Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006640.1 Hibiscus syriacus cultivar Beakdansim tig00016353_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: 182799
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:4109 original size:52 final size:51
Alignment explanation
Indices: 3996--4121 Score: 164
Period size: 52 Copynumber: 2.4 Consensus size: 51
3986 TGTTTTGCAA
*
3996 TTTCTGTATTGGCACTATGTGTGCAATCTAAGAAATTCATATAAGTTTATCAAT
1 TTTC-GTATTGGCACTA--TATGCAATCTAAGAAATTCATATAAGTTTATCAAT
* *
4050 TTTCGTATTGGCACTATATGCAA-CATAAGAAATTCATAATTAGTTTATGAAT
1 TTTCGTATTGGCACTATATGCAATC-TAAGAAATTCAT-ATAAGTTTATCAAT
*
4102 TTTCGTATTGACACTATATG
1 TTTCGTATTGGCACTATATG
4122 TGCGCCCCAC
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
50 1 0.02
51 18 0.27
52 31 0.47
53 12 0.18
54 4 0.06
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (51 bp):
TTTCGTATTGGCACTATATGCAATCTAAGAAATTCATATAAGTTTATCAAT
Found at i:5559 original size:55 final size:56
Alignment explanation
Indices: 5461--5570 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 56
5451 ATTCATTTAT
* *
5461 ATGCTTGCTGAAATTTATGAAATTAATCAAAAAGCAGTAAATGTAAAAG-AGTAGC
1 ATGCTTGCTGAAATTCATGAAATTAATCAAAAAACAGTAAATGTAAAAGCAGTAGC
* *
5516 ATGCTTGCTGAAATTCATGAAAATTAATGAAAAAATAGT-AATGTAAAAGCAGTAG
1 ATGCTTGCTGAAATTCATG-AAATTAATCAAAAAACAGTAAATGTAAAAGCAGTAG
5571 AACCCTACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
55 28 0.57
56 21 0.43
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.27
Consensus pattern (56 bp):
ATGCTTGCTGAAATTCATGAAATTAATCAAAAAACAGTAAATGTAAAAGCAGTAGC
Found at i:6196 original size:21 final size:21
Alignment explanation
Indices: 6154--6196 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6144 GACAAATAAT
* * * *
6154 ATAAATAGTTAAATTGTGAAA
1 ATAAATAATGAAATTATAAAA
6175 ATAAATAATGAAATTATAAAA
1 ATAAATAATGAAATTATAAAA
6196 A
1 A
6197 ACCGCCTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAAATAATGAAATTATAAAA
Found at i:6371 original size:2 final size:2
Alignment explanation
Indices: 6319--6355 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6309 ATTTTGATTA
6319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6356 ACAAACTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6967 original size:45 final size:45
Alignment explanation
Indices: 6911--7572 Score: 1018
Period size: 45 Copynumber: 14.7 Consensus size: 45
6901 TATTCATTAT
* *
6911 TTTCATTTATGGCATCATTTCATGCCTTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
6956 TTTCATCTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * *
7001 TTTCATCTATGGTATCCTTTCATGCCTTTAATGCGCTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * * * **
7046 TTTTATTTATAGTATCATTTCATGCCTTTAATGCGCTATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * **
7091 TTTCATTAATGACATCCTTTAATGCCTTTAATGCACTTTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
7136 TTTAATTTATGGCATCCTTTCATGCCTTTAATGCACCGTCATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * *
7181 TTTCATTTATCGTATCCTTTCATTCATTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
7226 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
7271 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
7316 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCGCCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
7361 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
7406 TTTCATTTATGGCATCCTTTTATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
7451 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTTTGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
7496 TTTCATTTATGGAATCTTTTCATGCCTTTAATGCACCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
7541 TTTCATTTATGGAATCCTTTCATGCATTTAAT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAAT
7573 ATGCTTTTCA
Statistics
Matches: 569, Mismatches: 48, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 569 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:7894 original size:47 final size:47
Alignment explanation
Indices: 7825--7919 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
7815 ATACCATACC
*
7825 AAATGTTAGTATATTTCTAACATTTATACTTTAATAACAATCAAAGT
1 AAATGTTAGTATATTCCTAACATTTATACTTTAATAACAATCAAAGT
*
7872 AAATGTTTGTATATTCCTAACATTTATACTTTAATAACAATCAAAGT
1 AAATGTTAGTATATTCCTAACATTTATACTTTAATAACAATCAAAGT
7919 A
1 A
7920 CTACAATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (47 bp):
AAATGTTAGTATATTCCTAACATTTATACTTTAATAACAATCAAAGT
Found at i:8671 original size:14 final size:14
Alignment explanation
Indices: 8648--8680 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8638 GTTAGAATTG
8648 TGAAAATAAAATAA
1 TGAAAATAAAATAA
*
8662 TGAAATTAAAATAA
1 TGAAAATAAAATAA
8676 T-AAAA
1 TGAAAA
8681 GACTGACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (14 bp):
TGAAAATAAAATAA
Found at i:10107 original size:4 final size:4
Alignment explanation
Indices: 10084--10160 Score: 50
Period size: 4 Copynumber: 18.8 Consensus size: 4
10074 AACAAAAAAT
* * * * *
10084 ATAA AAAA ACAA AAAA ATAA ATAA ATAA CATAA A-ACA AGAA ATAA ACAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATA-A ATAA ATAA ATAA
*
10133 ATAA ATAA CATAAA ACAA ATAA A-AA ATA
1 ATAA ATAA -AT-AA ATAA ATAA ATAA ATA
10161 GAAACTATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
3 4 0.07
4 44 0.76
5 8 0.14
6 2 0.03
ACGTcount: A:0.77, C:0.08, G:0.01, T:0.14
Consensus pattern (4 bp):
ATAA
Found at i:10116 original size:29 final size:29
Alignment explanation
Indices: 10084--10158 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
10074 AACAAAAAAT
*
10084 ATAAAAAAACAAAAAAATAAATAAATAAC
1 ATAAAAAAACAAAAAAACAAATAAATAAC
* * *
10113 ATAAAACAAGAAATAAACAAATAAATAAC
1 ATAAAAAAACAAAAAAACAAATAAATAAC
*
10142 ATAAAACAAATAAAAAA
1 ATAAAA-AAACAAAAAA
10159 TAGAAACTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 31 0.82
30 7 0.18
ACGTcount: A:0.77, C:0.08, G:0.01, T:0.13
Consensus pattern (29 bp):
ATAAAAAAACAAAAAAACAAATAAATAAC
Found at i:10257 original size:18 final size:19
Alignment explanation
Indices: 10234--10272 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10224 AATCATACAT
10234 AAAACAAATAAAAA-ATAA
1 AAAACAAATAAAAACATAA
*
10252 AAAACATATAAAAACATAA
1 AAAACAAATAAAAACATAA
10271 AA
1 AA
10273 CAATTAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (19 bp):
AAAACAAATAAAAACATAA
Found at i:10289 original size:35 final size:35
Alignment explanation
Indices: 10230--10302 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
10220 ATACAATCAT
*
10230 ACATAAAACAAATAAAAAATAAAAAACATATAA-AA
1 ACATAAAACAAAT-AAAAATAAAAAACAAATAATAA
* *
10265 ACATAAAACAATTAGCAAA-AAAAAACAAATAATAA
1 ACATAAAACAAATA-AAAATAAAAAACAAATAATAA
10300 ACA
1 ACA
10303 GTGGGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 13 0.39
35 20 0.61
ACGTcount: A:0.74, C:0.11, G:0.01, T:0.14
Consensus pattern (35 bp):
ACATAAAACAAATAAAAATAAAAAACAAATAATAA
Found at i:11259 original size:25 final size:26
Alignment explanation
Indices: 11221--11278 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
11211 AATCATACAG
*
11221 AAAACAAATAAAAAACAT-ATAAA-AT
1 AAAACAAATAAAAAA-ATAAAAAACAT
11246 AAAACAAA-ACAAAAAATAAAAAACAT
1 AAAACAAATA-AAAAAATAAAAAACAT
11272 AAAACAA
1 AAAACAA
11279 TTAGCAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.10
25 17 0.59
26 9 0.31
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (26 bp):
AAAACAAATAAAAAAATAAAAAACAT
Found at i:11268 original size:14 final size:15
Alignment explanation
Indices: 11226--11275 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 15
11216 TACAGAAAAC
11226 AAATAAAAAACATATA
1 AAATAAAAAACATA-A
11242 AAATAAAACAAAACA-AA
1 AAAT--AA-AAAACATAA
11259 AAATAAAAAACATAA
1 AAATAAAAAACATAA
11274 AA
1 AA
11276 CAATTAGCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 6 0.20
15 6 0.20
16 4 0.13
17 5 0.17
18 3 0.10
19 6 0.20
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (15 bp):
AAATAAAAAACATAA
Found at i:11678 original size:19 final size:19
Alignment explanation
Indices: 11656--11741 Score: 52
Period size: 19 Copynumber: 4.4 Consensus size: 19
11646 AAAAACAAAT
11656 AATAAAACACAAAATACAA
1 AATAAAACACAAAATACAA
* * *
11675 AATAGAATATAAAATACAGAA
1 AATAAAACACAAAATAC--AA
** *
11696 AATTTTAACAC-ATATACAA
1 AA-TAAAACACAAAATACAA
11715 AATAGAAA-ACAAAATA-AA
1 AATA-AAACACAAAATACAA
11733 AATATAAAC
1 AATA-AAAC
11742 CACTGGTTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
18 12 0.24
19 24 0.49
21 9 0.18
22 4 0.08
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.19
Consensus pattern (19 bp):
AATAAAACACAAAATACAA
Found at i:12322 original size:155 final size:155
Alignment explanation
Indices: 12036--12334 Score: 426
Period size: 155 Copynumber: 1.9 Consensus size: 155
12026 AAGGGGAAGA
* *
12036 GAAGAGTCTCGGTTGAAGAAGGGGAAAGGGATGAATAGTGAGATTTGGGAATTAGGGTTACGAGA
1 GAAGAGTCTAGGTCGAAGAAGGGGAAAGGGATGAATAGTGAGATTTGGGAATTAGGGTTA-GAGA
* * * *
12101 ATAAGATGAAAGTGCTTCGGTTTGGGAGGTTTAGATCTTGAAAAACAAATTGGGGAAAATGCTTG
65 AGAAGATGAAAGTGATTCGATTTGGGAGGTTTAGATCTTGAAAAACAAATTGGGGAAAATACTTG
12166 GTGTTTGTAAGGATCAAATAGAAGGG
130 GTGTTTGTAAGGATCAAATAGAAGGG
* * *
12192 GAAGAGTCTATGTCGAAGAAGGGGAAGAGGGATGAATAGTGAGATTTGGGATTTAGGGTT-GGGA
1 GAAGAGTCTAGGTCGAAGAAGGGGAA-AGGGATGAATAGTGAGATTTGGGAATTAGGGTTAGAGA
* *
12256 AGAAGAT-AAGCAGTGATTCGATTTGGG-GGTTCT-GATCTTGAAAAACATATTGGGGAAAATAT
65 AGAAGATGAA--AGTGATTCGATTTGGGAGGTT-TAGATCTTGAAAAACAAATTGGGGAAAATAC
12318 TTGGTGTTTGTAAGGAT
127 TTGGTGTTTGTAAGGAT
12335 TAAACGAGGA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
154 2 0.02
155 56 0.44
156 38 0.30
157 32 0.25
ACGTcount: A:0.33, C:0.05, G:0.35, T:0.27
Consensus pattern (155 bp):
GAAGAGTCTAGGTCGAAGAAGGGGAAAGGGATGAATAGTGAGATTTGGGAATTAGGGTTAGAGAA
GAAGATGAAAGTGATTCGATTTGGGAGGTTTAGATCTTGAAAAACAAATTGGGGAAAATACTTGG
TGTTTGTAAGGATCAAATAGAAGGG
Found at i:12944 original size:8 final size:8
Alignment explanation
Indices: 12931--13056 Score: 86
Period size: 8 Copynumber: 16.0 Consensus size: 8
12921 ATATACTTTA
12931 TATAGTTT
1 TATAGTTT
12939 TATAGTTT
1 TATAGTTT
*
12947 TCTAGTTT
1 TATAGTTT
*
12955 TATA-TTA
1 TATAGTTT
12962 TATAGTTT
1 TATAGTTT
12970 AATATAGTTT
1 --TATAGTTT
* *
12980 AATA--CT
1 TATAGTTT
12986 TATA-TTT
1 TATAGTTT
*
12993 AATTA-TTT
1 TA-TAGTTT
*
13001 ATATACTTT
1 -TATAGTTT
13010 ATATAGTTT
1 -TATAGTTT
13019 TATAGTTT
1 TATAGTTT
*
13027 TATA-TTA
1 TATAGTTT
13034 TATAGTTT
1 TATAGTTT
*
13042 TATA-TTA
1 TATAGTTT
13049 TATAGTTT
1 TATAGTTT
13057 AATATAATAC
Statistics
Matches: 94, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
6 4 0.04
7 20 0.21
8 50 0.53
9 12 0.13
10 8 0.09
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (8 bp):
TATAGTTT
Found at i:12968 original size:23 final size:24
Alignment explanation
Indices: 12939--13045 Score: 100
Period size: 23 Copynumber: 4.5 Consensus size: 24
12929 TATATAGTTT
*
12939 TATAGTTTTCTAGTTTTATA-TTA
1 TATAGTTTTATAGTTTTATACTTA
*
12962 TATAGTTTAATATAGTTTAATACTTA
1 TATAGTTT--TATAGTTTTATACTTA
*
12988 TAT--TTAATTAT--TTATATACTTTA
1 TATAGTT--TTATAGTTTTATAC-TTA
13011 TATAGTTTTATAGTTTTATA-TTA
1 TATAGTTTTATAGTTTTATACTTA
13034 TATAGTTTTATA
1 TATAGTTTTATA
13046 TTATATAGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
22 6 0.09
23 33 0.48
24 5 0.07
25 18 0.26
26 7 0.10
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.58
Consensus pattern (24 bp):
TATAGTTTTATAGTTTTATACTTA
Found at i:12976 original size:10 final size:10
Alignment explanation
Indices: 12961--13142 Score: 57
Period size: 10 Copynumber: 19.3 Consensus size: 10
12951 GTTTTATATT
12961 ATATAGTTTA
1 ATATAGTTTA
12971 ATATAGTTTA
1 ATATAGTTTA
*
12981 ATACTTATATTTA
1 ATA--TA-GTTTA
12994 AT-TA-TTT-
1 ATATAGTTTA
*
13001 ATATACTTT-
1 ATATAGTTTA
13010 ATATAGTTT-
1 ATATAGTTTA
13019 -TATAGTTT-
1 ATATAGTTTA
13027 -TATA--TT-
1 ATATAGTTTA
13033 ATATAGTTT-
1 ATATAGTTTA
13042 -TATA--TT-
1 ATATAGTTTA
13048 ATATAGTTTA
1 ATATAGTTTA
*
13058 ATATAATACTT-
1 ATATAGT--TTA
*
13069 -TATAGTGTA
1 ATATAGTTTA
*
13078 ATATTATTTTA
1 ATA-TAGTTTA
13089 ATACT--TTATA
1 ATA-TAGTT-TA
*
13099 TTATAGTTT-
1 ATATAGTTTA
13108 -TATAGTTTA
1 ATATAGTTTA
13117 TATATGTAGTTTA
1 -ATA--TAGTTTA
13130 ATATAGTTTA
1 ATATAGTTTA
13140 ATA
1 ATA
13143 CTTTATATTA
Statistics
Matches: 138, Mismatches: 9, Indels: 50
0.70 0.05 0.25
Matches are distributed among these distances:
6 4 0.03
7 10 0.07
8 30 0.22
9 18 0.13
10 43 0.31
11 13 0.09
12 7 0.05
13 13 0.09
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (10 bp):
ATATAGTTTA
Found at i:13050 original size:13 final size:14
Alignment explanation
Indices: 12931--13061 Score: 74
Period size: 15 Copynumber: 8.9 Consensus size: 14
12921 ATATACTTTA
12931 TATAGTTTTATAGTTT
1 TATAGTTTTATA--TT
*
12947 TCTAGTTTTATATT
1 TATAGTTTTATATT
12961 ATATAG-TTTA-A--
1 -TATAGTTTTATATT
* *
12972 TATAGTTTAATACT
1 TATAGTTTTATATT
*
12986 TATA-TTTAATTATTT
1 TATAGTTTTA-TA-TT
*
13001 ATATACTTTATATAGTTT
1 -TATAGTTT-TATA--TT
13019 TATAGTTTTATATT
1 TATAGTTTTATATT
13033 ATATAGTTTTATATT
1 -TATAGTTTTATATT
*
13048 ATATAGTTTAATAT
1 -TATAGTTTTATAT
13062 AATACTTTAT
Statistics
Matches: 96, Mismatches: 7, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
10 5 0.05
11 3 0.03
12 1 0.01
13 6 0.06
14 14 0.15
15 32 0.33
16 19 0.20
17 12 0.12
18 4 0.04
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (14 bp):
TATAGTTTTATATT
Found at i:13118 original size:20 final size:19
Alignment explanation
Indices: 13041--13119 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 19
13031 TTATATAGTT
*
13041 TTATATTATATAGTTTAATA
1 TTATATTTTATAGTTT-ATA
* * *
13061 TAATACTTTATAGTGTAATA
1 TTATATTTTATAGT-TTATA
* *
13081 TTAT-TTTAATACTTTATA
1 TTATATTTTATAGTTTATA
13099 TTATAGTTTTATAGTTTATA
1 TTATA-TTTTATAGTTTATA
13119 T
1 T
13120 ATGTAGTTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
18 8 0.18
19 6 0.13
20 30 0.67
21 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (19 bp):
TTATATTTTATAGTTTATA
Found at i:13126 original size:21 final size:20
Alignment explanation
Indices: 13009--13139 Score: 67
Period size: 15 Copynumber: 7.0 Consensus size: 20
12999 TTATATACTT
13009 TATA-TAGTTTTATAGTTT-
1 TATATTAGTTTTATAGTTTA
13027 TATATTA----TATAGTTT-
1 TATATTAGTTTTATAGTTTA
13042 TATATTA----TATAGTTTAA
1 TATATTAGTTTTATAGTTT-A
* * *
13059 TATAATA-CTTTATAGTGTA
1 TATATTAGTTTTATAGTTTA
*
13078 -ATATTA-TTTTAATACTTTA
1 TATATTAGTTTT-ATAGTTTA
13097 TAT-TATAGTTTTATAGTTTA
1 TATAT-TAGTTTTATAGTTTA
13117 TATATGTAGTTTAATATAGTTTA
1 TATAT-TAGTTT--TATAGTTTA
13140 ATACTTTATA
Statistics
Matches: 92, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
15 23 0.25
17 6 0.07
18 12 0.13
19 10 0.11
20 21 0.23
21 11 0.12
23 9 0.10
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TATATTAGTTTTATAGTTTA
Found at i:13127 original size:87 final size:85
Alignment explanation
Indices: 12918--13133 Score: 228
Period size: 87 Copynumber: 2.5 Consensus size: 85
12908 TATTTAATTA
* * *
12918 TTTATATACTTTATATAGTTTTATAGTTTTCTAGTTTTATATTATATAGTTTAATATAGTTTAAT
1 TTTATATAGTTT-TATAGTTTTATA-TTATATAGTTTTATATTATATAGTTTAATATA--TTAAT
*
12983 ACTTATATTTAATTATTTATATAC
62 ACTTATATTAAATTATTTATATAC
13007 TTTATATAGTTTTATAGTTTTATATTATATAGTTTTATATTATATAGTTT-A-ATA-TAATACTT
1 TTTATATAGTTTTATAGTTTTATATTATATAGTTTTATATTATATAGTTTAATATATTAATAC-T
13069 TATAGTGTAATATTATTT-TAATAC
65 TATA-T-TAA-ATTATTTAT-ATAC
* *
13093 TTTATATTATAGTTTTATAG-TTTATA-TATGTAGTTTAATAT
1 -TT-TA-TATAGTTTTATAGTTTTATATTATATAGTTTTATAT
13134 AGTTTAATAC
Statistics
Matches: 113, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
82 6 0.05
83 5 0.04
84 1 0.01
85 6 0.05
86 12 0.11
87 39 0.35
88 20 0.18
89 24 0.21
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (85 bp):
TTTATATAGTTTTATAGTTTTATATTATATAGTTTTATATTATATAGTTTAATATATTAATACTT
ATATTAAATTATTTATATAC
Found at i:13138 original size:23 final size:20
Alignment explanation
Indices: 13018--13139 Score: 65
Period size: 20 Copynumber: 5.9 Consensus size: 20
13008 TTATATAGTT
13018 TTATAGTTTTATA-TTATATA
1 TTATAGTTTTATAGTT-TATA
*
13038 GTTTTATA-TTATATAGTTTAATA
1 ---TTATAGTTTTATAGTTT-ATA
* * *
13061 TAATA-CTTTATAGTGTAATA
1 TTATAGTTTTATAGT-TTATA
* *
13081 TTAT--TTTAATACTTTATA
1 TTATAGTTTTATAGTTTATA
13099 TTATAGTTTTATAGTTTATA
1 TTATAGTTTTATAGTTTATA
*
13119 TATGTAGTTTAATATAGTTTA
1 T-TATAGTTT--TATAGTTTA
13140 ATACTTTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
18 8 0.10
19 6 0.08
20 30 0.38
21 8 0.10
22 7 0.09
23 19 0.24
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TTATAGTTTTATAGTTTATA
Found at i:13154 original size:18 final size:18
Alignment explanation
Indices: 13078--13161 Score: 52
Period size: 20 Copynumber: 4.8 Consensus size: 18
13068 TTATAGTGTA
*
13078 ATATTATTTTAATACTTT
1 ATATTAGTTTAATACTTT
* *
13096 ATATTATAGTTTTATAGTTT
1 ATA-T-TAGTTTAATACTTT
* * *
13116 ATA-TA-TGTAGT--TTA
1 ATATTAGTTTAATACTTT
13130 ATA-TAGTTTAATACTTT
1 ATATTAGTTTAATACTTT
*
13147 ATATTAGTTCAATAC
1 ATATTAGTTTAATAC
13162 ATACATACAT
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
14 7 0.14
15 4 0.08
16 3 0.06
17 7 0.14
18 13 0.27
19 1 0.02
20 14 0.29
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.54
Consensus pattern (18 bp):
ATATTAGTTTAATACTTT
Found at i:13251 original size:73 final size:72
Alignment explanation
Indices: 13174--13319 Score: 217
Period size: 73 Copynumber: 2.0 Consensus size: 72
13164 ACATACATAC
*
13174 ATATATGTATA-AAAT-TATACTTTATATTATATAGTTTTATAGTTTTATATTATGCAGTTCAAT
1 ATATATATATATAAATATATACTTTATATTATATAGTTTTATAGTTTTATA-TATGCAGTTCAAT
13237 A-TATATAT
65 ACT-TATAT
* * *
13245 ATATATATATATAACTATATACTTTATATTATATAGTTTTATAGTTTTATATATGTAGTTTAATA
1 ATATATATATATAAATATATACTTTATATTATATAGTTTTATAGTTTTATATATGCAGTTCAATA
13310 CTTATAT
66 CTTATAT
13317 ATA
1 ATA
13320 CATGCATCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
71 10 0.15
72 23 0.34
73 35 0.51
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (72 bp):
ATATATATATATAAATATATACTTTATATTATATAGTTTTATAGTTTTATATATGCAGTTCAATA
CTTATAT
Found at i:13287 original size:22 final size:23
Alignment explanation
Indices: 13188--13319 Score: 80
Period size: 22 Copynumber: 5.7 Consensus size: 23
13178 ATGTATAAAA
13188 TTATACTTTATAT-TATATAGTT
1 TTATACTTTATATATATATAGTT
*
13210 TTATAGTTT-TATAT-TATGCAGTT
1 TTATACTTTATATATATAT--AGTT
**
13233 CAATATATA-TATATATATATATATAACT
1 ---T-TATACT-T-TATATATATATAGTT
*
13261 ATATACTTTATAT-TATATAGTT
1 TTATACTTTATATATATATAGTT
* *
13283 TTATAGTTT-TATATATGTAGTT
1 TTATACTTTATATATATATAGTT
*
13305 TAATAC-TTATATATA
1 TTATACTTTATATATA
13320 CATGCATCAT
Statistics
Matches: 85, Mismatches: 11, Indels: 28
0.69 0.09 0.23
Matches are distributed among these distances:
21 11 0.13
22 41 0.48
23 9 0.11
24 5 0.06
25 1 0.01
26 2 0.02
27 5 0.06
28 3 0.04
29 5 0.06
30 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (23 bp):
TTATACTTTATATATATATAGTT
Found at i:13362 original size:2 final size:2
Alignment explanation
Indices: 13355--13382 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13345 TTCATCAATC
13355 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
13383 TGTAATTGTT
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:15867 original size:15 final size:14
Alignment explanation
Indices: 15847--15897 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
15837 ATATTTAATA
15847 ATATTATTATTATTT
1 ATATTATT-TTATTT
15862 ATATTATTTATATTT
1 ATATTATTT-TATTT
15877 ATA-TATTTTATTT
1 ATATTATTTTATTT
15890 -T-TTATTTT
1 ATATTATTTT
15898 TTGCAGGCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.21
13 5 0.15
14 6 0.18
15 16 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATATTATTTTATTT
Found at i:15872 original size:19 final size:19
Alignment explanation
Indices: 15831--15895 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
15821 GTCCGGGTTA
* *
15831 TTATTAATATTTA-ATAAT
1 TTATTATTATTTATATTAT
15849 ATTATTATTATTTATATTAT
1 -TTATTATTATTTATATTAT
* *
15869 TTA-TATTTATATATTTTAT
1 TTATTA-TTATTTATATTAT
*
15888 TTTTTATT
1 TTATTATT
15896 TTTTGCAGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.05
19 30 0.79
20 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTATTATTTATATTAT
Found at i:15878 original size:22 final size:22
Alignment explanation
Indices: 15853--15894 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15843 AATAATATTA
15853 TTAT-TATTTATATTATTTATAT
1 TTATATATTT-TATTATTTATAT
*
15875 TTATATATTTTATTTTTTAT
1 TTATATATTTTATTATTTAT
15895 TTTTTGCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTATATATTTTATTATTTATAT
Found at i:22223 original size:22 final size:22
Alignment explanation
Indices: 22156--22225 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
22146 GGGCCATAAG
22156 TAAGTCTTTCGAGCATGATGAT
1 TAAGTCTTTCGAGCATGATGAT
* * * *
22178 TAAATCCTTCGGGTCATCA-G--
1 TAAGTCTTTCGAG-CATGATGAT
22198 TAAGTCTTTCGAGCATGATGAT
1 TAAGTCTTTCGAGCATGATGAT
22220 TAAGTC
1 TAAGTC
22226 CTTTGGGTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
22 17 0.47
23 4 0.11
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (22 bp):
TAAGTCTTTCGAGCATGATGAT
Found at i:22261 original size:42 final size:42
Alignment explanation
Indices: 22154--22252 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
22144 TAGGGCCATA
22154 AGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATC
1 AGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATC
* *
22196 AGTAAGTCTTTCGAGCATGATGATTAAGTCCTTTGGGTCATC
1 AGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATC
*
22238 TGTAAGTCTTTCGAG
1 AGTAAGTCTTTCGAG
22253 AGAGATGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (42 bp):
AGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATC
Found at i:22459 original size:299 final size:299
Alignment explanation
Indices: 21893--22541 Score: 939
Period size: 299 Copynumber: 2.2 Consensus size: 299
21883 TCATTCAGGC
* * * *
21893 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTTATCTATAAGTCTTTTGAGCAAG
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAGTCCTTTGGGTCATCTATAAGTCTTTCGAGCAAG
21958 ATGATAAGTTCTTCGGGCCATCCGTAAGACCTTCGAGTAGGATGTTTCTAAATGAATTTGAAAAA
66 ATGATAAGTTCTTCGGGCCATCCGTAAGACCTTCGAGTAGGATGTTTCTAAATGAATTTGAAAAA
*
22023 TGAGAAAGTGATTTCCAAAGTTTCTCATTTAGAATTTTCAGAAAATGAAATTTTTGAAAAGTAAG
131 TGAGAAAGCGATTTCCAAAGTTTCTCATTTAGAATTTTCAGAAAATGAAATTTTTGAAAAGTAAG
* * * *
22088 AAAGCGATTTCCAAAGTTTTTTACCTAGTAAACTATTTCCAAAATTAGTAAGTTCTTAGGGCCAT
196 AAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTAGTAAGTTCTTAGAGCCAT
*
22153 AAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
261 AAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGT
*
22192 CATCAGTAAGTCTTTCGAGCATGATGATTAAGTCCTTTGGGTCATCTGTAAGTCTTTCGAG-AGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAGTCCTTTGGGTCATCTATAAGTCTTTCGAGCA-A
* * * * *
22256 GATGATAA-TTCCTTCTGGCTATCCGTAAGAGCTTCGAGTAGGAT-TTTTTCACATGAATTTGAA
65 GATGATAAGTT-CTTCGGGCCATCCGTAAGACCTTCGAGTAGGATGTTTCT-AAATGAATTTGAA
* * *
22319 AAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAATTTTTTGAAAAGT
128 AAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGAATTTTCAGAAAATGAAATTTTTGAAAAGT
* * * *
22384 AAGAAAGTGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCCAAATTGGTAAG-TCATTTGAG
193 AAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTAGTAAGTTC-TTAGAG
*
22448 CCATTAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGT
257 CCATAAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGT
* * * * * * * *
22491 CATCTGTCAGTCTTTCAAGCAAGATG-GTAAGTCATTTGGGCCGTCTATAAG
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAGTCCTTTGGGTCATCTATAAG
22542 ACCTTCGGGT
Statistics
Matches: 313, Mismatches: 33, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
298 29 0.09
299 284 0.91
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (299 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAGTCCTTTGGGTCATCTATAAGTCTTTCGAGCAAG
ATGATAAGTTCTTCGGGCCATCCGTAAGACCTTCGAGTAGGATGTTTCTAAATGAATTTGAAAAA
TGAGAAAGCGATTTCCAAAGTTTCTCATTTAGAATTTTCAGAAAATGAAATTTTTGAAAAGTAAG
AAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTAGTAAGTTCTTAGAGCCAT
AAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGT
Found at i:22699 original size:259 final size:257
Alignment explanation
Indices: 22192--22745 Score: 745
Period size: 259 Copynumber: 2.1 Consensus size: 257
22182 TCCTTCGGGT
* ** *
22192 CATCAGTAAGTCTTTCGAGCATGATGATTAAGTCCTTTGGGTCATCTGTAAGTCTTTCGAGAGAG
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGTCATCTGTAAGTCTTTCAAGAGAG
* * * * * * *
22257 ATGATAATTCCTTCTGGCTATCCGTAAGAGCTTCGAGTAGGATTTTTTCACATGAATTTGAAAAA
66 ATGATAAGTCATTCTGGCCATCCATAAGACCTTCGAGTAGGATATTTCCACATGAATTTGAAAAA
* *
22322 TGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATGAATTTTTTGAAAAGTAAG
131 TGAGAAAGCGATTTCCAAAGTTTCTCATTTAGAATTTTTAGAAAATGAAATTTTTGAAAAGTAAG
* * *
22387 AAAGTGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCCAAATTGGTAAGTCATTTGAGC
196 AAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTAGTAAGTCATTTGAGC
* *
22449 CATTAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGTCATCTGTCAGTCTTTCAAGCA-A
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGTCATCTGTAAGTCTTTCAAG-AGA
* * * * * * *
22513 GATGGTAAGTCATT-TGGGCCGTCTATAAGACCTTCGGGTAGGATATTTCCACATGATTTTTTAC
65 GATGATAAGTCATTCT-GGCCATCCATAAGACCTTCGAGTAGGATATTTCCACATGA-ATTTGAA
* * *
22577 AAATGAGAAAGTGATTTCCACAGTTTCTCATTTA-AATCTTTTCAGAAAATTAAATTTTTGAAAA
128 AAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGAAT-TTTT-AGAAAATGAAATTTTTGAAAA
* * * * *
22641 GTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTAGTAAGTCCTTTGG
191 GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTAGTAAGTCATTTGA
22706 GC
256 GC
22708 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
22746 AGATTATCGA
Statistics
Matches: 258, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
256 1 0.00
257 101 0.39
258 41 0.16
259 115 0.45
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (257 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCCGGTCATCTGTAAGTCTTTCAAGAGAG
ATGATAAGTCATTCTGGCCATCCATAAGACCTTCGAGTAGGATATTTCCACATGAATTTGAAAAA
TGAGAAAGCGATTTCCAAAGTTTCTCATTTAGAATTTTTAGAAAATGAAATTTTTGAAAAGTAAG
AAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCCAAAATTAGTAAGTCATTTGAGC
Found at i:22925 original size:15 final size:15
Alignment explanation
Indices: 22905--22947 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22895 TATTTAATAC
22905 TATTATTATTTATGT
1 TATTATTATTTATGT
* *
22920 TATTATTATTAATTT
1 TATTATTATTTATGT
22935 TATT-TATATTTAT
1 TATTAT-TATTTAT
22948 ATATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTTATGT
Found at i:22939 original size:24 final size:24
Alignment explanation
Indices: 22905--22963 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
22895 TATTTAATAC
22905 TATTATTATTTAT-GTTAT-TATTAT
1 TATT-TTATTTATAGTTATATATT-T
*
22929 TAATTTTATTTATATTTATATATTT
1 T-ATTTTATTTATAGTTATATATTT
22954 TATTTTATTT
1 TATTTTATTT
22964 TATTTTTCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 18 0.58
25 9 0.29
26 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TATTTTATTTATAGTTATATATTT
Found at i:22941 original size:19 final size:19
Alignment explanation
Indices: 22885--22967 Score: 61
Period size: 19 Copynumber: 4.4 Consensus size: 19
22875 TTTGTCTGGG
*
22885 TTATTATTAATATTTA-ATA
1 TTATTATTAAT-TTTATTTA
*
22904 CTATTATT-A-TTTATGTTA
1 TTATTATTAATTTTAT-TTA
22922 TTATTATTAATTTTATTTA
1 TTATTATTAATTTTATTTA
22941 -TATT-TATATATTTTATTTTA
1 TTATTAT-TA-ATTTTA-TTTA
22961 TT-TTATT
1 TTATTATT
22968 TTTCAGGCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
16 4 0.08
17 1 0.02
18 16 0.31
19 17 0.33
20 12 0.23
21 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (19 bp):
TTATTATTAATTTTATTTA
Found at i:25383 original size:45 final size:45
Alignment explanation
Indices: 25314--25807 Score: 621
Period size: 45 Copynumber: 10.7 Consensus size: 45
25304 TATTCATTAT
* *
25314 TTTCATTTATGGCATCCTTCCATGCCTTTAATGTACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
25359 CTTCATTTATGGCATCCTTTCATGCCTTTAATACACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
25404 TTTAATTTATGGCATCCTTTCATGCCTTTAATGCACCGTT-TCACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTAT-GCA
* * *
25449 TTTTATTTATGGTATCCTTTCATGCCTTTAATGCACCGTTATTCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
25494 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * **
25539 TTTTATTTATGACATCCTTTAATGCCTTTAATGCACTTTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * ** *
25584 TTTAATTTATGGCATCCTTTCATGCTTTTAATGCACAATTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
25629 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCATTGTTATGCATGTAATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGC------A--C-CG---TTATGCA
* *
25686 TTTCATTTATGGCATCATTTCATTCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
25731 TTTCATTTATGGCATCATTTCATGTCTTTAATGTACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
25776 TTTCATTTATGGCATCCTTTCATGCCTTTAAT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAAT
25808 ATGCTTTTTA
Statistics
Matches: 395, Mismatches: 40, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
44 1 0.00
45 350 0.89
46 1 0.00
48 1 0.00
49 1 0.00
51 2 0.01
53 1 0.00
57 38 0.10
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:25682 original size:57 final size:57
Alignment explanation
Indices: 25620--25731 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
25610 TTTAATGCAC
* **
25620 AATTATACATTTCATTTATGGCATCCTTTCATGCCTTTAATGCATTGTTATGCATGT
1 AATTATACATTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCATGT
* *
25677 AATTATGCATTTCATTTATGGCATCATTTCATTCCTTTAATGCACCGTTATGCAT
1 AATTATACATTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCAT
25732 TTCATTTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.45
Consensus pattern (57 bp):
AATTATACATTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATGCATGT
Found at i:25707 original size:102 final size:102
Alignment explanation
Indices: 25577--25763 Score: 293
Period size: 102 Copynumber: 1.8 Consensus size: 102
25567 TAATGCACTT
* *
25577 TTATGCATTTAATTTATGGCATCCTTTCATGCTTTTAATGCACAATTATACATTTCATTTATGGC
1 TTATGCATTTAATTTATGGCATCATTTCATGCCTTTAATGCACAATTATACATTTCATTTATGGC
*
25642 ATCCTTTCATGCCTTTAATGCATTGTTATGCATGTAA
66 ATCATTTCATGCCTTTAATGCATTGTTATGCATGTAA
* * ** *
25679 TTATGCATTTCATTTATGGCATCATTTCATTCCTTTAATGCACCGTTATGCATTTCATTTATGGC
1 TTATGCATTTAATTTATGGCATCATTTCATGCCTTTAATGCACAATTATACATTTCATTTATGGC
*
25744 ATCATTTCATGTCTTTAATG
66 ATCATTTCATGCCTTTAATG
25764 TACCGTTATG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 76 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (102 bp):
TTATGCATTTAATTTATGGCATCATTTCATGCCTTTAATGCACAATTATACATTTCATTTATGGC
ATCATTTCATGCCTTTAATGCATTGTTATGCATGTAA
Found at i:25760 original size:21 final size:20
Alignment explanation
Indices: 25691--25760 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 20
25681 ATGCATTTCA
25691 TTTATGGCATCATTTCATTCC
1 TTTATGGCATCATTTCATT-C
* *
25712 TTTAAT-GCACCGTTATGCATTTC
1 TTT-ATGGCATCATT-T-CA-TTC
25735 ATTTATGGCATCATTTCATGTC
1 -TTTATGGCATCATTTCAT-TC
25757 TTTA
1 TTTA
25761 ATGTACCGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
21 14 0.37
22 7 0.18
23 6 0.16
24 11 0.29
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.47
Consensus pattern (20 bp):
TTTATGGCATCATTTCATTC
Found at i:25784 original size:147 final size:147
Alignment explanation
Indices: 25532--25807 Score: 410
Period size: 147 Copynumber: 1.9 Consensus size: 147
25522 TAATGCACCG
* * **
25532 TTATACATTTTATTTATGACATCCTTTAATGCCTTTAATGCACTTTTATGCATTTAATTTATGGC
1 TTATACATTTCATTTATGACATCATTTAATGCCTTTAATGCACCGTTATGCATTTAATTTATGGC
*
25597 ATCCTTTCATGCTTTTAATGCACAATTATACATTTCATTTATGGCATCCTTTCATGCCTTTAATG
66 ATCATTTCATGCTTTTAATGCACAATTATACATTTCATTTATGGCATCCTTTCATGCCTTTAATG
25662 CATTGTTATGCATGTAA
131 CATTGTTATGCATGTAA
* * * * *
25679 TTATGCATTTCATTTATGGCATCATTTCATTCCTTTAATGCACCGTTATGCATTTCATTTATGGC
1 TTATACATTTCATTTATGACATCATTTAATGCCTTTAATGCACCGTTATGCATTTAATTTATGGC
* ** *
25744 ATCATTTCATG-TCTTTAATGTACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAAT
66 ATCATTTCATGCT-TTTAATGCACAATTATACATTTCATTTATGGCATCCTTTCATGCCTTTAAT
25808 ATGCTTTTTA
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
146 1 0.01
147 113 0.99
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (147 bp):
TTATACATTTCATTTATGACATCATTTAATGCCTTTAATGCACCGTTATGCATTTAATTTATGGC
ATCATTTCATGCTTTTAATGCACAATTATACATTTCATTTATGGCATCCTTTCATGCCTTTAATG
CATTGTTATGCATGTAA
Found at i:27060 original size:30 final size:30
Alignment explanation
Indices: 27020--27076 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
27010 CTTAAAAGAG
* *
27020 TTTTGCAATACTGAGATTTAAATAATTTTA
1 TTTTACAATACTGAAATTTAAATAATTTTA
27050 TTTTACAATACTGAAATTTAAATAATT
1 TTTTACAATACTGAAATTTAAATAATT
27077 CATACAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTACAATACTGAAATTTAAATAATTTTA
Found at i:27185 original size:80 final size:80
Alignment explanation
Indices: 27100--28046 Score: 794
Period size: 80 Copynumber: 11.7 Consensus size: 80
27090 TAATAAATTA
**
27100 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTTATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
27165 TAAATCAATCCATAT
66 TAAATCAATCCATAT
27180 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
27245 TAAATCAATCCATAT
66 TAAATCAATCCATAT
* *
27260 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
27324 TTTAAAATAAATCAATCCATAT
63 --T--AATAAATCAATCCATAT
* *** *
27346 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
* *
27410 ATCAATTC-ATACTAATAAATT
65 AT-AAATCAAT-C-CAT--A-T
* * **
27431 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCAT---ATTTTAA-
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATACAACTACAAT
27485 AATAAATCAATCCATACT
64 AATAAATCAATCCATA-T
** * ** * ** ** * *
27503 AATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATACATACTAA-TAAAT
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATAC-AACTACA-
27564 TATTTAAAATAAATCAATCCATAT
62 -A--T--AATAAATCAATCCATAT
*
27588 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
27653 TAAATCAATCCATAT
66 TAAATCAATCCATAT
27668 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
27733 TAAATCAATCCATAT
66 TAAATCAATCCATAT
* *
27748 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
*
27812 TTTAAAATAAATCAATCCATACA
63 --T--AATAAATCAATCCATA-T
** * * * * * *
27835 ACTACAAT-AATAAAT-CA-A-T-TTATA-T-TTTAAAATAAATCAATCCATACAAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA--A-
27893 TTAAAATAAATCAATCCATA-
63 -T--AATAAATCAATCCATAT
* * ** * *
27913 ---AAACTACAAT-AAT--AAAGC-AATCCA-TATTTTAAAATAAATCAATCCATACAAATAAAT
1 TTTAAAATA-AATCAATCCATA-CTAATAAATTA-TTTAAAATAAATCAATCCATACAACTACA-
*
27970 TATTTAAAATAAATCAATCTATAT
62 -A--T--AATAAATCAATCCATAT
27994 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
28047 TTTTAAAATA
Statistics
Matches: 739, Mismatches: 63, Indels: 124
0.80 0.07 0.13
Matches are distributed among these distances:
70 3 0.00
71 11 0.01
72 7 0.01
74 3 0.00
75 9 0.01
76 23 0.03
77 3 0.00
78 7 0.01
79 4 0.01
80 410 0.55
81 12 0.02
82 9 0.01
83 4 0.01
84 19 0.03
85 21 0.03
86 185 0.25
87 9 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATAT
Found at i:27209 original size:22 final size:22
Alignment explanation
Indices: 27163--27208 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
27153 CAACTACAAT
**
27163 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATAATAA
27185 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TAATAA
27208 A
1 A
27209 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATAATAA
Found at i:27232 original size:54 final size:54
Alignment explanation
Indices: 27163--28145 Score: 701
Period size: 54 Copynumber: 18.1 Consensus size: 54
27153 CAACTACAAT
27163 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
27217 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** **
27273 AATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
27329 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
27383 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
27437 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** ** * ** *
27493 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * * * *
27547 AATACATACTAATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAT
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * *
27608 ACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
27651 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
27705 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** **
27761 AATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*** * * * *
27817 AATAAATCAATCCATACAACTACAAT-AATAAAT-CA-A-T-TTATA-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
27865 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC--A-T-A-AAACTA--CAA
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
27922 TAATAAAGCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
27977 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
28031 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
28085 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
28139 AATAAAT
1 AATAAAT
28146 TATTTTAAAA
Statistics
Matches: 746, Mismatches: 113, Indels: 140
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
47 3 0.00
48 59 0.08
49 7 0.01
50 9 0.01
51 1 0.00
52 6 0.01
53 7 0.01
54 440 0.59
55 36 0.05
56 26 0.03
57 50 0.07
58 84 0.11
59 5 0.01
60 3 0.00
61 2 0.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:27289 original size:22 final size:22
Alignment explanation
Indices: 27216--27289 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
27206 AAATTATTTA
*
27216 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
27241 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
27263 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
27286 AAAT
1 AAAT
27290 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:27350 original size:22 final size:22
Alignment explanation
Indices: 27324--27366 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27314 TAATAAATTA
*
27324 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
27346 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
27367 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:27375 original size:22 final size:22
Alignment explanation
Indices: 27326--27374 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27316 ATAAATTATT
* **
27326 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
27348 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
27371 TAAA
1 TAAA
27375 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:27404 original size:22 final size:22
Alignment explanation
Indices: 27378--27420 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27368 TAATAAATTA
27378 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
27400 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
27421 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:27429 original size:22 final size:22
Alignment explanation
Indices: 27380--27428 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27370 ATAAATTATT
**
27380 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
27402 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
27425 TAAA
1 TAAA
27429 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:27505 original size:188 final size:187
Alignment explanation
Indices: 27292--28190 Score: 1121
Period size: 188 Copynumber: 4.8 Consensus size: 187
27282 AAATAAATTA
27292 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
27357 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
66 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTAAAATAAATCAATTCATAC
27422 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
130 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
27480 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
27545 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
66 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTAAAATAAATCAATTCATAC
27610 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
130 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
* **
27668 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AA
* * * * ** * * *
27733 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAAT---TATTTAAAATAAATCAA
62 TAAATCAATACATA--CT--AATAAATTATTTAAAATAAATCAATCCATATTTAAAATAAATCAA
* **
27795 TCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTTATAT
123 TTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
* *
27860 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATA----AAACTACA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA-A
** * * * *
27921 AT-AATA-A-AGC-AATCCA-TATTTTAAAATAAATCAATCCATA---CAAATAAAT-TATTTAA
65 ATCAATACATA-CTAATAAATTA-TTTAAAATAAATCAATCCATATTTAAAATAAATCAATTCAT
* * *
27977 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAA
128 ACT-AAT-AA-AT-TA-TTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAA
28041 TCCATAT
181 TCCATAT
28048 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* * *
28113 TCAATCCATACTAATAAATTATTTAAAATAAAT---T--AT-TTTAAAATAAAT-TATT-TTA-T
66 TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAATAAATCAATTCATACT
28169 AATAAATTATTTTAAAATAAAT
131 AATAAATTA-TTTAAAATAAAT
28191 TATTTTAAAA
Statistics
Matches: 626, Mismatches: 48, Indels: 77
0.83 0.06 0.10
Matches are distributed among these distances:
177 6 0.01
178 25 0.04
179 2 0.00
180 1 0.00
181 4 0.01
182 26 0.04
183 3 0.00
184 7 0.01
185 20 0.03
186 2 0.00
187 2 0.00
188 310 0.50
189 4 0.01
190 1 0.00
191 20 0.03
192 151 0.24
193 4 0.01
194 18 0.03
195 2 0.00
196 18 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (187 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAATAAATCAATTCATACT
AATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
Found at i:27509 original size:22 final size:23
Alignment explanation
Indices: 27434--27508 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
27424 ATAAATTATT
27434 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
27456 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
27482 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
27505 TAAA
1 TAAA
27509 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:27538 original size:22 final size:22
Alignment explanation
Indices: 27512--27554 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27502 TAATAAATTA
*
27512 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
27534 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
27555 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:27563 original size:22 final size:22
Alignment explanation
Indices: 27514--27562 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27504 ATAAATTATT
* **
27514 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
27536 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
27559 TAAA
1 TAAA
27563 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:27592 original size:22 final size:22
Alignment explanation
Indices: 27566--27608 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27556 TAATAAATTA
27566 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
27588 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
27609 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:27617 original size:22 final size:22
Alignment explanation
Indices: 27568--27616 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27558 ATAAATTATT
**
27568 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
27590 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
27613 TAAA
1 TAAA
27617 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:27697 original size:22 final size:23
Alignment explanation
Indices: 27622--27696 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
27612 ATAAATTATT
27622 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
27644 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
27670 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
27693 TAAA
1 TAAA
27697 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:27777 original size:22 final size:22
Alignment explanation
Indices: 27704--27777 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
27694 AAATTATTTA
*
27704 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
27729 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
27751 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
27774 AAAT
1 AAAT
27778 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:28023 original size:22 final size:22
Alignment explanation
Indices: 27974--28022 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27964 ATAAATTATT
* **
27974 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
27996 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
28019 TAAA
1 TAAA
28023 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:28052 original size:22 final size:22
Alignment explanation
Indices: 28026--28068 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
28016 TAATAAATTA
28026 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
28048 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
28069 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:28077 original size:22 final size:22
Alignment explanation
Indices: 28028--28076 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
28018 ATAAATTATT
**
28028 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
28050 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
28073 TAAA
1 TAAA
28077 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:28106 original size:22 final size:22
Alignment explanation
Indices: 28080--28122 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
28070 TAATAAATTA
28080 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
28102 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
28123 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:28131 original size:22 final size:22
Alignment explanation
Indices: 28082--28130 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
28072 ATAAATTATT
**
28082 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
28104 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
28127 TAAA
1 TAAA
28131 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:28154 original size:15 final size:15
Alignment explanation
Indices: 28125--28205 Score: 146
Period size: 15 Copynumber: 5.5 Consensus size: 15
28115 AATCCATACT
28125 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
28139 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
28154 AATAAATTATTTTAT
1 AATAAATTATTTTAA
28169 AATAAATTATTTTAA
1 AATAAATTATTTTAA
28184 AATAAATTATTTTAA
1 AATAAATTATTTTAA
28199 AATAAAT
1 AATAAAT
28206 AACCTTATTA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
14 9 0.14
15 55 0.86
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:34232 original size:29 final size:29
Alignment explanation
Indices: 34190--34257 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
34180 CTGGGCAATG
*
34190 TGCATCGATGCACATTCATTGTGCACTGA
1 TGCATCGATGCACATTCATTGTGCACCGA
34219 TGCATCGATGCACATTCATTGTGCACCGA
1 TGCATCGATGCACATTCATTGTGCACCGA
34248 TGCATCGATG
1 TGCATCGATG
34258 ATAAATACCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (29 bp):
TGCATCGATGCACATTCATTGTGCACCGA
Found at i:34438 original size:64 final size:64
Alignment explanation
Indices: 34282--34418 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 64
34272 TTGTTTAAGG
* * * *
34282 TGCATCGATGCACATGCAGTGCATCGATGCATGAATTTAAATAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCAATTTAAATAGAAAACATCGAATAGGATTTA
* *
34346 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCA-TTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CAATTTAAATAGAAAACATCGAATAGGATTTA
*
34409 TGTATCGATG
1 TGCATCGATG
34419 TATGGTGTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
63 28 0.43
64 36 0.55
65 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCAATTTAAATAGAAAACATCGAATAGGATTTA
Found at i:35988 original size:147 final size:148
Alignment explanation
Indices: 35816--36128 Score: 576
Period size: 149 Copynumber: 2.1 Consensus size: 148
35806 GAGTCGAGGG
*
35816 TCTACGCGGTCTTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
35880 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
35945 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
*
35963 TCTATGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
36028 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
36093 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
36112 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
36129 TGCAATTATA
Statistics
Matches: 160, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
147 16 0.10
148 1 0.01
149 143 0.89
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:36129 original size:23 final size:23
Alignment explanation
Indices: 36096--36140 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
36086 ATTATTATAT
*
36096 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
36119 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
36141 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:37549 original size:45 final size:45
Alignment explanation
Indices: 37480--38274 Score: 1248
Period size: 45 Copynumber: 17.7 Consensus size: 45
37470 TATTTGTTAT
* * *
37480 TTTCATTTATGGCATCATTGCATGCCTTTAATGCACCGTTACGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
37525 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
37570 TTTCATTTATGGCATCCTTTCATGCCTTTAGTGCACCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
37615 TTTCATTTGTGGCATCCTTTCATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
37660 TTTCATTTATGGCATCCTCTCATGCCTTTAATGTACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
37705 TTTCATTTATGGCATCCTTTTATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
37750 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTGTTATGTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * * *
37795 TTTCATTTATGGAATTCTTTCGTGTCTTTAATGCACCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
37840 TTTCATTTATGGCATCCTTTCATGTCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
37885 TTTCATTTATGGTATTCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * * *
37930 TTTCATTTATGGTATCATTTCATGCCTTTAATGTACCCTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
37975 TTTCATTTATTGCATCCTTTCATGCCTTTAATGCACCGTTATTCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * **
38020 TTTCATTTATTGCATCCTATCATGCCTTTAATGCAATGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
38065 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
38110 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
38155 TTTCATTTATGGAATCCTTTCATGCTTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
38200 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* *
38245 TTTCATGTATGGCATCTTTTCATGCCTTTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTA
38275 TATCCTTTTC
Statistics
Matches: 688, Mismatches: 62, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 688 1.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.45
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:40236 original size:3 final size:3
Alignment explanation
Indices: 40219--40254 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
40209 TTTGGGTTTG
*
40219 TAA TAA TAT TAAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
40255 TATTAACTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 28 0.93
4 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:41840 original size:14 final size:14
Alignment explanation
Indices: 41821--41847 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41811 TTTTTATCTT
41821 TTAAAATTATTTTC
1 TTAAAATTATTTTC
41835 TTAAAATTATTTT
1 TTAAAATTATTTT
41848 AAAAATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAAATTATTTTC
Found at i:41849 original size:11 final size:12
Alignment explanation
Indices: 41814--41861 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
41804 ATATCATTTT
41814 TTATCTTTTAAAA
1 TTAT-TTTTAAAA
41827 TTATTTTCTTAAAA
1 TTA-TTT-TTAAAA
*
41841 TTATTTTAAAAA
1 TTATTTTTAAAA
*
41853 TGATTTTTA
1 TTATTTTTA
41862 GGTATTCGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 12 0.40
13 8 0.27
14 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (12 bp):
TTATTTTTAAAA
Found at i:42620 original size:57 final size:57
Alignment explanation
Indices: 42543--42658 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
42533 ATTCATTTAT
* * * * *
42543 ATGCTTGCTGAAATTTATGAAAATTAATCAAAAAGCAGTAAATGTAAAAGAAGTAGC
1 ATGCTTACTAAAATTCATGAAAACTAATCAAAAAACAGTAAATGTAAAAGAAGTAGC
* *
42600 ATGCTTACTAAAATTCATGAAAACTAATGAAAAAACAGTAAATGTAAAAGCAGTAGC
1 ATGCTTACTAAAATTCATGAAAACTAATCAAAAAACAGTAAATGTAAAAGAAGTAGC
42657 AT
1 AT
42659 CCTACAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (57 bp):
ATGCTTACTAAAATTCATGAAAACTAATCAAAAAACAGTAAATGTAAAAGAAGTAGC
Found at i:42671 original size:57 final size:57
Alignment explanation
Indices: 42553--42671 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 57
42543 ATGCTTGCTG
* * * * *
42553 AAATTTATGAAAATTAATCAAAAAGCAGTAAATGTAAAAGAAGTAGCATGCTTACTA
1 AAATTCATGAAAACTAATCAAAAAACAGTAAATGTAAAAGAAGTAGCATGCCTACAA
* *
42610 AAATTCATGAAAACTAATGAAAAAACAGTAAATGTAAAAGCAGTAGCAT-CCTACAA
1 AAATTCATGAAAACTAATCAAAAAACAGTAAATGTAAAAGAAGTAGCATGCCTACAA
42666 TAAATT
1 -AAATT
42672 ATTTAAAGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 5 0.09
57 49 0.91
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (57 bp):
AAATTCATGAAAACTAATCAAAAAACAGTAAATGTAAAAGAAGTAGCATGCCTACAA
Found at i:44855 original size:35 final size:36
Alignment explanation
Indices: 44815--44884 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
44805 TCTTTATATT
*
44815 ATATAGTTTTAT-AGTTTTATATTATGTAGTTTAAA
1 ATATAGTTATATAAGTTTTATATTATGTAGTTTAAA
44850 ATATAGTTATATAAGTTTTATATTATGTAGTTTAA
1 ATATAGTTATATAAGTTTTATATTATGTAGTTTAA
44885 TACTTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 11 0.33
36 22 0.67
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (36 bp):
ATATAGTTATATAAGTTTTATATTATGTAGTTTAAA
Found at i:44914 original size:23 final size:23
Alignment explanation
Indices: 44888--44957 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
44878 AGTTTAATAC
44888 TTATATATACATTCATCATATTA
1 TTATATATACATTCATCATATTA
*
44911 TTATCATA-ACATTCATCA-ATCA
1 TTAT-ATATACATTCATCATATTA
44933 -TATATATACA-T-ATACATATTA
1 TTATATATACATTCAT-CATATTA
44954 TTAT
1 TTAT
44958 TATTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 9 0.22
22 6 0.15
23 14 0.35
24 3 0.08
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATATATACATTCATCATATTA
Found at i:44957 original size:3 final size:3
Alignment explanation
Indices: 44949--45019 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
44939 TACATATACA
44949 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44997 TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
45020 CATCATACAT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:45046 original size:17 final size:18
Alignment explanation
Indices: 45010--45060 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
45000 TATTATTATT
45010 ATATTATTATCATCATAC
1 ATATTATTATCATCATAC
45028 ATATTA-TATACAT-ATAC
1 ATATTATTAT-CATCATAC
*
45045 ATATTATTATTATCAT
1 ATATTATTATCATCAT
45061 CAATCATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATTATCATCATAC
Found at i:47185 original size:44 final size:44
Alignment explanation
Indices: 47122--47212 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
47112 TATATTTGTC
47122 TAATAAAAGCAATAAATAAGTCAACAATCTCTAGAGCATATGGT
1 TAATAAAAGCAATAAATAAGTCAACAATCTCTAGAGCATATGGT
47166 TAATAAAAGCAATAAATAAGTCAACAATCTCTAGAGCATATGGT
1 TAATAAAAGCAATAAATAAGTCAACAATCTCTAGAGCATATGGT
47210 TAA
1 TAA
47213 AAACTTTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (44 bp):
TAATAAAAGCAATAAATAAGTCAACAATCTCTAGAGCATATGGT
Found at i:52556 original size:22 final size:22
Alignment explanation
Indices: 52531--52575 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
52521 ATTCAAGGGT
*
52531 TACATAGGTCATTCGGGACATA
1 TACAGAGGTCATTCGGGACATA
*
52553 TACAGAGGTCTTTCGGGACATA
1 TACAGAGGTCATTCGGGACATA
52575 T
1 T
52576 TTCACATGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (22 bp):
TACAGAGGTCATTCGGGACATA
Found at i:56340 original size:23 final size:23
Alignment explanation
Indices: 56314--56382 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
56304 CACCACAACT
*
56314 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
56337 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
56360 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
56383 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:58066 original size:20 final size:20
Alignment explanation
Indices: 58038--58075 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58028 TTCCCCTTGA
*
58038 AGTGCATCGATGCATTCTAC
1 AGTGAATCGATGCATTCTAC
58058 AGTGAATCGATGCATTCT
1 AGTGAATCGATGCATTCT
58076 TTAACATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGAATCGATGCATTCTAC
Found at i:66472 original size:37 final size:36
Alignment explanation
Indices: 66424--66498 Score: 114
Period size: 37 Copynumber: 2.1 Consensus size: 36
66414 AAAGTTTACA
*
66424 AAATATGACAACACATCTAAATTTATAAAAAGATGAC
1 AAATATGACAACACATCCAAATTTAT-AAAAGATGAC
* *
66461 AAATATGACAACATATCCAAATTTATACAAGATGAC
1 AAATATGACAACACATCCAAATTTATAAAAGATGAC
66497 AA
1 AA
66499 TATTTTCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 11 0.31
37 24 0.69
ACGTcount: A:0.53, C:0.15, G:0.08, T:0.24
Consensus pattern (36 bp):
AAATATGACAACACATCCAAATTTATAAAAGATGAC
Found at i:68974 original size:22 final size:21
Alignment explanation
Indices: 68944--68984 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
68934 CGGCTGAATA
*
68944 TTTAGTTTAGGTTTAAGTTTGT
1 TTTAATTTAGGTTT-AGTTTGT
68966 TTTAATTTAGGTTTAGTTT
1 TTTAATTTAGGTTTAGTTT
68985 AAATTGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (21 bp):
TTTAATTTAGGTTTAGTTTGT
Found at i:69699 original size:7 final size:7
Alignment explanation
Indices: 69689--69714 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
69679 ACTAAATCCT
69689 AAACCCC
1 AAACCCC
69696 AAACCCC
1 AAACCCC
69703 AAACCCC
1 AAACCCC
69710 AAACC
1 AAACC
69715 TAAATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.54, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCC
Found at i:70037 original size:7 final size:7
Alignment explanation
Indices: 70020--70119 Score: 92
Period size: 7 Copynumber: 14.1 Consensus size: 7
70010 GATTAAGTGC
*
70020 TTAGGGG
1 TTAGGGT
*
70027 TTAGTGT
1 TTAGGGT
70034 TTAGGGT
1 TTAGGGT
**
70041 TTAGAAT
1 TTAGGGT
70048 TTAGGGT
1 TTAGGGT
*
70055 TTAGTGT
1 TTAGGGT
**
70062 TTAGCATT
1 TTAG-GGT
70070 TTAGGGT
1 TTAGGGT
*
70077 TTAGGGA
1 TTAGGGT
70084 TTAGGGT
1 TTAGGGT
*
70091 TTAGGAT
1 TTAGGGT
**
70098 TTAGTTT
1 TTAGGGT
70105 TTAGGGT
1 TTAGGGT
70112 TTAGGGT
1 TTAGGGT
70119 T
1 T
70120 CATTACAAAG
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
7 68 0.93
8 5 0.07
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:70051 original size:21 final size:22
Alignment explanation
Indices: 70027--70087 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
70017 TGCTTAGGGG
*
70027 TTAGTGTTTAGGGTTTAG-AAT
1 TTAGGGTTTAGGGTTTAGCAAT
* *
70048 TTAGGGTTTAGTGTTTAGCATT
1 TTAGGGTTTAGGGTTTAGCAAT
*
70070 TTAGGGTTTAGGGATTAG
1 TTAGGGTTTAGGGTTTAG
70088 GGTTTAGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (22 bp):
TTAGGGTTTAGGGTTTAGCAAT
Found at i:70094 original size:43 final size:43
Alignment explanation
Indices: 70027--70108 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
70017 TGCTTAGGGG
* * *
70027 TTAGTGTTTAGGGTTTAGAATTTAGGGTTTAGTGTTTAGCATT
1 TTAGGGTTTAGGGATTAGAATTTAGGATTTAGTGTTTAGCATT
** *
70070 TTAGGGTTTAGGGATTAGGGTTTAGGATTTAGTTTTTAG
1 TTAGGGTTTAGGGATTAGAATTTAGGATTTAGTGTTTAG
70109 GGTTTAGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (43 bp):
TTAGGGTTTAGGGATTAGAATTTAGGATTTAGTGTTTAGCATT
Found at i:70381 original size:2 final size:2
Alignment explanation
Indices: 70374--70404 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70364 ATGATTTTCC
70374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70405 GATAGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71238 original size:11 final size:12
Alignment explanation
Indices: 71210--71244 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
71200 AACTAATTAA
71210 TATAATATAAAT
1 TATAATATAAAT
71222 TATAATA-AAAT
1 TATAATATAAAT
*
71233 TTTAATATAAAT
1 TATAATATAAAT
71245 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATATAAAT
Found at i:75710 original size:3 final size:3
Alignment explanation
Indices: 75704--75747 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
75694 TAATATTTAT
75704 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
75748 AAAAAATGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:76251 original size:112 final size:112
Alignment explanation
Indices: 75963--76736 Score: 1196
Period size: 112 Copynumber: 6.9 Consensus size: 112
75953 TAGAGTCATT
* *
75963 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
***** ****** * *
76024 TTATGAACTTTCTTTGGCGCTGTTGATCTATCAAATGATGAATTCAAG
65 TTATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
* * *
76072 CAAAGGGTTAAACAAGTTCTTCGTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAA-AGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
76137 TTATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
65 TTATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
*
76185 CAAAAGTTGAACAAGTTCTCCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
76250 TATGAACTCAAACTGGAAAAGCTAATCCATCAAATGATGAATTCAAG
66 TATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
*
76297 CAAAAGTTGATCAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
76362 TATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCAAG
66 TATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
*
76409 CAAAAGTTGAACAAGTTCTTCTTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
76474 TATGAACTCAAACTGGAAAAGCTAATCCATCAAATGATGAATTCAAA
66 TATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
*
76521 CAAAAGTTGAACAAGTTCTCCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
76586 TATGAACTCAAACTGGAAAAGCTAATCCATCAAATGATGAATTCAAG
66 TATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
76633 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
76698 TATGAACTCTACCTGGAAATACTGATCCATCAAATGATG
66 TATGAACTCAAACTGGAAAAACTAATCCATCAAATGATG
76737 GATTTGAATC
Statistics
Matches: 613, Mismatches: 47, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
109 27 0.04
110 1 0.00
111 3 0.00
112 520 0.85
113 62 0.10
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (112 bp):
CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCAAACTGGAAAAACTAATCCATCAAATGATGAATTCAAG
Found at i:76506 original size:336 final size:337
Alignment explanation
Indices: 75963--76736 Score: 1328
Period size: 336 Copynumber: 2.3 Consensus size: 337
75953 TAGAGTCATT
*
75963 CAAAAGGTTGAAT-AAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGAGTTCTTCTC
1 CAAAA-GTTG-ATCAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *** ** * *
76023 ATTATGAACT-TTCTTTGGCGCTGTTGATCTATCAAATGATGAATTCAAGCAAAGGGTTAAACAA
64 ATTATGAACTCTAC-CTGGAAATACTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACAA
*
76087 GTTCTTCGTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACT
128 GTTCTTCGTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACT
*
76152 GGAAAAACTAATCCATCAAATGATGAATTCAAGCAAAAGTTGAACAAGTTCTCCTTATTATGAAC
193 GGAAAAACTAATCCATCAAATGATGAATTCAAACAAAAGTTGAACAAGTTCTCCTTATTATGAAC
76217 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGAAAAGCTAATCCATCA
258 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGAAAAGCTAATCCATCA
76282 AATGATGAATTCAAG
323 AATGATGAATTCAAG
76297 CAAAAGTTGATCAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGATCAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
76362 TATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCAAGCAAA-AGTTGAACAAGTT
66 TATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACAAGTT
*
76426 CTTCTTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGA
131 CTTCGTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGA
*
76491 AAAGCTAATCCATCAAATGATGAATTCAAACAAAAGTTGAACAAGTTCTCCTTATTATGAACTTC
196 AAAACTAATCCATCAAATGATGAATTCAAACAAAAGTTGAACAAGTTCTCCTTATTATGAACTTC
76556 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGAAAAGCTAATCCATCAAAT
261 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGAAAAGCTAATCCATCAAAT
76621 GATGAATTCAAG
326 GATGAATTCAAG
*
76633 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGATCAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
76698 TATGAACTCTACCTGGAAATACTGATCCATCAAATGATG
66 TATGAACTCTACCTGGAAATACTGATCCATCAAATGATG
76737 GATTTGAATC
Statistics
Matches: 418, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
332 2 0.00
333 23 0.06
334 6 0.01
335 3 0.01
336 318 0.76
337 64 0.15
338 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (337 bp):
CAAAAGTTGATCAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACAAGTT
CTTCGTATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGA
AAAACTAATCCATCAAATGATGAATTCAAACAAAAGTTGAACAAGTTCTCCTTATTATGAACTTC
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGGAAAAGCTAATCCATCAAAT
GATGAATTCAAG
Found at i:77643 original size:114 final size:114
Alignment explanation
Indices: 77431--77660 Score: 363
Period size: 114 Copynumber: 2.0 Consensus size: 114
77421 TGATCATGCA
* * * * * *
77431 ATTCATCTTTTAATTCCAATGATTGGTTCTATGGTTCCTACCGAACCAGATCAGATAATTCAAAG
1 ATTCATCTTTCAAATCCAATGATTGGTTCTATGGTTCATACCAAACCAAATCAGATAACTCAAAG
*
77496 AACACTTCCAGAAGATGTTATTGGGTCTCCTTATTTCTACTATGAGCAC
66 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAC
*
77545 ATTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAG
1 ATTCATCTTTCAAATCCAATGATTGGTTCTATGGTTCATACCAAACCAAATCAGATAACTCAAAG
*
77610 AACACTTCCAGAAGATGCTATTAGGT-TCTCTTATTTCTACTATGAGCAC
66 AACACTTCCAGAAGATGCTATTGGGTCTC-CTTATTTCTACTATGAGCAC
77659 AT
1 AT
77661 GGCACTTGCT
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
113 2 0.02
114 104 0.98
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (114 bp):
ATTCATCTTTCAAATCCAATGATTGGTTCTATGGTTCATACCAAACCAAATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAC
Found at i:79030 original size:1 final size:1
Alignment explanation
Indices: 79026--79116 Score: 56
Period size: 1 Copynumber: 91.0 Consensus size: 1
79016 TTGACCCCCC
* * * * * * * * * * *
79026 TTTTTCTTTTTCTTTTTTCTTTTCTCTTTTTTCTCTTTTTCTTTTTCTTTTTCTTTTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
79091 TTTTCTTTTATTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
79117 CTTCAAGCAT
Statistics
Matches: 62, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:79036 original size:6 final size:6
Alignment explanation
Indices: 79025--79116 Score: 97
Period size: 6 Copynumber: 15.8 Consensus size: 6
79015 CTTGACCCCC
* *
79025 CTTTTT CTTTTT CTTTTT -TCTTTT CTCTTT -TTTCT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT
79072 CTTTTT CTTTTT -TTTCTT -TTTTT CTTTTAT -TTTTT CTTTTT -TTTT
1 CTTTTT CTTTTT CTTT-TT CTTTTT CTTTT-T CTTTTT CTTTTT CTTTT
79117 CTTCAAGCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
5 14 0.19
6 59 0.79
7 2 0.03
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (6 bp):
CTTTTT
Found at i:79063 original size:29 final size:28
Alignment explanation
Indices: 79026--79119 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 28
79016 TTGACCCCCC
79026 TTTT-TCTTTTTCTTTTTTCTTTTCTCTT
1 TTTTCTCTTTTTCTTTTTTCTTTTCT-TT
79054 TTTTCTCTTTTTC-TTTTTCTTTTTCTTTT
1 TTTTCTCTTTTTCTTTTTTC-TTTTC-TTT
*
79083 TTTTCTTTTTTTCTTTTATT-TTTTCTTT
1 TTTTCTCTTTTTCTTTT-TTCTTTTCTTT
*
79111 TTTTTTCTT
1 TTTTCTCTT
79120 CAAGCATAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
28 20 0.34
29 32 0.55
30 4 0.07
31 2 0.03
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (28 bp):
TTTTCTCTTTTTCTTTTTTCTTTTCTTT
Found at i:79067 original size:35 final size:34
Alignment explanation
Indices: 79025--79113 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 34
79015 CTTGACCCCC
79025 CTTTTTCTTTTTCTTTTTTCTTTTCTCTTTTTTCT
1 CTTTTTCTTTTTCTTTTTTCTTTTCTCTTTTTT-T
* *
79060 CTTTTTCTTTTTCTTTTTCTTTTTTTTCTTTTTTT
1 CTTTTTCTTTTTCTTTTT-TCTTTTCTCTTTTTTT
79095 CTTTTAT-TTTTTCTTTTTT
1 CTTTT-TCTTTTTCTTTTTT
79114 TTTCTTCAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
34 1 0.02
35 35 0.70
36 14 0.28
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (34 bp):
CTTTTTCTTTTTCTTTTTTCTTTTCTCTTTTTTT
Found at i:79114 original size:21 final size:20
Alignment explanation
Indices: 79025--79116 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 20
79015 CTTGACCCCC
79025 CTTTTTCTTTTTCTTTTTTCTT
1 CTTTTT-TTTTTCTTTTTT-TT
* *
79047 -TTCTCTTTTTTC-TCTTTTT
1 CTT-TTTTTTTTCTTTTTTTT
79066 CTTTTTCTTTTTCTTTTTTTT
1 CTTTTT-TTTTTCTTTTTTTT
*
79087 CTTTTTTTCTTT-TATTTTTT
1 CTTTTTTT-TTTCTTTTTTTT
79107 CTTTTTTTTT
1 CTTTTTTTTT
79117 CTTCAAGCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
19 6 0.10
20 29 0.48
21 23 0.38
22 2 0.03
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (20 bp):
CTTTTTTTTTTCTTTTTTTT
Found at i:86471 original size:15 final size:15
Alignment explanation
Indices: 86448--86479 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86438 TGAAATGAAT
86448 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
86463 AATGCATGTATGCAA
1 AATGAATGTATGCAA
86478 AA
1 AA
86480 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:90382 original size:18 final size:18
Alignment explanation
Indices: 90345--90383 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90335 AGCTCTTTTC
*
90345 TTTGATATTAAATATTAA
1 TTTGATATTAAATATAAA
90363 TTTGA-ATTAAATAATAAA
1 TTTGATATTAAAT-ATAAA
90381 TTT
1 TTT
90384 TTTTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
TTTGATATTAAATATAAA
Found at i:91865 original size:3 final size:3
Alignment explanation
Indices: 91859--91911 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
91849 TAATATTTAT
91859 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
91906 TAA TAA
1 TAA TAA
91912 AAAAAATGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:100785 original size:118 final size:117
Alignment explanation
Indices: 100569--100791 Score: 272
Period size: 118 Copynumber: 1.9 Consensus size: 117
100559 TAAATTTATT
* * * *
100569 AATTTATATAAATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGT
1 AATTAATATAAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGT
* *
100634 GCCTTAAGACAACTCTTTTCTTCGATATTAAAAAGTAAATAAATAATTAAAAC
66 GCCTTAAGACAACTCCTTTCTTCAATATTAAAAA-TAAATAAATAATTAAAAC
**
100687 AATTAATAT-AATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAG
1 AATTAATATAAATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCAG
* ** **
100751 TTGTTTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATA
64 GTGCCTTAAGACAACTCCTTTCTTCAATATT-AAAAATAAATA
100792 TATATATTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
117 18 0.20
118 54 0.61
119 17 0.19
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (117 bp):
AATTAATATAAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGT
GCCTTAAGACAACTCCTTTCTTCAATATTAAAAATAAATAAATAATTAAAAC
Found at i:102339 original size:3 final size:3
Alignment explanation
Indices: 102333--102406 Score: 76
Period size: 3 Copynumber: 23.7 Consensus size: 3
102323 TTTTTTTATT
** *
102333 TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TATA TTT TATT TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TA-A TAA
* *
102381 TAA TAA TAA AAA TAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
102407 GAAAAAATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 52 0.87
4 8 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:102582 original size:47 final size:45
Alignment explanation
Indices: 102513--102617 Score: 165
Period size: 47 Copynumber: 2.3 Consensus size: 45
102503 TCTTGAAATG
* *
102513 TTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAGGTTTT
1 TTGAAAACATCAAGCACTGAAGGGCTAACAGATGACCCGAAGG--CT
*
102560 TTGAAAACATCAAGCACTGAAGGGCTAACAGATGACCCTAAGGCT
1 TTGAAAACATCAAGCACTGAAGGGCTAACAGATGACCCGAAGGCT
102605 TTGAAAACATCAA
1 TTGAAAACATCAA
102618 AAAGCTCCCG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 14 0.25
47 41 0.75
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (45 bp):
TTGAAAACATCAAGCACTGAAGGGCTAACAGATGACCCGAAGGCT
Found at i:103531 original size:76 final size:76
Alignment explanation
Indices: 102548--103504 Score: 1655
Period size: 76 Copynumber: 12.6 Consensus size: 76
102538 TTACAGATGA
* * * * * *
102548 CCCGAAGGTTTTTTGAAAACATCAAGCACTGAAGGGCTAACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
102613 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
102624 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGAATTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
102689 ATCAAAAAGCG
66 ATCAAAAAGCT
*
102700 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGA-CATAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
102764 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
102775 CCCGAAGGCTTTTTGGAAACATCATCCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
102840 ATCAAAAAGCT
66 ATCAAAAAGCT
*
102851 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTAAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
102916 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
102927 CCCGAAGGCTTTTTGGAAACATTATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
102992 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
103003 CCCGAATGCTTTTTGGAATCATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
103068 ATCAAAAAGCT
66 ATCAAAAAGCT
103079 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
103144 ATCAAAAAGCT
66 ATCAAAAAGCT
*
103155 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
103220 ATTAAAAAGCT
66 ATCAAAAAGCT
103231 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
103296 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
103307 CCTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACATATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
103372 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
103383 CCCGAAGGATTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGATAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
103448 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
103459 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTATAGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
103505 TAGGAAATAG
Statistics
Matches: 834, Mismatches: 46, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
75 70 0.08
76 764 0.92
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:104357 original size:22 final size:22
Alignment explanation
Indices: 104329--104398 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
104319 CATAAAGCTT
104329 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
104351 TCATCTTTAAAAAGAGAACCTA
1 TCATCTTTGAAAAGAGAATCTA
104373 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
104395 TCAT
1 TCAT
104399 ATTTTAAGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:106792 original size:114 final size:114
Alignment explanation
Indices: 106585--106799 Score: 331
Period size: 114 Copynumber: 1.9 Consensus size: 114
106575 GCTCAAATGG
** * * *
106585 CTTTCAAATCCAATGATTGGTTTTTGGGTTCTTACCGAACCAGATCAGATAACTCAAAGAACACT
1 CTTTCAAATCCAATGATTGGTTTAAGGGTTCCTACCAAACCAAATCAGATAACTCAAAGAACACT
* * **
106650 TCCAGAAGATGCTATTGGGTTTCCTTATTTCTACTATGAGCAAATTCGT
66 TCCAGAAAATGCTATTGAGCCTCCTTATTTCTACTATGAGCAAATTCGT
*
106699 CTTTCAAATCCAATGATTGGTTTAAGGGTTCCTATCAAACCAAATCAGATAACTCAAAGAACACT
1 CTTTCAAATCCAATGATTGGTTTAAGGGTTCCTACCAAACCAAATCAGATAACTCAAAGAACACT
*
106764 TCCAGAAAATGCTATTGAGCCTCTTTATTTCTACTA
66 TCCAGAAAATGCTATTGAGCCTCCTTATTTCTACTA
106800 CGAGAACATG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (114 bp):
CTTTCAAATCCAATGATTGGTTTAAGGGTTCCTACCAAACCAAATCAGATAACTCAAAGAACACT
TCCAGAAAATGCTATTGAGCCTCCTTATTTCTACTATGAGCAAATTCGT
Found at i:108971 original size:13 final size:13
Alignment explanation
Indices: 108955--109000 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
108945 AAATTTTTTC
108955 CTTTTTTTTTCTT
1 CTTTTTTTTTCTT
108968 CTTTCTTTTTTC--
1 CTTT-TTTTTTCTT
108980 C-TTTTTTTTCTT
1 CTTTTTTTTTCTT
108992 CTTTTTTTT
1 CTTTTTTTT
109001 CCAAGCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 7 0.24
11 2 0.07
12 2 0.07
13 11 0.38
14 7 0.24
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
CTTTTTTTTTCTT
Found at i:108976 original size:12 final size:12
Alignment explanation
Indices: 108948--109001 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
108938 TTGGTTCAAA
*
108948 TTTTTTCCT-TT
1 TTTTTTCTTCTT
108959 TTTTTTCTTCTT
1 TTTTTTCTTCTT
*
108971 TCTTTTT-TCCTT
1 T-TTTTTCTTCTT
108983 TTTTTTCTTCTT
1 TTTTTTCTTCTT
108995 TTTTTTC
1 TTTTTTC
109002 CAAGCATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 13 0.35
12 19 0.51
13 5 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTCTTCTT
Found at i:108984 original size:24 final size:24
Alignment explanation
Indices: 108948--109000 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
108938 TTGGTTCAAA
108948 TTTTTTCCTTTTTTTTTCTTCTTT
1 TTTTTTCCTTTTTTTTTCTTCTTT
108972 CTTTTTTCC-TTTTTTTTCTTCTTT
1 -TTTTTTCCTTTTTTTTTCTTCTTT
108996 TTTTT
1 TTTTT
109001 CCAAGCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 5 0.18
24 15 0.54
25 8 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTTCCTTTTTTTTTCTTCTTT
Found at i:108993 original size:20 final size:22
Alignment explanation
Indices: 108959--108998 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
108949 TTTTTCCTTT
108959 TTTTTTCTTCTTTCTTTTTTCC
1 TTTTTTCTTCTTTCTTTTTTCC
108981 TTTTTT-TTC-TTCTTTTTT
1 TTTTTTCTTCTTTCTTTTTT
108999 TTCCAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTCTTTCTTTTTTCC
Found at i:114209 original size:14 final size:15
Alignment explanation
Indices: 114190--114227 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
114180 GAATAAAATA
*
114190 AATAAAAAAAT-ATT
1 AATAAAAAAATAAGT
*
114204 AATAAAATAATAAGT
1 AATAAAAAAATAAGT
114219 AATAAAAAA
1 AATAAAAAA
114228 TTTGAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAAAAAAATAAGT
Found at i:114935 original size:118 final size:117
Alignment explanation
Indices: 114732--114954 Score: 261
Period size: 118 Copynumber: 1.9 Consensus size: 117
114722 TAAATTTATT
* * * *
114732 AATTTATATAAATTTATAAATAAAATATTTATTTATTTATAAATATCAGAAAATAACTTCTAGGT
1 AATTAATATAAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATAACATCCAGGT
* *
114797 GCCTTAAGACAACTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAC
66 GCCTTAAGACAACTCCTTTCTT-AATATTAAAAAATAAATAAATAATTAAAAC
** *
114850 AATTAATAT-AATTTATAAAATAGGATATTTTTTTATTTAAAAATATCAGAAAATAGACATCCAG
1 AATTAATATAAATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAATA-ACATCCAG
* ** ** **
114914 TTGTTTTAAGACTGC-CCTTTCTTAATATTGGAAAATAAATA
64 GTGCCTTAAGACAACTCCTTTCTTAATATTAAAAAATAAATA
114955 TATATATTTA
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
117 22 0.25
118 49 0.56
119 16 0.18
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (117 bp):
AATTAATATAAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATAACATCCAGGT
GCCTTAAGACAACTCCTTTCTTAATATTAAAAAATAAATAAATAATTAAAAC
Found at i:116492 original size:3 final size:3
Alignment explanation
Indices: 116486--116551 Score: 89
Period size: 3 Copynumber: 21.7 Consensus size: 3
116476 TTTTTTTATT
*
116486 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TATA TAA TATT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A
*
116532 TAA TAA TAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
116552 GAAAAAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 49 0.88
4 5 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:116511 original size:20 final size:20
Alignment explanation
Indices: 116486--116551 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
116476 TTTTTTTATT
116486 TAATAATAATAATAATATAA
1 TAATAATAATAATAATATAA
116506 TAATAATAATAATAATAT-A
1 TAATAATAATAATAATATAA
*
116525 TAATATTTAATAATAATA-AA
1 TAATA-ATAATAATAATATAA
116545 -AATAATA
1 TAATAATA
116552 GAAAAAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.05
19 10 0.24
20 30 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAATAATAATAATATAA
Found at i:117738 original size:65 final size:64
Alignment explanation
Indices: 117537--117746 Score: 232
Period size: 65 Copynumber: 3.2 Consensus size: 64
117527 TGCACTAAGA
* * ** *
117537 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
*
117601 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGATGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
117664 AT-
63 -TG
* * *
117666 GTTCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
117730 G
64 G
*
117731 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
117747 CTTTGATAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 52 0.42
65 62 0.50
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:118837 original size:21 final size:21
Alignment explanation
Indices: 118811--118875 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
118801 CAGGAGGAGG
118811 AGGAGGAGCATGAGAAGAGCT
1 AGGAGGAGCATGAGAAGAGCT
118832 AGGAGGAGCATGAGAAGAGCT
1 AGGAGGAGCATGAGAAGAGCT
* *
118853 AGGAGCAGC-TCGTGAAGAGCT
1 AGGAGGAGCAT-GAGAAGAGCT
118874 AG
1 AG
118876 CTCCCGGAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 1 0.02
21 40 0.98
ACGTcount: A:0.35, C:0.12, G:0.42, T:0.11
Consensus pattern (21 bp):
AGGAGGAGCATGAGAAGAGCT
Found at i:120452 original size:23 final size:22
Alignment explanation
Indices: 120425--120500 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
120415 TGGCCTTGTA
120425 CATCGATGCACATTCAAGGCGTG
1 CATCGATGCACATTCAAGG-GTG
* * *
120448 CATCGGTGCACCTTC-ATGGTG
1 CATCGATGCACATTCAAGGGTG
* * *
120469 TATCGATGCATATTCAAGGATG
1 CATCGATGCACATTCAAGGGTG
120491 CATCGATGCA
1 CATCGATGCA
120501 ATGTTAGGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
21 14 0.33
22 15 0.36
23 13 0.31
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (22 bp):
CATCGATGCACATTCAAGGGTG
Done.