Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008440.1 Hibiscus syriacus cultivar Beakdansim tig00111239_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: 518054
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1295 original size:31 final size:31
Alignment explanation
Indices: 1237--1330 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
1227 GTAGGCAGAG
* * *
1237 TATCGATAGTAGTTAGTATG-AATGTTACAT
1 TATCGATACTAGCTAGTCTGAAATGTTACAT
1267 TATCGATACTAGCTAGTCTGAAATGTTACAT
1 TATCGATACTAGCTAGTCTGAAATGTTACAT
* *
1298 TATCGATACTAACTAGTCTGAAATGTTAAAT
1 TATCGATACTAGCTAGTCTGAAATGTTACAT
1329 TA
1 TA
1331 AGTTTTTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 17 0.29
31 41 0.71
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (31 bp):
TATCGATACTAGCTAGTCTGAAATGTTACAT
Found at i:1866 original size:17 final size:16
Alignment explanation
Indices: 1838--1888 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
1828 AATGATGAGA
1838 AAAAATGTTCTA-GTG
1 AAAAATGTTCTACGTG
1853 AAAAATGTGATCTACGTG
1 AAAAATGT--TCTACGTG
* *
1871 -AAACTGTCCTACGTG
1 AAAAATGTTCTACGTG
1886 AAA
1 AAA
1889 GTAAACTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 15 0.50
16 2 0.07
17 10 0.33
18 3 0.10
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (16 bp):
AAAAATGTTCTACGTG
Found at i:2114 original size:21 final size:22
Alignment explanation
Indices: 2088--2136 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
2078 GGGACAAACC
2088 TATGTGGCACTTCGGTGC-AAT
1 TATGTGGCACTTCGGTGCAAAT
2109 TATGTGGCACTTCGGTGCAAAT
1 TATGTGGCACTTCGGTGCAAAT
2131 TATGTG
1 TATGTG
2137 AGCTGTGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (22 bp):
TATGTGGCACTTCGGTGCAAAT
Found at i:3226 original size:2 final size:2
Alignment explanation
Indices: 3221--3267 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3211 CACAAGTAAC
3221 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3263 TA TA T
1 TA TA T
3268 CAACCATGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4271 original size:3 final size:3
Alignment explanation
Indices: 4263--4294 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4253 ATATTTTATG
4263 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4295 TGCCCCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9329 original size:18 final size:17
Alignment explanation
Indices: 9275--9323 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
9265 TTGGACCCTT
* *
9275 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
9293 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
9311 AGTGCATTCGATG
1 AGTGCA-TCGATG
9324 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:9494 original size:65 final size:64
Alignment explanation
Indices: 9295--9504 Score: 191
Period size: 65 Copynumber: 3.2 Consensus size: 64
9285 TGCACTAAGA
* * * *
9295 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAA--AATAGCCA-GAGTGCATTGATGCATGAC
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAT--TCATG-GTGCATCGATGCATGAT
9357 TG
63 TG
* * * *
9359 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAACATTC-TCAGTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATTA-ATTCAT-GGTGCATCGATGCATGAT
9422 AT-
63 -TG
* *
9424 ATGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGAATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA-TTAATTCATGGTGCATCGATGCATG-ATT
9488 G
64 G
*
9489 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
9505 CTCTGAAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
63 3 0.03
64 49 0.42
65 62 0.53
66 2 0.02
67 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAATTCATGGTGCATCGATGCATGATTG
Found at i:12397 original size:55 final size:55
Alignment explanation
Indices: 12304--12444 Score: 176
Period size: 55 Copynumber: 2.6 Consensus size: 55
12294 GGAGCCAGGA
*** *
12304 GTGTATCGATACATCGTCT-GTGTATCGGTACACTAATTACATTCGATGTAGGGG
1 GTGTATCGATACATCCAATAGTGTATCGGTACACAAATTACATTCGATGTAGGGG
* * *
12358 GTGTATCGATACATCCAATAGTGTATTGGTACCCAAATTACATTCGATGTTGGGG
1 GTGTATCGATACATCCAATAGTGTATCGGTACACAAATTACATTCGATGTAGGGG
* * * *
12413 GTGTATCCATACATTCAAGAGTGTATCAGTAC
1 GTGTATCGATACATCCAATAGTGTATCGGTAC
12445 CACCCTTTGT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 16 0.22
55 58 0.78
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (55 bp):
GTGTATCGATACATCCAATAGTGTATCGGTACACAAATTACATTCGATGTAGGGG
Found at i:13033 original size:51 final size:52
Alignment explanation
Indices: 12924--13157 Score: 139
Period size: 51 Copynumber: 4.9 Consensus size: 52
12914 ATTTTTATTT
* *
12924 TATTAATT-TTTATTGGAATGTGTACTTCAAAATGTATAATTTAATAATTTA
1 TATTAATTATTTATTGGAATGTGTAATTCAAAATGTATAATTTAATAATTGA
* * * * *
12975 -ATGAATTATTTATTTGATTGTGTAATTGAAAATGTATAATTTAAT-GTTGA
1 TATTAATTATTTATTGGAATGTGTAATTCAAAATGTATAATTTAATAATTGA
** * ** * *
13025 TATTAATTAAATAAT--AAAATGT-A--C-AAA--T-T-ATTT-ATATTTTA
1 TATTAATTATTTATTGGAATGTGTAATTCAAAATGTATAATTTAATAATTGA
* * *
13066 -ATTAATT-TTTATT-GAATTGTGTAGTTCAAAATTTATAATTTAATAATTTA
1 TATTAATTATTTATTGGAA-TGTGTAATTCAAAATGTATAATTTAATAATTGA
* * *
13116 -ATT-ATT-TTTATTAGATTGTGTAATTGAAAATGTATAATTTAA
1 TATTAATTATTTATTGGAATGTGTAATTCAAAATGTATAATTTAA
13158 AGTTGTACAT
Statistics
Matches: 140, Mismatches: 28, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
39 3 0.02
40 11 0.08
41 10 0.07
42 1 0.01
43 1 0.01
44 1 0.01
45 6 0.04
47 1 0.01
48 2 0.01
49 40 0.29
50 21 0.15
51 43 0.31
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (52 bp):
TATTAATTATTTATTGGAATGTGTAATTCAAAATGTATAATTTAATAATTGA
Found at i:13048 original size:140 final size:139
Alignment explanation
Indices: 12891--13162 Score: 440
Period size: 141 Copynumber: 1.9 Consensus size: 139
12881 TAATTTACAT
*
12891 TTAAATAATAAAATGTACAAATCATTTTTATTTT-ATTAATTTTTATTGGAA-TGTGTACTTCAA
1 TTAAATAATAAAATGTACAAATCATTTATATTTTAATTAATTTTTATT-GAATTGTGTACTTCAA
*
12954 AATGTATAATTTAATAATTTAATGAATTATTTATTTGATTGTGTAATTGAAAATGTATAATTTAA
65 AATGTATAATTTAATAATTTAAT-AATT-TTTATTAGATTGTGTAATTGAAAATGTATAATTTAA
*
13019 TGTTGATATTAA
128 AGTTGATATTAA
* *
13031 TTAAATAATAAAATGTACAAATTATTTATATTTTAATTAATTTTTATTGAATTGTGTAGTTCAAA
1 TTAAATAATAAAATGTACAAATCATTTATATTTTAATTAATTTTTATTGAATTGTGTACTTCAAA
* *
13096 ATTTATAATTTAATAATTTAATTATTTTTATTAGATTGTGTAATTGAAAATGTATAATTTAAAGT
66 ATGTATAATTTAATAATTTAATAATTTTTATTAGATTGTGTAATTGAAAATGTATAATTTAAAGT
13161 TG
131 TG
13163 TACATTTATT
Statistics
Matches: 123, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
139 39 0.32
140 38 0.31
141 46 0.37
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.49
Consensus pattern (139 bp):
TTAAATAATAAAATGTACAAATCATTTATATTTTAATTAATTTTTATTGAATTGTGTACTTCAAA
ATGTATAATTTAATAATTTAATAATTTTTATTAGATTGTGTAATTGAAAATGTATAATTTAAAGT
TGATATTAA
Found at i:13123 original size:49 final size:50
Alignment explanation
Indices: 13054--13157 Score: 142
Period size: 49 Copynumber: 2.1 Consensus size: 50
13044 TGTACAAATT
* * *
13054 ATTT-ATATTTTAATTAATTTTTATT-GAATTGTGTAGTTCAAAATTTATA
1 ATTTAATAATTTAATTAATTTTTATTAG-ATTGTGTAATTCAAAATGTATA
*
13103 ATTTAATAATTTAATT-ATTTTTATTAGATTGTGTAATTGAAAATGTATA
1 ATTTAATAATTTAATTAATTTTTATTAGATTGTGTAATTCAAAATGTATA
13152 ATTTAA
1 ATTTAA
13158 AGTTGTACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 38 0.78
50 11 0.22
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.53
Consensus pattern (50 bp):
ATTTAATAATTTAATTAATTTTTATTAGATTGTGTAATTCAAAATGTATA
Found at i:17433 original size:118 final size:118
Alignment explanation
Indices: 17185--17443 Score: 274
Period size: 118 Copynumber: 2.2 Consensus size: 118
17175 GTGCATTGTT
* *
17185 AGTGGTTAAAAATCTATATTTTATTTGAATACATTAAGTGTTTTCAGTGGTTAAAAGGATTGTTA
1 AGTGG-TAAAAATCTATATTTTATTTGAATACATTAAGTGTTTTCAATGGTTAAAAGGATTATTA
* * * *
17250 TTTCCCTAGAAGTCATGGACTCGAACAATTTTGTCTGAAAATATGTACGTTGTT
65 TTTCCCTAGAAGTCATGGACTCGAACAATTGTGTCTGAAAATATGCACGTTATC
* * * * *
17304 AGTGGTTAAAATATATATTTTATTTTAATTCATT-AGTGTTTTCAATGGTTAAAAGGATTATTGT
1 AGTGGTAAAAATCTATATTTTATTTGAATACATTAAGTGTTTTCAATGGTTAAAAGGATTATTAT
* ** * * * **
17368 TCTCCCTA-TAGATCAT-GAGCTCGAGTAGTTGTGTCTG-CAATGTGCGGGTTATC
66 T-TCCCTAGAAG-TCATGGA-CTCGAACAATTGTGTCTGAAAATATGCACGTTATC
17421 AGTGGTGAAAAATCTATATTTTA
1 AGTGGT-AAAAATCTATATTTTA
17444 CTTATTTTTT
Statistics
Matches: 115, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
117 47 0.41
118 63 0.55
119 5 0.04
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (118 bp):
AGTGGTAAAAATCTATATTTTATTTGAATACATTAAGTGTTTTCAATGGTTAAAAGGATTATTAT
TTCCCTAGAAGTCATGGACTCGAACAATTGTGTCTGAAAATATGCACGTTATC
Found at i:19012 original size:31 final size:30
Alignment explanation
Indices: 18977--19056 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 30
18967 ATTTAAGCAT
* *
18977 TATTTTATAATAATTTGATA-AGTTTAATGA
1 TATTTTATAATAATTTGAGACA-CTTAATGA
* *
19007 CTATTTTGTAACT-ATTTAAGACACTTAATGA
1 -TATTTTATAA-TAATTTGAGACACTTAATGA
19038 TAGTTTTATAATAATTTGA
1 TA-TTTTATAATAATTTGA
19057 AGTAATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
30 3 0.08
31 34 0.87
32 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (30 bp):
TATTTTATAATAATTTGAGACACTTAATGA
Found at i:26791 original size:78 final size:78
Alignment explanation
Indices: 26681--26843 Score: 317
Period size: 78 Copynumber: 2.1 Consensus size: 78
26671 CCCACTATAG
26681 GGTATCGATACTACCCTAGCTGAGGTATCGATACCGAAATTACATTCGATATTTCCTTAGTATCA
1 GGTATCGATACTACCCTAGCTGAGGTATCGATACCGAAATTACATTCGATATTTCCTTAGTATCA
*
26746 ATACCTCCCTTAT
66 AAACCTCCCTTAT
26759 GGTATCGATACTACCCTAGCTGAGGTATCGATACCGAAATTACATTCGATATTTCCTTAGTATCA
1 GGTATCGATACTACCCTAGCTGAGGTATCGATACCGAAATTACATTCGATATTTCCTTAGTATCA
26824 AAACCTCCCTTAT
66 AAACCTCCCTTAT
26837 GGTATCG
1 GGTATCG
26844 TTACCTATGG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (78 bp):
GGTATCGATACTACCCTAGCTGAGGTATCGATACCGAAATTACATTCGATATTTCCTTAGTATCA
AAACCTCCCTTAT
Found at i:36071 original size:2 final size:2
Alignment explanation
Indices: 36064--36135 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
36054 ATGGTATGTG
36064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36106 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36136 GTGTGTGTGT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36140 original size:2 final size:2
Alignment explanation
Indices: 36135--36161 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36125 TATATATATA
36135 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
36162 ATGCTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:36657 original size:21 final size:21
Alignment explanation
Indices: 36622--36697 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 21
36612 CAGGATATAA
* *
36622 TGGTCATTCGGGACAATACAG
1 TGGTCCTTCGAGACAATACAG
*
36643 TGCTCCTTCGAGACAATACAG
1 TGGTCCTTCGAGACAATACAG
* *
36664 TGGTCATACGAGAC-AT--AG
1 TGGTCCTTCGAGACAATACAG
36682 TGGTCCTTCGAGACAA
1 TGGTCCTTCGAGACAA
36698 ATTTCAGTGC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 14 0.30
19 1 0.02
20 2 0.04
21 29 0.63
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (21 bp):
TGGTCCTTCGAGACAATACAG
Found at i:36685 original size:18 final size:18
Alignment explanation
Indices: 36662--36696 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36652 GAGACAATAC
36662 AGTGGTCATACGAGACAT
1 AGTGGTCATACGAGACAT
* *
36680 AGTGGTCCTTCGAGACA
1 AGTGGTCATACGAGACA
36697 AATTTCAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (18 bp):
AGTGGTCATACGAGACAT
Found at i:50215 original size:12 final size:12
Alignment explanation
Indices: 50174--50206 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
50164 ACATATCATT
50174 TCATTATTCTTA
1 TCATTATTCTTA
*
50186 TTATTATTCTTA
1 TCATTATTCTTA
50198 TCATTATTC
1 TCATTATTC
50207 ATATGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (12 bp):
TCATTATTCTTA
Found at i:52181 original size:15 final size:15
Alignment explanation
Indices: 52161--52190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52151 ATACCTCCCT
52161 TATGGTATCGCTACC
1 TATGGTATCGCTACC
*
52176 TATGGTATCGGTACC
1 TATGGTATCGCTACC
52191 ACCTTCCCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (15 bp):
TATGGTATCGCTACC
Found at i:62216 original size:16 final size:16
Alignment explanation
Indices: 62195--62243 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
62185 TAATAAATAA
*
62195 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
*
62211 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
62227 ACGATCATAAACGAAC
1 ACGAACATAAACGAAC
62243 A
1 A
62244 TAAACGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.57, C:0.22, G:0.10, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:66545 original size:2 final size:2
Alignment explanation
Indices: 66513--66638 Score: 200
Period size: 2 Copynumber: 63.5 Consensus size: 2
66503 CCATGGAAAC
* * * * *
66513 TA TA TA CA TA TG TA TG TA TG TA TA TA CA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66596 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66638 T
1 T
66639 GAGAGAGAGA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
1 1 0.01
2 112 0.99
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:67008 original size:3 final size:3
Alignment explanation
Indices: 67002--67055 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
66992 TTTACCCATT
* * *
67002 TTA TTA TTA TTA TAA TTA TAA TTA TTA TAA TTA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
67047 TTA TTA TTA
1 TTA TTA TTA
67056 AAAAAATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:68467 original size:17 final size:16
Alignment explanation
Indices: 68428--68468 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
68418 TTATATAGTC
68428 ATATA-AAT-ATAAAT
1 ATATATAATAATAAAT
68442 ATATATAATAATAAAT
1 ATATATAATAATAAAT
*
68458 AATATTTAATA
1 -ATATATAATA
68469 TTTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 6 0.26
17 9 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATATAATAATAAAT
Found at i:68492 original size:23 final size:24
Alignment explanation
Indices: 68452--68499 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
68442 ATATATAATA
*
68452 ATAAATAATATTTAATATTTTTTT
1 ATAAATAATATTTAATATTTATTT
*
68476 ATAAATTAT-TTTAATATTTATTT
1 ATAAATAATATTTAATATTTATTT
68499 A
1 A
68500 CTTATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATAAATAATATTTAATATTTATTT
Found at i:68715 original size:26 final size:26
Alignment explanation
Indices: 68654--68715 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
68644 TATATTTTTA
* *
68654 AATAAATAAATATTTTATTTATAAAT
1 AATAAATTAATATTTTATTTAGAAAT
*
68680 ATATAAATTAATATTTT-TTTCGAAAT
1 A-ATAAATTAATATTTTATTTAGAAAT
68706 AATAAGATTA
1 AATAA-ATTA
68716 TAAATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 4 0.13
26 13 0.42
27 14 0.45
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
AATAAATTAATATTTTATTTAGAAAT
Found at i:69221 original size:29 final size:27
Alignment explanation
Indices: 69139--69222 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
69129 AAATTAAAAA
* *
69139 TTCATATATTTAATTTATAATTTTTTCTT
1 TTCATATATTT-ATATAT-ATTTTTTATT
* * *
69168 TTCATAT-TTTTTATATACTTATTATT
1 TTCATATATTTATATATATTTTTTATT
69194 TTCATAGTATTTATATATATTTTCTTATT
1 TTCATA-TATTTATATATATTTT-TTATT
69223 AATATTTCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 13 0.30
27 5 0.11
28 14 0.32
29 12 0.27
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (27 bp):
TTCATATATTTATATATATTTTTTATT
Found at i:72534 original size:15 final size:15
Alignment explanation
Indices: 72514--72545 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
72504 ATCAATACCT
72514 TTTTGCATACATACA
1 TTTTGCATACATACA
*
72529 TTTTGCATACATTCA
1 TTTTGCATACATACA
72544 TT
1 TT
72546 ATTCATTTCA
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:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:79906 original size:11 final size:11
Alignment explanation
Indices: 79890--79941 Score: 79
Period size: 11 Copynumber: 4.7 Consensus size: 11
79880 ATGCTTGAAG
79890 AAAAGAAAGAA
1 AAAAGAAAGAA
79901 AAAAGAAAGAA
1 AAAAGAAAGAA
79912 AAAA-AAAGAAA
1 AAAAGAAAG-AA
*
79923 AAAAAAAAGAA
1 AAAAGAAAGAA
79934 AAAAGAAA
1 AAAAGAAA
79942 AAAGGGGGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
10 4 0.11
11 30 0.79
12 4 0.11
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:79907 original size:7 final size:7
Alignment explanation
Indices: 79895--79945 Score: 72
Period size: 7 Copynumber: 7.6 Consensus size: 7
79885 TGAAGAAAAG
79895 AAAGAAA
1 AAAGAAA
79902 AAAGAAA
1 AAAGAAA
79909 GAAA-AAA
1 -AAAGAAA
79916 AAAG-AA
1 AAAGAAA
79922 AAA-AAA
1 AAAGAAA
79928 AAAGAAA
1 AAAGAAA
79935 AAAGAAA
1 AAAGAAA
79942 AAAG
1 AAAG
79946 GGGGGTCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 13 0.32
7 24 0.60
8 3 0.08
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:81099 original size:93 final size:93
Alignment explanation
Indices: 80940--81414 Score: 756
Period size: 93 Copynumber: 5.1 Consensus size: 93
80930 ACAAGTGTCG
**
80940 TGTGCTCATAGCATCTTCTGGAAGCATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
81005 AAACCAATCATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
* *
81033 TGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
81098 AAACCAATCATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
** *
81126 TGTGCTCATAGCATCTTCTAAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
81191 AAACCAATCATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
81219 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
* * * * * * *
81284 AACCCCATCATTGGACTTGAAAAATGAG
66 AAACCAATCATTGAATTTGGAAGATGAA
* *
81312 TATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-ACCAC
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCA-
* *
81376 AGAACCAATCATTGAA-TTGAAAGATGAA
65 AAAACCAATCATTGAATTTGGAAGATGAA
*
81404 TGTGATCATAG
1 TGTGCTCATAG
81415 TAGAAATAAG
Statistics
Matches: 354, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
92 22 0.06
93 332 0.94
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
AAACCAATCATTGAATTTGGAAGATGAA
Found at i:81732 original size:113 final size:111
Alignment explanation
Indices: 81503--82097 Score: 695
Period size: 113 Copynumber: 5.3 Consensus size: 111
81493 CCAATCATTG
* *
81503 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGA-AGATCAGA-T
1 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA-ACT
*
81566 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
65 TTTCCAG--AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
* * * * * * *
81615 GAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACAT
1 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTT
* *
81680 TGCCAAGTAGAGTTCATAAAGAGAAGAACTCATCTGAAGAAGGAAGAA
66 TTCC-AG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
81728 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTT
1 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTT
*
81793 TTCCAGTTTGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
66 TTCCAG--AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
* **
81841 GAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGTTT
1 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTT
**
81906 TTCCAGAGAAGTTCATAATGAGAAGAACTCATCAT-CTGAA-GAAGAA
66 TTCCAGAG-AGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAA
* * ** * * * ** *
81952 AAAGTTCACAATGAGAAGAGCTTATTCAACATTTTTGCAT-AATTTTATCAC---A-GCATCAAC
1 GAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTGC-TCAAATCCATCACTTGATGGATCAAC
* * *
82012 CTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAA
64 TTTTCCAGAG--AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
** *
82062 GAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
1 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
82098 AATGACTCTA
Statistics
Matches: 426, Mismatches: 46, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
108 15 0.04
109 33 0.08
110 33 0.08
111 32 0.08
112 95 0.22
113 216 0.51
114 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (111 bp):
GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACTT
TTCCAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
Found at i:82320 original size:3 final size:3
Alignment explanation
Indices: 82314--82364 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
82304 TTTACCCATT
* *
82314 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA -TA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
82359 TTA TTA
1 TTA TTA
82365 AAAATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:82331 original size:12 final size:12
Alignment explanation
Indices: 82316--82362 Score: 78
Period size: 12 Copynumber: 3.9 Consensus size: 12
82306 TACCCATTTT
82316 ATTATTATTATA
1 ATTATTATTATA
82328 ATTATTATTATA
1 ATTATTATTATA
82340 ATTATTA-TATA
1 ATTATTATTATA
82351 TATTATTATTAT
1 -ATTATTATTAT
82363 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.12
12 26 0.79
13 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:83627 original size:27 final size:27
Alignment explanation
Indices: 83597--83665 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
83587 TATTTAATTT
83597 TATTATAATTTATTCACTAATTTTAAA
1 TATTATAATTTATTCACTAATTTTAAA
* * * **
83624 TATTTTCATTTATTTTACTGCTTTTAAA
1 TATTATAATTTA-TTCACTAATTTTAAA
83652 TA-TATAATTGTATT
1 TATTATAATT-TATT
83666 TTTATTGTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
27 17 0.52
28 16 0.48
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (27 bp):
TATTATAATTTATTCACTAATTTTAAA
Found at i:84002 original size:26 final size:26
Alignment explanation
Indices: 83941--84002 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
83931 TATATTTTTA
* *
83941 AATAAATAAATATTTTATTTATAAAT
1 AATAAATTAATATTTTATTTAGAAAT
*
83967 ATATAAATTAATATTTT-TTTCGAAAT
1 A-ATAAATTAATATTTTATTTAGAAAT
83993 AATAAGATTA
1 AATAA-ATTA
84003 TAAATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 4 0.13
26 13 0.42
27 14 0.45
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
AATAAATTAATATTTTATTTAGAAAT
Found at i:87884 original size:23 final size:23
Alignment explanation
Indices: 87852--87917 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
87842 ATATAGAATA
87852 TCCCGAAGGACCACGTAGAAATG
1 TCCCGAAGGACCACGTAGAAATG
*
87875 TCCC-AGAGGACCACGTAGAATTG
1 TCCCGA-AGGACCACGTAGAAATG
*
87898 TCCCGAAGGACCGCGTAGAA
1 TCCCGAAGGACCACGTAGAA
87918 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.03
23 37 0.95
24 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.14
Consensus pattern (23 bp):
TCCCGAAGGACCACGTAGAAATG
Found at i:88800 original size:35 final size:35
Alignment explanation
Indices: 88754--88823 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
88744 CACTCTAAAA
88754 ATGGTACCGATACTTAT-A-TATTGGTATCGATACCC
1 ATGGTACCGATAC-TATCACT-TTGGTATCGATACCC
88789 ATGGTACCGATACTATCACTTTGGTATCGATACCC
1 ATGGTACCGATACTATCACTTTGGTATCGATACCC
88824 TATGAAGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 3 0.09
35 29 0.88
36 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (35 bp):
ATGGTACCGATACTATCACTTTGGTATCGATACCC
Found at i:90643 original size:35 final size:34
Alignment explanation
Indices: 90564--90643 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 34
90554 TGCCAGAAGG
* * *
90564 TAATATTTCTATTTGGTTTTGATTTAAAATCTTAA
1 TAATATTT-TATTTGATTTTGATTAAAAATATTAA
*
90599 TTATAATTTTATTT-ATTTTGATTAAAAATAATTAA
1 TAAT-ATTTTATTTGATTTTGATTAAAAAT-ATTAA
90634 TGAATATTTT
1 T-AATATTTT
90644 TTAATTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
34 13 0.35
35 18 0.49
36 6 0.16
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (34 bp):
TAATATTTTATTTGATTTTGATTAAAAATATTAA
Found at i:92059 original size:20 final size:20
Alignment explanation
Indices: 92034--92071 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
92024 AATTGATCCC
*
92034 CAACGGCTCCAAACAACCTT
1 CAACGGCTACAAACAACCTT
*
92054 CAACGGCTAGAAACAACC
1 CAACGGCTACAAACAACC
92072 ACAACAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.37, G:0.13, T:0.11
Consensus pattern (20 bp):
CAACGGCTACAAACAACCTT
Found at i:93815 original size:19 final size:19
Alignment explanation
Indices: 93779--93815 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93769 TGAAAATGAT
*
93779 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
93798 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
93816 AAGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:100269 original size:19 final size:20
Alignment explanation
Indices: 100233--100270 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100223 CTCTAAATCA
**
100233 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATTAAATTTTG
100253 TTTTTCAAAA-TAAATTTT
1 TTTTTCAAAATTAAATTTT
100271 TGCTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCAAAATTAAATTTTG
Found at i:102083 original size:20 final size:21
Alignment explanation
Indices: 102053--102092 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
102043 AGCCGTTAGA
102053 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
102074 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
102093 CTATGTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:118304 original size:11 final size:11
Alignment explanation
Indices: 118288--118325 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
118278 TTTAAGCTAC
118288 CTTAAGTTTTT
1 CTTAAGTTTTT
*
118299 CTTAAG-CTTT
1 CTTAAGTTTTT
118309 CTTAAGTTTTT
1 CTTAAGTTTTT
118320 CTTAAG
1 CTTAAG
118326 CTTTCTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (11 bp):
CTTAAGTTTTT
Found at i:118309 original size:10 final size:10
Alignment explanation
Indices: 118296--118333 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
118286 ACCTTAAGTT
118296 TTTCTTAAGC
1 TTTCTTAAGC
*
118306 TTTCTTAAGTT
1 TTTCTTAAG-C
118317 TTTCTTAAGC
1 TTTCTTAAGC
118327 TTTCTTA
1 TTTCTTA
118334 TCACTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (10 bp):
TTTCTTAAGC
Found at i:118328 original size:21 final size:21
Alignment explanation
Indices: 118279--118333 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
118269 TATTTGAGTT
**
118279 TTAAGCTACCTTAAGTTTTTC
1 TTAAGCTTTCTTAAGTTTTTC
118300 TTAAGCTTTCTTAAGTTTTTC
1 TTAAGCTTTCTTAAGTTTTTC
118321 TTAAGCTTTCTTA
1 TTAAGCTTTCTTA
118334 TCACTCCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (21 bp):
TTAAGCTTTCTTAAGTTTTTC
Found at i:122397 original size:85 final size:85
Alignment explanation
Indices: 122308--122575 Score: 347
Period size: 85 Copynumber: 3.2 Consensus size: 85
122298 TCTAGATTTA
* *
122308 AGCTATACTGTAAATTTGACATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGAC
1 AGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGAC
*
122373 ATATAGCCCTTTTCGCCTTG
66 ATATAGCCCTTCTCGCCTTG
* *** * * **
122393 AGCTATGCTACGAATTTGATATGCCTTTGATCTGAATGCAATCGAACTCGAAGGTCTTTGCTGAC
1 AGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGAC
*
122458 ATATAACCCTTCTCGCCTTG
66 ATATAGCCCTTCTCGCCTTG
** * * * * * *
122478 ATTTATACTGTAAATTTGATAGGCATTTGAGCTAAATGTAATTGAACTCGAAGGTCTTTATTGAT
1 AGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGAC
*
122543 AGATAGCCCTTCTCGCCTTG
66 ATATAGCCCTTCTCGCCTTG
122563 AGCTATACTGTAA
1 AGCTATACTGTAA
122576 TAGGCTGGTA
Statistics
Matches: 152, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 152 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (85 bp):
AGCTATACTGTAAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGAC
ATATAGCCCTTCTCGCCTTG
Found at i:122977 original size:156 final size:156
Alignment explanation
Indices: 122693--122994 Score: 532
Period size: 156 Copynumber: 1.9 Consensus size: 156
122683 GCTCATTCAC
*
122693 TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTGTGTAAGTT
1 TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTATGTAAGTT
* * * *
122758 GCATTGTTTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAATGAAACTGGAAAG
66 ACATTGTTTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCCGAACGAAACGGGAAAG
122823 TTGTTTGTTGATAGACGCTCCTTCGT
131 TTGTTTGTTGATAGACGCTCCTTCGT
* *
122849 TGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTATGAAGTTGAAATCTAATCTTATGTAAGTT
1 TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTATGTAAGTT
*
122914 ACATTGTTTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAACGAAACGGGAAAG
66 ACATTGTTTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCCGAACGAAACGGGAAAG
122979 TTGTTTGTTGATAGAC
131 TTGTTTGTTGATAGAC
122995 AATTTTTCTC
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
156 138 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (156 bp):
TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTATGTAAGTT
ACATTGTTTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCCGAACGAAACGGGAAAG
TTGTTTGTTGATAGACGCTCCTTCGT
Found at i:124521 original size:100 final size:98
Alignment explanation
Indices: 124274--124538 Score: 327
Period size: 100 Copynumber: 2.7 Consensus size: 98
124264 GGCTAACTGG
* * *
124274 ATCCATAAAGCCGGGGTGTTTAACCAATTACTCTAGAGGGATAGCTCAA--TATCATTGCATATA
1 ATCCATAAAG-CGGGGAGTTTAACCAATTACTCTAGAGGGATAGCTCAAGCT-TTATTGTATATA
124337 TATTATAATCACCTTTATAAGGCTAGATAAATATT
64 TATTATAATCACCTTTATAAGGCTAGATAAATATT
* * * * * *
124372 ATTCATAAAGCAGGGGCGTTTAACAAATTTCTCTAGATGGATAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGC-GGGGAGTTTAACCAATTACTCTAGAGGGATAGCTCAAGCTTTATTGTATATAT
* * * * *
124437 TTTATAATCACCTTTATTAGGCTTAGCTGAATCTT
65 ATTATAATCACCTTTATAAGGC-TAGATAAATATT
* *
124472 ATCCATAAAGTCGGGGAGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATATAT
1 ATCCATAAAG-CGGGGAGTTTAACCAATTACTCTAGAGGGATAGCTCAAGCTTTATTGTATATAT
124537 AT
65 AT
124539 GATATTATAA
Statistics
Matches: 141, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
97 1 0.01
98 41 0.29
99 31 0.22
100 67 0.48
101 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (98 bp):
ATCCATAAAGCGGGGAGTTTAACCAATTACTCTAGAGGGATAGCTCAAGCTTTATTGTATATATA
TTATAATCACCTTTATAAGGCTAGATAAATATT
Found at i:139080 original size:24 final size:24
Alignment explanation
Indices: 139053--139102 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
139043 TGGTGGTTGA
139053 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
139077 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
139101 TT
1 TT
139103 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:145993 original size:19 final size:21
Alignment explanation
Indices: 145956--145998 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
145946 TAACTTTTTC
*
145956 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
145976 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
145996 TTT
1 TTT
145999 ATTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:149322 original size:24 final size:24
Alignment explanation
Indices: 149295--149344 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
149285 TGGTGGTTGA
149295 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
149319 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
149343 TT
1 TT
149345 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:153670 original size:16 final size:17
Alignment explanation
Indices: 153649--153691 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
153639 AGAAAATAAC
153649 AAAAAAATGTTAAAA-G
1 AAAAAAATGTTAAAATG
153665 AAAAAAATG--AAAATG
1 AAAAAAATGTTAAAATG
153680 AAGAAAAATGTT
1 AA-AAAAATGTT
153692 CAGTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.17
15 3 0.13
16 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (17 bp):
AAAAAAATGTTAAAATG
Found at i:153792 original size:2 final size:2
Alignment explanation
Indices: 153785--153821 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
153775 TTAAAATTAA
* *
153785 AT AT AT AT AC AT AT AT AT AC 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
153822 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:153800 original size:10 final size:10
Alignment explanation
Indices: 153785--153821 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
153775 TTAAAATTAA
153785 ATATATATAC
1 ATATATATAC
153795 ATATATATAC
1 ATATATATAC
*
153805 ATATATATAT
1 ATATATATAC
153815 ATATATA
1 ATATATA
153822 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATAC
Found at i:163154 original size:20 final size:19
Alignment explanation
Indices: 163108--163156 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
163098 ATGACCAACA
* *
163108 AATTCGCAACGCGATCTCG
1 AATTCGCAACGCGAACTCC
163127 AATTCGCAACGCGAACTCC
1 AATTCGCAACGCGAACTCC
163146 AATTTCGCAAC
1 AA-TTCGCAAC
163157 TCAGTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (19 bp):
AATTCGCAACGCGAACTCC
Found at i:163232 original size:20 final size:21
Alignment explanation
Indices: 163194--163232 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
163184 GTAAATCGCA
*
163194 TTGCGATTTTACGAATTCGAG
1 TTGCGATTTTACAAATTCGAG
163215 TTGCGATTTT-CAAATTCG
1 TTGCGATTTTACAAATTCG
163233 CAAAGCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (21 bp):
TTGCGATTTTACAAATTCGAG
Found at i:163276 original size:20 final size:20
Alignment explanation
Indices: 163230--163276 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
163220 ATTTTCAAAT
*
163230 TCGCAAAGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
*
163250 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
163270 TCGCAAC
1 TCGCAAC
163277 AAAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:163308 original size:20 final size:20
Alignment explanation
Indices: 163285--163376 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
163275 ACAAAGAAGT
*
163285 CAAATTCGCAAAGCGATTTC
1 CAAATTCGCAAAGCGATTTA
* * *
163305 CAAATGCGCAACGTGATTTA
1 CAAATTCGCAAAGCGATTTA
*** *
163325 CAAATTCGCGTTGCAATTTA
1 CAAATTCGCAAAGCGATTTA
*
163345 CAAATTCGCAAAACTGAATTT-
1 CAAATTCGCAAAGC-G-ATTTA
163366 CAAATTCGCAA
1 CAAATTCGCAA
163377 CTCGATTTCT
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 40 0.73
21 11 0.20
22 4 0.07
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAAAGCGATTTA
Found at i:163410 original size:20 final size:19
Alignment explanation
Indices: 163362--163417 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
163352 GCAAAACTGA
*
163362 ATTTCAAATTCGCAACTCG
1 ATTTCGAATTCGCAACTCG
*
163381 ATTTCTGAATTTGCAACTCGG
1 ATTTC-GAATTCGCAACTC-G
*
163402 TTTTCGAATTCGCAAC
1 ATTTCGAATTCGCAAC
163418 ACGAATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 5 0.16
20 21 0.68
21 5 0.16
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (19 bp):
ATTTCGAATTCGCAACTCG
Found at i:163433 original size:20 final size:19
Alignment explanation
Indices: 163370--163457 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 19
163360 GAATTTCAAA
*
163370 TTCGCAACTCGATTTCTGAAT
1 TTCGCAACACGATTT-T-AAT
* *
163391 TT-GCAACTCGGTTTTCGAA-
1 TTCGCAACACGATTTT--AAT
163410 TTCGCAACACGAATTTTAAT
1 TTCGCAACACG-ATTTTAAT
* *
163430 TTCGCAACA-GGTTTTATT
1 TTCGCAACACGATTTTAAT
163448 TTCGCAACAC
1 TTCGCAACAC
163458 AAATGTTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
18 15 0.26
19 6 0.11
20 30 0.53
21 6 0.11
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (19 bp):
TTCGCAACACGATTTTAAT
Found at i:163615 original size:16 final size:16
Alignment explanation
Indices: 163594--163633 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
163584 TCCCCATCTC
*
163594 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
* *
163610 TAATTTTATTTCTATA
1 TAATTTTTTTTCTACA
163626 TAATTTTT
1 TAATTTTT
163634 CAATTATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:164249 original size:12 final size:12
Alignment explanation
Indices: 164228--164261 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
164218 ACCACATTTC
*
164228 CAATACCAAACA
1 CAATATCAAACA
164240 CAATATCAAACA
1 CAATATCAAACA
*
164252 CAATCTCAAA
1 CAATATCAAA
164262 ACCACAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:164418 original size:24 final size:24
Alignment explanation
Indices: 164386--164439 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
164376 GTATTCGAAA
*
164386 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
164410 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
164434 TTTGAT
1 TTTGAT
164440 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:164625 original size:3 final size:3
Alignment explanation
Indices: 164617--164641 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
164607 ATATAACCCT
164617 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
164642 TCCCCGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:167054 original size:63 final size:63
Alignment explanation
Indices: 166987--167118 Score: 192
Period size: 63 Copynumber: 2.1 Consensus size: 63
166977 AAAATCGCAA
* * * * ** * *
166987 TGCGAATTTGACTTTCGCAACAATCGCAACGCGAAAATTGCAACGTGGATTTTACTTTCGCGT
1 TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTCGCGT
167050 TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTCGCGT
1 TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTCGCGT
167113 TGCGAA
1 TGCGAA
167119 AGTGTACCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (63 bp):
TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTCGCGT
Found at i:167227 original size:25 final size:25
Alignment explanation
Indices: 167189--167263 Score: 141
Period size: 25 Copynumber: 3.0 Consensus size: 25
167179 AAATCAATTA
*
167189 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
167214 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
167239 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
167264 GAAAATAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:167257 original size:14 final size:13
Alignment explanation
Indices: 167190--167264 Score: 50
Period size: 14 Copynumber: 5.8 Consensus size: 13
167180 AATCAATTAA
167190 ACATTGTTGTGGGT
1 ACATTGTT-TGGGT
* *
167204 ACATTATTT--GA
1 ACATTGTTTGGGT
167215 ACATTGTTATGGGT
1 ACATTGTT-TGGGT
* *
167229 ACATTATTT--GA
1 ACATTGTTTGGGT
167240 ACATTGTTATGGGT
1 ACATTGTT-TGGGT
*
167254 ACATTATTTGG
1 ACATTGTTTGG
167265 AAAATAATGT
Statistics
Matches: 46, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
11 16 0.35
12 2 0.04
13 5 0.11
14 23 0.50
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (13 bp):
ACATTGTTTGGGT
Found at i:167599 original size:18 final size:18
Alignment explanation
Indices: 167578--167614 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
167568 GTAATTGGAG
167578 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
167596 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
167614 T
1 T
167615 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:167621 original size:24 final size:24
Alignment explanation
Indices: 167570--167622 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
167560 TTTCATATGT
* * *
167570 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
167594 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
167618 AATTT
1 AATTT
167623 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:168809 original size:18 final size:18
Alignment explanation
Indices: 168786--168821 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
168776 AAGCAAAAGG
*
168786 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
168804 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
168822 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:169026 original size:29 final size:29
Alignment explanation
Indices: 168993--169048 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
168983 AGATTTTTTG
168993 TTGCGATTGTTGCGAAAGTCAAATTCGTA
1 TTGCGATTGTTGCGAAAGTCAAATTCGTA
169022 TTGCGATTGTTGCGAAAGTCAAATTCG
1 TTGCGATTGTTGCGAAAGTCAAATTCG
169049 AAACGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (29 bp):
TTGCGATTGTTGCGAAAGTCAAATTCGTA
Found at i:169097 original size:20 final size:20
Alignment explanation
Indices: 169072--169131 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
169062 CAATGTGAAA
169072 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
169092 ATCGCAACGCGGATTTGACT
1 ATCGCAACGCGAATTTGACT
* ***
169112 TTCGCGTTGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
169132 TTTGCGTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:169132 original size:20 final size:20
Alignment explanation
Indices: 169080--169144 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
169070 AAATCGCAAC
* ***
169080 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTTTCGCGTT
*
169100 GCGGATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
*
169120 GCGAATTTGACTTTTGCGTT
1 GCGAATTTGACTTTCGCGTT
169140 GCGAA
1 GCGAA
169145 AGTGTACCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTT
Found at i:169312 original size:64 final size:64
Alignment explanation
Indices: 169204--169340 Score: 220
Period size: 64 Copynumber: 2.1 Consensus size: 64
169194 ATTTAAAACA
*
169204 ACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAACAAGTCAACTTTT
1 ACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
*** * *
169268 ACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAACAAATCAACTTTT
1 ACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
169332 ACAAATCAA
1 ACAAATCAA
169341 CTTTTACAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.28
Consensus pattern (64 bp):
ACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
Found at i:169337 original size:14 final size:14
Alignment explanation
Indices: 169318--169351 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
169308 CATCAATTAA
169318 ACAAATCAACTTTT
1 ACAAATCAACTTTT
169332 ACAAATCAACTTTT
1 ACAAATCAACTTTT
169346 ACAAAT
1 ACAAAT
169352 ACATCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:170728 original size:21 final size:21
Alignment explanation
Indices: 170714--170773 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
170704 GAACGGTGGG
170714 AGGGACCTCTTGAACGATGAC
1 AGGGACCTCTTGAACGATGAC
* * *
170735 AGGGGCCTCTTGAAGGATGATA
1 AGGGACCTCTTGAACGATGA-C
170757 AGGG-CCTCTTGAACGAT
1 AGGGACCTCTTGAACGAT
170774 AGGAGAGGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 30 0.88
22 4 0.12
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (21 bp):
AGGGACCTCTTGAACGATGAC
Found at i:170788 original size:42 final size:43
Alignment explanation
Indices: 170714--170796 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
170704 GAACGGTGGG
*
170714 AGGGACCTCTTGAACGATGACAGGGGCCTCTTGAAGGATGATA
1 AGGGACCTCTTGAACGATGACAGAGGCCTCTTGAAGGATGATA
* * *
170757 AGGG-CCTCTTGAACGAT-AGGAGAGGCTTCTTGAATGATGA
1 AGGGACCTCTTGAACGATGA-CAGAGGCCTCTTGAAGGATGA
170797 CAGGTGAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.03
42 30 0.86
43 4 0.11
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.23
Consensus pattern (43 bp):
AGGGACCTCTTGAACGATGACAGAGGCCTCTTGAAGGATGATA
Found at i:171114 original size:42 final size:41
Alignment explanation
Indices: 171068--171148 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 41
171058 AGCGGCTACC
**
171068 TCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTG
1 TCATCACGTAAAACAGATACCTCACCACGTAAAG-ACCATTG
***
171110 TCATCACGTAAAACCTCTACCTCACCACGTAAAGACCAT
1 TCATCACGTAAAACAGATACCTCACCACGTAAAGACCAT
171149 ACCTCATCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 5 0.15
42 29 0.85
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.21
Consensus pattern (41 bp):
TCATCACGTAAAACAGATACCTCACCACGTAAAGACCATTG
Found at i:171132 original size:63 final size:63
Alignment explanation
Indices: 171063--171184 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
171053 CGTAGAGCGG
* * *
171063 CTACCTCATCACGTAAAGTA-GATACCTCACCACGTAAAGCACCATTGTCATCACGTAAAACCT
1 CTACCTCACCACGTAAAG-ACCATACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCT
* * * *
171126 CTACCTCACCACGTAAAGACCATACCTCATCACGCCATGCACCATTGTCTTCACGTAAA
1 CTACCTCACCACGTAAAGACCATACCTCACCACGCAAAGCACCATTGTCATCACGTAAA
171185 GTACCGACCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 1 0.02
63 50 0.98
ACGTcount: A:0.33, C:0.34, G:0.11, T:0.22
Consensus pattern (63 bp):
CTACCTCACCACGTAAAGACCATACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCT
Found at i:171138 original size:21 final size:21
Alignment explanation
Indices: 171064--171159 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
171054 GTAGAGCGGC
* *
171064 TACCTCATCACGTAAAGTA-GA
1 TACCTCACCACGTAAAG-ACCA
171085 TACCTCACCACGTAAAGCACCA
1 TACCTCACCACGTAAAG-ACCA
** * *
171107 T-TGTCATCACGTAAA-ACCTC
1 TACCTCACCACGTAAAGACC-A
171127 TACCTCACCACGTAAAGACCA
1 TACCTCACCACGTAAAGACCA
*
171148 TACCTCATCACG
1 TACCTCACCACG
171160 CCATGCACCA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 3 0.05
20 1 0.02
21 50 0.85
22 5 0.08
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.21
Consensus pattern (21 bp):
TACCTCACCACGTAAAGACCA
Found at i:171202 original size:63 final size:63
Alignment explanation
Indices: 171065--171204 Score: 144
Period size: 63 Copynumber: 2.2 Consensus size: 63
171055 TAGAGCGGCT
* * * *
171065 ACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCACGTAAAACCTCT
1 ACCTCCTCACGTAAAGTACATACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCTCG
* * * *
171128 ACCTCAC-CACGTAAAG-ACCATACCTCATCACGCCATGCACCATTGTCTTCACGTAAAGTA-C-
1 ACCTC-CTCACGTAAAGTA-CATACCTCACCACGCAAAGCACCATTGTCATCACGTAAA--ACCT
171189 CG
62 CG
171191 ACCTCCTCACGTAA
1 ACCTCCTCACGTAA
171205 CTCCCCTAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
62 2 0.03
63 60 0.94
64 1 0.02
65 1 0.02
ACGTcount: A:0.32, C:0.35, G:0.11, T:0.21
Consensus pattern (63 bp):
ACCTCCTCACGTAAAGTACATACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCTCG
Found at i:172316 original size:21 final size:21
Alignment explanation
Indices: 172290--172334 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
172280 GATTTCTGGG
* *
172290 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
172311 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
172332 CAA
1 CAA
172335 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:174088 original size:23 final size:22
Alignment explanation
Indices: 174029--174095 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
174019 TATGGACATC
*
174029 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
174051 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
174073 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
174096 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:177196 original size:21 final size:21
Alignment explanation
Indices: 177170--177214 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
177160 GATTTCTGGG
* *
177170 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
177191 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
177212 CAA
1 CAA
177215 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:178974 original size:23 final size:22
Alignment explanation
Indices: 178915--178981 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
178905 TATGGACATC
*
178915 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
178937 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
178959 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
178982 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:181330 original size:22 final size:22
Alignment explanation
Indices: 181303--181382 Score: 142
Period size: 22 Copynumber: 3.6 Consensus size: 22
181293 GAGATAGATA
181303 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCGGAGATGGGGACG
181325 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCGGAGATGGGGACG
181347 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCGGAGATGGGGACG
* *
181369 GATGTCGCCGGAGA
1 GATTTCGTCGGAGA
181383 GAGTGAGAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.19, C:0.15, G:0.45, T:0.21
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACG
Found at i:181551 original size:20 final size:20
Alignment explanation
Indices: 181526--181574 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
181516 TAAACGCGCT
181526 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
181546 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
181566 CTGCGAATT
1 TTGCGAATT
181575 ACGGATTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:181590 original size:20 final size:20
Alignment explanation
Indices: 181567--181621 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
181557 ACTTCTGTGC
* *
181567 TGCGAATTACGGATTCACGT
1 TGCGATTTACAGATTCACGT
*
181587 TGCGATTTACAGATTCGCGT
1 TGCGATTTACAGATTCACGT
181607 TGCGATTTACAGATT
1 TGCGATTTACAGATT
181622 ATCGTAACGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (20 bp):
TGCGATTTACAGATTCACGT
Found at i:199394 original size:17 final size:19
Alignment explanation
Indices: 199355--199400 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
199345 TAAATATTAA
**
199355 AAAATATAAAGATTTATTT
1 AAAATATAATCATTTATTT
199374 AAAAT-TAATCATTTA-TT
1 AAAATATAATCATTTATTT
199391 AAAATATAAT
1 AAAATATAAT
199401 TATATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.29
18 12 0.50
19 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATAATCATTTATTT
Found at i:199410 original size:18 final size:18
Alignment explanation
Indices: 199371--199420 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
199361 TAAAGATTTA
*
199371 TTTAAAAT-TAATCAT-T
1 TTTAAAATATAATTATAT
199387 TATTAAAATATAATTATAT
1 T-TTAAAATATAATTATAT
199406 TTT--AATATAATTATA
1 TTTAAAATATAATTATA
199421 ATTATATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 13 0.43
17 7 0.23
18 8 0.27
19 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAAATATAATTATAT
Found at i:199973 original size:22 final size:22
Alignment explanation
Indices: 199948--199990 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
199938 ATTTAATAAC
*
199948 AATTCTATTAAAATTA-TAATTA
1 AATTCTAAT-AAATTATTAATTA
*
199970 AATTTTAATAAATTATTAATT
1 AATTCTAATAAATTATTAATT
199991 TTAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTCTAATAAATTATTAATTA
Found at i:200014 original size:20 final size:18
Alignment explanation
Indices: 199970--200017 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
199960 ATTATAATTA
199970 AATTTT-AATAAATTATT
1 AATTTTAAATAAATTATT
*
199987 AATTTTAAATAAATTCTT
1 AATTTTAAATAAATTATT
200005 AGACTTTTAAATA
1 A-A-TTTTAAATA
200018 TTTACATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.22
18 11 0.41
19 1 0.04
20 9 0.33
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTTTAAATAAATTATT
Found at i:201341 original size:23 final size:23
Alignment explanation
Indices: 201290--201344 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
201280 ACTACATAGT
*
201290 TGTCCCGAAGAACCGCGTAGAAA
1 TGTCCCGAAGAACCACGTAGAAA
* *
201313 TATCCCGAAGGACCACGTAG-AA
1 TGTCCCGAAGAACCACGTAGAAA
201335 TGGTCCCGAA
1 T-GTCCCGAA
201345 AGATCGCGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.15
Consensus pattern (23 bp):
TGTCCCGAAGAACCACGTAGAAA
Found at i:202045 original size:506 final size:506
Alignment explanation
Indices: 201423--202433 Score: 1761
Period size: 506 Copynumber: 2.0 Consensus size: 506
201413 GGCTTTACTG
201423 TTTACACATTTCACATTTTCAATTATTCACATAGATTATATCACATGTTCACATAGTCACATAGA
1 TTTACACATTTCACATTTTCAATTATTCACATAGATTATATCACATGTTCACATAGTCACATAGA
*
201488 TCATCACATAGACATGTGTTCACATAGCTCATAGTCACGTAGCTTATATCATTTCTCATGTAATC
66 TCATCACATAGACATGTGTTCACATAGCTCATAGTCACATAGCTTATATCATTTCTCATGTAATC
*
201553 ACATAGGTCAATGTTATTGAACTTATCTCACTTTTCATTGACTCACATAGGTCATTTATATCTAT
131 ACATAGGTCAATGTTATTGAACTTATCTCACTTTTCATTGACTCACATAGGTCATTTATATCCAT
* *
201618 TCACATAGGCTACCATGCAGACATGGATTCACGTAGATCTAATTCACATAAGATAACATGTAACA
196 TCACATAGGCTACCACGCAGACATGGATTCACATAGATCTAATTCACATAAGATAACATGTAACA
* *
201683 TATAGTTCATGAATAACAATGTATATAACACATAAACATGTATTTATGTACACATAGAAACCATA
261 TATAGTTCATGAATAACAATGCATATAACACATAAACATGTATTCATGTACACATAGAAACCATA
**
201748 TAAACAATATACTTGTATTCATAGTATTATGCAATCAAACATTGGAAATAGACTCATCACAAGTC
326 TAAACAATATACTTGTATTCATAACATTATGCAATCAAACATTGGAAATAGACTCATCACAAGTC
* *
201813 TCATTTCTATAAACACCATATACATATTAATATACACTCACATTAGCCTCACCTAGTCCAAGCTA
391 TCATTTCCATAAACACCATATACATATTAATATACACTCACATTACCCTCACCTAGTCCAAGCTA
* *
201878 AGCATTTAGCACCTTAGATCGATCCTACAACTTTGAATCGTCCAATCTTGT
456 AGCACTAAGCACCTTAGATCGATCCTACAACTTTGAATCGTCCAATCTTGT
*
201929 TTTACACATTTCACATTTTCAATTATTCACATAGATTGTATCACATGTTCACATAGTCACATAGA
1 TTTACACATTTCACATTTTCAATTATTCACATAGATTATATCACATGTTCACATAGTCACATAGA
*
201994 TCATCACATAGATATGTGTTCACATAGCTCATAGTCACATAGCTTATATCATTTCTCATGTAATC
66 TCATCACATAGACATGTGTTCACATAGCTCATAGTCACATAGCTTATATCATTTCTCATGTAATC
* * *
202059 ACATAGGTCAATGTTATTGAACTTATCTCACTTTTCATTTACTCGCATAGTTCATTTATATCCAT
131 ACATAGGTCAATGTTATTGAACTTATCTCACTTTTCATTGACTCACATAGGTCATTTATATCCAT
* * * * *
202124 TCACATAGGTTACCACGTAGACATGTATTCACATAGATCTTATTCGCATAAGATAACATGTAACA
196 TCACATAGGCTACCACGCAGACATGGATTCACATAGATCTAATTCACATAAGATAACATGTAACA
*
202189 TATAGTTCATGAATAACAATGCATATAACACATAAACATGTATTCATGTACACATAGAAATCATA
261 TATAGTTCATGAATAACAATGCATATAACACATAAACATGTATTCATGTACACATAGAAACCATA
* *
202254 TAAACAATATGCTTGTATTCATAACATTATGCAATCAAACATTGGAAATAGACTTATCACAAGTC
326 TAAACAATATACTTGTATTCATAACATTATGCAATCAAACATTGGAAATAGACTCATCACAAGTC
* *
202319 TCATTTCCATAAACATCATATACATATTAATATACACTCACCTTACCCTCACCTAGTCCAAGCTA
391 TCATTTCCATAAACACCATATACATATTAATATACACTCACATTACCCTCACCTAGTCCAAGCTA
* *
202384 AGCACTAAGCACTTTAGATCGATCTTACAACTTTGAATCGTCCAATCTTG
456 AGCACTAAGCACCTTAGATCGATCCTACAACTTTGAATCGTCCAATCTTG
202434 CTTTCGATCA
Statistics
Matches: 476, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
506 476 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (506 bp):
TTTACACATTTCACATTTTCAATTATTCACATAGATTATATCACATGTTCACATAGTCACATAGA
TCATCACATAGACATGTGTTCACATAGCTCATAGTCACATAGCTTATATCATTTCTCATGTAATC
ACATAGGTCAATGTTATTGAACTTATCTCACTTTTCATTGACTCACATAGGTCATTTATATCCAT
TCACATAGGCTACCACGCAGACATGGATTCACATAGATCTAATTCACATAAGATAACATGTAACA
TATAGTTCATGAATAACAATGCATATAACACATAAACATGTATTCATGTACACATAGAAACCATA
TAAACAATATACTTGTATTCATAACATTATGCAATCAAACATTGGAAATAGACTCATCACAAGTC
TCATTTCCATAAACACCATATACATATTAATATACACTCACATTACCCTCACCTAGTCCAAGCTA
AGCACTAAGCACCTTAGATCGATCCTACAACTTTGAATCGTCCAATCTTGT
Found at i:205618 original size:23 final size:22
Alignment explanation
Indices: 205522--205620 Score: 101
Period size: 23 Copynumber: 4.5 Consensus size: 22
205512 CACTAAAGTG
* *
205522 CCACATAGAATATCCCGAAGGA
1 CCACGTAGAATGTCCCGAAGGA
*
205544 CCACATAG-ATGTCCCGAAGGA
1 CCACGTAGAATGTCCCGAAGGA
** * **
205565 CTGCGTAAAAATGTCCAAAAGGA
1 CCACGT-AGAATGTCCCGAAGGA
205588 CCACGTAGAATTGTCCCGAAGGA
1 CCACGTAGAA-TGTCCCGAAGGA
205611 CCACGTAGAA
1 CCACGTAGAA
205621 CCCTCGACTC
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
21 15 0.24
22 12 0.19
23 35 0.56
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.15
Consensus pattern (22 bp):
CCACGTAGAATGTCCCGAAGGA
Found at i:208155 original size:60 final size:59
Alignment explanation
Indices: 208034--208182 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 59
208024 TTATGTACGT
* ** * *
208034 ATAATTT-GGGATGAAATTGAAATGATCAAAAAGTTTGGGGACTAATTTAAAATGAATATC
1 ATAATTTAAGGATG-AATTGAAATG-TTTAAAAGTTTGAGGACTAATTAAAAATGAATATC
* ** *
208094 ATAGTTTGTGGATTGAATTGAAATGTTTAAAAGTTTGAGGACTAATTAAAAATGGCA-ATC
1 ATAATTTAAGGA-TGAATTGAAATGTTTAAAAGTTTGAGGACTAATTAAAAAT-GAATATC
*
208154 ATAATTTAAGGATGAATTTGGAATGTTTA
1 ATAATTTAAGGATGAA-TTGAAATGTTTA
208183 TCTCAATACT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
59 4 0.05
60 53 0.72
61 15 0.20
62 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (59 bp):
ATAATTTAAGGATGAATTGAAATGTTTAAAAGTTTGAGGACTAATTAAAAATGAATATC
Found at i:209027 original size:25 final size:25
Alignment explanation
Indices: 208999--209052 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
208989 TCAAAATTAT
208999 GAGTTAATTGCATTACATGTCTTCA
1 GAGTTAATTGCATTACATGTCTTCA
209024 GAGTTAATTGCATTACATGTCTTCA
1 GAGTTAATTGCATTACATGTCTTCA
209049 GAGT
1 GAGT
209053 ATGACTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (25 bp):
GAGTTAATTGCATTACATGTCTTCA
Found at i:209353 original size:76 final size:76
Alignment explanation
Indices: 209227--209382 Score: 303
Period size: 76 Copynumber: 2.1 Consensus size: 76
209217 ATTTCTTCCT
*
209227 AAACTATATGTATATACTAATCACATCATTTGTTAATAATATCGTTAGACCAAGCTATATTATTA
1 AAACTATATGTATATACTAATCACATCATTTGTTAATAATATCATTAGACCAAGCTATATTATTA
209292 TAGGTTTCAAA
66 TAGGTTTCAAA
209303 AAACTATATGTATATACTAATCACATCATTTGTTAATAATATCATTAGACCAAGCTATATTATTA
1 AAACTATATGTATATACTAATCACATCATTTGTTAATAATATCATTAGACCAAGCTATATTATTA
209368 TAGGTTTCAAA
66 TAGGTTTCAAA
209379 AAAC
1 AAAC
209383 AAAATTTAAG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 79 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.37
Consensus pattern (76 bp):
AAACTATATGTATATACTAATCACATCATTTGTTAATAATATCATTAGACCAAGCTATATTATTA
TAGGTTTCAAA
Found at i:215301 original size:3 final size:3
Alignment explanation
Indices: 215286--215338 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
215276 TTTTTCTTCA
* *
215286 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
215334 TAT TA
1 TAT TA
215339 AATAAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:216840 original size:22 final size:21
Alignment explanation
Indices: 216802--216850 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
216792 TTTCTGATAT
*
216802 TTTTAATAAATAAATATTTTAC
1 TTTT-ATAAATAAATATATTAC
* *
216824 TTTTATAAATTATATATATTAT
1 TTTTATAAA-TAAATATATTAC
216846 TTTTA
1 TTTTA
216851 ATGTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAAATAAATATATTAC
Found at i:216928 original size:128 final size:127
Alignment explanation
Indices: 216733--216970 Score: 322
Period size: 128 Copynumber: 1.9 Consensus size: 127
216723 AATAATTTCA
* * * * * *
216733 TAATATTTATTTATTTTTAATATTAAGAAAGGGCAGTCTTGAAGTAACTGGATGTCCATTTTCTG
1 TAATATTTATTTATTTTTAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGAAGTCCATTTTATG
* *
216798 ATATTT-TTAATAAATAAATATTTTACTTTTATAAAT-TATATATATTATTTTTAATGTTTTAT
66 ATATTTCTAAATAAATAAATATCTTA--TTTATAAATATATATATATTATTTTTAATGTTTTAT
*
216860 TAATATTTATTTATTTTTTAATATTAAGAAATGAGCTGTCTTAAAGC-ACATAGAAGTCC-TTTT
1 TAATATTTATTTA-TTTTTAATATTAAGAAA-GAGCAGTCTTAAAGCAAC-TAGAAGTCCATTTT
216923 ATGATATTTCTAAATAAATAAATATCTTATTTATAAATATATATATAT
63 ATGATATTTCTAAATAAATAAATATCTTATTTATAAATATATATATAT
216971 ATATATATAT
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
127 22 0.23
128 40 0.41
129 35 0.36
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.48
Consensus pattern (127 bp):
TAATATTTATTTATTTTTAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGAAGTCCATTTTATG
ATATTTCTAAATAAATAAATATCTTATTTATAAATATATATATATTATTTTTAATGTTTTAT
Found at i:216959 original size:23 final size:23
Alignment explanation
Indices: 216927--216970 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
216917 CCTTTTATGA
*
216927 TATTTCTAAATAAATAAATATCT
1 TATTTATAAATAAATAAATATCT
* *
216950 TATTTATAAATATATATATAT
1 TATTTATAAATAAATAAATAT
216971 ATATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCT
Found at i:222607 original size:11 final size:10
Alignment explanation
Indices: 222586--222647 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 10
222576 CTCATTCATC
*
222586 AGAAGAAAAA
1 AGAAAAAAAA
*
222596 AGAGATAAAAA
1 AGA-AAAAAAA
222607 AGAAAAAAAA
1 AGAAAAAAAA
222617 AGGAAAAAGAAA
1 A-GAAAAA-AAA
*
222629 A-AAAAGAAGA
1 AGAAAA-AAAA
222639 AGAAAAAAA
1 AGAAAAAAA
222648 TCGAATCAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 19 0.44
11 20 0.47
12 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:222614 original size:9 final size:9
Alignment explanation
Indices: 222588--222636 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
222578 CATTCATCAG
222588 AAGAAAAAA
1 AAGAAAAAA
* *
222597 GAGATAAAA
1 AAGAAAAAA
222606 AAGAAAAAA
1 AAGAAAAAA
**
222615 AA-AGGAAA
1 AAGAAAAAA
222623 AAGAAAAAA
1 AAGAAAAAA
222632 AAGAA
1 AAGAA
222637 GAAGAAAAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
8 6 0.19
9 25 0.81
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:222623 original size:17 final size:16
Alignment explanation
Indices: 222603--222647 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
222593 AAAAGAGATA
222603 AAAAAGAAAAAAAAAGG
1 AAAAAGAAAAAAAAA-G
222620 AAAAAG-AAAAAAAAG
1 AAAAAGAAAAAAAAAG
*
222635 AAGAAGAAAAAAA
1 AAAAAGAAAAAAA
222648 TCGAATCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.23
16 14 0.54
17 6 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:222631 original size:15 final size:15
Alignment explanation
Indices: 222603--222647 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
222593 AAAAGAGATA
222603 AAAAAGAAAAAAAAAGG
1 AAAAAG-AAAAAAAA-G
222620 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
*
222635 AAGAAGAAAAAAA
1 AAAAAGAAAAAAA
222648 TCGAATCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 13 0.48
16 8 0.30
17 6 0.22
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:223819 original size:64 final size:63
Alignment explanation
Indices: 223734--223893 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
223724 TTGTTTAAGG
* * *
223734 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTTT
223797 A
63 A
* * *
223798 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTTA
* *
223862 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT
223894 ACATTCATTG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 2 0.02
64 74 0.88
65 7 0.08
66 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTTA
Found at i:224607 original size:31 final size:31
Alignment explanation
Indices: 224551--224626 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
224541 TGCCTTTGAG
* *
224551 ACATATGGACAGTATACATATGTTCTAAGGA
1 ACATATGGACAGTTTACATAGGTTCTAAGGA
* ** *
224582 ACATATGGACAGTTTACCTAGGTTCTTCGGG
1 ACATATGGACAGTTTACATAGGTTCTAAGGA
*
224613 ACCTATGGACAGTT
1 ACATATGGACAGTT
224627 ACCGAGGATC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (31 bp):
ACATATGGACAGTTTACATAGGTTCTAAGGA
Found at i:224646 original size:30 final size:30
Alignment explanation
Indices: 224585--224660 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
224575 CTAAGGAACA
* * *
224585 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTCAGGACC
* *
224616 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTCAGGACC
* *
224646 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
224661 GGGTTTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTCAGGACC
Found at i:226280 original size:2 final size:2
Alignment explanation
Indices: 226273--226300 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
226263 AAAGTTAAAG
226273 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
226301 GAAAGTGGAG
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:228165 original size:64 final size:63
Alignment explanation
Indices: 228080--228233 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 63
228070 TTGTTTAAGG
* * *
228080 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTTT
228143 A
63 A
* * *
228144 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTTA
* *
228208 TGCACCGATGCACAAGTAGTGCATCG
1 TGCATCGATGCACAAGCAGTGCATCG
228234 TTTGCATACA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.03
64 68 0.87
65 7 0.09
66 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (63 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTTA
Found at i:228916 original size:31 final size:30
Alignment explanation
Indices: 228877--228973 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
228867 GTCGAGGGTT
228877 TTACCTATGTCTTTCGAGACATATGGACAG
1 TTACCTATGTCTTTCGAGACATATGGACAG
***
228907 TATACCTATGTTCTAAGGA-ACATATGGACAG
1 T-TACCTATG-TCTTTCGAGACATATGGACAG
* * *
228938 TTTACCTAGGT-TCTTCGGGACCTATGGACAG
1 -TTACCTATGTCT-TTCGAGACATATGGACAG
228969 TTACC
1 TTACC
228974 GAGGATCTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 38 0.72
32 6 0.11
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (30 bp):
TTACCTATGTCTTTCGAGACATATGGACAG
Found at i:228990 original size:30 final size:30
Alignment explanation
Indices: 228929--229004 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
228919 CTAAGGAACA
* * *
228929 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTCAGGACC
* *
228960 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTCAGGACC
* *
228990 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
229005 GGGTTTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTCAGGACC
Found at i:230093 original size:124 final size:124
Alignment explanation
Indices: 229873--230118 Score: 447
Period size: 124 Copynumber: 2.0 Consensus size: 124
229863 CTGAAAAGGC
*
229873 GGCTCGAATATTAAATGGTGCAACAACGATATAAGAGACAATCTTAAGCTCTTAATGAAGCACCA
1 GGCTCAAATATTAAATGGTGCAACAACGATATAAGAGACAATCTTAAGCTCTTAATGAAGCACCA
229938 CACATCCCAAAGATGTTCATGAGAGTCTGGAAACAAGAAGTATCTCTACGAGATGAGGT
66 CACATCCCAAAGATGTTCATGAGAGTCTGGAAACAAGAAGTATCTCTACGAGATGAGGT
** *
229997 GGCTCAAATATTAAATGGTGCAACAACGATATAAGAGATGATCTTAAGCTCTTAATGAAGTACCA
1 GGCTCAAATATTAAATGGTGCAACAACGATATAAGAGACAATCTTAAGCTCTTAATGAAGCACCA
*
230062 CACATCCCAAAGATGTTCCTGAGAGTCTGGAAACAAGAAGTATCTCTACGAGATGAG
66 CACATCCCAAAGATGTTCATGAGAGTCTGGAAACAAGAAGTATCTCTACGAGATGAG
230119 CATAACAACG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 117 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (124 bp):
GGCTCAAATATTAAATGGTGCAACAACGATATAAGAGACAATCTTAAGCTCTTAATGAAGCACCA
CACATCCCAAAGATGTTCATGAGAGTCTGGAAACAAGAAGTATCTCTACGAGATGAGGT
Found at i:230142 original size:32 final size:32
Alignment explanation
Indices: 230097--230158 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
230087 TCTGGAAACA
* * *
230097 AGAAGTATCTCTACGAGATGAGCATAACAACG
1 AGAAATATCTCTACCAGATAAGCATAACAACG
230129 AGAAATATCTCTACCAGATAAGCATAACAA
1 AGAAATATCTCTACCAGATAAGCATAACAA
230159 TCATTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (32 bp):
AGAAATATCTCTACCAGATAAGCATAACAACG
Found at i:234116 original size:26 final size:22
Alignment explanation
Indices: 234070--234132 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
234060 ACATCTACAT
234070 TCTTCAAAGATGATAGATTTTC
1 TCTTCAAAGATGATAGATTTTC
*
234092 TCTTCAAAGATGATAGA-TTCC
1 TCTTCAAAGATGATAGATTTTC
* * *
234113 TTTTCAAAGAAGAAAGATTT
1 TCTTCAAAGATGATAGATTT
234133 ATTGGATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTTTC
Found at i:234120 original size:21 final size:21
Alignment explanation
Indices: 234070--234131 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
234060 ACATCTACAT
*
234070 TCTTCAAAGATGATAGATTTTC
1 TCTTCAAAGATGATAGA-TTCC
234092 TCTTCAAAGATGATAGATTCC
1 TCTTCAAAGATGATAGATTCC
* * *
234113 TTTTCAAAGAAGAAAGATT
1 TCTTCAAAGATGATAGATT
234132 TATTGGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
TCTTCAAAGATGATAGATTCC
Found at i:234852 original size:45 final size:45
Alignment explanation
Indices: 234787--235262 Score: 776
Period size: 45 Copynumber: 10.6 Consensus size: 45
234777 CTATTTCCCA
*
234787 CATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
234832 CATCTGTAAGCCATTCAGTGCATGATGTTTTCAAAACCTTCGTGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
234877 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
234922 CATCTGTAAGCCCTTCAGTGCAGGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
234967 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACTTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
235012 CATCTGTATGCCCTTCAGTGCATGATGTTTTTAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
235057 CATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
235102 CATTTGTAAGCCTTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
235147 TATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
235192 CATTTGTAAGACCTTCAGTGCATGATG-TTT-AAAATCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGT
* * *
235236 CATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
235263 ATAGGACCTC
Statistics
Matches: 402, Mismatches: 28, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
43 4 0.01
44 36 0.09
45 362 0.90
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:235420 original size:3 final size:3
Alignment explanation
Indices: 235414--235450 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
235404 TTTTTCATCA
235414 TAT TAT TAT TAT TAT TAT TA- TAT TAT T-T ATAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TA
235451 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.10
3 27 0.87
4 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Done.