Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008114.1 Hibiscus syriacus cultivar Beakdansim tig00110653_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: 335373
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2274 original size:20 final size:20
Alignment explanation
Indices: 2246--2286 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2236 CGCGAAATAA
*
2246 GCGTTGCGAATTTGACTATC
1 GCGTAGCGAATTTGACTATC
2266 GCGTAGCGAATTTGACTATC
1 GCGTAGCGAATTTGACTATC
2286 G
1 G
2287 TATCGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (20 bp):
GCGTAGCGAATTTGACTATC
Found at i:2410 original size:25 final size:25
Alignment explanation
Indices: 2378--2426 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2368 AAATCAATTA
*
2378 AACATTGTTGTGGGTACATTATTTT
1 AACATTGTTATGGGTACATTATTTT
2403 AACATTGTTATGGGTACATTATTT
1 AACATTGTTATGGGTACATTATTT
2427 GGAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTT
Found at i:2843 original size:17 final size:17
Alignment explanation
Indices: 2813--2846 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2803 GTAATTGGAG
2813 TTTGAATTTAAATTTCA
1 TTTGAATTTAAATTTCA
* *
2830 TTTGAGTTTGAATTTCA
1 TTTGAATTTAAATTTCA
2847 ATACAACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTGAATTTAAATTTCA
Found at i:3198 original size:39 final size:39
Alignment explanation
Indices: 3113--3199 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
3103 TTCGATGCTC
* * *
3113 ATCAAAAGCCAAAGCTCATTTGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
*
3152 ATCAAAATCCAAATCTCATATGGTGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
3191 ATCAAAATC
1 ATCAAAATC
3200 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
Found at i:7312 original size:13 final size:13
Alignment explanation
Indices: 7294--7325 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7284 GGGTTTCTTC
7294 AACAAAAAGACAA
1 AACAAAAAGACAA
*
7307 AACAAAAAGATAA
1 AACAAAAAGACAA
7320 AACAAA
1 AACAAA
7326 GACAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.78, C:0.12, G:0.06, T:0.03
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:7567 original size:22 final size:22
Alignment explanation
Indices: 7539--7584 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
7529 GATGGAGATA
7539 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
7561 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
7583 GA
1 GA
7585 TGAATATCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.43, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:7741 original size:20 final size:20
Alignment explanation
Indices: 7716--7800 Score: 143
Period size: 20 Copynumber: 4.2 Consensus size: 20
7706 ACGTAAAAAC
*
7716 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
7736 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
* *
7756 ATTTGATTATCGCGTTGAGA
1 ATTTGACTATCGCGTTGCGA
7776 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
7796 ATTTG
1 ATTTG
7801 GAAAATCACA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:13288 original size:2 final size:2
Alignment explanation
Indices: 13281--13318 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13271 TTAACAATAA
13281 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
13319 TCACTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14166 original size:32 final size:32
Alignment explanation
Indices: 14124--14210 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 32
14114 TTACTTAATA
14124 ATATAATATATCACATCAATATTTT-AAGTAAC
1 ATATAATATATCACATCAATATTTTGAA-TAAC
* * *
14156 ATATCATATATCACAT-TATCATTTTGAATAAT
1 ATATAATATATCACATCAAT-ATTTTGAATAAC
* * *
14188 ATATTATATATCAAATCATTATT
1 ATATAATATATCACATCAATATT
14211 ATAGGTATGT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
31 2 0.04
32 40 0.89
33 3 0.07
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (32 bp):
ATATAATATATCACATCAATATTTTGAATAAC
Found at i:17659 original size:41 final size:42
Alignment explanation
Indices: 17592--17706 Score: 196
Period size: 41 Copynumber: 2.8 Consensus size: 42
17582 CCCGAAATCT
* * *
17592 CGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
17634 CGTGTTTGTTTCA-GTAATTCGTTTTCCGGAAAATATTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
17675 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
17707 TGTAATTCAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
41 39 0.56
42 31 0.44
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
Found at i:17903 original size:10 final size:9
Alignment explanation
Indices: 17879--17920 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
17869 TAATTATTAA
*
17879 AATATTTAA
1 AATATTTAT
17888 AATATTTATT
1 AATATTTA-T
17898 AATATTTAT
1 AATATTTAT
*
17907 AATA-ATAT
1 AATATTTAT
17915 AATATT
1 AATATT
17921 ATATTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
10 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATATTTAT
Found at i:17925 original size:28 final size:28
Alignment explanation
Indices: 17888--18051 Score: 93
Period size: 28 Copynumber: 6.0 Consensus size: 28
17878 AAATATTTAA
17888 AATATT-TATTAATATTTATAATAATAT
1 AATATTATATTAATATTTATAATAATAT
*
17915 AATATTATATTTTAATA-TTAT-ATAAAAT
1 AATATTATA--TTAATATTTATAATAATAT
*
17943 -A-ATCA-ATT-ATA-TTATAATAA-AT
1 AATATTATATTAATATTTATAATAATAT
**
17965 AATATTATATTTTTATTT-TAATAATATAT
1 AATATTATATTAATATTTATAAT-A-ATAT
* * *
17994 AATAAATTTTTTTATATATTTAATAATGA-AT
1 AAT--ATTATATTA-ATATTT-ATAATAATAT
18025 AATATTAT-TTATATATTTA-AATAATAT
1 AATATTATATTA-ATATTTATAATAATAT
18052 TTTCGTAAAG
Statistics
Matches: 108, Mismatches: 11, Indels: 36
0.70 0.07 0.23
Matches are distributed among these distances:
22 9 0.08
23 7 0.06
24 3 0.03
25 4 0.04
26 13 0.12
27 13 0.12
28 19 0.18
29 13 0.12
30 6 0.06
31 11 0.10
32 6 0.06
34 4 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
AATATTATATTAATATTTATAATAATAT
Found at i:17956 original size:22 final size:20
Alignment explanation
Indices: 17929--17975 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
17919 TTATATTTTA
17929 ATATTAT-ATAAAATAATCAATT
1 ATATTATAAT-AAATAAT--ATT
17951 ATATTATAATAAATAATATT
1 ATATTATAATAAATAATATT
17971 ATATT
1 ATATT
17976 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 14 0.58
23 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATAATAAATAATATT
Found at i:17980 original size:23 final size:23
Alignment explanation
Indices: 17894--17980 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 23
17884 TTAAAATATT
*
17894 TATTA-ATATTTATAATAATATAA
1 TATTATATTTTTATAATAA-ATAA
* * *
17917 TATTATATTTTAATATTATATAA
1 TATTATATTTTTATAATAAATAA
* *
17940 AATAATCAATTATATTATAATAAATAA
1 TATTAT--ATT-T-TTATAATAAATAA
17967 TATTATATTTTTAT
1 TATTATATTTTTAT
17981 TTTAATAATA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
23 17 0.35
24 10 0.21
25 6 0.12
26 1 0.02
27 14 0.29
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTATATTTTTATAATAAATAA
Found at i:17996 original size:51 final size:51
Alignment explanation
Indices: 17903--18001 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 51
17893 TTATTAATAT
*
17903 TTATAATAATATAATATTATATTTTAATATTATATAAAATAATCAATTATA
1 TTATAATAATATAATATTATATTTTAATATTATATAAAATAATAAATTATA
* *
17954 TTATAATAA-ATAATATTATATTTTTATTTTA-ATAATATATAATAAATT
1 TTATAATAATATAATATTATATTTTAATATTATATAA-A-ATAATAAATT
18002 TTTTTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 4 0.09
50 21 0.49
51 18 0.42
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (51 bp):
TTATAATAATATAATATTATATTTTAATATTATATAAAATAATAAATTATA
Found at i:18165 original size:87 final size:88
Alignment explanation
Indices: 18067--18235 Score: 204
Period size: 90 Copynumber: 1.9 Consensus size: 88
18057 TAAAGATATT
* * * * *
18067 TAAAATATACT-A-ATTAAT-TTTTTA-AAATATAA-TATAACACTATTACTTTAATAAATAATT
1 TAAAATATACTAATATTAATATTTTTATAAATAAAATTATAAAAATAATA-TTTAAT-AATAAAT
18127 AATATAATTTATAATATTTTATTTCAC
64 AA-ATAATTT-TAATATTTTATTTCAC
*
18154 TAAAATATACTAATATTAATATTTTTATTAATAAAATTATAAAAATAATATTTAATAATAAATAA
1 TAAAATATACTAATATTAATATTTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAA
*
18219 ATTATTTTAATATTTTA
66 ATAATTTTAATATTTTA
18236 AAATAATAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
87 11 0.16
88 11 0.16
89 12 0.17
90 14 0.20
91 12 0.17
92 10 0.14
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (88 bp):
TAAAATATACTAATATTAATATTTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAA
ATAATTTTAATATTTTATTTCAC
Found at i:18239 original size:49 final size:50
Alignment explanation
Indices: 18185--18283 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
18175 TTTTTATTAA
*
18185 TAAAATTATAAAAATAA-TATTTAATAATAAATAA-ATTATTT-TAATATTT
1 TAAAATAATAAAAATAAGT-TTT-ATAATAAATAATATTATTTATAATATTT
* * * *
18234 TAAAATAATAATATTAAGTTTTATGATAAATAATATTATTTATTATATTT
1 TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
18284 AATATTTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 10 0.24
49 24 0.57
50 8 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (50 bp):
TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
Found at i:20613 original size:16 final size:16
Alignment explanation
Indices: 20592--20656 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
20582 TAATAAATAA
20592 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
20608 ACGAACATAAGCGAAT
1 ACGAACATAAACGAAC
*
20624 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
20640 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
20656 A
1 A
20657 TAAACGTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.55, C:0.22, G:0.14, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:21729 original size:14 final size:14
Alignment explanation
Indices: 21712--21756 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
21702 GATTGGGTTA
21712 AACATAACCGAACG
1 AACATAACCGAACG
21726 AACAT-A---AACG
1 AACATAACCGAACG
21736 AACATAACCGAACG
1 AACATAACCGAACG
21750 AACATAA
1 AACATAA
21757 ACAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.56, C:0.24, G:0.11, T:0.09
Consensus pattern (14 bp):
AACATAACCGAACG
Found at i:21744 original size:24 final size:24
Alignment explanation
Indices: 21711--21773 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
21701 AGATTGGGTT
21711 AAACATAACCGAACGAACATAAAC
1 AAACATAACCGAACGAACATAAAC
*
21735 GAACATAACCGAACGAACATAAAC
1 AAACATAACCGAACGAACATAAAC
21759 AAACATAACCGAACG
1 AAACATAACCGAACG
21774 TTCACGAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.56, C:0.25, G:0.11, T:0.08
Consensus pattern (24 bp):
AAACATAACCGAACGAACATAAAC
Found at i:23119 original size:23 final size:21
Alignment explanation
Indices: 23092--23134 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
23082 GATATAAAAA
23092 TTAT-TTTTTATTAAATATTTT
1 TTATATTTTTATTAAAT-TTTT
*
23113 TTATATTTTTATTTAATTTTT
1 TTATATTTTTATTAAATTTTT
23134 T
1 T
23135 AAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATATTTTTATTAAATTTTT
Found at i:26388 original size:2 final size:2
Alignment explanation
Indices: 26383--26416 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
26373 TTAATCATTA
26383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
26417 ATTACTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26696 original size:20 final size:21
Alignment explanation
Indices: 26658--26696 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
26648 ATACTTTAGA
*
26658 AAAATACTAAAACATAATATG
1 AAAATACTAAAACAAAATATG
*
26679 AAAATA-TAAAATAAAATA
1 AAAATACTAAAACAAAATA
26697 CTTACAGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAATACTAAAACAAAATATG
Found at i:33772 original size:33 final size:33
Alignment explanation
Indices: 33732--33826 Score: 181
Period size: 33 Copynumber: 2.9 Consensus size: 33
33722 TGTTCAAAGT
*
33732 TTGGCCACCAACCAATATGAAATTTCCAATAAG
1 TTGGCCACCAACCAAGATGAAATTTCCAATAAG
33765 TTGGCCACCAACCAAGATGAAATTTCCAATAAG
1 TTGGCCACCAACCAAGATGAAATTTCCAATAAG
33798 TTGGCCACCAACCAAGATGAAATTTCCAA
1 TTGGCCACCAACCAAGATGAAATTTCCAA
33827 CTTGTCAACT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (33 bp):
TTGGCCACCAACCAAGATGAAATTTCCAATAAG
Found at i:45299 original size:26 final size:26
Alignment explanation
Indices: 45270--45333 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
45260 TCTTTTAATC
*
45270 ATGGGTTTTCACACCTGCGTGTATAA
1 ATGGGTTTTCACACCTGCGTGTACAA
*
45296 ATGGGTTTTCACACCTGCGTGTGCAA
1 ATGGGTTTTCACACCTGCGTGTACAA
*
45322 ATGGGTCTTCAC
1 ATGGGTTTTCAC
45334 CATTTCTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (26 bp):
ATGGGTTTTCACACCTGCGTGTACAA
Found at i:50534 original size:16 final size:16
Alignment explanation
Indices: 50513--50554 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
50503 TTACTATTCA
50513 TATGAATAGTGAATTT
1 TATGAATAGTGAATTT
50529 TATGAATAGTGAATTT
1 TATGAATAGTGAATTT
*
50545 TGTGAATAGT
1 TATGAATAGT
50555 AAAATTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (16 bp):
TATGAATAGTGAATTT
Found at i:55055 original size:26 final size:26
Alignment explanation
Indices: 55019--55074 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
55009 TAACTCACTT
55019 TATCTTTTCTTCCAATCTTATAACTC
1 TATCTTTTCTTCCAATCTTATAACTC
55045 TATCTTTTCTTCCAATCTTATAACTC
1 TATCTTTTCTTCCAATCTTATAACTC
55071 TATC
1 TATC
55075 ACCTTTACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (26 bp):
TATCTTTTCTTCCAATCTTATAACTC
Found at i:56137 original size:2 final size:2
Alignment explanation
Indices: 56130--56165 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56120 CAAACTATTC
56130 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
56166 TTTCCAGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58547 original size:18 final size:17
Alignment explanation
Indices: 58524--58576 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
58514 CCGCGTAGAA
58524 ATGTCCTGAAAGACCACT
1 ATGTCC-GAAAGACCACT
*
58542 ATGTCCCGAATGACCACT
1 ATGT-CCGAAAGACCACT
*
58560 ATGTTCCGAAGGACCAC
1 ATG-TCCGAAAGACCAC
58577 ATATCACATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 28 0.90
19 3 0.10
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (17 bp):
ATGTCCGAAAGACCACT
Found at i:59960 original size:191 final size:192
Alignment explanation
Indices: 59609--59961 Score: 462
Period size: 191 Copynumber: 1.8 Consensus size: 192
59599 ATGACAACTG
* *
59609 GTTACGTAACTAAATTATAGAAAATTTTGTTATTAATAATTCACATCGTCACGGATAATACATTA
1 GTTACGTAACTAAATTATAGAAAA-TTTGTTATTAATAATTCACATCGTCACGAATAATACAATA
* * *** * *
59674 AAATCAATCTATATGTGATGAAAGATATATTGTTTCATTTTTAGTGACGTAATATAACGTTACCT
65 AAATCAATCTATATGTGACGAAAGAGATATTGTCAAATTTTTAGTAACATAATATAACGTTACCT
*
59739 AATAGTATTATGAATGACACTTATGCATAACGTCATTTTATAACTTATATTGCATGACAGTTA
130 AATAGTATTATGAATGACACTTACGCATAACGTCATTTTATAACTTATATTGCATGACAGTTA
* * * * *
59802 GTTACGTCACTAAATTATATAATAA-TT-TTATTAATAATTTATATCGTCATGAATAATACAATA
1 GTTACGTAACTAAATTATAGAA-AATTTGTTATTAATAATTCACATCGTCACGAATAATACAATA
* **
59865 AAATCAA-CTTATATGTTACGAAAGAGATATTGTCAAATTTTTAGTAACATAATATAACGTTATG
65 AAATCAATC-TATATGTGACGAAAGAGATATTGTCAAATTTTTAGTAACATAATATAACGTTACC
* *
59929 TAATAGTATTTTGAATGATGA-TTACGCATAACG
129 TAATAGTATTATGAATGA-CACTTACGCATAACG
59962 CCACCTTATA
Statistics
Matches: 137, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
190 1 0.01
191 111 0.81
192 3 0.02
193 20 0.15
194 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (192 bp):
GTTACGTAACTAAATTATAGAAAATTTGTTATTAATAATTCACATCGTCACGAATAATACAATAA
AATCAATCTATATGTGACGAAAGAGATATTGTCAAATTTTTAGTAACATAATATAACGTTACCTA
ATAGTATTATGAATGACACTTACGCATAACGTCATTTTATAACTTATATTGCATGACAGTTA
Found at i:63326 original size:20 final size:20
Alignment explanation
Indices: 63301--63352 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
63291 AATTCCTAGG
63301 CATCGATGCACCCCTTAATA
1 CATCGATGCACCCCTTAATA
*
63321 CATCGATGCACCCCTTAATG
1 CATCGATGCACCCCTTAATA
*
63341 CATCAATGCACC
1 CATCGATGCACC
63353 TTCAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.23
Consensus pattern (20 bp):
CATCGATGCACCCCTTAATA
Found at i:73975 original size:84 final size:84
Alignment explanation
Indices: 73829--73986 Score: 298
Period size: 84 Copynumber: 1.9 Consensus size: 84
73819 TTTCCAGGGT
*
73829 TTTTTATGCTTATGTATTCTCACGTATGGTAGTTTTCTGAGGATTTCCAAATCATGCTTTTTCAT
1 TTTTGATGCTTATGTATTCTCACGTATGGTAGTTTTCTGAGGATTTCCAAATCATGCTTTTTCAT
73894 TATGATGGGTTTCTGAGGA
66 TATGATGGGTTTCTGAGGA
*
73913 TTTTGATGCTTATGTATTCTCTCGTATGGTAGTTTTCTGAGGATTTCCAAATCATGCTTTTTCAT
1 TTTTGATGCTTATGTATTCTCACGTATGGTAGTTTTCTGAGGATTTCCAAATCATGCTTTTTCAT
73978 TATGATGGG
66 TATGATGGG
73987 CGGACGACTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (84 bp):
TTTTGATGCTTATGTATTCTCACGTATGGTAGTTTTCTGAGGATTTCCAAATCATGCTTTTTCAT
TATGATGGGTTTCTGAGGA
Found at i:79142 original size:47 final size:47
Alignment explanation
Indices: 79063--79156 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
79053 AACAGAAATG
* * *
79063 TTGAAAACATCTTGCACTGAAGGAATTATGGATGACCTGAAGGTTTT
1 TTGAAAACATCCTGCACTAAAGGAATTATGGATGACCCGAAGGTTTT
** *
79110 TTGAAAACATCCTGCACTAAAGGTCTTGTGGATGACCCGAAGGTTTT
1 TTGAAAACATCCTGCACTAAAGGAATTATGGATGACCCGAAGGTTTT
79157 AAATATCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (47 bp):
TTGAAAACATCCTGCACTAAAGGAATTATGGATGACCCGAAGGTTTT
Found at i:79247 original size:46 final size:46
Alignment explanation
Indices: 79172--79284 Score: 145
Period size: 46 Copynumber: 2.4 Consensus size: 46
79162 TCAAAAAGCT
* * * *
79172 CCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAAC
1 CCGAAGG-TTTTTGAAAACATAATACACTGAAGGGCTTACAGATAAC
* * *
79219 CTGAAGGTTTTTGATAACATAATACACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTTGAAAACATAATACACTGAAGGGCTTACAGATAAC
*
79265 CCGAAGGATTTTGAAAACAT
1 CCGAAGGTTTTTGAAAACAT
79285 CAAAAAGCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 50 0.89
47 6 0.11
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (46 bp):
CCGAAGGTTTTTGAAAACATAATACACTGAAGGGCTTACAGATAAC
Found at i:79386 original size:76 final size:78
Alignment explanation
Indices: 79241--79440 Score: 298
Period size: 77 Copynumber: 2.6 Consensus size: 78
79231 GATAACATAA
* *
79241 TACACTGAAGGGCTTACAGATGACCCGAAGGATTTTGAAAACATCAAAAAGCTCCTAAAGGCTTT
1 TACACTGTAGGGCTTACGGATGACCCGAAGGATTTTGAAAACATCAAAAAGCTCCTAAAGGCTTT
*
79306 TTG-AAAGCATCT
66 TTGAAAAGCATCC
* * *
79318 TGCACTGTAGGGCTTACGGATGACCCGAAGG-TTTTGAAAACATCAAAAAG-TTCTCGAAGGCTT
1 TACACTGTAGGGCTTACGGATGACCCGAAGGATTTTGAAAACATCAAAAAGCTCCT-AAAGGCTT
79381 TTTGAAAAGCATCC
65 TTTGAAAAGCATCC
* *
79395 TACACTGTAGGGCTTACGGATGACCCGAAGGTTTTTGATAACATCA
1 TACACTGTAGGGCTTACGGATGACCCGAAGGATTTTGAAAACATCA
79441 TGCACTGAAG
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
75 3 0.03
76 30 0.27
77 66 0.59
78 13 0.12
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (78 bp):
TACACTGTAGGGCTTACGGATGACCCGAAGGATTTTGAAAACATCAAAAAGCTCCTAAAGGCTTT
TTGAAAAGCATCC
Found at i:79453 original size:46 final size:48
Alignment explanation
Indices: 79372--79462 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
79362 AAAAAGTTCT
* * *
79372 CGAAGGCTTTTTGAAAAGCATCCTACACTGTAGGGCTTACGGATGACC
1 CGAAGGCTTTTTGAAAAGCATCATACACTGAAGGGCTTACAGATGACC
* *
79420 CGAAGG-TTTTTGATAA-CATCATGCACTGAAGGGCTTACAGATG
1 CGAAGGCTTTTTGAAAAGCATCATACACTGAAGGGCTTACAGATG
79463 TGGGAAATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 23 0.61
47 9 0.24
48 6 0.16
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (48 bp):
CGAAGGCTTTTTGAAAAGCATCATACACTGAAGGGCTTACAGATGACC
Found at i:80203 original size:22 final size:22
Alignment explanation
Indices: 80126--80204 Score: 108
Period size: 22 Copynumber: 3.6 Consensus size: 22
80116 AATAAAGCGT
*
80126 TCATCTTTGAA-AAGAGAATCTG
1 TCATCTTTGAAGAA-AGAATCTA
*
80148 TCATCTTTGAAGAGAA-AATCAA
1 TCATCTTTGAAGA-AAGAATCTA
80170 TCATCTTTGAAGAAAGAATCTA
1 TCATCTTTGAAGAAAGAATCTA
80192 TCATCTTTGAAGA
1 TCATCTTTGAAGA
80205 GTGTAGATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.04
22 46 0.90
23 2 0.04
24 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (22 bp):
TCATCTTTGAAGAAAGAATCTA
Found at i:88536 original size:184 final size:182
Alignment explanation
Indices: 88229--88580 Score: 686
Period size: 184 Copynumber: 1.9 Consensus size: 182
88219 TAGAGCATAT
88229 AAACCCCGAAAGCTACTGCTAGGTCTGACAGAGAATAAATTCTCATGAAGACGTCGCTTTCACTC
1 AAACCCCGAAAGCTACTGCTAGGTCTGACAGAGAATAAATTCTCATGAAGACGTCGCTTTCACTC
88294 CCACTTAAAAGGGACAAGCTTGATTATAAAGCTTATGTTATGCAATGCAAGTGTTTTGTGTGTGA
66 CCACTTAAAAGGGACAAGCTTGATTATAAAGCTTATGTTATGCAATGCAAGTGTTTTGTGTGTGA
88359 GGTGAAATATTCAAACCTTTGACAAACAAATAAACAATTCCTGAAAATAAAA
131 GGTGAAATATTCAAACCTTTGACAAACAAATAAACAATTCCTGAAAATAAAA
88411 AAACCCCGAAAGCTACTGCTAGGTCTGACACAGAGAATAAATTCTCATGAAGACGTCGCTTTCAC
1 AAACCCCGAAAGCTACTGCTAGGTCTG--ACAGAGAATAAATTCTCATGAAGACGTCGCTTTCAC
88476 TCCCACTTAAAAGGGACAAGCTTGATTATAAAGCTTATGTTATGCAATGCAAGTGTTTTGTGTGT
64 TCCCACTTAAAAGGGACAAGCTTGATTATAAAGCTTATGTTATGCAATGCAAGTGTTTTGTGTGT
88541 GAGGTGAAATATTCAAACCTTTGACAAACAAATAAACAAT
129 GAGGTGAAATATTCAAACCTTTGACAAACAAATAAACAAT
88581 GAAATTTATT
Statistics
Matches: 168, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
182 27 0.16
184 141 0.84
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (182 bp):
AAACCCCGAAAGCTACTGCTAGGTCTGACAGAGAATAAATTCTCATGAAGACGTCGCTTTCACTC
CCACTTAAAAGGGACAAGCTTGATTATAAAGCTTATGTTATGCAATGCAAGTGTTTTGTGTGTGA
GGTGAAATATTCAAACCTTTGACAAACAAATAAACAATTCCTGAAAATAAAA
Found at i:89518 original size:12 final size:12
Alignment explanation
Indices: 89501--89525 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89491 TAATAATAAC
89501 ATAATAATTGAA
1 ATAATAATTGAA
89513 ATAATAATTGAA
1 ATAATAATTGAA
89525 A
1 A
89526 CATATCAAAA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAATAATTGAA
Found at i:101926 original size:23 final size:23
Alignment explanation
Indices: 101900--101976 Score: 102
Period size: 23 Copynumber: 3.4 Consensus size: 23
101890 TATGGAACTA
101900 CGGTGCATTTCTACGTGGCACTT
1 CGGTGCATTTCTACGTGGCACTT
* * *
101923 CGGTGTAATTCTACGTGGCACTA
1 CGGTGCATTTCTACGTGGCACTT
* *
101946 CGG-GCATTTCTACGCGACACTT
1 CGGTGCATTTCTACGTGGCACTT
101968 CGGTGCATT
1 CGGTGCATT
101977 ATACGAGCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
22 17 0.38
23 28 0.62
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCATTTCTACGTGGCACTT
Found at i:106452 original size:22 final size:21
Alignment explanation
Indices: 106379--106448 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
106369 CCATCCTCAA
*
106379 ATTTATATATTTTTAATTAGA-T
1 ATTTATATATTATT-ATT-GATT
*
106401 ATTTAAATATT-TT-TTGATT
1 ATTTATATATTATTATTGATT
**
106420 GAAATATATATTATTATTGATT
1 -ATTTATATATTATTATTGATT
106442 ATTTATA
1 ATTTATA
106449 ATATATCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 2 0.05
19 3 0.08
20 8 0.21
21 9 0.24
22 16 0.42
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTATATATTATTATTGATT
Found at i:111604 original size:192 final size:192
Alignment explanation
Indices: 111277--111657 Score: 681
Period size: 192 Copynumber: 2.0 Consensus size: 192
111267 CCGACGTTGT
111277 TATCAGAGAATGGTACAGGTGATTAGGGGGTATGTAATTATATTTTGTTTTATATACGAGTCTGA
1 TATCAGAGAATGGTACAGGTGATTAGGGGGTATGTAATTATATTTTGTTTTATATACGAGTCTGA
111342 AAATCTGTTTTATTTCTGCATACTGATAAATCATTTTATAAGTTACATGTTTTAATAAAAGTTTT
66 AAATCTGTTTTATTTCTGCATACTGATAAATCATTTTATAAGTTACATGTTTTAATAAAAGTTTT
* *
111407 AAATTTTTCGCCATTTTTACAGTAGGTCGCTCCGGTGGCCCTAATGTGACACTCCAGACCGA
131 AAATTTTTCGCCATTTTTACAGTAGGTCGCTCCGGTGGCCCTAATGTAAAACTCCAGACCGA
* *
111469 TATCAGAGAATGGTACAGGTGATTAGGGGGTATGTCATTATATTTTGTTTTATATAGGAGTCTGA
1 TATCAGAGAATGGTACAGGTGATTAGGGGGTATGTAATTATATTTTGTTTTATATACGAGTCTGA
*
111534 AAATTTGTTTTATTTCTGCATACTGATAAATCATTTTATAAGTTACATGTTTTAATAAAAGTTTT
66 AAATCTGTTTTATTTCTGCATACTGATAAATCATTTTATAAGTTACATGTTTTAATAAAAGTTTT
* * * *
111599 AAATTTTTCTCTATTTTTATAGTGGGTCGCTCCGGTGGCCCTAATGTAAAACTCCAGAC
131 AAATTTTTCGCCATTTTTACAGTAGGTCGCTCCGGTGGCCCTAATGTAAAACTCCAGAC
111658 TGGATCGAGT
Statistics
Matches: 180, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
192 180 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (192 bp):
TATCAGAGAATGGTACAGGTGATTAGGGGGTATGTAATTATATTTTGTTTTATATACGAGTCTGA
AAATCTGTTTTATTTCTGCATACTGATAAATCATTTTATAAGTTACATGTTTTAATAAAAGTTTT
AAATTTTTCGCCATTTTTACAGTAGGTCGCTCCGGTGGCCCTAATGTAAAACTCCAGACCGA
Found at i:115497 original size:15 final size:15
Alignment explanation
Indices: 115477--115513 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
115467 ATATTTAGCT
*
115477 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
115492 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
115507 GGGCGGG
1 GGGCGGG
115514 TAATATCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.70, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:116687 original size:49 final size:49
Alignment explanation
Indices: 116630--116727 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
116620 CATTTCCAGA
116630 AGAATTGTTATCGGAAATTCTTATGCATGTGGCCTCTAATTCTTTCACC
1 AGAATTGTTATCGGAAATTCTTATGCATGTGGCCTCTAATTCTTTCACC
116679 AGAATTGTTATCGGAAATTCTTATGCATGTGGCCTCTAATTCTTTCACC
1 AGAATTGTTATCGGAAATTCTTATGCATGTGGCCTCTAATTCTTTCACC
116728 GATTTCGTCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (49 bp):
AGAATTGTTATCGGAAATTCTTATGCATGTGGCCTCTAATTCTTTCACC
Found at i:125271 original size:23 final size:23
Alignment explanation
Indices: 125245--125292 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
125235 ATAAAGTACA
*
125245 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
125268 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
125291 AT
1 AT
125293 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:126193 original size:328 final size:331
Alignment explanation
Indices: 125332--126326 Score: 1870
Period size: 328 Copynumber: 3.0 Consensus size: 331
125322 TTATACCGAT
125332 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
*
125397 TCGATATTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTC
66 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTC
*
125462 CACCTACAATATTAATTTAATAATTTCATTTGTACAAAAAATTATTTGATTGTTTTGATATTTTA
130 CACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
* * *
125527 TAAAATATTATTTAAAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATT
195 TAAAATAATATTTAGAATTTTTAA-TT--TAATAATATATATCGTAACGAAAAAAATAAATCATT
125592 AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
257 AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
125657 TTCCACAGTG
322 TTCCACAGTG
125667 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
125732 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
66 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
*
125797 ACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
131 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
125862 AAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
196 AAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
125927 GCCTATAATTACTAAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCC
261 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
125991 ACAGTG
326 ACAGTG
125997 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
*
126061 TCGATACTTCTTTTAAAATTATGTAATTTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCC
66 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
126125 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
131 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
126190 AAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
196 AAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
126255 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
261 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
126320 ACAGTG
326 ACAGTG
126326 A
1 A
126327 AAAAAGTATG
Statistics
Matches: 651, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
328 192 0.29
329 78 0.12
330 90 0.14
331 76 0.12
333 2 0.00
334 111 0.17
335 102 0.16
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.42
Consensus pattern (331 bp):
AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
AAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
ACAGTG
Found at i:126405 original size:23 final size:23
Alignment explanation
Indices: 126379--126441 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
126369 ATATAACCAC
126379 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
126402 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
126425 TACCTATTACATCATAT
1 TACCTATTACATTATAT
126442 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:126895 original size:39 final size:39
Alignment explanation
Indices: 126841--126927 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
126831 TCAAGTTGTA
*
126841 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
126880 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
126919 GATTTTGAT
1 GATTTTGAT
126928 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:127642 original size:25 final size:25
Alignment explanation
Indices: 127608--127658 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
127598 TTTTTCCAAA
*
127608 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
127633 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
127658 T
1 T
127659 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:127950 original size:21 final size:22
Alignment explanation
Indices: 127925--127976 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
127915 ACACTTTACA
*
127925 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
127948 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
127971 ATATAA
1 ATATAA
127977 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:127961 original size:23 final size:23
Alignment explanation
Indices: 127935--127997 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
127925 ATATAACCAC
127935 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
127958 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
127981 TACCTATTACATCATAT
1 TACCTATTACATTATAT
127998 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:130045 original size:182 final size:183
Alignment explanation
Indices: 129693--130399 Score: 1310
Period size: 182 Copynumber: 3.9 Consensus size: 183
129683 TTAAAATTAC
* *
129693 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
129758 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
129823 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
129876 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
129941 ATTAAAAAGTGTCGATATAGG-TGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
130005 ATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130058 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
130123 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
130188 ATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130240 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
130305 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* **
130370 ATATTACAAAATTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
130400 ATGTTGAAAG
Statistics
Matches: 510, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
182 360 0.71
183 150 0.29
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:130363 original size:365 final size:365
Alignment explanation
Indices: 129693--130399 Score: 1308
Period size: 365 Copynumber: 1.9 Consensus size: 365
129683 TTAAAATTAC
* *
129693 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
129758 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
129823 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGATACTTTTTT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTCGACACTTTTTT
129888 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
196 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
*
129953 CGATATAGGTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTATAAAATT
261 CGATATAGGTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATT
*
130018 ATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
326 ACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130058 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
130123 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
130188 ATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTCGACACTTTTTT
130252 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
196 AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
130317 CGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
261 CGATATAGG-TGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
**
130382 TACCTATTTTATTATAAT
325 TACCTATTACATTATAAT
130400 ATGTTGAAAG
Statistics
Matches: 331, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
364 128 0.39
365 203 0.61
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (365 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTCGACACTTTTTT
AAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGT
CGATATAGGTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATT
ACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:131824 original size:3 final size:3
Alignment explanation
Indices: 131816--131872 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
131806 ACTTGTTTGG
* * *
131816 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
131864 ATC TTC ATC
1 ATC ATC ATC
131873 GTTAGCTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:131833 original size:12 final size:12
Alignment explanation
Indices: 131816--131874 Score: 91
Period size: 12 Copynumber: 4.9 Consensus size: 12
131806 ACTTGTTTGG
*
131816 ATCATCATCTTC
1 ATCATCATCGTC
*
131828 ATCATCATCATC
1 ATCATCATCGTC
131840 ATCATCATCGTC
1 ATCATCATCGTC
131852 ATCATCATCGTC
1 ATCATCATCGTC
*
131864 ATCTTCATCGT
1 ATCATCATCGT
131875 TAGCTTCATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.37
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:131887 original size:6 final size:6
Alignment explanation
Indices: 131820--131887 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
131810 GTTTGGATCA
* * * * * *
131820 TCATCT TCATCA TCATCA TCATCA TCATCG TCATCA TCATCG TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
131868 TCATCGT T-AGCT TCATCT TC
1 TCATC-T TCATCT TCATCT TC
131888 TGCGACCGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 2 0.04
6 49 0.92
7 2 0.04
ACGTcount: A:0.22, C:0.32, G:0.06, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:134052 original size:196 final size:198
Alignment explanation
Indices: 133346--134902 Score: 2950
Period size: 198 Copynumber: 7.9 Consensus size: 198
133336 TTTAAATTAG
*
133346 TATCGACACAAACTATATTAGTGTCGACACATTAGTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
133411 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
133476 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
133541 AAA
196 AAA
133544 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
133609 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
133674 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
133738 AAA
196 AAA
133741 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
133806 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
133871 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
133934 AAA
196 AAA
*
133937 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
134002 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
134067 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
134130 AAA
196 AAA
*
134133 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
134198 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
134263 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
134328 AAA
196 AAA
* *
134331 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
134396 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
134461 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
134526 AAAA
195 AAAA
134530 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
134595 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
134660 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTTTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAA
134725 AAAA
195 AAAA
134729 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
134794 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
134857 CGACACTTTTTTATAGATGGATCGACACTTTAT-GGTGCACCCTGTT
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
134903 GGCCATATTG
Statistics
Matches: 1342, Mismatches: 11, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
195 49 0.04
196 341 0.25
197 187 0.14
198 493 0.37
199 270 0.20
200 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:135067 original size:19 final size:19
Alignment explanation
Indices: 135021--135069 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
135011 TTATATTCAC
*
135021 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
135040 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
135059 ATACAAAATTA
1 ATACAAAATTA
135070 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:136897 original size:33 final size:33
Alignment explanation
Indices: 136860--136925 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
136850 CATCTTAATA
*
136860 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
136893 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
136926 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:136999 original size:21 final size:21
Alignment explanation
Indices: 136959--137023 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
136949 CCCCTTATGC
* *
136959 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
136980 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
137001 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
137022 CT
1 CT
137024 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:139288 original size:19 final size:19
Alignment explanation
Indices: 139233--139279 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
139223 ATCCGGTATC
139233 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
139252 -TTTGATACCGGTTTTATCAT
1 ATTT--TACCGGTTTTATCAT
139272 ATTTTACC
1 ATTTTACC
139280 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 4 0.16
20 15 0.60
21 3 0.12
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:139427 original size:20 final size:20
Alignment explanation
Indices: 139401--139446 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
139391 CACTTTTAAA
139401 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
139420 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
139441 TTTACC
1 TTTACC
139447 TGGTGTATCG
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:145776 original size:37 final size:37
Alignment explanation
Indices: 145723--145799 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
145713 TGTGAGTAAA
145723 GTAAATATCAACAAAGACGAAAGATGCAATGGATTTG
1 GTAAATATCAACAAAGACGAAAGATGCAATGGATTTG
* *
145760 GTAAATATCAATAAAGACGAATGATGCAATGGATTTG
1 GTAAATATCAACAAAGACGAAAGATGCAATGGATTTG
145797 GTA
1 GTA
145800 CACTGCAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (37 bp):
GTAAATATCAACAAAGACGAAAGATGCAATGGATTTG
Found at i:148101 original size:78 final size:78
Alignment explanation
Indices: 147972--148115 Score: 234
Period size: 78 Copynumber: 1.8 Consensus size: 78
147962 GATGAGATCA
* * ** *
147972 ATAATCAGTTCTTATTAAAGAGATAAAGTTAGATGCCAACCTAATGCAAACCCAATCTCCCAAAT
1 ATAATCAGTTCATATTAAAGAGAGAAAACTAGATGCCAACCAAATGCAAACCCAATCTCCCAAAT
148037 GCTGATAAGACCG
66 GCTGATAAGACCG
*
148050 ATAATCAGTTCATATTAAAGAGAGAAAACTAGATGCCAGCCAAATGCAAACCCAATCTCCCAAAT
1 ATAATCAGTTCATATTAAAGAGAGAAAACTAGATGCCAACCAAATGCAAACCCAATCTCCCAAAT
148115 G
66 G
148116 TTTTACCTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (78 bp):
ATAATCAGTTCATATTAAAGAGAGAAAACTAGATGCCAACCAAATGCAAACCCAATCTCCCAAAT
GCTGATAAGACCG
Found at i:150427 original size:23 final size:21
Alignment explanation
Indices: 150400--150457 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
150390 TATATGATAA
150400 TTTTAGTATTTTTAATGTATATT
1 TTTTAGTATTTTTAAT-TATA-T
* * *
150423 TTTTAGTAATTTAAATTTTAT
1 TTTTAGTATTTTTAATTATAT
150444 TTTTAGTATTTTTA
1 TTTTAGTATTTTTA
150458 CATACATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 13 0.43
22 3 0.10
23 14 0.47
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTTAGTATTTTTAATTATAT
Found at i:150494 original size:23 final size:23
Alignment explanation
Indices: 150467--150517 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
150457 ACATACATTT
150467 TTTTATAATTT-AAATAATTTTA
1 TTTTATAATTTAAAATAATTTTA
*
150489 TATTTATAATTTAAAATATTTTTA
1 T-TTTATAATTTAAAATAATTTTA
150513 TTTTA
1 TTTTA
150518 AAAAAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 14 0.54
24 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTATAATTTAAAATAATTTTA
Found at i:150929 original size:35 final size:35
Alignment explanation
Indices: 150883--150953 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
150873 CACAGCATCG
150883 AATGAGATGTCCATACCTTCCAACCCATTCCACTC
1 AATGAGATGTCCATACCTTCCAACCCATTCCACTC
*
150918 AATGAGATGTCCATACTTTCCAACCCATTCCACTC
1 AATGAGATGTCCATACCTTCCAACCCATTCCACTC
150953 A
1 A
150954 CTTAGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.35, G:0.08, T:0.27
Consensus pattern (35 bp):
AATGAGATGTCCATACCTTCCAACCCATTCCACTC
Found at i:154245 original size:39 final size:39
Alignment explanation
Indices: 154202--154318 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
154192 ATCATTACAT
154202 TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
*
154241 TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAA
1 TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
* *
154280 TAATCTTTTAGTGTTTTAATAAAAATTTGGTAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
154319 AAAAATAATT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.47
Consensus pattern (39 bp):
TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
Found at i:154270 original size:19 final size:19
Alignment explanation
Indices: 154208--154310 Score: 80
Period size: 19 Copynumber: 5.3 Consensus size: 19
154198 ACATTAATCT
154208 TTTGGTGTTTTAATAAAAA
1 TTTGGTGTTTTAATAAAAA
* * * ***
154227 ATTGGTAGGTTTAGTAATCT
1 TTTGGT-GTTTTAATAAAAA
154247 TTTGGTGTTTTAATAAAAA
1 TTTGGTGTTTTAATAAAAA
* * ***
154266 ATTGGTAGGTTTAATAATCT
1 TTTGGT-GTTTTAATAAAAA
*
154286 TTTAGTGTTTTAATAAAAA
1 TTTGGTGTTTTAATAAAAA
154305 TTTGGT
1 TTTGGT
154311 AGGTTTAGAA
Statistics
Matches: 58, Mismatches: 24, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
19 32 0.55
20 26 0.45
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (19 bp):
TTTGGTGTTTTAATAAAAA
Found at i:157878 original size:17 final size:17
Alignment explanation
Indices: 157849--157882 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
157839 ATCGAATGGA
157849 CTCGACTCGGACTCGAG
1 CTCGACTCGGACTCGAG
157866 CTCGAGCTC-GACTCGAG
1 CTCGA-CTCGGACTCGAG
157883 TTCTTAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (17 bp):
CTCGACTCGGACTCGAG
Found at i:158584 original size:23 final size:22
Alignment explanation
Indices: 158557--158618 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
158547 ATAATTAATG
* **
158557 ATATTTTAATATTTAACTTTTAA
1 ATATTTT-ATATTTAAATTCAAA
158580 ATATTTTTATATATTAAATTCAAA
1 ATA-TTTTATAT-TTAAATTCAAA
158604 ATA-TTTATATTTAAA
1 ATATTTTATATTTAAA
158619 AAAATGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 7 0.21
23 7 0.21
24 15 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTATATTTAAATTCAAA
Found at i:166866 original size:321 final size:321
Alignment explanation
Indices: 166316--166937 Score: 1104
Period size: 321 Copynumber: 1.9 Consensus size: 321
166306 AAGTTTATAT
* * *
166316 TTATAATTTACTCGAGACTTTAATGAGTTGAGTCGAATAAAATACAATTTTATTTTATAAGTTCA
1 TTATAATTTACTCGAGACTTTAATGAGTTGAATCGAACAAAATACAACTTTATTTTATAAGTTCA
*
166381 TGAATAATTCATTAATTTTTTATAATTTTTTAATAGTTACCTTACAAAATTATTTCATTAAAAAG
66 TGAATAATTCATTAATTTTTTATAATTTTTTAATAGTTACCTTACAAAATTATTTAATTAAAAAG
*
166446 TCTAATTAATAAGTATTAGTTTACTAATATAGAATAAGAAAAATGTTAAATTACAAATTAATAGT
131 TCTAATTAATAAGTATTAGTTTACTAATATAGAATAAGAAAAATGTTAAATTACAAATTAATAAT
* * *
166511 TTTTAAATTTTATAACGAATAACAATAAAGATACTAAATTGTGAGTTAATAATTATTAATTTACA
196 TTTTAAATTTTATAACGAATAACAATAAAGATACTAAATTATGAATTAATAATTAGTAATTTACA
166576 AGATTTTATGTATAGT-TAAAAACAAAGTAAAAATTTTGGTTTGATTATGGTCGACTTAAAG
261 AGATTTTATGTATA-TCTAAAAACAAAGTAAAAATTTTGGTTTGATTATGGTCGACTTAAAG
* *
166637 TTATATTTTACTCGAGACTTTAATGAGTTGAATCGAACAAAATACAACTTTATTTTATAAGTTCG
1 TTATAATTTACTCGAGACTTTAATGAGTTGAATCGAACAAAATACAACTTTATTTTATAAGTTCA
166702 TGAATAATTCATTAATTTTTTTATAATTTTTTAATAGTTACCTTACAAAATTATTTAATT-AAAA
66 TGAATAATTCATTAA-TTTTTTATAATTTTTTAATAGTTACCTTACAAAATTATTTAATTAAAAA
*
166766 GTCTAATTAATAAGTATTAGTTTACTAATATAGAATAAGAAATATGTTAAATTACAAATTAATAA
130 GTCTAATTAATAAGTATTAGTTTACTAATATAGAATAAGAAAAATGTTAAATTACAAATTAATAA
*
166831 TTTTTAAATTTTATAACGAATAACAATAAAGATACTAAATTATTAATTAATAATTAGTAATTTAC
195 TTTTTAAATTTTATAACGAATAACAATAAAGATACTAAATTATGAATTAATAATTAGTAATTTAC
166896 AAGATTTTATGTATATCTAAAAACAAAGTAAAAATTTTGGTT
260 AAGATTTTATGTATATCTAAAAACAAAGTAAAAATTTTGGTT
166938 AGCGTAATGA
Statistics
Matches: 287, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
320 1 0.00
321 243 0.85
322 43 0.15
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (321 bp):
TTATAATTTACTCGAGACTTTAATGAGTTGAATCGAACAAAATACAACTTTATTTTATAAGTTCA
TGAATAATTCATTAATTTTTTATAATTTTTTAATAGTTACCTTACAAAATTATTTAATTAAAAAG
TCTAATTAATAAGTATTAGTTTACTAATATAGAATAAGAAAAATGTTAAATTACAAATTAATAAT
TTTTAAATTTTATAACGAATAACAATAAAGATACTAAATTATGAATTAATAATTAGTAATTTACA
AGATTTTATGTATATCTAAAAACAAAGTAAAAATTTTGGTTTGATTATGGTCGACTTAAAG
Found at i:169763 original size:19 final size:19
Alignment explanation
Indices: 169741--169804 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
169731 CAAAGTTCCG
*
169741 AAACTTTTGTAAAGTTTCA
1 AAACTTTTATAAAGTTTCA
*
169760 AAACTCTTAATAAAAGTTTCA
1 AAACT-TTTAT-AAAGTTTCA
* * *
169781 AAACTCTTACAAAGTTTCC
1 AAACTTTTATAAAGTTTCA
169800 AAACT
1 AAACT
169805 ATGAACATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 18 0.49
20 5 0.14
21 14 0.38
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.34
Consensus pattern (19 bp):
AAACTTTTATAAAGTTTCA
Found at i:181744 original size:18 final size:18
Alignment explanation
Indices: 181721--181756 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
181711 CATCATTCCC
181721 TGCTGCTGCAATTTCCAA
1 TGCTGCTGCAATTTCCAA
181739 TGCTGCTGCAATTTCCAA
1 TGCTGCTGCAATTTCCAA
181757 AACTGATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
TGCTGCTGCAATTTCCAA
Found at i:185091 original size:5 final size:5
Alignment explanation
Indices: 185081--185105 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
185071 TTGTCTAAGA
185081 GGCAT GGCAT GGCAT GGCAT GGCAT
1 GGCAT GGCAT GGCAT GGCAT GGCAT
185106 TAAATTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
GGCAT
Found at i:187800 original size:33 final size:33
Alignment explanation
Indices: 187755--187825 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
187745 TTATAGATGC
* *
187755 TTTGTTCATGAACATAAACGATCTGAATACACT
1 TTTGTTCATGAACATAAACGAACTGAACACACT
*
187788 TTTGTTCGTGAACATAAACGAACTGAACACACT
1 TTTGTTCATGAACATAAACGAACTGAACACACT
187821 TTTGT
1 TTTGT
187826 CATACTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TTTGTTCATGAACATAAACGAACTGAACACACT
Found at i:193913 original size:17 final size:17
Alignment explanation
Indices: 193891--193928 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
193881 AATTAAAAGT
193891 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
193908 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
193925 TAGT
1 TAGT
193929 AATGAACTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:196302 original size:20 final size:20
Alignment explanation
Indices: 196228--196596 Score: 440
Period size: 20 Copynumber: 18.4 Consensus size: 20
196218 GATTTTCCAT
* ** *
196228 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
196248 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
196268 AATCGCAACGCGTATCAGTA
1 AATCGCAACGCGTATCCGTA
*
196288 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
196308 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
196328 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
196348 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
196368 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
196388 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
196408 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
196428 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
196448 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
196468 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
196488 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
196508 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
196528 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
196548 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
196568 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
196588 AATCACAAC
1 AATCGCAAC
196597 ACTGAAATTT
Statistics
Matches: 301, Mismatches: 40, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 295 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:197308 original size:24 final size:24
Alignment explanation
Indices: 197269--197315 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
197259 AAATTTGGTC
197269 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
197293 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
197316 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:197507 original size:12 final size:12
Alignment explanation
Indices: 197490--197514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
197480 ATATAATCCT
197490 GAAGAAGAAAAA
1 GAAGAAGAAAAA
197502 GAAGAAGAAAAA
1 GAAGAAGAAAAA
197514 G
1 G
197515 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:199842 original size:19 final size:19
Alignment explanation
Indices: 199820--200124 Score: 347
Period size: 19 Copynumber: 17.4 Consensus size: 19
199810 CGGAAAATAC
*
199820 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
199839 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
199853 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
199872 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
199886 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
199905 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
199924 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
199938 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
199957 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
199976 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
199990 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
200009 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
200028 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
200046 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200065 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
200079 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200098 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
200117 AATCGCAA
1 AATCGCAA
200125 CGAGATAATC
Statistics
Matches: 247, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 16 0.06
18 22 0.09
19 144 0.58
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:199862 original size:33 final size:34
Alignment explanation
Indices: 199820--200146 Score: 189
Period size: 33 Copynumber: 9.5 Consensus size: 34
199810 CGGAAAATAC
*
199820 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
* * * *
199853 AATCGCAACGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
*
199886 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * * * *
199924 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAATGAA
* *
199957 AATCGCAATGCGAAATGAAAAT-CGAAC--CGACA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGA-A
* *
199989 TAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 -AATCGCAATGCGAAATGAAAATC-CCA-AC--AATGAA
*
200028 AATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
*
200065 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * *
200098 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
200131 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
200147 TATAAACGCA
Statistics
Matches: 244, Mismatches: 24, Indels: 52
0.76 0.08 0.16
Matches are distributed among these distances:
31 3 0.01
32 8 0.03
33 138 0.57
34 3 0.01
35 14 0.06
36 5 0.02
37 23 0.09
38 40 0.16
39 7 0.03
40 3 0.01
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCCCAACAATGAA
Found at i:199880 original size:52 final size:52
Alignment explanation
Indices: 199820--200072 Score: 262
Period size: 52 Copynumber: 4.8 Consensus size: 52
199810 CGGAAAATAC
* *
199820 AATCGCAACGCGA-AAT-GAAAATCCCAACATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGAATCG-AAATCCGAA-ATGAAAATCGCAATGCGAAATGAA
* * *
199872 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
* * *
199924 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
* * * * *
199976 AATCG-AAC-CGACATAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAACGCG--AGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
* * *
200028 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAACGCG--A-G-AATCGAAATCCGAAATGAAAATCGCAA
200073 CGAAAGAATC
Statistics
Matches: 180, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
50 1 0.01
51 3 0.02
52 134 0.74
53 11 0.06
54 5 0.03
56 26 0.14
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (52 bp):
AATCGCAACGCGAGAATCGAAATCCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:200117 original size:52 final size:53
Alignment explanation
Indices: 199886--200146 Score: 278
Period size: 52 Copynumber: 4.9 Consensus size: 53
199876 GCAACGAGAG
*
199886 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAATG--AATCGCAATGCGAAATGAA
**
199938 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA----AAT-CGAACCGACA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAATGAATCGCAATGCGAAATGA-A
*
199989 TAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATG-A
1 -AATCGCAATGCGAAATGAAAATCGC-A-ACGAAATG--AATCGCAATGCGAAATGAA
200046 AATCGCAATGCGAAATGAAAATCGCAACGAAA-GAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAATGAATCGCAATGCGAAATGAA
*
200098 AATCGCAATGCGAAATGAAAATCGCAACGAGAT-AATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAAATGAATCGCAATGCGAAAT
200147 TATAAACGCA
Statistics
Matches: 185, Mismatches: 7, Indels: 34
0.82 0.03 0.15
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
50 4 0.02
51 17 0.09
52 115 0.62
53 2 0.01
54 9 0.05
55 1 0.01
56 24 0.13
57 1 0.01
58 3 0.02
59 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAATGAATCGCAATGCGAAATGAA
Found at i:200262 original size:19 final size:19
Alignment explanation
Indices: 200153--200254 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
200143 AAATTATAAA
200153 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
200172 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
200192 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
200208 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
200225 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
200244 CGCATTGCGAT
1 CGCATTGCGAT
200255 AGTCATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:200379 original size:14 final size:14
Alignment explanation
Indices: 200360--200396 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
200350 CATCAATTAC
200360 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
200374 ACAAATCATCTTTT
1 ACAAATCAACTTTT
200388 ACAAATCAA
1 ACAAATCAA
200397 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:202370 original size:14 final size:14
Alignment explanation
Indices: 202351--202407 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
202341 GCGAAATGAA
*
202351 AATCGCAACGACAG
1 AATCGCAACGAAAG
202365 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
202382 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
202398 AATCGCAACG
1 AATCGCAACG
202408 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:202378 original size:33 final size:33
Alignment explanation
Indices: 202332--202424 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
202322 GCGAAACCAA
*
202332 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
202365 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
202398 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
202425 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:202389 original size:19 final size:19
Alignment explanation
Indices: 202295--202429 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
202285 TAGTTTACTT
* *
202295 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
202315 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
202334 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
202353 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
202367 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
202386 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
202400 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
202419 TCGCAATGCGA
1 TCGCAACGCGA
202430 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:202447 original size:19 final size:19
Alignment explanation
Indices: 202425--202553 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
202415 AAAATCGCAA
202425 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
202444 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
202458 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
202477 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
202491 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
202510 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
202529 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
202549 TGCGA
1 TGCGA
202554 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:202467 original size:33 final size:33
Alignment explanation
Indices: 202425--202516 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
202415 AAAATCGCAA
202425 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
202458 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
202491 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
202517 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:202980 original size:92 final size:93
Alignment explanation
Indices: 202597--203068 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
202587 TTGAATGGAT
202597 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
202662 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
202690 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
202755 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
202783 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
202848 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
202876 AAATTTACTTTCAACCAAAAGACAAAACAACGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
202940 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
202968 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
203032 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
203060 AAATTTACT
1 AAATTTACT
203069 AAGCAATCTA
Statistics
Matches: 376, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
91 4 0.01
92 148 0.39
93 224 0.60
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:204793 original size:14 final size:14
Alignment explanation
Indices: 204774--204863 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
204764 TTGAAATGAA
204774 AATCGCAACGAGAG
1 AATCGCAACGAGAG
204788 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
204805 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
204821 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
204840 AATCGCAACGAGAG
1 AATCGCAACGAGAG
204854 AATCGCAACG
1 AATCGCAACG
204864 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:204811 original size:33 final size:33
Alignment explanation
Indices: 204766--204880 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
204756 TCTTTTGGTT
204766 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
204799 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
204832 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
204865 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
204881 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:204812 original size:19 final size:18
Alignment explanation
Indices: 204773--204885 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
204763 GTTGAAATGA
204773 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
204788 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
204805 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
204821 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
204838 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
204854 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
204871 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
204886 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:204916 original size:14 final size:14
Alignment explanation
Indices: 204897--204951 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
204887 TTTGGTTTCG
204897 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
204911 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
204930 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
204944 CGTTGCGA
1 CGTTGCGA
204952 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:205114 original size:33 final size:33
Alignment explanation
Indices: 205072--205142 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
205062 AATACTAACT
*
205072 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
205105 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
205138 TGAAA
1 TGAAA
205143 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:205375 original size:22 final size:22
Alignment explanation
Indices: 205323--205377 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
205313 TGGTTGTGAG
**
205323 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
205345 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
205367 GGATTTCTTCG
1 GGATTTCTTCG
205378 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:205548 original size:20 final size:20
Alignment explanation
Indices: 205523--205716 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
205513 CTTTAAATAT
205523 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
205543 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
205565 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
205584 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
205604 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
205624 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
205644 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
205664 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
205684 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
205704 CGCGTTGCGATTT
1 CGCGTTGCGATTT
205717 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:205710 original size:60 final size:60
Alignment explanation
Indices: 205523--205716 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
205513 CTTTAAATAT
**
205523 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
205584 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
205644 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
205704 CGCGTTGCGATTT
1 CGCGTTGCGATTT
205717 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:205733 original size:21 final size:20
Alignment explanation
Indices: 205709--205785 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
205699 ATATTCGCGT
205709 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
205730 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
205750 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
205772 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
205786 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:205796 original size:20 final size:20
Alignment explanation
Indices: 205771--205822 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
205761 AAGAATCGCG
*
205771 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
205791 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
205811 TTGCGATTCTGG
1 TTGCGATTCTGG
205823 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:206319 original size:63 final size:63
Alignment explanation
Indices: 206207--206354 Score: 232
Period size: 63 Copynumber: 2.4 Consensus size: 63
206197 TTATATATAA
*
206207 TTTT-ATATTATATTT-GAT-TCTAATTTTAATATTAATTTTTTAAATAAATTAAATAATAATT
1 TTTTAATATTATATTTAGATAT-TAATTTTAATACTAATTTTTTAAATAAATTAAATAATAATT
206268 TTTTAATATTATATTCTAGATATTAATTTTAATACT-ATTTTTTAAATAAATTAAATAATAATT
1 TTTTAATATTATATT-TAGATATTAATTTTAATACTAATTTTTTAAATAAATTAAATAATAATT
206331 TTTTAATATTATATTATAGATATT
1 TTTTAATATTATATT-TAGATATT
206355 TTATTTTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
61 4 0.05
62 10 0.12
63 51 0.63
64 15 0.19
65 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (63 bp):
TTTTAATATTATATTTAGATATTAATTTTAATACTAATTTTTTAAATAAATTAAATAATAATT
Found at i:206417 original size:20 final size:19
Alignment explanation
Indices: 206355--206418 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
206345 TATAGATATT
*
206355 TTATTTTATATCA-TATAAA
1 TTATTTTATAT-ATTATTAA
206374 TTATTTTATATATTATTAA
1 TTATTTTATATATTATTAA
*
206393 -AATTTTATAT-TTATTTTAA
1 TTATTTTATATATTA--TTAA
206412 TTATTTT
1 TTATTTT
206419 GATTTAAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.26
19 20 0.53
20 5 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTTATATATTATTAA
Found at i:208624 original size:55 final size:55
Alignment explanation
Indices: 208540--208655 Score: 180
Period size: 55 Copynumber: 2.1 Consensus size: 55
208530 CAAGGGTTTG
* *
208540 GGGTTTATTAGTGAACAAATTAGTGGGAATTTCTTGAATTGAGAATTAGGCTTTT
1 GGGTTTATTAGTGAACAAATTAGTAGGAATTTCTTGAATTGAGAATTAGGCTTTC
* *
208595 GGGTTTATTAGTGAAGAAATTA-TCAGGAATTTCTTGAATTGGGAATTAGGCTTTC
1 GGGTTTATTAGTGAACAAATTAGT-AGGAATTTCTTGAATTGAGAATTAGGCTTTC
208650 GGGTTT
1 GGGTTT
208656 TTGAAATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 1 0.02
55 55 0.98
ACGTcount: A:0.28, C:0.06, G:0.27, T:0.40
Consensus pattern (55 bp):
GGGTTTATTAGTGAACAAATTAGTAGGAATTTCTTGAATTGAGAATTAGGCTTTC
Found at i:214436 original size:22 final size:22
Alignment explanation
Indices: 214400--214442 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
214390 TTTTCTCTTC
**
214400 AACAGTAAGTCTAAACTTATGG
1 AACAGTAAGGATAAACTTATGG
*
214422 AACAGTAAGGATAAAGTTATG
1 AACAGTAAGGATAAACTTATG
214443 TTCGACTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (22 bp):
AACAGTAAGGATAAACTTATGG
Found at i:227276 original size:16 final size:16
Alignment explanation
Indices: 227255--227315 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
227245 TAATAAATGA
227255 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
**
227271 ACGAACATAAATAAAC
1 ACGAACATAAACGAAC
*
227287 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
227303 ACGAACATAAACG
1 ACGAACATAAACG
227316 TTGGAGACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.57, C:0.21, G:0.11, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:227561 original size:12 final size:12
Alignment explanation
Indices: 227532--227623 Score: 95
Period size: 12 Copynumber: 7.9 Consensus size: 12
227522 CTCGAGACTC
227532 GAGCTCGA-T-T
1 GAGCTCGATTCT
227542 GAAGCTCGATTCT
1 G-AGCTCGATTCT
227555 GAGCTCGA-T-T
1 GAGCTCGATTCT
*
227565 GAAGCTTGATTCT
1 G-AGCTCGATTCT
227578 GAGCTCGATTCT
1 GAGCTCGATTCT
*
227590 GAGTTCGATTC-
1 GAGCTCGATTCT
*
227601 AAGCTCGATTCT
1 GAGCTCGATTCT
*
227613 GAGCTCTATTC
1 GAGCTCGATTC
227624 AAGCTTGACA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
10 3 0.04
11 23 0.34
12 38 0.56
13 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (12 bp):
GAGCTCGATTCT
Found at i:227562 original size:23 final size:23
Alignment explanation
Indices: 227508--227587 Score: 106
Period size: 23 Copynumber: 3.4 Consensus size: 23
227498 AAAAATTTAA
* * **
227508 GAGCTCGATTAAAACTCGAGACT
1 GAGCTCGATTGAAGCTCGATTCT
227531 CGAGCTCGATTGAAGCTCGATTCT
1 -GAGCTCGATTGAAGCTCGATTCT
*
227555 GAGCTCGATTGAAGCTTGATTCT
1 GAGCTCGATTGAAGCTCGATTCT
227578 GAGCTCGATT
1 GAGCTCGATT
227588 CTGAGTTCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 32 0.63
24 19 0.37
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGATTCT
Found at i:227583 original size:35 final size:35
Alignment explanation
Indices: 227544--227623 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
227534 GCTCGATTGA
* *
227544 AGCTCGATTCTGAGCTCGATTGAAGCTTGATTCTG
1 AGCTCGATTCTGAGCTCGATTCAAGCTCGATTCTG
*
227579 AGCTCGATTCTGAGTTCGATTCAAGCTCGATTCTG
1 AGCTCGATTCTGAGCTCGATTCAAGCTCGATTCTG
*
227614 AGCTCTATTC
1 AGCTCGATTC
227624 AAGCTTGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (35 bp):
AGCTCGATTCTGAGCTCGATTCAAGCTCGATTCTG
Found at i:227605 original size:23 final size:23
Alignment explanation
Indices: 227544--227628 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
227534 GCTCGATTGA
*
227544 AGCTCGATTCTGAGCTCGA-T-TG
1 AGCTCGATTC-AAGCTCGATTCTG
* *
227566 AAGCTTGATTCTGAGCTCGATTCTG
1 -AGCTCGATTC-AAGCTCGATTCTG
*
227591 AGTTCGATTCAAGCTCGATTCTG
1 AGCTCGATTCAAGCTCGATTCTG
*
227614 AGCTCTATTCAAGCT
1 AGCTCGATTCAAGCT
227629 TGACATTTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
23 43 0.80
24 9 0.17
25 2 0.04
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (23 bp):
AGCTCGATTCAAGCTCGATTCTG
Found at i:228521 original size:24 final size:24
Alignment explanation
Indices: 228481--228578 Score: 144
Period size: 24 Copynumber: 4.1 Consensus size: 24
228471 GATTGGGTTA
*
228481 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
228505 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
228529 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* *
228553 AACATAACCGAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
228577 AA
1 AA
228579 TGTTCACGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
23 3 0.04
24 65 0.96
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:228578 original size:10 final size:10
Alignment explanation
Indices: 228494--228565 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 10
228484 ATAAATGAAT
228494 GAACATAAAC
1 GAACATAAAC
228504 GAACATAATCGAAC
1 GAACAT-A---AAC
228518 GAACATAAAC
1 GAACATAAAC
*
228528 AAACATAATCGAAC
1 GAACAT-A---AAC
228542 GAACATAAAC
1 GAACATAAAC
*
228552 GAACATAACC
1 GAACATAAAC
228562 GAAC
1 GAAC
228566 GAACATAACC
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
10 30 0.59
11 2 0.04
13 2 0.04
14 17 0.33
ACGTcount: A:0.56, C:0.22, G:0.11, T:0.11
Consensus pattern (10 bp):
GAACATAAAC
Found at i:228578 original size:14 final size:13
Alignment explanation
Indices: 228501--228574 Score: 70
Period size: 14 Copynumber: 5.9 Consensus size: 13
228491 AATGAACATA
228501 AACGAACATAATCG
1 AACGAACATAA-CG
228515 AACGAACAT-A--
1 AACGAACATAACG
*
228525 AACAAACATAATCG
1 AACGAACATAA-CG
228539 AACGAACAT-A--
1 AACGAACATAACG
228549 AACGAACATAACCG
1 AACGAACATAA-CG
228563 AACGAACATAAC
1 AACGAACATAAC
228575 CGAATGTTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
10 17 0.34
11 2 0.04
13 3 0.06
14 28 0.56
ACGTcount: A:0.55, C:0.23, G:0.11, T:0.11
Consensus pattern (13 bp):
AACGAACATAACG
Found at i:233559 original size:17 final size:16
Alignment explanation
Indices: 233532--233563 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
233522 AGTATTTTAA
233532 TAAAAATATTAATTAT
1 TAAAAATATTAATTAT
233548 TAAAATATATTAATTA
1 TAAAA-ATATTAATTA
233564 ATAATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAAATATTAATTAT
Found at i:233584 original size:27 final size:25
Alignment explanation
Indices: 233554--233629 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 25
233544 TTATTAAAAT
233554 ATATTAATTAATAATTTTAATAATATA
1 ATATTAATT-AT-ATTTTAATAATATA
233581 ATA-TAA-TAT-TTTTAATAATATA
1 ATATTAATTATATTTTAATAATATA
* *
233603 CTATTATATTTTTATTTTAATAATATA
1 ATATTA-A-TTATATTTTAATAATATA
233630 TAATAAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
22 15 0.36
23 2 0.05
24 3 0.07
25 1 0.02
26 5 0.12
27 16 0.38
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATTAATTATATTTTAATAATATA
Found at i:233587 original size:22 final size:22
Alignment explanation
Indices: 233525--233616 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 22
233515 CGGATAGAGT
233525 ATTTTAATAA-A-AATAT--TA
1 ATTTTAATAATATAATATAATA
*
233543 ATTATTAA-AATATATTAATTAATA
1 ATT-TTAATAATATAAT-A-TAATA
233567 ATTTTAATAATATAATATAATA
1 ATTTTAATAATATAATATAATA
* * *
233589 TTTTTAATAATATACTATTATA
1 ATTTTAATAATATAATATAATA
*
233611 TTTTTA
1 ATTTTA
233617 TTTTAATAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
18 5 0.08
19 5 0.08
20 2 0.03
21 1 0.02
22 31 0.51
23 5 0.08
24 12 0.20
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTTAATAATATAATATAATA
Found at i:233755 original size:14 final size:14
Alignment explanation
Indices: 233733--233765 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
233723 ATTTCCATAA
233733 TATAA-TTTAATAT
1 TATAATTTTAATAT
233746 TATAATTTTAATAT
1 TATAATTTTAATAT
233760 TATAAT
1 TATAAT
233766 AATATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATAATTTTAATAT
Found at i:233818 original size:17 final size:16
Alignment explanation
Indices: 233787--233829 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
233777 TTTTAATAAG
233787 TAATAAATATAATTAA
1 TAATAAATATAATTAA
*
233803 TAATATAATATTATTATTA
1 TAATA-AATATAATTA--A
233822 TAATAAAT
1 TAATAAAT
233830 CATTAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 3 0.13
19 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAAATATAATTAA
Found at i:234165 original size:14 final size:14
Alignment explanation
Indices: 234131--234159 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
234121 GAAATGCAAT
234131 TCATTTTATGAAAA
1 TCATTTTATGAAAA
234145 TCATTTT-TGAAAA
1 TCATTTTATGAAAA
234158 TC
1 TC
234160 TGTTTTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (14 bp):
TCATTTTATGAAAA
Done.