
65 ATACTAAGTGTATGAATTTCAGATAGGGAGTTTCATACGCTAAAATGTTAAGAAATCATACTAAG
*
179699 TGTATGGATTTTCGATAGGGTATTTCGTACGCTAAAATGT
130 TGTATGGAATTTCGATAGGGTATTTCGTACGCTAAAATGT
*
179739 TAAGAAATTCATAGTAAGTGT
1 TAAGAAA-TCATACTAAGTGT
179760 ATGAATATAT
Statistics
Matches: 174, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
169 38 0.22
170 99 0.57
171 37 0.21
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (169 bp):
TAAGAAATCATACTAAGTGTGAATTTCAGATAGGGCATTTCATACACTAAAATGTTAAGAAATCA
TACTAAGTGTATGAATTTCAGATAGGGAGTTTCATACGCTAAAATGTTAAGAAATCATACTAAGT
GTATGGAATTTCGATAGGGTATTTCGTACGCTAAAATGT
Found at i:180441 original size:45 final size:45
Alignment explanation
Indices: 180367--180455 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
180357 GCCATAAAAT
** * * *
180367 GTATAATAGTGTATCAAAGGCATGAAAGGATGCCATAAATGAAAG
1 GTATAATAGCATATAAAAGACATGAAAGGATGACATAAATGAAAG
* *
180412 GTATAATAGCATATAAAAGACATGTAAGGATGACATAATTGAAA
1 GTATAATAGCATATAAAAGACATGAAAGGATGACATAAATGAAA
180456 TGCATATAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (45 bp):
GTATAATAGCATATAAAAGACATGAAAGGATGACATAAATGAAAG
Found at i:181613 original size:13 final size:14
Alignment explanation
Indices: 181595--181623 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
181585 TTTTATTATT
181595 TTATTTAAT-TTTA
1 TTATTTAATATTTA
181608 TTATTTAATATTTA
1 TTATTTAATATTTA
181622 TT
1 TT
181624 TGGCTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTAATATTTA
Found at i:183547 original size:32 final size:32
Alignment explanation
Indices: 183511--183573 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
183501 AATTTTTGGT
183511 CGATTGATCGTCAACCGATCACAATTTCATAG
1 CGATTGATCGTCAACCGATCACAATTTCATAG
183543 CGATTGATCGTCAACCGATCACAATTTCATA
1 CGATTGATCGTCAACCGATCACAATTTCATA
183574 TCGTCAACCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (32 bp):
CGATTGATCGTCAACCGATCACAATTTCATAG
Found at i:183581 original size:24 final size:23
Alignment explanation
Indices: 183549--183596 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
183539 ATAGCGATTG
183549 ATCGTCAACCGATCACAATTTCAT
1 ATCGTCAACCGATCACAA-TTCAT
183573 ATCGTCAACCGATCACAATTCAT
1 ATCGTCAACCGATCACAATTCAT
183596 A
1 A
183597 GGGGTTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.27
Consensus pattern (23 bp):
ATCGTCAACCGATCACAATTCAT
Found at i:183777 original size:18 final size:20
Alignment explanation
Indices: 183739--183776 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
183729 ATTTTTAAAA
183739 ATATATAAATTTAAAATTTT
1 ATATATAAATTTAAAATTTT
*
183759 ATATA-AAATTTTAAATTT
1 ATATATAAATTTAAAATTT
183777 ACCAGGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATAAATTTAAAATTTT
Found at i:192285 original size:72 final size:72
Alignment explanation
Indices: 192032--192310 Score: 386
Period size: 72 Copynumber: 3.9 Consensus size: 72
192022 CCTTATTTCA
*
192032 TAGTTTTTACTCCAATTGGTGATTTGGGTATTGTTTGTTTTCATAG-TTAGTATGTAAATTTG-A
1 TAGTTTTTACTCCAAATGGTGATTTGGGTATTGTTTGTTTTCATAGTTTAGTATGTAAATTTGTA
*
192095 GTTTTTT
66 TTTTTTT
* * *
192102 TAGTTTTTACTTCAAATGGT-TTTTGGGTATTGTTTGTTTTCATAGTTTAGTATGTAAGTTTGTA
1 TAGTTTTTACTCCAAATGGTGATTTGGGTATTGTTTGTTTTCATAGTTTAGTATGTAAATTTGTA
192166 TTTTTTTTT
66 --TTTTTTT
* *
192175 TAGGTTTTACTCCAAATGAG-GATTTGGGTATTATTTGTTTTCATAGTTTAGTATGTAAATTTGT
1 TAGTTTTTACTCCAAATG-GTGATTTGGGTATTGTTTGTTTTCATAGTTTAGTATGTAAATTTGT
192239 ATTTTTTT
65 ATTTTTTT
* ** * * *
192247 TAGTTTTTACCCCAAATGGTGATTTAAGTATTGTTTGTTTTCATGGTTTAGAATATAAATTTGT
1 TAGTTTTTACTCCAAATGGTGATTTGGGTATTGTTTGTTTTCATAGTTTAGTATGTAAATTTGT
192311 TTTATTTATT
Statistics
Matches: 184, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
69 24 0.13
70 33 0.18
71 2 0.01
72 61 0.33
73 22 0.12
74 42 0.23
ACGTcount: A:0.22, C:0.06, G:0.18, T:0.54
Consensus pattern (72 bp):
TAGTTTTTACTCCAAATGGTGATTTGGGTATTGTTTGTTTTCATAGTTTAGTATGTAAATTTGTA
TTTTTTT
Found at i:193052 original size:64 final size:66
Alignment explanation
Indices: 192847--193056 Score: 220
Period size: 65 Copynumber: 3.2 Consensus size: 66
192837 TTTATCAAAG
* * **
192847 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGAATTAAATTG--AACATCGAATG
1 TGATGCATCGATGCACCATA-CCATGCATCGATGCACTCA-GGATTTTA-TGAAAACATCGAATG
192908 CATT
63 CATT
* * * *
192912 TCATGCATCAATGCA-CATACCATGCATCGATGCACTGAGGATTTTATGAAAATATCGAATGCAT
1 TGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCAT
192976 T
66 T
* * *
192977 TGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-T-AAAACATCGAATGCA
1 TGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCA
*
193039 CT
65 TT
193041 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
193057 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 2 0.02
64 54 0.44
65 62 0.50
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (66 bp):
TGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCAT
T
Found at i:193056 original size:17 final size:19
Alignment explanation
Indices: 193028--193076 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
193018 TATTTTAAAA
193028 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
193046 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
193065 CACCGATGCACT
1 CATCGATGCACT
193077 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:200442 original size:21 final size:21
Alignment explanation
Indices: 200400--200443 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
200390 ACTCTGGGAG
* *
200400 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
200421 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
200442 CT
1 CT
200444 CCTCCTCCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:200803 original size:14 final size:15
Alignment explanation
Indices: 200778--200806 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
200768 TTATTTTTTA
200778 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
200793 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
200807 AAATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:204613 original size:40 final size:40
Alignment explanation
Indices: 204559--204648 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
204549 TGAAAATCAT
204559 TTTTGAAATCAAGTTTTGAAATTACTCCCCCTTACTCTAA
1 TTTTGAAATCAAGTTTTGAAATTACTCCCCCTTACTCTAA
204599 TTTTGAAATCAAGTTTTGAAATTACTCCCCCTTACTCTAA
1 TTTTGAAATCAAGTTTTGAAATTACTCCCCCTTACTCTAA
204639 TACTTTGAAA
1 T--TTTGAAA
204649 ATAAATTCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 41 0.85
42 7 0.15
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (40 bp):
TTTTGAAATCAAGTTTTGAAATTACTCCCCCTTACTCTAA
Found at i:205917 original size:23 final size:24
Alignment explanation
Indices: 205887--205949 Score: 110
Period size: 23 Copynumber: 2.7 Consensus size: 24
205877 TCTCATGTGG
205887 GGGTATCGGTACCCATTCAA-GGA
1 GGGTATCGGTACCCATTCAAGGGA
205910 GGGTATCGGTACCCATTCAAGGGA
1 GGGTATCGGTACCCATTCAAGGGA
*
205934 GGGTATCAGTACCCAT
1 GGGTATCGGTACCCAT
205950 ACAAATGGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (24 bp):
GGGTATCGGTACCCATTCAAGGGA
Found at i:205969 original size:23 final size:24
Alignment explanation
Indices: 205887--205969 Score: 91
Period size: 23 Copynumber: 3.5 Consensus size: 24
205877 TCTCATGTGG
*
205887 GGGTATCGGTACCCATTC-AAGGA
1 GGGTATCGATACCCATTCAAAGGA
* *
205910 GGGTATCGGTACCCATTCAAGGGA
1 GGGTATCGATACCCATTCAAAGGA
* *
205934 GGGTATC-AGTACCCATACAAATG-
1 GGGTATCGA-TACCCATTCAAAGGA
205957 GGGTATCGATACC
1 GGGTATCGATACC
205970 TCCTGCACCA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 29 0.56
24 23 0.44
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (24 bp):
GGGTATCGATACCCATTCAAAGGA
Found at i:209730 original size:22 final size:21
Alignment explanation
Indices: 209688--209727 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
209678 AAGACTATTT
209688 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
209709 TCATTTTTTTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
209728 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:210190 original size:15 final size:17
Alignment explanation
Indices: 210170--210201 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
210160 CCACATTCTT
210170 CTTCTTT-CC-CGTCTC
1 CTTCTTTGCCTCGTCTC
210185 CTTCTTTGCCTCGTCTC
1 CTTCTTTGCCTCGTCTC
210202 TTTTCTCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.00, C:0.44, G:0.09, T:0.47
Consensus pattern (17 bp):
CTTCTTTGCCTCGTCTC
Found at i:223025 original size:23 final size:22
Alignment explanation
Indices: 222998--223057 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
222988 TTAGTGTAAA
*
222998 GGGAATCGATACCCCCCTTGAAG
1 GGGAATCGATACCCCCC-AGAAG
* * *
223021 GGGAACCGATTCCCCCCAGTAG
1 GGGAATCGATACCCCCCAGAAG
223043 GGGAATCGATACCCC
1 GGGAATCGATACCCC
223058 TCTGGGGTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.25, C:0.33, G:0.27, T:0.15
Consensus pattern (22 bp):
GGGAATCGATACCCCCCAGAAG
Found at i:225678 original size:21 final size:21
Alignment explanation
Indices: 225647--225698 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
225637 GGAGGGAACT
225647 GATTCCCCCCCAAGGGGGTACC
1 GATTCCCCCCCAA-GGGGTACC
225669 GATTCCCCCCCAAGGGGTACC
1 GATTCCCCCCCAAGGGGTACC
225690 GATTCCCCC
1 GATTCCCCC
225699 TATTTAACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.17, C:0.44, G:0.23, T:0.15
Consensus pattern (21 bp):
GATTCCCCCCCAAGGGGTACC
Found at i:238216 original size:3 final size:3
Alignment explanation
Indices: 238208--238271 Score: 85
Period size: 3 Copynumber: 21.0 Consensus size: 3
238198 GGCCTGGTTG
* *
238208 TAA TAA TAA TAT TAA TAA TAA AAA TATA TAA TAAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA
238254 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
238272 AATCGGGACA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 46 0.85
4 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:238630 original size:120 final size:122
Alignment explanation
Indices: 238472--238708 Score: 320
Period size: 120 Copynumber: 1.9 Consensus size: 122
238462 GATGCTAATC
* *
238472 TATCTCTTTCTGTGATAGAATTATACAAAAGGCTGAACAAACTCTTCTCATTGTGAA-CTTCTTC
1 TATCTCTTTCTGTGATAGAATCATACAAAAGGCTGAACAAACTCTTCTCATTATGAATCTTCTTC
* *
238536 -TTCTTCAAATGAGTTCTTCTCATTATGAACTC-CTTTTGGAAATGCTGATGATGATA
66 TTTCTTCAAATGAGTTCTTCTCATTAGGAACTCTC-TTTGGAAAAGCTGATGATGATA
* * * *
238592 TATCTCTTTCTGTGATAGAGTCCTGCAAAAGG-TCGAACAAGCTCTTCTCATTATGAACTTCTTC
1 TATCTCTTTCTGTGATAGAATCATACAAAAGGCT-GAACAAACTCTTCTCATTATGAA--TCTTC
* *
238656 TTCTTTCTTCAGATGAGTTCTTCTCATTAGGAACTTTCTTTGGAAAAGCTGAT
63 TTCTTTCTTCAAATGAGTTCTTCTCATTAGGAACTCTCTTTGGAAAAGCTGAT
238709 CCATCAAGTG
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
119 1 0.01
120 49 0.49
123 7 0.07
124 43 0.43
125 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (122 bp):
TATCTCTTTCTGTGATAGAATCATACAAAAGGCTGAACAAACTCTTCTCATTATGAATCTTCTTC
TTTCTTCAAATGAGTTCTTCTCATTAGGAACTCTCTTTGGAAAAGCTGATGATGATA
Found at i:238756 original size:113 final size:113
Alignment explanation
Indices: 238616--238876 Score: 378
Period size: 113 Copynumber: 2.3 Consensus size: 113
238606 ATAGAGTCCT
* * * *
238616 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
*****
238681 ATTAGGAACTTTCTTTGGAAAAGCTGATCCATCAAGTGATGGATTCAA
66 ATTAGGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTCAA
* *
238729 TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
* * **
238794 ATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
66 ATTAGGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTCAA
*
238842 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
238877 CGAACTGGAA
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
113 130 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTAGGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTCAA
Found at i:238905 original size:73 final size:73
Alignment explanation
Indices: 238786--238949 Score: 328
Period size: 73 Copynumber: 2.2 Consensus size: 73
238776 TTCAGATGAG
238786 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
238851 TGAACAAA
66 TGAACAAA
238859 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
238924 TGAACAAA
66 TGAACAAA
238932 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
238950 TCTTCTTCCT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 91 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (73 bp):
TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
TGAACAAA
Found at i:238987 original size:186 final size:186
Alignment explanation
Indices: 238696--239062 Score: 671
Period size: 186 Copynumber: 2.0 Consensus size: 186
238686 GAACTTTCTT
* *
238696 TGGAAAAGCTGATCCATCAAGTGATGGATTCAATCAAAAAGTTGAACAAGTTCTTCTCATTATGA
1 TGGAAAAGCTGATCCATCAAGTGATGGATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGA
238761 ACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCAT
66 ACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCAT
238826 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTCGAAC
131 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTCGAAC
* ** *
238882 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
1 TGGAAAAGCTGATCCATCAAGTGATGGATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGA
*
238947 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCAT
66 ACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCAT
239012 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
131 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
239063 TCTTCTTCCT
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
186 174 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (186 bp):
TGGAAAAGCTGATCCATCAAGTGATGGATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGA
ACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCAT
CAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTCGAAC
Found at i:239057 original size:113 final size:113
Alignment explanation
Indices: 238859--239251 Score: 743
Period size: 113 Copynumber: 3.5 Consensus size: 113
238849 GTTGAACAAA
238859 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
238924 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
66 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
238972 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
*
239037 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGGG
66 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
239085 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
239150 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
66 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *
239198 TTCTTCTCATCATGAACTCGAACTGGAAAAGTTGATCCATCGAA-TGATAGATTT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATC-AAGTGATGGATTT
239252 AAATCTTTGC
Statistics
Matches: 275, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
113 273 0.99
114 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
Found at i:239154 original size:299 final size:299
Alignment explanation
Indices: 238616--239175 Score: 958
Period size: 299 Copynumber: 1.9 Consensus size: 299
238606 ATAGAGTCCT
* *
238616 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
***** * *
238681 ATTAGGAACTTTCTTTGGAAAAGCTGATCCATCAAGTGATGGATTCAATCAAAAAGTTGAACAAG
66 ATTAGGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTCAAGCAAAAAGTTGAACAAA
238746 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
131 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
238811 GAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
196 GAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
238876 TCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
261 TCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
* *
238915 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * ** *
238980 ATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
66 ATTAGGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTCAAGCAAAAAGTTGAACAAA
* *
239045 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACTCGAACTG
131 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
239110 GAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
196 GAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
239175 T
261 T
239176 TCTTCTTCCT
Statistics
Matches: 243, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
299 243 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (299 bp):
GCAAAAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTAGGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTCAAGCAAAAAGTTGAACAAA
TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
GAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
Found at i:239629 original size:52 final size:52
Alignment explanation
Indices: 239551--239655 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
239541 CAACATGTTA
*
239551 ATTCTGATAACAACTCATCTGATTATGAAGTGATTTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
239603 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
239655 A
1 A
239656 GATATCGATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (52 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
Found at i:241671 original size:7 final size:7
Alignment explanation
Indices: 241655--241719 Score: 59
Period size: 6 Copynumber: 9.9 Consensus size: 7
241645 TTGACCCCCC
241655 TTTTTC-
1 TTTTTCT
241661 TTTTTCT
1 TTTTTCT
241668 TTTTTCT
1 TTTTTCT
*
241675 TTTCTC-
1 TTTTTCT
241681 TTTTT-T
1 TTTTTCT
*
241687 TCTTTCT
1 TTTTTCT
241694 TTTTTCT
1 TTTTTCT
241701 CTTTTT-T
1 -TTTTTCT
*
241708 TTCTT-T
1 TTTTTCT
241714 TTTTTC
1 TTTTTC
241720 AAGCATAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
6 23 0.48
7 20 0.42
8 5 0.10
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:241676 original size:19 final size:18
Alignment explanation
Indices: 241655--241716 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 18
241645 TTGACCCCCC
241655 TTTTTCTTTTTCTTTTTTCT
1 TTTTTC-TTTT-TTTTTTCT
*
241675 TTTCTCTTTTTTTCTTTCT
1 TTTTTCTTTTTTT-TTTCT
*
241694 TTTTTCTCTTTTTTTTCT
1 TTTTTCTTTTTTTTTTCT
241712 TTTTT
1 TTTTT
241717 TTCAAGCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 13 0.34
19 20 0.53
20 5 0.13
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTCT
Found at i:241686 original size:22 final size:22
Alignment explanation
Indices: 241661--241718 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
241651 CCCCTTTTTC
241661 TTTTTCTTTTTTCTTTTCTC-TT
1 TTTTTCTTTTTT-TTTTCTCTTT
*
241683 TTTTTCTTTCTTTTTTCTCTTT
1 TTTTTCTTTTTTTTTTCTCTTT
241705 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
241719 CAAGCATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 7 0.21
22 26 0.79
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTCTTTTTTTTTTCTCTTT
Found at i:241691 original size:28 final size:24
Alignment explanation
Indices: 241655--241715 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 24
241645 TTGACCCCCC
241655 TTTTTCTTTTTCTTTTTTCT-TTT
1 TTTTTCTTTTTCTTTTTTCTCTTT
*
241678 CTCTTTTTTTCTTTCTTTTTTCTCTTT
1 -T-TTTTCTT-TTTCTTTTTTCTCTTT
241705 TTTTTCTTTTT
1 TTTTTCTTTTT
241716 TTTCAAGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 4 0.12
25 12 0.38
26 13 0.41
27 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTTCTTTTTCTTTTTTCTCTTT
Found at i:241693 original size:32 final size:31
Alignment explanation
Indices: 241657--241719 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 31
241647 GACCCCCCTT
*
241657 TTTC-TTTTTCTTTTTTCTTTTCTCTTTTTTTC
1 TTTCTTTTTTCTCTTTT-TTTTCT-TTTTTTTC
241689 TTTCTTTTTTCTCTTTTTTTTCTTTTTTTTC
1 TTTCTTTTTTCTCTTTTTTTTCTTTTTTTTC
241720 AAGCATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.28
32 10 0.34
33 11 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (31 bp):
TTTCTTTTTTCTCTTTTTTTTCTTTTTTTTC
Done.