Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009110.1 Hibiscus syriacus cultivar Beakdansim tig00112584_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: 291768
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
File 1 of 2
Found at i:1955 original size:21 final size:21
Alignment explanation
Indices: 1929--1987 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1919 TCCTTAAGGA
* *
1929 GTGGTCCTTCGGGACATCTAT
1 GTGGTCCTTCAGGACATATAT
*
1950 GTGGTCCTTCAGGAGATATAT
1 GTGGTCCTTCAGGACATATAT
1971 GTGGTCCTTCAGGACAT
1 GTGGTCCTTCAGGACAT
1988 TTCTACGCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (21 bp):
GTGGTCCTTCAGGACATATAT
Found at i:4254 original size:2 final size:2
Alignment explanation
Indices: 4247--4274 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4237 TGAGTCCTCA
4247 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
4275 TGTCCATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6887 original size:15 final size:15
Alignment explanation
Indices: 6864--6893 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6854 ATGAGGCTGG
6864 AATTACAACAACAAC
1 AATTACAACAACAAC
*
6879 AATTCCAACAACAAC
1 AATTACAACAACAAC
6894 TATGAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
AATTACAACAACAAC
Found at i:30555 original size:52 final size:53
Alignment explanation
Indices: 30454--30559 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 53
30444 AATACTGTTG
30454 GTCAAACATGCAACTGCAATAAATGACATATAGGAGAAATTGGTTGTCAAATT
1 GTCAAACATGCAACTGCAATAAATGACATATAGGAGAAATTGGTTGTCAAATT
* ** *
30507 GTCAAACTTGCAGGTGCAATAAAT-AGCA-ATATGAGAAATTGGTTGTCAAATT
1 GTCAAACATGCAACTGCAATAAATGA-CATATAGGAGAAATTGGTTGTCAAATT
30559 G
1 G
30560 GTTGCCAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
52 25 0.52
53 23 0.48
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (53 bp):
GTCAAACATGCAACTGCAATAAATGACATATAGGAGAAATTGGTTGTCAAATT
Found at i:31069 original size:16 final size:16
Alignment explanation
Indices: 31050--31081 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31040 GTGAATTCCT
*
31050 TGAATAGTAAATTTTG
1 TGAATAGTAAAATTTG
31066 TGAATAGTAAAATTTG
1 TGAATAGTAAAATTTG
31082 GTCGGCGATA
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:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
TGAATAGTAAAATTTG
Found at i:38200 original size:18 final size:18
Alignment explanation
Indices: 38174--38208 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38164 TCAAAAGGAC
*
38174 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
38192 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
38209 CCGGATGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:39333 original size:24 final size:23
Alignment explanation
Indices: 39306--39392 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
39296 ATTTTCGAAT
*
39306 TGAATTCTGTTCTGATACGTTACC
1 TGAATTCTGTTCTGATAC-TGACC
* *
39330 TGAATTCTGTTCTGATTCTGATC
1 TGAATTCTGTTCTGATACTGACC
* **
39353 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATA-CTGACC
*
39377 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
39393 TTCTTATATC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 18 0.33
24 36 0.67
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTGACC
Found at i:39344 original size:12 final size:11
Alignment explanation
Indices: 39309--39393 Score: 64
Period size: 12 Copynumber: 7.3 Consensus size: 11
39299 TTCGAATTGA
39309 ATTCTGTTCTG
1 ATTCTGTTCTG
*
39320 ATAC-GTTACCTG
1 ATTCTGTT--CTG
39332 AATTCTGTTCTG
1 -ATTCTGTTCTG
*
39344 ATTCTGATCTGG
1 ATTCTGTTCT-G
39356 ATTCTGTTCTG
1 ATTCTGTTCTG
* *
39367 ATATCTGATATG
1 AT-TCTGTTCTG
*
39379 AATTCTGTTTTG
1 -ATTCTGTTCTG
39391 ATT
1 ATT
39394 TCTTATATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 3 0.05
11 18 0.31
12 30 0.51
13 5 0.08
14 3 0.05
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (11 bp):
ATTCTGTTCTG
Found at i:39401 original size:24 final size:24
Alignment explanation
Indices: 39330--39401 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
39320 ATACGTTACC
*
39330 TGAATTCTGTTCTGA-TTCTGATC
1 TGAATTCTGTTCTGATTTCTGATA
* *
39353 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
* *
39377 TGAATTCTGTTTTGATTTCTTATA
1 TGAATTCTGTTCTGATTTCTGATA
39401 T
1 T
39402 CTCCGTTTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 14 0.34
24 27 0.66
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:42934 original size:18 final size:18
Alignment explanation
Indices: 42908--42942 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42898 TCAAAAGGAC
*
42908 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
42926 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
42943 CCGGATGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:44078 original size:12 final size:12
Alignment explanation
Indices: 44063--44131 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
44053 GATACATTAC
44063 CTGAATTCTGTT
1 CTGAATTCTGTT
*
44075 CTG-ATTCTGAT
1 CTGAATTCTGTT
*
44086 CTGGATTCTGTT
1 CTGAATTCTGTT
*
44098 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
*
44110 ATGAATTCTGTT
1 CTGAATTCTGTT
* *
44122 TTGATTTCTG
1 CTGAATTCTG
44132 ATATCTCCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 12 0.26
12 33 0.70
13 2 0.04
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.49
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:44131 original size:24 final size:24
Alignment explanation
Indices: 44026--44135 Score: 109
Period size: 24 Copynumber: 4.6 Consensus size: 24
44016 AAATATTTTA
44026 TCTGATTTCTGA-ATTGAATTCTGT
1 TCTGATTTCTGATA-TGAATTCTGT
* * **
44050 TCTGA-TACATTACCTGAATTCTGT
1 TCTGATTTC-TGATATGAATTCTGT
* *
44074 TCTGA-TTCTGATCTGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
44097 TCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
44121 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
44136 CTCCGTTTAC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 19 0.27
24 52 0.73
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:57334 original size:52 final size:53
Alignment explanation
Indices: 57233--57338 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 53
57223 AATACTGTTG
57233 GTCAAACATGCAGCTGCAATAAATGACATATAGGAGAAATTGGTTGTCAAATT
1 GTCAAACATGCAGCTGCAATAAATGACATATAGGAGAAATTGGTTGTCAAATT
* * * *
57286 GTCAAACTTGTAGGTGCAATAAAT-AGCA-ATATGAGAAATTGGTTGTCAAATT
1 GTCAAACATGCAGCTGCAATAAATGA-CATATAGGAGAAATTGGTTGTCAAATT
57338 G
1 G
57339 GTTGCCAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
52 25 0.52
53 23 0.48
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (53 bp):
GTCAAACATGCAGCTGCAATAAATGACATATAGGAGAAATTGGTTGTCAAATT
Found at i:57848 original size:16 final size:16
Alignment explanation
Indices: 57829--57860 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57819 GTGAATTCCT
*
57829 TGAATAGTAAATTTTG
1 TGAATAGTAAAATTTG
57845 TGAATAGTAAAATTTG
1 TGAATAGTAAAATTTG
57861 GTCGGCGATA
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:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
TGAATAGTAAAATTTG
Found at i:62784 original size:12 final size:12
Alignment explanation
Indices: 62746--62837 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
62736 ATTTCCGAAT
62746 TGAATTCTGTTC
1 TGAATTCTGTTC
*
62758 TG-ATAC-GTTACC
1 TGAATTCTGTT--C
62770 TGAATTCTGTTC
1 TGAATTCTGTTC
*
62782 TG-ATTCTGATC
1 TGAATTCTGTTC
*
62793 TGGATTCTGTTC
1 TGAATTCTGTTC
* *
62805 TG-ATATCTGATA
1 TGAAT-TCTGTTC
*
62817 TGAATTCTGTTT
1 TGAATTCTGTTC
*
62829 TGATTTCTG
1 TGAATTCTG
62838 ATATCTCCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 3 0.05
11 15 0.23
12 38 0.59
13 5 0.08
14 3 0.05
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:62800 original size:47 final size:48
Alignment explanation
Indices: 62732--62839 Score: 125
Period size: 47 Copynumber: 2.3 Consensus size: 48
62722 AAATATTTTA
* * *
62732 TCTGATTTCCGAAT-TGAATTCTGTTCTGATA-C-GTTACCTGAATTCTGT
1 TCTGATTTCTG-ATCTGGATTCTGTTCTGATATCTGATA--TGAATTCTGT
62780 TCTGA-TTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
*
62827 TTTGATTTCTGAT
1 TCTGATTTCTGAT
62840 ATCTCCGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
46 2 0.04
47 34 0.65
48 13 0.25
49 3 0.06
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATATGAATTCTGT
Found at i:62837 original size:24 final size:24
Alignment explanation
Indices: 62732--62841 Score: 102
Period size: 24 Copynumber: 4.6 Consensus size: 24
62722 AAATATTTTA
*
62732 TCTGATTTCCGA-ATTGAATTCTGT
1 TCTGATTTCTGATA-TGAATTCTGT
* *
62756 TCTGA-TAC-GTTACCTGAATTCTGT
1 TCTGATTTCTGATA--TGAATTCTGT
* *
62780 TCTGA-TTCTGATCTGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
62803 TCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
62827 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
62842 CTCCGTTTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.01
23 17 0.24
24 50 0.71
25 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.47
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:84620 original size:20 final size:20
Alignment explanation
Indices: 84595--84633 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
84585 TAATTTTTGG
84595 TAAAAAACCGAACTGAACCA
1 TAAAAAACCGAACTGAACCA
84615 TAAAAAACCGAACTGAACC
1 TAAAAAACCGAACTGAACC
84634 GAACTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.26, G:0.10, T:0.10
Consensus pattern (20 bp):
TAAAAAACCGAACTGAACCA
Found at i:85162 original size:159 final size:162
Alignment explanation
Indices: 84932--85254 Score: 616
Period size: 159 Copynumber: 2.0 Consensus size: 162
84922 TCTTTGAGAC
84932 ACATCTTTCGATTCAAAGGATAGATGAAACTCGGATGATTTCTTCCCAGCATAACCATCATTCTC
1 ACATCTTTCGATTCAAAGGATAGATGAAACTCGGATGATTTCTTCCCAGCATAACCATCATTCTC
84997 ATTATGTGAGGCAACATTTGCATGAACCAATGCACTATTATTG-AAAACTCCTTATGCCTTGCTT
66 ATTATGTGAGGCAACATTTGCATGAACCAATGCACTATTATTGAAAAACTCCTTATGCCTTGCTT
85061 CAC-ATCGAGAAATA-TCCGTTAGAGTGGACA
131 CACAATCGAGAAATAGTCCGTTAGAGTGGACA
85091 ACATCTTTCGATTCAAAGGATAGATGAAACTCGGATGATTTCTTCCCAGCATAACCATCATTCTC
1 ACATCTTTCGATTCAAAGGATAGATGAAACTCGGATGATTTCTTCCCAGCATAACCATCATTCTC
85156 ATTATGTGAGGCAACATTTGCATGAACCAATGCACTATTATTGAAAAACTCCTTATGCCTTGCTT
66 ATTATGTGAGGCAACATTTGCATGAACCAATGCACTATTATTGAAAAACTCCTTATGCCTTGCTT
85221 CACAATCGAGAAATATGTCCGTTAGAGTGGACA
131 CACAATCGAGAAATA-GTCCGTTAGAGTGGACA
85254 A
1 A
85255 GGTCATCGTC
Statistics
Matches: 160, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
159 108 0.68
160 24 0.15
161 11 0.07
163 17 0.11
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (162 bp):
ACATCTTTCGATTCAAAGGATAGATGAAACTCGGATGATTTCTTCCCAGCATAACCATCATTCTC
ATTATGTGAGGCAACATTTGCATGAACCAATGCACTATTATTGAAAAACTCCTTATGCCTTGCTT
CACAATCGAGAAATAGTCCGTTAGAGTGGACA
Found at i:96678 original size:14 final size:14
Alignment explanation
Indices: 96649--96690 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
96639 TCGATTATAT
*
96649 GTTCATTT-TTTTC
1 GTTCATTTATGTTC
96662 GTTCATTTATGTTC
1 GTTCATTTATGTTC
96676 GTTCATTTATGTTC
1 GTTCATTTATGTTC
96690 G
1 G
96691 AACAGATGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.60
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:96972 original size:10 final size:10
Alignment explanation
Indices: 96953--97003 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
96943 GTGTTTGAGT
*
96953 TGTTCATTTA
1 TGTTCGTTTA
96963 TGTTCGTTTA
1 TGTTCGTTTA
96973 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
*
96986 TGTTCATTTA
1 TGTTCGTTTA
96996 TGTTCGTT
1 TGTTCGTT
97004 CGTTTACATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 25 0.71
13 10 0.29
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:96979 original size:23 final size:23
Alignment explanation
Indices: 96953--96996 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
96943 GTGTTTGAGT
*
96953 TGTTCATTTATGTTCGTTTATTG
1 TGTTCATTTATGTTCATTTATTG
*
96976 TGTTCGTTTATGTTCATTTAT
1 TGTTCATTTATGTTCATTTAT
96997 GTTCGTTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.61
Consensus pattern (23 bp):
TGTTCATTTATGTTCATTTATTG
Found at i:97019 original size:24 final size:23
Alignment explanation
Indices: 96965--97020 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
96955 TTCATTTATG
**
96965 TTCGTTTATTGTGTTCGTTTATG
1 TTCGTTTATTGTGTTCGTTTACA
*
96988 TTCATTTA-TGTTCGTTCGTTTACA
1 TTCGTTTATTG-T-GTTCGTTTACA
97012 TTCGTTTAT
1 TTCGTTTAT
97021 CATTTAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 8 0.31
24 16 0.62
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (23 bp):
TTCGTTTATTGTGTTCGTTTACA
Found at i:97043 original size:10 final size:10
Alignment explanation
Indices: 97028--97053 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
97018 TATCATTTAA
97028 ATGAACGAAC
1 ATGAACGAAC
97038 ATGAACGAAC
1 ATGAACGAAC
97048 ATGAAC
1 ATGAAC
97054 AAGCTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (10 bp):
ATGAACGAAC
Found at i:97986 original size:24 final size:25
Alignment explanation
Indices: 97954--98013 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 25
97944 ATTAATGAAT
97954 AACAGGTTCCCCA-GCAGTCGTGGG
1 AACAGGTTCCCCACGCAGTCGTGGG
97978 AACAGGTT-CCCACGCAGTCGTGGG
1 AACAGGTTCCCCACGCAGTCGTGGG
*
98002 AACATGTTCCCC
1 AACAGGTTCCCC
98014 CATCACCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 4 0.12
24 26 0.79
25 3 0.09
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (25 bp):
AACAGGTTCCCCACGCAGTCGTGGG
Found at i:103723 original size:26 final size:24
Alignment explanation
Indices: 103687--103737 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 24
103677 ACACTTAAAC
103687 AAAAAAAATCAAGAAAACTTCTATCA
1 AAAAAAAATCAAGAAAA-TTC-ATCA
103713 AAAAAAAATCAAGAAAATTCATCA
1 AAAAAAAATCAAGAAAATTCATCA
103737 A
1 A
103738 CTCAATGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 5 0.20
25 3 0.12
26 17 0.68
ACGTcount: A:0.65, C:0.14, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAAAAAATCAAGAAAATTCATCA
Found at i:111046 original size:2 final size:2
Alignment explanation
Indices: 111039--111080 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
111029 ATTATTTAAA
111039 AT 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 AT
111081 GTGACTAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111106 original size:17 final size:17
Alignment explanation
Indices: 111086--111119 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
111076 TATATGTGAC
111086 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
111103 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
111120 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:111144 original size:16 final size:16
Alignment explanation
Indices: 111125--111157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
111115 AATAACAAAT
111125 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
111141 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
111157 T
1 T
111158 TTAAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:112442 original size:9 final size:9
Alignment explanation
Indices: 112423--112487 Score: 80
Period size: 10 Copynumber: 7.0 Consensus size: 9
112413 ATTAGGCCTG
112423 TAAT-ATAA
1 TAATAATAA
112431 TAA-AATTAA
1 TAATAA-TAA
112440 TAAATAATAA
1 T-AATAATAA
112450 TAATAATAA
1 TAATAATAA
112459 TAATAATAA
1 TAATAATAA
112468 TAAATAATAA
1 T-AATAATAA
112478 TAAATAATAA
1 T-AATAATAA
112488 AAAACTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
8 4 0.08
9 22 0.42
10 24 0.46
11 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAATAATAA
Found at i:112448 original size:3 final size:3
Alignment explanation
Indices: 112423--112487 Score: 80
Period size: 3 Copynumber: 21.0 Consensus size: 3
112413 ATTAGGCCTG
112423 TAA T-A TAA TAA -AA TTAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
112468 TAAA TAA TAA TAAA TAA TAA
1 T-AA TAA TAA T-AA TAA TAA
112488 AAAACTAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.07
3 41 0.73
4 11 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:113792 original size:23 final size:23
Alignment explanation
Indices: 113766--113813 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
113756 ATAAAGTACA
*
113766 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
113789 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
113812 AT
1 AT
113814 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:114563 original size:18 final size:18
Alignment explanation
Indices: 114540--114576 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
114530 CGAAATATAT
114540 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
114558 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
114576 A
1 A
114577 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:114806 original size:23 final size:23
Alignment explanation
Indices: 114780--114844 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
114770 ATGCGAGATA
114780 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
114803 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
114826 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
114845 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:115226 original size:21 final size:20
Alignment explanation
Indices: 115196--115249 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
115186 GATAGACACT
*
115196 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
115217 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
115240 TTACATTATA
1 TTACATTATA
115250 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:115237 original size:23 final size:23
Alignment explanation
Indices: 115211--115273 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
115201 ATATAACCAT
115211 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
115234 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
115257 TACCTATTACATCATAT
1 TACCTATTACATTATAT
115274 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:115694 original size:23 final size:23
Alignment explanation
Indices: 115642--115703 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
115632 ATATAACCAT
115642 TACCTATTACATTATA-AAACGA
1 TACCTATTACATTATATAAACGA
** *
115664 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
115687 TACCTATTACATCATAT
1 TACCTATTACATTATAT
115704 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:116019 original size:429 final size:431
Alignment explanation
Indices: 114782--117942 Score: 6187
Period size: 429 Copynumber: 7.4 Consensus size: 431
114772 GCGAGATAGA
114782 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
114847 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
114911 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
114976 ATTTCATTTGCACAAAAAA-TATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
115040 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
115105 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
115170 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
115211 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
115276 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
115341 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
115406 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
115471 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
115536 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
115601 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
115642 TACCTATTACATTATA-AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
115706 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
115771 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
115835 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
115900 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
115965 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
116030 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
116071 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
116136 TTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
116200 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
*
116264 ATTTCATTTGCACAAAAAAATATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
116329 AATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
116392 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
116457 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
116498 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
116563 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
116628 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
116693 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
116758 AATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
116822 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
116887 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
116928 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
116993 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
117057 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
117122 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
117187 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
117252 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
117317 ACAC-TTT-TAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
117356 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
117421 TTACCTATTATATTGAAAGTGTCCATAC-TTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
117484 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
117548 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
117613 AATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAA-T
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
117676 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
117741 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
117782 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
117847 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
117911 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
117943 ACTGCGAATT
Statistics
Matches: 2716, Mismatches: 2, Indels: 29
0.99 0.00 0.01
Matches are distributed among these distances:
424 70 0.03
425 37 0.01
426 279 0.10
427 324 0.12
428 207 0.08
429 886 0.33
430 667 0.25
431 246 0.09
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:116086 original size:21 final size:20
Alignment explanation
Indices: 116056--116109 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
116046 GATAGACACT
*
116056 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
116077 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
116100 TTACATTATA
1 TTACATTATA
116110 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:116097 original size:23 final size:23
Alignment explanation
Indices: 116071--116133 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
116061 ATATAACCAT
116071 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
116094 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
116117 TACCTATTACATCATAT
1 TACCTATTACATTATAT
116134 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:116513 original size:21 final size:20
Alignment explanation
Indices: 116483--116536 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
116473 GATAGACACT
*
116483 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
116504 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
116527 TTACATTATA
1 TTACATTATA
116537 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:116524 original size:23 final size:23
Alignment explanation
Indices: 116498--116560 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
116488 ATATAACCAT
116498 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
116521 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
116544 TACCTATTACATCATAT
1 TACCTATTACATTATAT
116561 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:116943 original size:21 final size:20
Alignment explanation
Indices: 116913--116966 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
116903 GATAGACACT
*
116913 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
116934 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
116957 TTACATTATA
1 TTACATTATA
116967 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:116954 original size:23 final size:23
Alignment explanation
Indices: 116928--116990 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
116918 ATATAACCAT
116928 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
116951 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
116974 TACCTATTACATCATAT
1 TACCTATTACATTATAT
116991 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:117343 original size:18 final size:19
Alignment explanation
Indices: 117306--117342 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117296 TCCACAGTGA
* *
117306 AAAAAGTATGGACACTTTT
1 AAAAAGGATAGACACTTTT
117325 AAAAAGGATAGACACTTT
1 AAAAAGGATAGACACTTT
117343 ACAATATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (19 bp):
AAAAAGGATAGACACTTTT
Found at i:117371 original size:21 final size:20
Alignment explanation
Indices: 117341--117394 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
117331 GATAGACACT
*
117341 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
117362 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
117385 TTACATTATA
1 TTACATTATA
117395 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:117382 original size:23 final size:23
Alignment explanation
Indices: 117356--117418 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
117346 ATATAACCAT
117356 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
117379 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
117402 TACCTATTACATCATAT
1 TACCTATTACATTATAT
117419 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:117797 original size:21 final size:20
Alignment explanation
Indices: 117767--117820 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
117757 GATAGACACT
*
117767 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
117788 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
117811 TTACATTATA
1 TTACATTATA
117821 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:117808 original size:23 final size:23
Alignment explanation
Indices: 117782--117844 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
117772 ATATAACCAT
117782 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
117805 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
117828 TACCTATTACATCATAT
1 TACCTATTACATTATAT
117845 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:120573 original size:20 final size:20
Alignment explanation
Indices: 120550--120623 Score: 123
Period size: 20 Copynumber: 3.7 Consensus size: 20
120540 GTTGCGATTT
*
120550 AGAAAATCGCAAC-GTAAAAA
1 AGAAAATCGCAACGGT-CAAA
120570 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTCAAA
120590 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTCAAA
120610 AGAAAATCGCAACG
1 AGAAAATCGCAACG
120624 CGAGCTTCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 50 0.96
21 2 0.04
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
AGAAAATCGCAACGGTCAAA
Found at i:120683 original size:20 final size:20
Alignment explanation
Indices: 120658--120848 Score: 247
Period size: 20 Copynumber: 9.4 Consensus size: 20
120648 TTTAGAAGAA
*
120658 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGAGAG
*
120678 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGAGAG
* *
120698 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
120718 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
120738 ATTCGCAACGCGATTTAGAAGAA
1 AATCGCAATGCGA-TT-G-AGAG
*
120761 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
*
120781 AATCGCAACGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
120801 AATCGCAACGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
120821 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
120841 AATCGCAA
1 AATCGCAA
120849 CGTTAAAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
20 132 0.87
21 3 0.02
22 2 0.01
23 14 0.09
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGATTGAGAG
Found at i:120765 original size:83 final size:83
Alignment explanation
Indices: 120637--120835 Score: 226
Period size: 83 Copynumber: 2.4 Consensus size: 83
120627 GCTTCCAAGT
* * * *
120637 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGA-TT-GATAG--AATCGCAATGCGATTGATAG
1 TCGCAACGCGA-TT-G-AGAGAATCGCAACGCGATTTAGA-AGAAAATCGCAATGCGACTGAGAG
* * *
120698 AATCGCAATGCGATTTATAGAA
62 AATCGCAACGCGATTGAGAGAA
* *
120720 TCGCAATGCGATTGAGAGATTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATC
120785 GCAACGCGATTGAGAGAA
66 GCAACGCGATTGAGAGAA
* * *
120803 TCGCAACGCGATTTATAGAATCGCAATGCGATT
1 TCGCAACGCGATTGAGAGAATCGCAACGCGATT
120836 GAGAGAATCG
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
80 14 0.14
81 5 0.05
82 4 0.04
83 75 0.77
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (83 bp):
TCGCAACGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATC
GCAACGCGATTGAGAGAA
Found at i:120769 original size:103 final size:103
Alignment explanation
Indices: 120636--120850 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
120626 AGCTTCCAAG
* * * *
120636 TTCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGATAGAAT
1 TTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAAT
*
120701 CGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGA
66 CGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGA
120739 TTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAAT
1 TTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAAT
120804 CGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGA
66 CGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGA
*
120842 ATCGCAACG
1 TTCGCAACG
120851 TTAAAAAGAA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (103 bp):
TTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAAT
CGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGA
Found at i:120849 original size:40 final size:40
Alignment explanation
Indices: 120637--120850 Score: 239
Period size: 40 Copynumber: 5.2 Consensus size: 40
120627 GCTTCCAAGT
* *
120637 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGA-TT-G-AGAGAATCGCAATGCGATTGAGAGAA
* * * *
120680 TCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
* * * *
120720 TCGCAATGCGATTGAGAGATTCGCAACGCGATTTAGAAGAAAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGA-TT-G-AGAGAA
* * *
120763 TCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
* *
120803 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
120843 TCGCAACG
1 TCGCAACG
120851 TTAAAAAGAA
Statistics
Matches: 150, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
40 99 0.66
41 4 0.03
42 4 0.03
43 43 0.29
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (40 bp):
TCGCAACGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
Found at i:120865 original size:40 final size:40
Alignment explanation
Indices: 120543--120870 Score: 135
Period size: 40 Copynumber: 8.0 Consensus size: 40
120533 AAATCGCGTT
* * **
120543 GCGATTTAGAAAATCGCAACGTAAAAAAGAAAATCGCAAC
1 GCGATTGAGAGAATCGCAACGCGAAAAAGAAAATCGCAAC
** * *
120583 G-G-TCAAAAGAAAATCGCAACG-GTCAAAAGAAAATCGCAAC
1 GCGAT--TGAGAGAATCGCAACGCG-AAAAAGAAAATCGCAAC
* * * *
120623 GCGAGCTTCCA-AG-TTCGCAACGCGATTTAGAAGAAAATCGCAAT
1 GCGA--TT-GAGAGAATCGCAACGCGA---AAAAGAAAATCGCAAC
* * *** * * *
120667 GCGATTGATAGAATCGCAATGCGATTGATAGAATCGCAAT
1 GCGATTGAGAGAATCGCAACGCGAAAAAGAAAATCGCAAC
* * * *** * *
120707 GCGATTTATAGAATCGCAATGCGATTGAGAGATTCGCAAC
1 GCGATTGAGAGAATCGCAACGCGAAAAAGAAAATCGCAAC
* * *** *
120747 GCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAAC
1 GCGA-TT-G-AGAGAATCGCAACGCGAAAAAGAAAATCGCAAC
*** * * *
120790 GCGATTGAGAGAATCGCAACGCGATTTATAGAATCGCAAT
1 GCGATTGAGAGAATCGCAACGCGAAAAAGAAAATCGCAAC
**
120830 GCGATTGAGAGAATCGCAACGTTAAAAAGAAAATCGCAAC
1 GCGATTGAGAGAATCGCAACGCGAAAAAGAAAATCGCAAC
120870 G
1 G
120871 GTCAAAAGAC
Statistics
Matches: 229, Mismatches: 42, Indels: 34
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 143 0.62
41 13 0.06
42 8 0.03
43 44 0.19
44 19 0.08
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (40 bp):
GCGATTGAGAGAATCGCAACGCGAAAAAGAAAATCGCAAC
Found at i:120877 original size:20 final size:20
Alignment explanation
Indices: 120841--120879 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120831 CGATTGAGAG
*
120841 AATCGCAACGTTAAAAAGAA
1 AATCGCAACGGTAAAAAGAA
*
120861 AATCGCAACGGTCAAAAGA
1 AATCGCAACGGTAAAAAGA
120880 CACGTATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (20 bp):
AATCGCAACGGTAAAAAGAA
Found at i:120899 original size:6 final size:6
Alignment explanation
Indices: 120888--120965 Score: 135
Period size: 6 Copynumber: 13.5 Consensus size: 6
120878 GACACGTATT
120888 ACCACG ACCACG ACCACG A-C-CG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
120934 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
120966 CGAGACGAGA
Statistics
Matches: 70, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
4 3 0.04
5 7 0.10
6 60 0.86
ACGTcount: A:0.32, C:0.51, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:121677 original size:6 final size:6
Alignment explanation
Indices: 121666--121698 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
121656 TCTCGTCTCG
121666 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
121699 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:121801 original size:20 final size:20
Alignment explanation
Indices: 121776--121819 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
121766 TTTTTAACTA
*
121776 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
121796 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
121816 TTCT
1 TTCT
121820 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:121829 original size:20 final size:20
Alignment explanation
Indices: 121806--122164 Score: 202
Period size: 20 Copynumber: 17.6 Consensus size: 20
121796 TTCTTTTTAA
121806 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
121826 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* *
121846 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* *
121866 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
121886 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
121906 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
121926 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
121949 CGTTGCGAATCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
121969 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
121989 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
122009 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
122032 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
** ** *
122053 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
122074 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
122092 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
122114 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
122134 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
122153 CGTTGCGATTTT
1 CGTTGCGATTTT
122165 ATTGGTCATT
Statistics
Matches: 284, Mismatches: 44, Indels: 23
0.81 0.13 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.06
20 196 0.69
21 35 0.12
22 6 0.02
23 28 0.10
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:121850 original size:40 final size:40
Alignment explanation
Indices: 121808--122039 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
121798 CTTTTTAACG
* *
121808 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCG
1 TTGCGATTCTCTAAATCGCGTTGCGATTCTCTCAATCGCA
* * *
121848 TTGCGATTCTCTCAATCGCGTTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTAAATCGCGTTGCGATTCTCTCAATCGCA
* * * *
121888 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCGTTGCGATTCTCTCAATCGCA
*
121928 TTGCGATTTTCTTCTAAATCGCGTTGCGAATCTCTCAATCGCA
1 TTGCGA--TTC-TCTAAATCGCGTTGCGATTCTCTCAATCGCA
* * *
121971 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTAAATCGCGTTGCGATTCTCTCAATCGCA
122011 TTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGA--TTC-TCTAAATCGCGTTGCGA
122040 ACTTGGAAGC
Statistics
Matches: 165, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
40 109 0.66
41 3 0.02
42 6 0.04
43 47 0.28
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (40 bp):
TTGCGATTCTCTAAATCGCGTTGCGATTCTCTCAATCGCA
Found at i:121975 original size:83 final size:83
Alignment explanation
Indices: 121808--122040 Score: 337
Period size: 83 Copynumber: 2.8 Consensus size: 83
121798 CTTTTTAACG
* * * *
121808 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCGTTGCGA--TTC-TCTCAATCGCGTT
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
*
121870 GCGATTCTATAAATCGCA
66 GCGAATCTATAAATCGCA
* * *
121888 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCGTT
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
* *
121953 GCGAATCTCTCAATCGCA
66 GCGAATCTATAAATCGCA
* *
121971 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
122036 GCGAA
66 GCGAA
122041 CTTGGAAGCT
Statistics
Matches: 135, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 40 0.30
82 3 0.02
83 92 0.68
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (83 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
GCGAATCTATAAATCGCA
Found at i:122055 original size:21 final size:21
Alignment explanation
Indices: 122029--122081 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
122019 TTCTTCTAAA
122029 TCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
122050 TCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
122071 TCGCGTTGCGA
1 TCGCGTTGCGA
122082 TTTTCTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.34, T:0.25
Consensus pattern (21 bp):
TCGCGTTGCGAACTTGGAAGC
Found at i:122154 original size:19 final size:20
Alignment explanation
Indices: 122114--122164 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
122104 TTCTTTTTAA
*
122114 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
122134 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
122153 CGTTGCGATTTT
1 CGTTGCGATTTT
122165 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:122926 original size:182 final size:184
Alignment explanation
Indices: 122247--123072 Score: 1529
Period size: 184 Copynumber: 4.5 Consensus size: 184
122237 CGATTTTCTC
* * *
122247 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
1 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
122312 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
66 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
122377 TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
131 TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
122431 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
1 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
122496 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
66 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
122561 TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
131 TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
122615 TATTAAAAAGTGTCG--ATAGGTTGT--ACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
1 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
122676 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
66 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
*
122741 TTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
131 TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
* * *
122795 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCATAAAACCGGTATA-TTATA-CGGT
1 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
122858 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
66 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
122923 TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
131 TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
122977 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
1 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
**
123042 TATATTACAAAATTATCTATTTTATTATAAT
66 TATATTACAAAATTATCTATTACATTATAAT
123073 ATGTTGAAAG
Statistics
Matches: 623, Mismatches: 13, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
180 170 0.27
182 191 0.31
183 10 0.02
184 252 0.40
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (184 bp):
TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGT
TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTTTT
TTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
Found at i:124550 original size:6 final size:6
Alignment explanation
Indices: 124531--124614 Score: 78
Period size: 6 Copynumber: 14.0 Consensus size: 6
124521 ACTTGTTTGG
* * * **
124531 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGCC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
124579 AGCTTC ATCGTC ATCATC ATCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
124615 GTCAGATTCA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.36
Consensus pattern (6 bp):
ATCATC
Found at i:124551 original size:15 final size:15
Alignment explanation
Indices: 124532--124614 Score: 91
Period size: 15 Copynumber: 5.7 Consensus size: 15
124522 CTTGTTTGGA
* *
124532 TCATCATCTTCATCA
1 TCATCATCATCATCG
124547 TCATCATCATCATCG
1 TCATCATCATCATCG
*
124562 TCATCATCTTCATCG
1 TCATCATCATCATCG
* *
124577 -C--CAGCTTCATCG
1 TCATCATCATCATCG
124589 TCATCATCATCATCG
1 TCATCATCATCATCG
*
124604 TCATCTTCATC
1 TCATCATCATC
124615 GTCAGATTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
12 10 0.17
13 1 0.02
14 1 0.02
15 46 0.79
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (15 bp):
TCATCATCATCATCG
Found at i:124626 original size:27 final size:27
Alignment explanation
Indices: 124535--124618 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
124525 GTTTGGATCA
* * *
124535 TCATCTTCATCATCATCATCATCATCG
1 TCATCATCATCATCGTCATCTTCATCG
* * *
124562 TCATCATCTTCATCGCCAGCTTCATCG
1 TCATCATCATCATCGTCATCTTCATCG
124589 TCATCATCATCATCGTCATCTTCATCG
1 TCATCATCATCATCGTCATCTTCATCG
124616 TCA
1 TCA
124619 GATTCATCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.36
Consensus pattern (27 bp):
TCATCATCATCATCGTCATCTTCATCG
Found at i:126933 original size:196 final size:198
Alignment explanation
Indices: 126078--127476 Score: 2478
Period size: 196 Copynumber: 7.1 Consensus size: 198
126068 TTTAAATTAG
* *
126078 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
126143 ATTGTA-CGGTTAGATTGAAAAATTACATATTACA-TATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
126206 CGACACTTTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
126271 AAA
196 AAA
126274 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
126339 ATTGTACCGGTTAGATT-AAAAATTACATATTACA-TATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
126402 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC--TTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAA
126467 AAAAA
194 AAAAA
126472 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
126536 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
126601 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
126666 AAAA
195 AAAA
126670 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
126735 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
126800 CGACACTTTT-TATATGGATCGACACTTTATTGGTGCACCTTG-TTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
126863 AAA
196 AAA
126866 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
126931 ATTGTACCGGTTAGATT-AAAAATTA-ATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
126994 CGACACTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
127058 AAA
196 AAA
*
127061 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* * *
127126 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATAC-TTTGGTTTCGATGATTTTGGGGT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
127190 CGACACTTTT-TATATAGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCT-GG-AA
131 CGACACTTTTATATAT-GGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
127251 AAAA
195 AAAA
*
127255 TATCCACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCT-ATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
127317 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
127381 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
127446 AAA
196 AAA
*
127449 TATCGACAC-AACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
127477 TGACCCTTAA
Statistics
Matches: 1164, Mismatches: 22, Indels: 35
0.95 0.02 0.03
Matches are distributed among these distances:
191 94 0.08
192 69 0.06
193 4 0.00
194 95 0.08
195 147 0.13
196 306 0.26
197 82 0.07
198 250 0.21
199 117 0.10
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
AAA
Found at i:127584 original size:19 final size:18
Alignment explanation
Indices: 127566--127600 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
127556 AAAAAATATA
127566 AATCGTATACAAAATTAT
1 AATCGTATACAAAATTAT
*
127584 AATCTTATACAAAATTA
1 AATCGTATACAAAATTA
127601 ACTCGACATT
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:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (18 bp):
AATCGTATACAAAATTAT
Found at i:129418 original size:33 final size:33
Alignment explanation
Indices: 129381--129446 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
129371 CATCTTAATA
*
129381 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
129414 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
129447 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:131576 original size:24 final size:24
Alignment explanation
Indices: 131539--131591 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
131529 CCGTTCTATC
131539 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
131563 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
131587 TATTT
1 TATTT
131592 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:131782 original size:20 final size:19
Alignment explanation
Indices: 131736--131782 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
131726 TCCGGTATCA
*
131736 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
131755 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
131776 TTTTACC
1 TTTTACC
131783 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:131930 original size:20 final size:20
Alignment explanation
Indices: 131904--131949 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
131894 CACTTTTAAA
131904 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
131923 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
131944 TTTACC
1 TTTACC
131950 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:133810 original size:34 final size:34
Alignment explanation
Indices: 133729--133861 Score: 164
Period size: 34 Copynumber: 3.9 Consensus size: 34
133719 GCCTCGATTA
*
133729 TATATAGATAATATTTTTTATATTTTTTATATTAACT
1 TATATATATAATATTTTTTATA--TTTTATATTAA-T
* *
133766 ATATATATATAGTATTTTCTATATTTTATATTAAT
1 -TATATATATAATATTTTTTATATTTTATATTAAT
*
133801 TATATATATAATATTTTTTATTTTTTATATTAA-
1 TATATATATAATATTTTTTATATTTTATATTAAT
*
133834 T-TATATATAATA-TTTTTATTTTTTATAT
1 TATATATATAATATTTTTTATATTTTATAT
133862 ATTTATTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
31 16 0.18
32 11 0.12
33 1 0.01
34 30 0.34
35 1 0.01
36 11 0.12
38 19 0.21
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (34 bp):
TATATATATAATATTTTTTATATTTTATATTAAT
Found at i:133865 original size:17 final size:17
Alignment explanation
Indices: 133843--133876 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
133833 ATTATATATA
133843 ATATTT-TTATTTTTTAT
1 ATATTTATT-TTTTTTAT
133860 ATATTTATTTTTTTTAT
1 ATATTTATTTTTTTTAT
133877 GAAAAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATATTTATTTTTTTTAT
Found at i:133872 original size:22 final size:24
Alignment explanation
Indices: 133749--133872 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 24
133739 ATATTTTTTA
*
133749 TATTTTTTATATTAACTATATATATA
1 TATTTTTTATATTAA-T-TATATATT
* * *
133775 TAGTATTTTCTA-T-ATTTTATATT
1 TA-TTTTTTATATTAATTATATATT
* * * *
133798 AATTATATATA-TAA-TAT-TTTT
1 TATTTTTTATATTAATTATATATT
133819 TATTTTTTATATTAATTATATA-T
1 TATTTTTTATATTAATTATATATT
* *
133842 AATATTTTTAT-TT-TTTATATATT
1 TAT-TTTTTATATTAATTATATATT
133865 TATTTTTT
1 TATTTTTT
133873 TTATGAAAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 18
0.67 0.17 0.17
Matches are distributed among these distances:
21 11 0.15
22 23 0.32
23 19 0.26
24 9 0.12
25 1 0.01
26 3 0.04
27 7 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (24 bp):
TATTTTTTATATTAATTATATATT
Found at i:139077 original size:15 final size:17
Alignment explanation
Indices: 139057--139097 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
139047 ATAAATTTTT
*
139057 ATTTAAAGTTTA-T-AA
1 ATTTAAAATTTATTAAA
139072 ATTTAAAATTTATTAAA
1 ATTTAAAATTTATTAAA
139089 ATTTAAAAT
1 ATTTAAAAT
139098 ATGAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTAAAATTTATTAAA
Found at i:139730 original size:176 final size:176
Alignment explanation
Indices: 139385--139733 Score: 414
Period size: 176 Copynumber: 2.0 Consensus size: 176
139375 ACATTGATTT
* ** * * *
139385 ATAATTAATTTAAAAATATCTTTTTACTGACGTGACATCATATGTGGACATGTCATGTTAGTATT
1 ATAATTAATTTAAAAATATCTTTTTACTAACGTGACATCATACATGGACAAGCCACGTTAGTATT
* *
139450 TTAGTCCACATAAACCTGTCAAATCATCATCTACTATAATTTGAATATGTCATATCAACATCTGT
66 TTAGTCCACATAAACCTGTCAAATCATCATCTACTATAATTTGAATATGACATATCAACATCTCT
** * * * *
139515 CTCCACATGTTCTTGTTGAGTTAGCACCAAGCGTTGATCGTTAAAA
131 CTCCACATGTTCTTACTGAGTCAACACAAAGCATTGATCGTTAAAA
* *
139561 ATAATTAATTTAAAAATATCTTTTTGCTAACGTGATATCATACATGGACAAGCCACGTTAGTATT
1 ATAATTAATTTAAAAATATCTTTTTACTAACGTGACATCATACATGGACAAGCCACGTTAGTATT
* ** * * * **
139626 TTAGTCCACGTGGACCTGTCAAGTCATCATCTACTATGATTTGGATAT-AC-TACGTCAGTATCT
66 TTAGTCCACATAAACCTGTCAAATCATCATCTACTATAATTTGAATATGACATA--TCAACATCT
* * **
139689 CTCTTCACATTTTCTTACTGAGTCAATTCAAAGCATTGATCGTTA
129 CTCTCCACATGTTCTTACTGAGTCAACACAAAGCATTGATCGTTA
139734 TTTGACTAAC
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
174 2 0.01
175 1 0.01
176 140 0.98
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (176 bp):
ATAATTAATTTAAAAATATCTTTTTACTAACGTGACATCATACATGGACAAGCCACGTTAGTATT
TTAGTCCACATAAACCTGTCAAATCATCATCTACTATAATTTGAATATGACATATCAACATCTCT
CTCCACATGTTCTTACTGAGTCAACACAAAGCATTGATCGTTAAAA
Found at i:146896 original size:18 final size:19
Alignment explanation
Indices: 146873--146937 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 19
146863 TTCATGGAAA
*
146873 AACCGATAAA-CCGAACCG
1 AACCGAAAAACCCGAACCG
146891 AACCGAAAAACCCGAACCG
1 AACCGAAAAACCCGAACCG
*
146910 TTAA---AAAAAACCGAACCG
1 --AACCGAAAAACCCGAACCG
146928 AACCGAAAAA
1 AACCGAAAAA
146938 ACCGGTTTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 2 0.05
18 22 0.56
19 13 0.33
21 2 0.05
ACGTcount: A:0.52, C:0.29, G:0.14, T:0.05
Consensus pattern (19 bp):
AACCGAAAAACCCGAACCG
Found at i:146938 original size:19 final size:19
Alignment explanation
Indices: 146880--146941 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
146870 AAAAACCGAT
146880 AAACCGAACCGAACCGAAA
1 AAACCGAACCGAACCGAAA
*
146899 AACCCGAACCGTTAA---AAA
1 AAACCGAACCG--AACCGAAA
146917 AAACCGAACCGAACCGAAA
1 AAACCGAACCGAACCGAAA
146936 AAACCG
1 AAACCG
146942 GTTTCGGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
16 2 0.06
18 13 0.36
19 19 0.53
21 2 0.06
ACGTcount: A:0.52, C:0.31, G:0.15, T:0.03
Consensus pattern (19 bp):
AAACCGAACCGAACCGAAA
Found at i:147235 original size:73 final size:74
Alignment explanation
Indices: 147110--147257 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 74
147100 TTTTAAGTTT
** * * *
147110 AATAATTAAAAAATATTTTTAAACATATTTTTTTTATTTCAAACACTCGAAAATATGGTAAT-TC
1 AATAATTAAAAAATATTTTTAAACATATAATTTTTATTTAAAAAACTCGAAAATATGATAATCT-
147174 AGTGGGTCCC
65 AGTGGGTCCC
*
147184 AATATTTAAAAAATATTTTT-AA-ATATCAATTTTTATTTAAAAAACTCGAAAATATGATAATCT
1 AATAATTAAAAAATATTTTTAAACATAT-AATTTTTATTTAAAAAACTCGAAAATATGATAATCT
147247 AGTGGGTCCC
65 AGTGGGTCCC
147257 A
1 A
147258 TTTTAATGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
72 4 0.06
73 42 0.64
74 20 0.30
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.39
Consensus pattern (74 bp):
AATAATTAAAAAATATTTTTAAACATATAATTTTTATTTAAAAAACTCGAAAATATGATAATCTA
GTGGGTCCC
Found at i:156134 original size:16 final size:16
Alignment explanation
Indices: 156113--156150 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
156103 GCTGCAAGAT
156113 ATAATAGAGTAAGCAA
1 ATAATAGAGTAAGCAA
156129 ATAATAGAGTAAGCAA
1 ATAATAGAGTAAGCAA
156145 ATAATA
1 ATAATA
156151 AGGTTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (16 bp):
ATAATAGAGTAAGCAA
Found at i:162297 original size:190 final size:193
Alignment explanation
Indices: 161923--162311 Score: 712
Period size: 190 Copynumber: 2.0 Consensus size: 193
161913 AACATAAGGT
*
161923 CTTATATGACACTATCAACAAACATAGGAGCTCCAAAAAGGGTTATAAACAATTATCTTAGGTTG
1 CTTATATGACACTATCAACAAACATAGGAGCTCCAAAAAGGGTTATAAACAATTATCTTAAGTTG
161988 TCATAGATGCTCCACGGTTTTCCTCTTTCTTTTAGTAATTATGGTGTCAAAATCATGTTTAGCCA
66 TCATAGATGCTCCACGGTTTTCCTC--TCTTTTAGTAATTATGGTGTCAAAATCATGTTTAGCCA
162053 AACAAAAACACAAAATTTTGCATCAATCTGACCTTCACTACTTCAATGATAGCCTTATCAGCATC
129 AACAAAAACACAAAATTTTGCATCAATCTGACCTTCACTACTTCAATGATAGCCTTATCAGCATC
*
162118 CTTATATGACACTATCAACAAACATAGGAGCTCCGAAAAGGGTTATAAACAATTATCTTAAGTTG
1 CTTATATGACACTATCAACAAACATAGGAGCTCCAAAAAGGGTTATAAACAATTATCTTAAGTTG
*
162183 TCGTAGAT-CTCCACGGTTTTCCTC-CTTTTAGTAATTATGGTGTCAAAATCATGTTT-GCCAAA
66 TCATAGATGCTCCACGGTTTTCCTCTCTTTTAGTAATTATGGTGTCAAAATCATGTTTAGCCAAA
162245 CAAAAACACAAAATTTTGCATCAATCTGACCTTCACTACTTCAATGATAGCCTTATCAGCATC
131 CAAAAACACAAAATTTTGCATCAATCTGACCTTCACTACTTCAATGATAGCCTTATCAGCATC
162308 CTTA
1 CTTA
162312 ACATAGTGCC
Statistics
Matches: 191, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
190 73 0.38
191 32 0.17
194 16 0.08
195 70 0.37
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (193 bp):
CTTATATGACACTATCAACAAACATAGGAGCTCCAAAAAGGGTTATAAACAATTATCTTAAGTTG
TCATAGATGCTCCACGGTTTTCCTCTCTTTTAGTAATTATGGTGTCAAAATCATGTTTAGCCAAA
CAAAAACACAAAATTTTGCATCAATCTGACCTTCACTACTTCAATGATAGCCTTATCAGCATC
Found at i:165698 original size:13 final size:15
Alignment explanation
Indices: 165682--165713 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
165672 TCTTTTTCAT
165682 AAATAT-TATT-TAA
1 AAATATGTATTCTAA
165695 AAATATGTATTCTAA
1 AAATATGTATTCTAA
165710 AAAT
1 AAAT
165714 TTAAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 4 0.24
15 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATATGTATTCTAA
Found at i:166433 original size:21 final size:20
Alignment explanation
Indices: 166370--166434 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 20
166360 TGAAATTTAG
166370 TAAAAT-AA-TAATAAAAAT
1 TAAAATAAATTAATAAAAAT
*
166388 AAAAATGAAAATATAA-AAAAAT
1 TAAAAT--AAAT-TAATAAAAAT
166410 TAAAATAAATTAATAAATAAT
1 TAAAATAAATTAATAAA-AAT
166431 TAAA
1 TAAA
166435 TTAACCAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
18 5 0.13
19 3 0.08
20 7 0.18
21 9 0.24
22 11 0.29
23 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAATAAATTAATAAAAAT
Found at i:166811 original size:26 final size:26
Alignment explanation
Indices: 166782--166837 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
166772 GCTTTGTTAT
*
166782 TTCTCCATTCATTCTCTCTTTTTTGC
1 TTCTCCATTCATTCTCTCTTTTCTGC
* *
166808 TTCTCTATTCCTTCTCTCTTTTCTGC
1 TTCTCCATTCATTCTCTCTTTTCTGC
166834 TTCT
1 TTCT
166838 GGAGACATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.05, C:0.32, G:0.04, T:0.59
Consensus pattern (26 bp):
TTCTCCATTCATTCTCTCTTTTCTGC
Found at i:166848 original size:26 final size:26
Alignment explanation
Indices: 166791--166848 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
166781 TTTCTCCATT
* * **
166791 CATTCTCTCTTTTTTGCTTCTCTATT
1 CATTCTCTCTTTTCTGCTTCTCGAGA
* *
166817 CCTTCTCTCTTTTCTGCTTCTGGAGA
1 CATTCTCTCTTTTCTGCTTCTCGAGA
166843 CATTCT
1 CATTCT
166849 TGTTGGTCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.09, C:0.29, G:0.09, T:0.53
Consensus pattern (26 bp):
CATTCTCTCTTTTCTGCTTCTCGAGA
Found at i:168174 original size:84 final size:84
Alignment explanation
Indices: 167904--168738 Score: 873
Period size: 84 Copynumber: 10.1 Consensus size: 84
167894 TAGCAAATAG
* * *
167904 CCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
**
167969 GTCTTTGG-TCACAGATAA
66 GTCTTTGGTTGGCAGATAA
* * * * * * * *
167987 CCCTTCTAGACTTGAGGTATGCT-TAAATGATGTGCC-CGCGAAGCTGAGTGTAATCGAACTCGA
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG-G-AGCTGAGCGTAGTCGAACTCGA
* * *
168050 GGGTCTTT-G--AG-AGATAG
64 AGGTCTTTGGTTGGCAGATAA
* * *
168067 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
168132 GTCTTTGGTTGGCAGATAA
66 GTCTTTGGTTGGCAGATAA
* *
168151 CCGTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGGAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
** *
168216 GTCTTTTGG-TCACATATAA
66 GTC-TTTGGTTGGCAGATAA
* * * * * * * * * *
168235 CCCTTCTAGCCTTGACTTATGCTGTAAATGATGTGCC-CGCAAAGCTGAGTGTAATCGAACTCGA
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG--GAGCTGAGCGTAGTCGAACTCGA
* *
168299 GGGTC--T--TTGGCAGATAG
64 AGGTCTTTGGTTGGCAGATAA
* * * *
168316 CCCTTCTCGACTTAAGCTATGCTGCATATGATATGCCTTGAAGTTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
168381 GTCTTTGGTTGGCAGATAA
66 GTCTTTGGTTGGCAGATAA
* * * *
168400 CCTTTCTCGATTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
*
168465 GTCTTTGG-TGACAGATAA
66 GTCTTTGGTTGGCAGATAA
* * *** * * * * *
168483 CCCTTCTAGCCTTAAGTTATGCAATAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGAA
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
*
168548 GGTC--T--TTGGCAGATAG
65 GGTCTTTGGTTGGCAGATAA
* *
168564 CCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
*
168629 GTCTTTTGGTTGGCAAATAA
66 GTC-TTTGGTTGGCAGATAA
* * * *
168649 CCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAGTTGAACTCGAA
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
* *
168714 GGTC-TT-GATGGCAGATAG
65 GGTCTTTGGTTGGCAGATAA
168732 CCCTTCT
1 CCCTTCT
168739 GGCCTTGAGC
Statistics
Matches: 621, Mismatches: 106, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
80 103 0.17
81 87 0.14
82 17 0.03
83 104 0.17
84 211 0.34
85 70 0.11
86 29 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (84 bp):
CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTGGTTGGCAGATAA
Found at i:168366 original size:249 final size:247
Alignment explanation
Indices: 167904--168747 Score: 1280
Period size: 249 Copynumber: 3.4 Consensus size: 247
167894 TAGCAAATAG
* * *
167904 CCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* *
167969 GTCTTTGGTCACAGATAACCCTTCTAGACTTGAGGTATGCTTAAATGATGTGCCCGCGAAGCTGA
66 GTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTTAAATGATGTGCCCGCGAAGCTGA
168034 GTGTAATCGAACTCGAGGGTCTTTGAG-AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
131 GTGTAATCGAACTCGAGGGTCTTTG-GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
*
168098 TGTGCCTT-AGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
195 TATGCCTTGA-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* *
168151 CCGTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGGAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * *
168216 GTCTTTTGGTCACATATAACCCTTCTAGCCTTGACTTATGCTGTAAATGATGTGCCCGCAAAGCT
66 GTC-TTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCT-TAAATGATGTGCCCGCGAAGCT
*
168281 GAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATATG
129 GAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
*
168346 ATATGCCTTGAAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
194 ATATGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
* * * *
168400 CCTTTCTCGATTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * * * *
168465 GTCTTTGGTGACAGATAACCCTTCTAGCCTTAAGTTATGCAATAAATGATATGCCCTCGAAGCTG
66 GTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGC-TTAAATGATGTGCCCGCGAAGCTG
* *
168530 AGTGTAATCGAACTTGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
130 AGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * *
168595 TATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTTGGCAAATAA
195 TATGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAA
* * * *
168649 CCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAGTTGAACTCGAA
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
* ** * *
168714 GGTC-TTGATGGCAGATAGCCCTTCTGGCCTTGAG
65 GGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAG
168748 CTAAGCTGCA
Statistics
Matches: 544, Mismatches: 46, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
247 63 0.12
248 184 0.34
249 267 0.49
250 30 0.06
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (247 bp):
CCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTTAAATGATGTGCCCGCGAAGCTGA
GTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
ATGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
Found at i:172815 original size:31 final size:33
Alignment explanation
Indices: 172757--172827 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
172747 GAAAATAAAC
* *
172757 AAATAAATATAAATGAAATTTAGTAAAAAAA-TA
1 AAAT-AATAAAAATGAAATATAGTAAAAAAATTA
172790 ATAATAATAAAAATGAAA-ATA-TAAAAAAATTA
1 A-AATAATAAAAATGAAATATAGTAAAAAAATTA
172822 AAATAA
1 AAATAA
172828 ATTAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 13 0.38
32 5 0.15
33 13 0.38
34 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (33 bp):
AAATAATAAAAATGAAATATAGTAAAAAAATTA
Found at i:172817 original size:16 final size:15
Alignment explanation
Indices: 172780--172826 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
172770 TGAAATTTAG
172780 TAAAAAAATAATAATA
1 TAAAAAAATAA-AATA
*
172796 -ATAAAAATGAAAATA
1 TAAAAAAAT-AAAATA
172811 TAAAAAAATTAAAATA
1 TAAAAAAA-TAAAATA
172827 AATTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 11 0.42
16 14 0.54
17 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
TAAAAAAATAAAATA
Found at i:172843 original size:21 final size:21
Alignment explanation
Indices: 172780--172844 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
172770 TGAAATTTAG
172780 TAAAA-AAA-TAAT-AATAAT
1 TAAAATAAATTAATAAATAAT
*
172798 AAAAATGAAAATATAA-AAA-AAT
1 TAAAAT--AAAT-TAATAAATAAT
172820 TAAAATAAATTAATAAATAAT
1 TAAAATAAATTAATAAATAAT
172841 TAAA
1 TAAA
172845 TTAACCAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 7 0.19
21 10 0.27
22 8 0.22
23 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAAATAAATTAATAAATAAT
Found at i:173227 original size:26 final size:26
Alignment explanation
Indices: 173198--173253 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
173188 GCTTTGTTAT
*
173198 TTCTCCATTCATTCTCTCTTTTTTGC
1 TTCTCCATTCATTCTCTCTTTTCTGC
*
173224 TTCTCTATTCATTCTCTCTTTTCTGC
1 TTCTCCATTCATTCTCTCTTTTCTGC
173250 TTCT
1 TTCT
173254 GGAGACATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.07, C:0.30, G:0.04, T:0.59
Consensus pattern (26 bp):
TTCTCCATTCATTCTCTCTTTTCTGC
Found at i:173262 original size:26 final size:26
Alignment explanation
Indices: 173207--173264 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
173197 TTTCTCCATT
* * **
173207 CATTCTCTCTTTTTTGCTTCTCTATT
1 CATTCTCTCTTTTCTGCTTCTCGAGA
*
173233 CATTCTCTCTTTTCTGCTTCTGGAGA
1 CATTCTCTCTTTTCTGCTTCTCGAGA
173259 CATTCT
1 CATTCT
173265 TGTTGGTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.10, C:0.28, G:0.09, T:0.53
Consensus pattern (26 bp):
CATTCTCTCTTTTCTGCTTCTCGAGA
Found at i:182847 original size:16 final size:18
Alignment explanation
Indices: 182807--182849 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
182797 TACATTCTCA
182807 GTAATCTTATTCCCACCG
1 GTAATCTTATTCCCACCG
* *
182825 ATAATCTT-TTTCC-CCG
1 GTAATCTTATTCCCACCG
182841 GTAATCTTA
1 GTAATCTTA
182850 CATTCCGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCCACCG
Found at i:192631 original size:36 final size:37
Alignment explanation
Indices: 192591--192663 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
192581 TATTTTATCT
* *
192591 AATATTAATAT-TAATATTTATTTAA-TAATTAAAAAA
1 AATATGAATATATAATATTT-TATAACTAATTAAAAAA
*
192627 AATATGAATATATAATATTTTATAACTATTTAAAAAA
1 AATATGAATATATAATATTTTATAACTAATTAAAAAA
192664 TTTAATCCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 14 0.44
37 18 0.56
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (37 bp):
AATATGAATATATAATATTTTATAACTAATTAAAAAA
Found at i:200194 original size:18 final size:19
Alignment explanation
Indices: 200153--200197 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
200143 TGAAACAAAT
200153 ATAAAAAAAATCAAATTGA
1 ATAAAAAAAATCAAATTGA
*
200172 TTAAAATAAAAT-AAA-TGA
1 ATAAAA-AAAATCAAATTGA
200190 ATAAAAAA
1 ATAAAAAA
200198 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 8 0.35
20 5 0.22
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (19 bp):
ATAAAAAAAATCAAATTGA
Found at i:200321 original size:13 final size:13
Alignment explanation
Indices: 200305--200329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
200295 AAAATAGTAT
200305 AAATAAAATAAAC
1 AAATAAAATAAAC
200318 AAATAAAATAAA
1 AAATAAAATAAA
200330 ATATATAAAA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAATAAAC
Found at i:200328 original size:22 final size:22
Alignment explanation
Indices: 200287--200347 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
200277 AAACATAATG
**
200287 AAAATAAAAAAATAGTATAAAT
1 AAAATAAAAAAATAAAATAAAT
*
200309 AAAATAAACAAATAAAATAAA-
1 AAAATAAAAAAATAAAATAAAT
* *
200330 ATATATAAAAATATAAAA
1 A-AAATAAAAAAATAAAA
200348 ATGTATGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAAAAAATAAAATAAAT
Found at i:200442 original size:33 final size:35
Alignment explanation
Indices: 200358--200442 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 35
200348 ATGTATGTAT
*
200358 AATATAATAAAATACTAAATAGTAACAATAATAATA
1 AATA-AATAAAATAATAAATAGTAACAATAATAATA
* *
200394 AATAAATGAAA-AATAAATA-T-ACATATAATATTA
1 AATAAATAAAATAATAAATAGTAACA-ATAATAATA
*
200427 ACTAAA-AAAATAATAA
1 AATAAATAAAATAATAA
200443 TCATAGAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 6 0.14
33 19 0.45
34 7 0.17
35 6 0.14
36 4 0.10
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (35 bp):
AATAAATAAAATAATAAATAGTAACAATAATAATA
Found at i:200512 original size:12 final size:12
Alignment explanation
Indices: 200495--200519 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
200485 TAATGTTAGG
200495 AAAATATAGTAA
1 AAAATATAGTAA
200507 AAAATATAGTAA
1 AAAATATAGTAA
200519 A
1 A
200520 TAAGTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATATAGTAA
Found at i:201096 original size:37 final size:37
Alignment explanation
Indices: 201055--201151 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
201045 ATGCTTGTGG
* * *
201055 ATCATATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCATATTTTTAGGAGTTTAAATAATAGCAAAACTCT
* * *
201092 ATCATATTTTTAGGAGTTTGAATCATAGCAAAATTCT
1 ATCATATTTTTAGGAGTTTAAATAATAGCAAAACTCT
201129 ATCATATTTTTAGGAGTTTAAAT
1 ATCATATTTTTAGGAGTTTAAAT
201152 CCTAGTATGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTAAATAATAGCAAAACTCT
Found at i:202101 original size:106 final size:106
Alignment explanation
Indices: 201910--203078 Score: 1820
Period size: 106 Copynumber: 11.0 Consensus size: 106
201900 CATTGTTCCA
* * ** *
201910 AGTCCAATATCC-TCTGTCGTGAAGTTGAAATTGGCTCTGGAATCAGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
201974 CCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
202016 AGTTCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTAACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
202081 CATCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
202122 AGTCCAATATCCTTCGCTGTGAAGTTGAACTTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
202187 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** ** *
202228 AGTCCAATATCCTTCCCTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
202293 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
202334 AGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
202399 CAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
202440 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
202505 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
202546 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
202611 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
202652 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
202717 CAACGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
202758 AGTCCAATATCCTTCGCTGTGAAGCTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
202823 CAGCGGTCCCTTCGTCGTGAAGTTAAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
202864 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
202929 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
202970 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
203035 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
203076 AGT
1 AGT
203079 GGCACGATAT
Statistics
Matches: 985, Mismatches: 76, Indels: 4
0.92 0.07 0.00
Matches are distributed among these distances:
106 983 1.00
107 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:204060 original size:22 final size:22
Alignment explanation
Indices: 204034--204088 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
204024 TTGTGTTTGG
204034 TCAAAGGTTTGGAATTTGATGC
1 TCAAAGGTTTGGAATTTGATGC
*
204056 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGAATTTGATGC
204078 TCAAAGGTTTG
1 TCAAAGGTTTG
204089 ATGGGGTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGAATTTGATGC
Found at i:204713 original size:16 final size:14
Alignment explanation
Indices: 204694--204774 Score: 67
Period size: 16 Copynumber: 5.3 Consensus size: 14
204684 TTGTCCATTT
204694 TTCTTTTTGATTTTTG
1 TTCTTTTT--TTTTTG
204710 TTCTTTTTTTTTTG
1 TTCTTTTTTTTTTG
204724 TT-TTCTTCTTTTTTG
1 TTCTT-TT-TTTTTTG
204739 CTTCTTTTCTTTTTTG
1 -TTCTTTT-TTTTTTG
204755 TT-TTTGCCTTTTTTTG
1 TTCTTT---TTTTTTTG
204771 TTCT
1 TTCT
204775 GATTGAATCT
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.04
14 13 0.23
15 9 0.16
16 29 0.51
17 4 0.07
ACGTcount: A:0.01, C:0.12, G:0.09, T:0.78
Consensus pattern (14 bp):
TTCTTTTTTTTTTG
Found at i:204766 original size:31 final size:29
Alignment explanation
Indices: 204704--204774 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 29
204694 TTCTTTTTGA
*
204704 TTTTTGTTCTTTTTTTTTTGTTTTCTTCT
1 TTTTTGTTCTTTTTTTTTTGTTTTCTCCT
204733 TTTTTGCTTCTTTTCTTTTTTGTTTT-TGCCTT
1 TTTTTG-TTCTTTT-TTTTTTGTTTTCT-CC-T
204765 TTTTTGTTCT
1 TTTTTGTTCT
204775 GATTGAATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 6 0.16
30 8 0.22
31 16 0.43
32 7 0.19
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (29 bp):
TTTTTGTTCTTTTTTTTTTGTTTTCTCCT
Found at i:204768 original size:15 final size:14
Alignment explanation
Indices: 204704--204759 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
204694 TTCTTTTTGA
204704 TTTTTGTTCTTTT-T
1 TTTTTGTT-TTTTCT
204718 TTTTTGTTTTCTTCT
1 TTTTTGTTTT-TTCT
204733 TTTTTGCTTCTTTTCT
1 TTTTTG-TT-TTTTCT
204749 TTTTTGTTTTT
1 TTTTTGTTTTT
204760 GCCTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.05
14 13 0.34
15 9 0.24
16 12 0.32
17 2 0.05
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (14 bp):
TTTTTGTTTTTTCT
Found at i:209647 original size:75 final size:75
Alignment explanation
Indices: 209559--209698 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 75
209549 ATATACATAT
*
209559 AATATTAACTAAAAAAATAGTAAT-TAT-AG-AAATATAAAATAAAATGAAGTAAGAATATATAT
1 AATATTAACTAAAAAAATA-TAATAAATAAGTAAATAT-AAAT-AAAT-AA-TAAGAATATATAT
209621 ATATAACGTTAGGAA
61 ATATAACGTTAGGAA
* *
209636 AATA-TAA-TAAAAAAATATAATAAATAAGTAAATATAGATAAATAATAATAATATATATATATA
1 AATATTAACTAAAAAAATATAATAAATAAGTAAATATAAATAAATAATAAGAATATATATATATA
209699 TAATAATAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
73 17 0.30
74 6 0.11
75 16 0.28
76 8 0.14
77 10 0.18
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.30
Consensus pattern (75 bp):
AATATTAACTAAAAAAATATAATAAATAAGTAAATATAAATAAATAATAAGAATATATATATATA
ACGTTAGGAA
Found at i:209652 original size:13 final size:13
Alignment explanation
Indices: 209634--209659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
209624 TAACGTTAGG
209634 AAAATATAATAAA
1 AAAATATAATAAA
209647 AAAATATAATAAA
1 AAAATATAATAAA
209660 TAAGTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATATAATAAA
Found at i:209676 original size:21 final size:21
Alignment explanation
Indices: 209652--209706 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
209642 ATAAAAAAAT
209652 ATAATAAATAAGTAA-ATATAG
1 ATAATAAATAA-TAATATATAG
*
209673 ATAA-ATAATAATAATATATAT
1 ATAATA-AATAATAATATATAG
209694 AT-ATATAATAATA
1 ATAATA-AATAATA
209707 GAAAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATAAATAATAATATATAG
Found at i:209680 original size:25 final size:25
Alignment explanation
Indices: 209652--209725 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
209642 ATAAAAAAAT
209652 ATAATAAATAAGTAAATATAGATA-A
1 ATAATAAATAA-TAAATATAGATATA
* *
209677 ATAAT-AATAATATATATATATATA
1 ATAATAAATAATAAATATAGATATA
*
209701 ATAATAGAAAAATAAA-ATA-ATATA
1 ATAATA-AATAATAAATATAGATATA
209725 A
1 A
209726 CACAAAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 10 0.24
24 17 0.40
25 8 0.19
26 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
ATAATAAATAATAAATATAGATATA
Found at i:209770 original size:23 final size:24
Alignment explanation
Indices: 209735--209782 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
209725 ACACAAAGAA
209735 AAATGAAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAAA-TATAATTAAAT
*
209759 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAAAAAAATATAATTAAAT
209782 A
1 A
209783 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATGAAAAAAAATATAATTAAAT
Found at i:211724 original size:3 final size:3
Alignment explanation
Indices: 211695--211762 Score: 100
Period size: 3 Copynumber: 21.7 Consensus size: 3
211685 AAAAAATTAA
*
211695 AAT AAT ATT ATAT AAT AGAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
211743 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
211763 ATGTGTTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
3 53 0.88
4 6 0.10
5 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:215173 original size:35 final size:36
Alignment explanation
Indices: 215127--215248 Score: 167
Period size: 35 Copynumber: 3.4 Consensus size: 36
215117 TAGTAATCAA
*
215127 CTTTGAAAAAATGATTTTCAAAGTTTGATAAATGTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
215164 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
215199 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
215236 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
215249 AATGGGATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
35 35 0.45
36 14 0.18
37 28 0.36
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:215675 original size:16 final size:16
Alignment explanation
Indices: 215649--215687 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
215639 TCGGGTTACT
215649 ATTTACGTGAATAGTGA
1 ATTT-CGTGAATAGTGA
215666 ATTTCGTGAATAGTGA
1 ATTTCGTGAATAGTGA
*
215682 AATTCG
1 ATTTCG
215688 GTCGGCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (16 bp):
ATTTCGTGAATAGTGA
Found at i:215685 original size:17 final size:17
Alignment explanation
Indices: 215649--215682 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
215639 TCGGGTTACT
215649 ATTTACGTGAATAGTGA
1 ATTTACGTGAATAGTGA
215666 ATTT-CGTGAATAGTGA
1 ATTTACGTGAATAGTGA
215682 A
1 A
215683 ATTCGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTGA
Found at i:219784 original size:21 final size:21
Alignment explanation
Indices: 219760--219825 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
219750 AACTTTGAAA
219760 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
219781 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
219795 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
219816 AAATGTTTTT
1 AAATGGTTTT
219826 TTGAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
19 4 0.11
20 4 0.11
21 14 0.40
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.47
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:219851 original size:37 final size:37
Alignment explanation
Indices: 219753--219870 Score: 163
Period size: 35 Copynumber: 3.3 Consensus size: 37
219743 GGTAACCAAC
*
219753 TTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTTT
219790 TTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTT
1 TTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTTT
* *
219825 TTTGAAAAATAGTTTTTCAAAGTTTGGTAGATG-TTT
1 TTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTTT
*
219861 GTTGAAAAAT
1 TTTGAAAAAT
219871 GATAATGGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
35 29 0.39
36 21 0.28
37 24 0.32
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (37 bp):
TTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTTT
Found at i:230510 original size:16 final size:16
Alignment explanation
Indices: 230486--230550 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
230476 ATTTTAGTTA
230486 AACCAAAAGTAACCTG
1 AACCAAAAGTAACCTG
*
230502 AACCGAAAGTAACC-G
1 AACCAAAAGTAACCTG
* * *
230517 AACTAAAAATAACTTG
1 AACCAAAAGTAACCTG
**
230533 AACTGAAAGTAACCTG
1 AACCAAAAGTAACCTG
230549 AA
1 AA
230551 TTTAATTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 11 0.28
16 29 0.73
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.15
Consensus pattern (16 bp):
AACCAAAAGTAACCTG
Done.