Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009259.1 Hibiscus syriacus cultivar Beakdansim tig00112910_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: 1149570
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2447 original size:19 final size:20
Alignment explanation
Indices: 2423--2465 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2413 GGCATTTATC
*
2423 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
2442 TTCATTAAAAATCATGTCTT
1 TTCATTAAAAATCATGTATT
2462 TTCA
1 TTCA
2466 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:2826 original size:13 final size:12
Alignment explanation
Indices: 2808--2866 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
2798 ACTATCTGTT
2808 CATCACCATCTTC
1 CATCACCAT-TTC
*
2821 CATCACCATTTT
1 CATCACCATTTC
* *
2833 CA-CGCCTATAT-
1 CATCACC-ATTTC
2844 CATCACCATCTTC
1 CATCACCAT-TTC
2857 CATCACCATT
1 CATCACCATT
2867 GCACGCCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
11 7 0.19
12 12 0.32
13 18 0.49
ACGTcount: A:0.25, C:0.41, G:0.02, T:0.32
Consensus pattern (12 bp):
CATCACCATTTC
Found at i:2879 original size:35 final size:36
Alignment explanation
Indices: 2807--2887 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 36
2797 TACTATCTGT
*
2807 TCATCACCATCTTCCATCACCATTTTCACGCCTATA
1 TCATCACCATCTTCCATCACCATTTGCACGCCTATA
2843 TCATCACCATCTTCCATCACCA-TTGCACGCCTATA
1 TCATCACCATCTTCCATCACCATTTGCACGCCTATA
2878 TCATCACCAT
1 TCATCACCAT
2888 TCCCTTACCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 22 0.50
36 22 0.50
ACGTcount: A:0.26, C:0.40, G:0.04, T:0.31
Consensus pattern (36 bp):
TCATCACCATCTTCCATCACCATTTGCACGCCTATA
Found at i:3269 original size:7 final size:7
Alignment explanation
Indices: 3257--3299 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
3247 TTGCTGCAAC
3257 AAAAGAA
1 AAAAGAA
3264 AAAAGAA
1 AAAAGAA
*
3271 AGAAGAA
1 AAAAGAA
*
3278 AAAAAACA
1 AAAAGA-A
3286 AAAAGAA
1 AAAAGAA
3293 GAAAAGA
1 -AAAAGA
3300 CTCCTACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 18 0.60
8 12 0.40
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:6719 original size:19 final size:20
Alignment explanation
Indices: 6695--6737 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6685 AGCATTTATC
*
6695 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
6714 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
6734 TTCA
1 TTCA
6738 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:7100 original size:13 final size:13
Alignment explanation
Indices: 7082--7107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7072 ACTATATGTT
7082 CATCACCATTTTC
1 CATCACCATTTTC
7095 CATCACCATTTTC
1 CATCACCATTTTC
7108 ACGCCTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
CATCACCATTTTC
Found at i:7157 original size:35 final size:35
Alignment explanation
Indices: 7081--7196 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 35
7071 TACTATATGT
* *
7081 TCATCACCATTTTCCATCACCATTTTCACGCCTATA
1 TCATCACCATCTTCTATCACCA-TTTCACGCCTATA
* *
7117 ACATCACCATCTTCTATCACCATTGCACGCCTATA
1 TCATCACCATCTTCTATCACCATTTCACGCCTATA
* *
7152 TCATCACCATCTTCTTTCACCATTTCATGCCTATA
1 TCATCACCATCTTCTATCACCATTTCACGCCTATA
7187 TCATCACCAT
1 TCATCACCAT
7197 TCCCTTACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 53 0.74
36 19 0.26
ACGTcount: A:0.26, C:0.36, G:0.03, T:0.34
Consensus pattern (35 bp):
TCATCACCATCTTCTATCACCATTTCACGCCTATA
Found at i:8116 original size:24 final size:24
Alignment explanation
Indices: 8089--8168 Score: 133
Period size: 24 Copynumber: 3.3 Consensus size: 24
8079 GAACGAGTCG
* *
8089 ATAAACGAACTTATAAACAAGCTC
1 ATAAATGAGCTTATAAACAAGCTC
8113 ATAAATGAGCTTATAAACAAGCTC
1 ATAAATGAGCTTATAAACAAGCTC
*
8137 ATAAATTAGCTTATAAACAAGCTC
1 ATAAATGAGCTTATAAACAAGCTC
8161 ATAAATGA
1 ATAAATGA
8169 ATCAAACACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (24 bp):
ATAAATGAGCTTATAAACAAGCTC
Found at i:8135 original size:12 final size:12
Alignment explanation
Indices: 8101--8165 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
8091 AAACGAACTT
8101 ATAAACAAGCTC
1 ATAAACAAGCTC
** *
8113 ATAAATGAGCTT
1 ATAAACAAGCTC
8125 ATAAACAAGCTC
1 ATAAACAAGCTC
** *
8137 ATAAATTAGCTT
1 ATAAACAAGCTC
8149 ATAAACAAGCTC
1 ATAAACAAGCTC
8161 ATAAA
1 ATAAA
8166 TGAATCAAAC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (12 bp):
ATAAACAAGCTC
Found at i:9330 original size:17 final size:17
Alignment explanation
Indices: 9289--9333 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
9279 CTATTTCTTA
9289 TAATATC-T-ACA-TTT
1 TAATATCATGACACTTT
9303 TAATATCATGACACTTT
1 TAATATCATGACACTTT
9320 T-ATATCTATGACAC
1 TAATATC-ATGACAC
9334 ATGTAGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.26
15 1 0.04
16 8 0.30
17 11 0.41
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (17 bp):
TAATATCATGACACTTT
Found at i:20923 original size:13 final size:13
Alignment explanation
Indices: 20905--20929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20895 TAACCTTTTT
20905 TTTACTTTTTTCC
1 TTTACTTTTTTCC
20918 TTTACTTTTTTC
1 TTTACTTTTTTC
20930 TTAATTCGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTACTTTTTTCC
Found at i:28825 original size:17 final size:16
Alignment explanation
Indices: 28805--28837 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
28795 TCAATATAAA
28805 ATTTTTATTATTTTATT
1 ATTTTTATT-TTTTATT
28822 ATTTTTATTTTTTATT
1 ATTTTTATTTTTTATT
28838 CTTTGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTATTTTTTATT
Found at i:30087 original size:11 final size:11
Alignment explanation
Indices: 30055--30088 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
30045 ACCAACTGAG
*
30055 CTAAACGAACG
1 CTAAACGAACA
*
30066 CTAAACAAACA
1 CTAAACGAACA
30077 CTAAACGAACA
1 CTAAACGAACA
30088 C
1 C
30089 GTTTGTGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.29, G:0.09, T:0.09
Consensus pattern (11 bp):
CTAAACGAACA
Found at i:30133 original size:23 final size:23
Alignment explanation
Indices: 30073--30134 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
30063 ACGCTAAACA
* * *
30073 AACACTAAACGAACACGTTTGTG
1 AACATTAAACGAACACGTTCGCG
* * *
30096 GATATATAAATGAACACGTTCGCG
1 AACAT-TAAACGAACACGTTCGCG
30120 AACATTAAACGAACA
1 AACATTAAACGAACA
30135 TGTTTACGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (23 bp):
AACATTAAACGAACACGTTCGCG
Found at i:33659 original size:276 final size:276
Alignment explanation
Indices: 33165--33718 Score: 1081
Period size: 276 Copynumber: 2.0 Consensus size: 276
33155 CCCATGTCAC
33165 AGATTGTGAGAGTTTGGACAAAGTTTTAGTTAAGCATGTTTCTAGACTAGAGAAAGAGAAATTGA
1 AGATTGTGAGAGTTTGGACAAAGTTTTAGTTAAGCATGTTTCTAGACTAGAGAAAGAGAAATTGA
33230 GGTTCAACGCAAATGAAGAAGAAATGGTGAAAGTAAAGAAGAGGGGAGGTGTAAACATGACACCG
66 GGTTCAACGCAAATGAAGAAGAAATGGTGAAAGTAAAGAAGAGGGGAGGTGTAAACATGACACCG
33295 GTGGATGATCAAGGTAGTTTGGATCAAATTTTGGTTAAACACAAATCAAAGTTAGAGAAAGAGAA
131 GTGGATGATCAAGGTAGTTTGGATCAAATTTTGGTTAAACACAAATCAAAGTTAGAGAAAGAGAA
33360 GATGGCAACTGGTGAGAAACCAAGTGAACAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGG
196 GATGGCAACTGGTGAGAAACCAAGTGAACAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGG
33425 AGAGAGAGTTGCAAGA
261 AGAGAGAGTTGCAAGA
33441 AGATTGTGAGAGTTTGGACAAAGTTTTAGTTAAGCATGTTTCTAGACTAGAGAAAGAGAAATTGA
1 AGATTGTGAGAGTTTGGACAAAGTTTTAGTTAAGCATGTTTCTAGACTAGAGAAAGAGAAATTGA
* *
33506 GGTTCAATGCAAATGAAGAAGAAATGGTGAAAGTAAAGAAGAGGGGAGGTGTAAACATGACACCT
66 GGTTCAACGCAAATGAAGAAGAAATGGTGAAAGTAAAGAAGAGGGGAGGTGTAAACATGACACCG
33571 GTGGATGATCAAGGTAGTTTGGATCAAATTTTGGTTAAACACAAATCAAAGTTAGAGAAAGAGAA
131 GTGGATGATCAAGGTAGTTTGGATCAAATTTTGGTTAAACACAAATCAAAGTTAGAGAAAGAGAA
*
33636 GATGGCAACTGGTGAGCAACCAAGTGAACAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGG
196 GATGGCAACTGGTGAGAAACCAAGTGAACAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGG
33701 AGAGAGAGTTGCAAGA
261 AGAGAGAGTTGCAAGA
33717 AG
1 AG
33719 CATGGGGAGG
Statistics
Matches: 275, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 275 1.00
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.23
Consensus pattern (276 bp):
AGATTGTGAGAGTTTGGACAAAGTTTTAGTTAAGCATGTTTCTAGACTAGAGAAAGAGAAATTGA
GGTTCAACGCAAATGAAGAAGAAATGGTGAAAGTAAAGAAGAGGGGAGGTGTAAACATGACACCG
GTGGATGATCAAGGTAGTTTGGATCAAATTTTGGTTAAACACAAATCAAAGTTAGAGAAAGAGAA
GATGGCAACTGGTGAGAAACCAAGTGAACAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGG
AGAGAGAGTTGCAAGA
Found at i:34684 original size:27 final size:27
Alignment explanation
Indices: 34654--34705 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
34644 GAAGGAAAAT
*
34654 ATAAGGTTTTTTTAAA-AAATAATAATA
1 ATAA-GTTTTTTTAAATAAAAAATAATA
*
34681 ATAATTTTTTTTAAATAAAAAATAA
1 ATAAGTTTTTTTAAATAAAAAATAA
34706 AAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
ATAAGTTTTTTTAAATAAAAAATAATA
Found at i:38619 original size:18 final size:19
Alignment explanation
Indices: 38596--38640 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
38586 CACTTGCATA
*
38596 TCAAACTTGCT-AAATTAG
1 TCAAACTTGATAAAATTAG
*
38614 TCAAACTT-ATAAAATTGG
1 TCAAACTTGATAAAATTAG
38632 TCAAACTTG
1 TCAAACTTG
38641 TCAAGCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (19 bp):
TCAAACTTGATAAAATTAG
Found at i:40433 original size:11 final size:11
Alignment explanation
Indices: 40368--40440 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
40358 CGTTAATAGT
*
40368 AAATAATAATA
1 AAATAATATTA
*
40379 ATATAATAGTTA
1 AAATAATA-TTA
40391 TAAAT-ATATATA
1 -AAATAATAT-TA
*
40403 TAATAACT-TTA
1 AAATAA-TATTA
40414 AAA-AATATTA
1 AAATAATATTA
40424 AAATAATATTA
1 AAATAATATTA
*
40435 GAATAA
1 AAATAA
40441 AAATAATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
9 1 0.02
10 8 0.16
11 27 0.55
12 9 0.18
13 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (11 bp):
AAATAATATTA
Found at i:40963 original size:35 final size:36
Alignment explanation
Indices: 40883--40964 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
40873 GTGCTTGTGG
*
40883 ATCCTATCTTTAGGAGTTTAAAACATAACAAAATTCT
1 ATCCTAT-TTTAGGAGTTTAAAACATAACAAAATTAT
* * * *
40920 ATCCTATTTTAGGAG-TTGAATCATAGCAGAATTAT
1 ATCCTATTTTAGGAGTTTAAAACATAACAAAATTAT
40955 ATCCTATTTT
1 ATCCTATTTT
40965 TGAGATTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 25 0.62
36 8 0.20
37 7 0.17
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTAAAACATAACAAAATTAT
Found at i:41766 original size:109 final size:109
Alignment explanation
Indices: 41547--42017 Score: 618
Period size: 109 Copynumber: 4.4 Consensus size: 109
41537 ACGAAATCTT
* *
41547 GTTGACAATCAGCCGTCCCTTCGTTGTGAAG-TGAACTTGTGTTGTCTCGAGT--C-CAATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
* * * * * *
41608 TTCG-C-TGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTT
66 TCCGTCGTG-G-AGTTGAAATCGGCGCTGAAATTGGAAAATTGTTC
* *
41652 GTTGACAACCAGCCGTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
* *
41717 TCCGTCGTGGAGTTGAAATC-GCGGATGAAACT-GAAAAGTTGTTC
66 TCCGTCGTGGAGTTGAAATCGGC-GCTGAAATTGGAAAA-TTGTTC
*
41761 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
** * *
41826 TCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAATTGTTC
66 TCCGTCGTGGAGTTGAAATCGGCGCTGAAATTGGAAAATTGTTC
* *
41870 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGGGTAGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
** * *
41935 TCCGTCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAATTGTT-
66 TCCGTCGTGGAGTTGAAATCGGCGCTGAAATTGGAAAATTGTTC
* *
41978 GTTGGCAACCAGACGTCCCTTCGTTGTGAAGTTGAACTTG
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
42018 ACTCTAGCTA
Statistics
Matches: 331, Mismatches: 25, Indels: 17
0.89 0.07 0.05
Matches are distributed among these distances:
105 29 0.09
106 21 0.06
108 45 0.14
109 227 0.69
110 7 0.02
111 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (109 bp):
GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
TCCGTCGTGGAGTTGAAATCGGCGCTGAAATTGGAAAATTGTTC
Found at i:41884 original size:218 final size:209
Alignment explanation
Indices: 41389--42017 Score: 695
Period size: 218 Copynumber: 3.0 Consensus size: 209
41379 AATATTGTTC
* **
41389 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGC-GTGGAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
** * * * * * *
41454 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGT-CTA--ATATCCTTCG-CT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGC-ACGATATCCTCCGTC-
* ** * *
41515 GTGAAGTTGAAATTGAC-TCTG-AAC-GAAA-TCTTGTTGACAATCAGCCGTCCCTTCGTTGTGA
128 GTGGAGTTGAAA-TG-CGGATGAAACTGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGA
41576 AG-TGAACTTGTGTTGTCT
191 AGTTGAACTTGTGTTGTCT
* * * * * *
41594 CGAGTCCAATATCCTTCGC-TGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGAC
1 CGAGTCCAATATCCTCCGCGTG-G-AGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGAC
*
41658 AACCAGCCGTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCGTC
64 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCCGTC
41723 GTGGAGTTGAAATCGCGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGT
128 GTGGAGTTGAAAT-GCGGATGAAACTG-AAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGT
41788 GAAGTTGAACTTGTGTTGTCT
189 GAAGTTGAACTTGTGTTGTCT
* * * *
41809 CGGGTAGCACGATATCCTCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAATTGTTCGTTG
1 CGAGT--C-CAATATCCTCCG-CGTGGAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTG
* *
41874 ACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGGGTAGCACGATATCCTCCG
62 ACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCCTCCG
* * * *
41939 TCGTGGAGTTGAAAT-CGGTTCCGAAATTGGGAAATTGTTGTTGGCAACCAGACGTCCCTTCGTT
126 TCGTGGAGTTGAAATGCGGAT--GAAACT--GAAATTGTTGTTGACAACCAGCCGTCCCTTCGTT
42003 GTGAAGTTGAACTTG
187 GTGAAGTTGAACTTG
42018 ACTCTAGCTA
Statistics
Matches: 358, Mismatches: 41, Indels: 38
0.82 0.09 0.09
Matches are distributed among these distances:
203 2 0.01
205 90 0.25
206 1 0.00
207 3 0.01
208 23 0.06
209 4 0.01
210 1 0.00
211 3 0.01
213 3 0.01
214 30 0.08
215 20 0.06
216 4 0.01
217 39 0.11
218 127 0.35
219 5 0.01
220 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (209 bp):
CGAGTCCAATATCCTCCGCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACGATATCCTCCGTCGTG
GAGTTGAAATGCGGATGAAACTGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTG
AACTTGTGTTGTCT
Found at i:42676 original size:67 final size:67
Alignment explanation
Indices: 42596--42754 Score: 230
Period size: 67 Copynumber: 2.4 Consensus size: 67
42586 GAAACGAAAT
* * *
42596 TTTGTTTTAAGGGAGATAAAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATGGGAGACA
1 TTTGTTTCAAGGGAAAT-AATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
42660 AAA
65 AAA
* * * *
42663 TTTGTTTCGAGGGAAATAATCTCAAAGGTTTTGTGTTTTAAGAGAAACTGTCTCAAGGTAGACAA
1 TTTGTTTCAAGGGAAATAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
42728 AA
66 AA
*
42730 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTCAAGGGAAATAATCTCAA
42755 GAGAGACGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 3 0.04
67 79 0.96
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (67 bp):
TTTGTTTCAAGGGAAATAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
AA
Found at i:42753 original size:36 final size:35
Alignment explanation
Indices: 42713--42884 Score: 110
Period size: 36 Copynumber: 4.9 Consensus size: 35
42703 AGAGAAACTG
42713 TCTCAAGGTAGACAAAATTTGTTTCAAGGGAAATTA
1 TCTCAAGG-AGACAAAATTTGTTTCAAGGGAAATTA
* **
42749 TCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGT-
1 TCTCAAG-GAGACAAAATTTGTTTCAAGGGAAAT-TA
* * * * *
42785 TTTCAA--TG-----TTTATGTTTC-AGGAGAAACTG
1 TCTCAAGGAGACAAAATT-TGTTTCAAGG-GAAATTA
*
42814 TCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTA
1 TCTCAA-GGAGACAAAA-TTTGTTTCAAGGGAAATTA
**
42851 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAAT
1 TCTCAAG-GAGACAAAATTTGTTTCAAGGGAAAT
42885 GTTTCCGATG
Statistics
Matches: 104, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
28 6 0.06
29 13 0.12
32 1 0.01
33 1 0.01
36 49 0.47
37 29 0.28
38 5 0.05
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (35 bp):
TCTCAAGGAGACAAAATTTGTTTCAAGGGAAATTA
Found at i:42848 original size:37 final size:37
Alignment explanation
Indices: 42797--43103 Score: 214
Period size: 37 Copynumber: 8.9 Consensus size: 37
42787 TCAATGTTTA
*
42797 TGTTTC-AGGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGG-GAAACTGTCTCAAGAGAGACAAAATTT
*
42834 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * * *
42870 CATTTCAAGGGAAA-TGTTTC-CGA-TG------TTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
42898 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
42936 TGTTTTAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * * *
42972 CATTTCAA-GGAAAATGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* *
43000 ATGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
43037 TGTTTC-AGGGAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
43072 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
43104 TGGTGAGCAC
Statistics
Matches: 204, Mismatches: 39, Indels: 54
0.69 0.13 0.18
Matches are distributed among these distances:
28 3 0.01
29 20 0.10
30 12 0.06
31 1 0.00
32 2 0.01
33 2 0.01
34 3 0.01
35 42 0.21
36 52 0.25
37 61 0.30
38 6 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:42869 original size:102 final size:102
Alignment explanation
Indices: 42629--43085 Score: 632
Period size: 102 Copynumber: 4.5 Consensus size: 102
42619 AAAGATTTTG
* * * * ** * ** * *
42629 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATTTGTTTCGAGGGAAATAATCTCAAAGGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC-AATG-TT
* * *
42694 TGTGTTTTAAGAGAAACTGTCTCAAGGTAGACAAAA-TT
64 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
42732 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
42797 TGTTTCAGGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
42834 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCGATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
42899 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
42936 TGTTTTAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGAAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
43001 TGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
43037 TGTTTC-AGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
43086 CTGTCTCAAG
Statistics
Matches: 318, Mismatches: 35, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
100 37 0.12
101 46 0.14
102 190 0.60
103 45 0.14
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:43090 original size:36 final size:36
Alignment explanation
Indices: 43001--43103 Score: 163
Period size: 35 Copynumber: 2.9 Consensus size: 36
42991 TCAATGTTTA
* * * *
43001 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
43037 TGTTTC-AGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
43072 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
43104 TGGTGAGCAC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 31 0.50
36 31 0.50
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:44624 original size:20 final size:21
Alignment explanation
Indices: 44589--44651 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
44579 CTTTTTGTTC
* *
44589 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTGTTCTTGTTCTTT
*
44610 -CTTTTTTGTTCTTGTTTTTTT
1 CCTTTTTTGTTCTTG-TTCTTT
44631 CCTTTTTTGCTTCTT-TTCTTT
1 CCTTTTTTG-TTCTTGTTCTTT
44652 TTTCTTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 12 0.34
21 10 0.29
22 8 0.23
23 5 0.14
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
CCTTTTTTGTTCTTGTTCTTT
Found at i:44662 original size:22 final size:23
Alignment explanation
Indices: 44607--44660 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
44597 ATTTTTGTTC
44607 TTTCTTTTTTG-TTCTTGTTTTT
1 TTTCTTTTTTGCTTCTTGTTTTT
*
44629 TTCCTTTTTTGCTTCTT-TTCTTT
1 TTTCTTTTTTGCTTCTTGTT-TTT
44652 TTTCTTTTT
1 TTTCTTTTT
44661 GCCCTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.80
Consensus pattern (23 bp):
TTTCTTTTTTGCTTCTTGTTTTT
Found at i:48727 original size:35 final size:36
Alignment explanation
Indices: 48655--48742 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
48645 GGATCATATC
* * *
48655 TTTAGGAGTTTAAAACATAACAAAATTCTATCCTAT
1 TTTAGGAGTTTGAATCATAACAAAATTATATCCTAT
* *
48691 TTTAGGAG-TTGAATCATAGCAGAATTATATCCTAT
1 TTTAGGAGTTTGAATCATAACAAAATTATATCCTAT
*
48726 TTTTGAGAGTTTGAATC
1 TTTAG-GAGTTTGAATC
48743 CTAGTAGGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 26 0.59
36 11 0.25
37 7 0.16
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTAGGAGTTTGAATCATAACAAAATTATATCCTAT
Found at i:49174 original size:21 final size:21
Alignment explanation
Indices: 49148--49188 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
49138 CAAAATTGTG
*
49148 CATCGATGCACTGTTACAGTA
1 CATCGATGCACTGCTACAGTA
49169 CATCGATGCACTGCTACAGT
1 CATCGATGCACTGCTACAGT
49189 GCCTTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
CATCGATGCACTGCTACAGTA
Found at i:49523 original size:13 final size:13
Alignment explanation
Indices: 49505--49534 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49495 TTAGTGAGAC
49505 ATATAAACATATA
1 ATATAAACATATA
*
49518 ATATAACCATATA
1 ATATAAACATATA
49531 ATAT
1 ATAT
49535 TTCGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATAAACATATA
Found at i:49921 original size:30 final size:30
Alignment explanation
Indices: 49881--49953 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
49871 TAGATTCCGA
* * *
49881 AGAACCTAGGTAATCAGTCCATATGTCCCG
1 AGAACATAGGTAAACAGTCAATATGTCCCG
49911 AGAACATAGGTAAACAGTCAATATGTCCCG
1 AGAACATAGGTAAACAGTCAATATGTCCCG
49941 A-AA-ATAGGTAAAC
1 AGAACATAGGTAAAC
49954 CTCGACCCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.25
29 2 0.05
30 28 0.70
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (30 bp):
AGAACATAGGTAAACAGTCAATATGTCCCG
Found at i:55938 original size:20 final size:19
Alignment explanation
Indices: 55898--55938 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
55888 TAATTCCTAA
* *
55898 TAAAATATAATTATGATCC
1 TAAAAGATAATTATCATCC
55917 TAAAAGATAATTAATCATCC
1 TAAAAGATAATT-ATCATCC
55937 TA
1 TA
55939 TATTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (19 bp):
TAAAAGATAATTATCATCC
Found at i:61601 original size:10 final size:10
Alignment explanation
Indices: 61588--61634 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
61578 AAATTTTGGC
*
61588 TTTTTTGTT-
1 TTTTTTTTTG
61597 TTTTTTTTTG
1 TTTTTTTTTG
**
61607 CCTTTTTTTG
1 TTTTTTTTTG
61617 TTTTTTTTTG
1 TTTTTTTTTG
61627 TTTTTTTT
1 TTTTTTTT
61635 AAATAGCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:63001 original size:26 final size:26
Alignment explanation
Indices: 62923--63032 Score: 117
Period size: 26 Copynumber: 4.5 Consensus size: 26
62913 TCATATTAAG
* *
62923 GCATGAAA-TATGCCATAACTAAAAT
1 GCATGAAAGGATGGCATAACTAAAAT
*
62948 GCATGAAATGAT-GCAT---T--AAT
1 GCATGAAAGGATGGCATAACTAAAAT
*
62968 GCCTGAAAGGATGGCATAACTAAAAT
1 GCATGAAAGGATGGCATAACTAAAAT
*
62994 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGGCATAACTAAAAT
*
63020 GCATGAAATGATG
1 GCATGAAAGGATG
63033 CATTAAGGCA
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
20 13 0.18
21 4 0.06
22 1 0.01
24 1 0.01
25 11 0.15
26 41 0.58
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (26 bp):
GCATGAAAGGATGGCATAACTAAAAT
Found at i:63049 original size:72 final size:71
Alignment explanation
Indices: 62923--63216 Score: 244
Period size: 72 Copynumber: 4.3 Consensus size: 71
62913 TCATATTAAG
* * * *
62923 GCATGAAA-TATGCCATAACTAAAATGCATGAAATGATGCATTAATGCCTGAAAGGATGGCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGGCAT-A
62987 CTAAAAT
65 CTAAAAT
* * * * **
62994 GCATGAAAGGATGTCATAACTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGTTACCATGA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGGCAT-A
*
63059 CTGAAAT
65 CTAAAAT
* * *
63066 GCATGAAATGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGAT-
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
*
63124 GCAT--TAAGA-
60 GCATACTAAAAT
*
63133 -CATGAAAGAATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT-GCAT--
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGGCATAC
*
63194 T--AAG
66 TAAAAT
63198 GCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAA
63217 ATGAAATTAA
Statistics
Matches: 183, Mismatches: 25, Indels: 35
0.75 0.10 0.14
Matches are distributed among these distances:
64 1 0.01
66 60 0.33
67 6 0.03
68 5 0.03
70 2 0.01
71 17 0.09
72 92 0.50
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.22
Consensus pattern (71 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGGCATAC
TAAAAT
Found at i:63069 original size:46 final size:46
Alignment explanation
Indices: 62994--63191 Score: 306
Period size: 46 Copynumber: 4.3 Consensus size: 46
62984 TAACTAAAAT
* *
62994 GCATGAAAGGATGTCATAACTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* * * * * *
63040 GCATAAAAGGTTACCATGACTGAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
63086 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
* *
63132 ACATGAAAGAATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
63178 GCATGAAAGGATGC
1 GCATGAAAGGATGC
63192 ATTAAGGCAT
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 136 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAG
Found at i:63091 original size:20 final size:20
Alignment explanation
Indices: 63066--63211 Score: 139
Period size: 20 Copynumber: 6.7 Consensus size: 20
63056 TGACTGAAAT
*
63066 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
63086 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
63112 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * *
63132 ACATGAAAGAATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
63158 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
63178 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
63198 GCATGAAAGGATGC
1 GCATGAAAGGATGC
63212 CATAAATGAA
Statistics
Matches: 105, Mismatches: 9, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
20 61 0.58
21 6 0.06
22 2 0.02
24 2 0.02
25 6 0.06
26 28 0.27
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:69803 original size:46 final size:46
Alignment explanation
Indices: 69736--70149 Score: 675
Period size: 46 Copynumber: 9.0 Consensus size: 46
69726 AAAACGAATT
* *
69736 CATAACTAAAATGCATGAAAGGATGCATTAAGCCATGAAATGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
69782 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * *
69828 CATTACTGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * *
69874 CATAACTGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
69920 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
69966 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * *
70012 CATAACTAAAATGTATGAAATGATGCATTAAGACATGAACGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
70058 CATAACTTAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
70104 CATAACTAAAATGCATGAAATGATGTATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
70150 ATTAAGGCAT
Statistics
Matches: 344, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 344 1.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (46 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:71390 original size:2 final size:2
Alignment explanation
Indices: 71379--71437 Score: 57
Period size: 2 Copynumber: 28.5 Consensus size: 2
71369 TTGAAATAAC
* * *
71379 TA TA -A TA TA TA TA TA TA TA TA TA TA TA AA CTT TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
71422 TA TA TA TA GTA TA TA T
1 TA TA TA TA -TA TA TA T
71438 GGTTTAGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
1 1 0.02
2 43 0.91
3 3 0.06
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:71557 original size:11 final size:11
Alignment explanation
Indices: 71493--71550 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
71483 TAGATAATAG
71493 TATATAAACTA
1 TATATAAACTA
71504 TATATAAA-TA
1 TATATAAACTA
*
71514 -ATATATACTA
1 TATATAAACTA
** *
71524 GCT-TATACTA
1 TATATAAACTA
*
71534 TATGTAAACTA
1 TATATAAACTA
71545 TATATA
1 TATATA
71551 CTATATAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 6 0.16
10 12 0.32
11 20 0.53
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (11 bp):
TATATAAACTA
Found at i:71587 original size:13 final size:13
Alignment explanation
Indices: 71532--71600 Score: 57
Period size: 13 Copynumber: 5.1 Consensus size: 13
71522 TAGCTTATAC
*
71532 TATATGTAAACTA
1 TATATATAAACTA
* *
71545 TATATACTATATAGTT
1 TATATA-TA-A-ACTA
* *
71561 TACATATGAACTA
1 TATATATAAACTA
*
71574 TATGTATAAACTA
1 TATATATAAACTA
71587 TATATATAAACTA
1 TATATATAAACTA
71600 T
1 T
71601 GTAAACTATA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
13 30 0.71
14 3 0.07
15 2 0.05
16 7 0.17
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:71651 original size:9 final size:9
Alignment explanation
Indices: 71634--71700 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
71624 GGTAGTTTAC
*
71634 ATATGAACT
1 ATATAAACT
71643 ATATAAACT
1 ATATAAACT
*
71652 ATTTATAAAAT
1 A--TATAAACT
*
71663 ATATACTACAT
1 ATATA-AAC-T
71674 ATATAAACT
1 ATATAAACT
71683 ATAT--A-T
1 ATATAAACT
71689 ATATAAACT
1 ATATAAACT
71698 ATA
1 ATA
71701 ATTTATATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 5 0.11
7 1 0.02
8 1 0.02
9 22 0.48
10 3 0.07
11 14 0.30
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.37
Consensus pattern (9 bp):
ATATAAACT
Found at i:71765 original size:131 final size:119
Alignment explanation
Indices: 71643--71869 Score: 303
Period size: 119 Copynumber: 1.9 Consensus size: 119
71633 CATATGAACT
* * *
71643 ATATAAACTATTTATAAAATATATACTACATATATAAACTATATATATATAAACTATAATTTATA
1 ATATGAACTATATATATAATATATACTACATATATAAACTATA-ATATAT-AACTAT-ATTTATA
*
71708 TACTATATACTATAGTTGATATTTATATACTATATAATATATAGTTT-ACATTATTAC
63 TACTATATACTATAGTTGATATTTATATACTATATAATATATAGTTTGACAGT-TTAC
** * * **
71765 ATATGAACTATATATATGGTATATACTATATATATAAACTATAATTTATATTTATATTTATATAC
1 ATATGAACTATATATATAATATATACTACATATATAAACTATAATATATAACTATATTTATATAC
* *
71830 TATATATTATAGTTGATATTTATATACTATATATTATATA
66 TATATACTATAGTTGATATTTATATACTATATAATATATA
71870 TATAAACTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 48 0.51
120 4 0.04
121 5 0.05
122 37 0.39
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (119 bp):
ATATGAACTATATATATAATATATACTACATATATAAACTATAATATATAACTATATTTATATAC
TATATACTATAGTTGATATTTATATACTATATAATATATAGTTTGACAGTTTAC
Found at i:71807 original size:20 final size:19
Alignment explanation
Indices: 71493--71891 Score: 85
Period size: 20 Copynumber: 20.2 Consensus size: 19
71483 TAGATAATAG
*
71493 TATATAAACTATATATAAA
1 TATATAAACTATATATATA
*
71512 TAATATATACTAGCT-TATACTA
1 T-ATATAAACTA--TATATA-TA
*
71534 TATGTAAACTATATATACTA
1 TATATAAACTATATATA-TA
**
71554 TATAGTTTAC-ATATGAACTATA
1 TATA-TAAACTATAT--A-TATA
*
71576 TGTATAAACTATATATATAAA
1 TATATAAACTATATATAT--A
*
71597 CTATGTAAACTATATA-ATA
1 -TATATAAACTATATATATA
**** *
71616 TATAGTTTGGTA-GT-T-TA
1 TATA-TAAACTATATATATA
* * *
71633 CATATGAACTATATAAACTA
1 TATATAAACTATATATA-TA
* * *
71653 TTTATAAAATATATACTACA
1 TATATAAACTATATA-TATA
71673 TATATAAAC----TATATA
1 TATATAAACTATATATATA
*
71688 TATATAAACTATAATTTATA
1 TATATAAACTAT-ATATATA
*
71708 TACTATATACTATAGT-TGATA
1 TA-TATAAACTATA-TAT-ATA
* *
71729 TTTATATACTATATA-ATA
1 TATATAAACTATATATATA
**
71747 TATAGTTTAC-AT-TAT-TA
1 TATA-TAAACTATATATATA
* * *
71764 CATATGAACTATATATATGG
1 TATATAAACTATATATAT-A
71784 TATAT--ACTATATATATA
1 TATATAAACTATATATATA
* ** *
71801 AACTATAATTTATATTTATA
1 TA-TATAAACTATATATATA
* *
71821 TTTATATACTATATATTATA
1 TATATAAACTATATA-TATA
71841 GTTGATATTTATATACTATATATTATA
1 --T-ATA--TA-A-ACTATATA-TATA
*
71868 TATATAAACTATAGTTTATA
1 TATATAAACTATA-TATATA
71888 TATA
1 TATA
71892 AATTATAAAT
Statistics
Matches: 275, Mismatches: 58, Indels: 93
0.65 0.14 0.22
Matches are distributed among these distances:
15 12 0.04
16 8 0.03
17 16 0.06
18 29 0.11
19 24 0.09
20 96 0.35
21 38 0.14
22 29 0.11
23 4 0.01
24 3 0.01
25 3 0.01
27 13 0.05
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (19 bp):
TATATAAACTATATATATA
Found at i:71815 original size:73 final size:72
Alignment explanation
Indices: 71738--71934 Score: 162
Period size: 73 Copynumber: 2.8 Consensus size: 72
71728 ATTTATATAC
* **
71738 TATATAATATATAGTTTAC-AT-TATTACA-TATGAACTATATATATGGTATATACTATATATAT
1 TATATAATATATA-TATACTATATATTACAGT-TG-A-TATATATATACTATATACTATATATAT
71800 AAACTATAATT
62 AAACTATAATT
* * * * *
71811 TATATTTATATTTATATACTATATATTATAGTTGATATTTATATACTATATATTATATATATAAA
1 TATA-TAATATATATATACTATATATTACAGTTGATATATATATACTATATACTATATATATAAA
*
71876 CTATAGTT
65 CTATAATT
* * * *
71884 TATAT-ATA-A-AT-TA-TA-A-ATTATAGTTGATATTTATATAATTTATACTATATA
1 TATATAATATATATATACTATATATTACAGTTGATATATATATACTATATACTATATA
71935 AATTCTATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
65 32 0.30
66 1 0.01
67 2 0.02
68 2 0.02
69 2 0.02
71 3 0.03
72 1 0.01
73 45 0.42
74 10 0.09
75 8 0.07
76 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (72 bp):
TATATAATATATATATACTATATATTACAGTTGATATATATATACTATATACTATATATATAAAC
TATAATT
Found at i:71855 original size:27 final size:26
Alignment explanation
Indices: 71792--71868 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
71782 GGTATATACT
* * *
71792 ATATATATAAACTATA-ATTTATATTT
1 ATATTTATATACTATATA-TTATATTG
71818 ATATTTATATACTATATATTATAGTTG
1 ATATTTATATACTATATATTATA-TTG
71845 ATATTTATATACTATATATTATAT
1 ATATTTATATACTATATATTATAT
71869 ATATAAACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 20 0.43
27 26 0.57
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.52
Consensus pattern (26 bp):
ATATTTATATACTATATATTATATTG
Found at i:71891 original size:2 final size:2
Alignment explanation
Indices: 71661--71873 Score: 68
Period size: 2 Copynumber: 102.5 Consensus size: 2
71651 TATTTATAAA
* * *
71661 AT AT AT ACT AC AT AT AT AA ACT AT AT AT AT AT AA ACT AT A- AT
1 AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT
* *
71703 TT AT AT ACT AT AT ACT AT AGT -T GAT AT TT AT AT ACT AT AT A- AT
1 AT AT AT A-T AT AT A-T AT A-T AT -AT AT AT AT AT A-T AT AT AT AT
* * * *
71746 AT AT AGT TT AC AT -T AT -T AC AT AT GA- ACT AT AT AT AT GGT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT -AT AT
* * * *
71787 AT ACT AT AT AT AT AA ACT AT A- AT TT AT AT TT AT AT TT AT AT ACT
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
71831 AT AT AT -T AT AGT -T GAT AT TT AT AT ACT AT AT AT -T AT AT AT
1 AT AT AT AT AT A-T AT -AT AT AT AT AT A-T AT AT AT AT AT AT AT
71871 AT A
1 AT A
71874 AACTATAGTT
Statistics
Matches: 155, Mismatches: 28, Indels: 56
0.65 0.12 0.23
Matches are distributed among these distances:
1 10 0.06
2 120 0.77
3 25 0.16
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:72049 original size:18 final size:18
Alignment explanation
Indices: 72010--72071 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
72000 ATAAACTATT
* *
72010 TATATAATATATACTACA-
1 TATATAATTTATA-TAAAC
72028 TATATAATTTATATAAAC
1 TATATAATTTATATAAAC
* *
72046 TATATAGTTTACATATGAAC
1 TATATAATTT--ATATAAAC
72066 TATATA
1 TATATA
72072 TAAAAACTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.08
18 21 0.57
20 13 0.35
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (18 bp):
TATATAATTTATATAAAC
Found at i:72119 original size:18 final size:18
Alignment explanation
Indices: 72089--72170 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 18
72079 TGTATATATA
*
72089 TATATGGTATATATAAAC
1 TATATAGTATATATAAAC
* **
72107 TGTATA-T-TATAT-AGT
1 TATATAGTATATATAAAC
72122 TCAT-TAGTATATATAAAC
1 T-ATATAGTATATATAAAC
*
72140 TATATAGTATATATAAAT
1 TATATAGTATATATAAAC
*
72158 TATATATTATATA
1 TATATAGTATATA
72171 GTTCATTAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
15 4 0.08
16 7 0.14
17 8 0.16
18 31 0.62
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:72132 original size:33 final size:28
Alignment explanation
Indices: 72068--72164 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 28
72058 ATATGAACTA
* *
72068 TATATAAAAACTGTATATATATATATGG
1 TATATATAAACTGTATATATATATATAG
72096 TATATATAAACTGTATATTATATAGTTCATTAG
1 TATATATAAACTGTATA-TATATA--T-A-TAG
* * *
72129 TATATATAAACTATATAGTATATATAAAT
1 TATATATAAACTGTATA-TATATATATAG
72158 TATATAT
1 TATATAT
72165 TATATAGTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
28 16 0.28
29 14 0.24
30 1 0.02
31 2 0.03
32 1 0.02
33 24 0.41
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (28 bp):
TATATATAAACTGTATATATATATATAG
Found at i:72155 original size:51 final size:51
Alignment explanation
Indices: 72081--72196 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
72071 ATAAAAACTG
* * *
72081 TATATATA-TATATGGTATATATAAACTGTATATTATATAGTTCATTAGTA
1 TATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAGTA
*
72131 TATATAAACTATATAGTATATATAAATTATATATTATATAGTTCATTAGTA
1 TATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAGTA
*
72182 TATATAACCTATATA
1 TATATAAACTATATA
72197 TTAATTTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 7 0.12
51 53 0.88
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (51 bp):
TATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAGTA
Found at i:72339 original size:61 final size:61
Alignment explanation
Indices: 72256--72395 Score: 212
Period size: 61 Copynumber: 2.3 Consensus size: 61
72246 TATAAGGATC
*
72256 AAATT-AAACAAATTTTAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTGGACT
1 AAATTGAAACAAA-TTTAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTAGACT
* * * *
72317 AAATTGAAAGAAATTTAGATATGAAGCTTAAATTAATACATTGCATCATTAAATTTAGACT
1 AAATTGAAACAAATTTAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTAGACT
72378 AAATTG-AACAAATTTAAA
1 AAATTGAAACAAATTTAAA
72396 ATTAGGAGAC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
60 10 0.14
61 55 0.77
62 6 0.08
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (61 bp):
AAATTGAAACAAATTTAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTAGACT
Found at i:72810 original size:101 final size:102
Alignment explanation
Indices: 72689--72896 Score: 330
Period size: 101 Copynumber: 2.0 Consensus size: 102
72679 CACCAAAAAA
* *
72689 TTCATCAATGTTCATCCCAAAAATCATCTTTTGATCTTCACAAACACCAAAACCCAAACCATTTC
1 TTCATCAATGTTCATCCCAAAAACCATCCTTTGATCTTCACAAACACCAAAACCCAAACCATTTC
* *
72754 GTGTTTTT-TATCAAACACCCAAAAATTCAACCCTTG
66 GTGTTTTTCGATCAAACACCCAAAAATTCAACCATTG
* *
72790 TTCATCCATGCTT-ATCCCAAAAACCCTCCTTTGATCTTCACAAACACCAAAACCCAAACCATTT
1 TTCATCAATG-TTCATCCCAAAAACCATCCTTTGATCTTCACAAACACCAAAACCCAAACCATTT
*
72854 CGTGTTTTTCGATCAAACACTCAAAAATTCAACCATTG
65 CGTGTTTTTCGATCAAACACCCAAAAATTCAACCATTG
72892 TTCAT
1 TTCAT
72897 TCGTGTTCAT
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
101 66 0.67
102 32 0.33
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (102 bp):
TTCATCAATGTTCATCCCAAAAACCATCCTTTGATCTTCACAAACACCAAAACCCAAACCATTTC
GTGTTTTTCGATCAAACACCCAAAAATTCAACCATTG
Found at i:73036 original size:112 final size:111
Alignment explanation
Indices: 72819--73029 Score: 248
Period size: 112 Copynumber: 1.9 Consensus size: 111
72809 AAAACCCTCC
*
72819 TTTGATCTTCACAAACACCAAAACCCAAACCATTTCGTGTTTTTCGATCAAACACTCAAAAATTC
1 TTTGATCTTCACAAACACCAAAACCCAAACCATTTCGTGTTTTTCGATCAAACACTCAAAAATTA
* *** *
72884 AACCATTGTTCATTCGTGTTCATCTCAGTTCTTCCCCAAACCATTA
66 AACCATTGTTCATTCGTGTTCATCCCAAACCTTCCACAAACCATTA
** * *
72930 TTTGATCTTCACAAACACCAAAACTTAAA-CTTATTCTTGTTTTTTCGATCAAACAAC-CAAAAA
1 TTTGATCTTCACAAACACCAAAACCCAAACCAT-TTCGTG-TTTTTCGATCAAAC-ACTCAAAAA
* *
72993 TTAAACCCTTGTTCA-TCTGTGTTCTTCCCCAAACCTT
63 TTAAACCATTGTTCATTC-GTGTTCAT-CCCAAACCTT
73030 TACAAACACC
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
110 2 0.02
111 34 0.40
112 40 0.48
113 8 0.10
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (111 bp):
TTTGATCTTCACAAACACCAAAACCCAAACCATTTCGTGTTTTTCGATCAAACACTCAAAAATTA
AACCATTGTTCATTCGTGTTCATCCCAAACCTTCCACAAACCATTA
Found at i:73233 original size:18 final size:18
Alignment explanation
Indices: 73206--73270 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
73196 CCCAAACCCT
73206 AACCAGAACCCAAACTCGA
1 AACCA-AACCCAAACTCGA
* *
73225 AACCAAACCCGAACCCGA
1 AACCAAACCCAAACTCGA
**
73243 TTCCAAACCCAAACTCGA
1 AACCAAACCCAAACTCGA
*
73261 ACCCAAACCC
1 AACCAAACCC
73271 GAATCTACAC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 33 0.87
19 5 0.13
ACGTcount: A:0.43, C:0.43, G:0.08, T:0.06
Consensus pattern (18 bp):
AACCAAACCCAAACTCGA
Found at i:74389 original size:19 final size:19
Alignment explanation
Indices: 74365--74403 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
74355 TTATAATATT
*
74365 AGAATTATAAATAATATAA
1 AGAATTAGAAATAATATAA
* *
74384 AGAATTGGAATTAATATAA
1 AGAATTAGAAATAATATAA
74403 A
1 A
74404 AAACCAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (19 bp):
AGAATTAGAAATAATATAA
Found at i:75473 original size:30 final size:30
Alignment explanation
Indices: 75437--75493 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
75427 GGTCTGGCAA
* *
75437 TGAACCGGCTGAAAACCGGTAAAACCAGGG
1 TGAACCGACTGAAAACCGGCAAAACCAGGG
75467 TGAACCGACTGAAAACCGGCAAAACCA
1 TGAACCGACTGAAAACCGGCAAAACCA
75494 ATTGAAACCG
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:0.26, G:0.25, T:0.09
Consensus pattern (30 bp):
TGAACCGACTGAAAACCGGCAAAACCAGGG
Found at i:78320 original size:17 final size:17
Alignment explanation
Indices: 78298--78330 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
78288 TAATTACGAA
78298 TAAATACATTTATAACG
1 TAAATACATTTATAACG
78315 TAAATACATTTATAAC
1 TAAATACATTTATAAC
78331 TAGTGTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAATACATTTATAACG
Found at i:78688 original size:3 final size:3
Alignment explanation
Indices: 78631--78677 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
78621 TTTTGTCCAG
* *
78631 ATT ATT ATTT AAT ATT ATA ATT ATT ATT -TAT ATT ATT ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
78677 A
1 A
78678 AATTTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 1 0.03
3 32 0.86
4 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:80473 original size:15 final size:16
Alignment explanation
Indices: 80432--80473 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
80422 TCGAACAAAA
*
80432 TAATATATTTTATTTT
1 TAATATATTTTAGTTT
*
80448 TGAATAAATTTT-GTTT
1 T-AATATATTTTAGTTT
80464 TAATATATTT
1 TAATATATTT
80474 AATATATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
TAATATATTTTAGTTT
Found at i:88671 original size:257 final size:256
Alignment explanation
Indices: 87960--89163 Score: 1541
Period size: 256 Copynumber: 4.7 Consensus size: 256
87950 AACTTGTTTT
* * * *
87960 AAAAATGAGAAATCGATTTCCAAAGTTTCTTATTTAATATTTTCAAAAAATGAAATTTTTGAAAA
1 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAA
*
88025 GTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAG-CCATTCG
66 GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCC-TTCG
* * * * * * *
88089 GACCATTAGTAAGTTTTTTGAGCATGATG-TTAAATCCTTCGAGTCTTCTATAAGTCCTTCGAGT
130 G-CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGC
* * ** *
88153 AAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCAGGCT-GGATGTTTTCACATGATTTTG
194 AAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTC-GGGTAGGATGTTTTCACATGAACTCG
* *
88216 AAAAATGAGAAAGCGA-TTCTAAAGTTTCTCATTTAAAGTTTCTCAGAAAATGAAATTTTTGAAA
1 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTT-TCAGAAAATGAAATTTTTGAAA
* *
88280 AGTAAGAAAGC-ATTTCTAAAGTTTCTTACCCAATAAATTATTTCCAAAATTTGTAAGTCCTTCG
65 AGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
* * * * * * * *
88344 AGCTATCAGTAAGTCTTTCGAGAATGATGCTTAAATCCTTCGGATTATCTGTAACTCTTTTGAGC
130 -GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGC
* *
88409 AAGATGATAAGTCCTTCGGGCCATCCGTAAGAACTTCGGGTAGGATGTTTTCACATGAACTCG
194 AAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAACTCG
* ** * *
88472 AAAAATAAGAAAGCGATTTCCATTGTTTCTCATTTAATGTTTTCAGAAAATAAAATCTTTGAAAA
1 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAA
* *
88537 GTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAATTATTTCCAAAATTTGTAAGTCCTTCAG
66 GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTC-G
* * * * * *
88602 GCCATTAGTAAGTCTTTGGACCATGATGCTTGAATCCTTCGGGTCATCTATAAGTCTTTCGAACA
130 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCA
*
88667 AGATGATAAGT-CTTCGGGCCATCCATAAGACCTTCGGGTACGATGTTTTCACATGAACTTCG
195 AGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAAC-TCG
* * * *
88729 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAAGTTCTCAAAAAATGAAATTTTAGAAAA
1 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAA
* *
88794 GTAAGAAATCGATTTCCAAAGTTTCTTA-CCAGTAAAATATTTCCAAAATTTGTAAGTCCTTCGG
66 GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTC-G
** * * * * **
88858 GCCATCAACAAGTCTTTCGAGCATGATGATTAAATCCTTCGTGTCATTTGTAAGCCTTTCGAGTG
130 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCA
* * * * *
88923 AGATGATAAGTCCTTC-GGTCATCCGTAAGACCTTTGGGTATGG-TGTTTTCACATGAATTTTG
195 AGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTA-GGATGTTTTCACATGAA-CTCG
* *
88985 AAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATCTTTAT-AGAAAACT-AAATTTTTGAA
1 AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTT-TCAGAAAA-TGAAATTTTTGAA
* * * * *
89048 AAGTAAGAAAG-TAGTTTCCAAAGTGTCTTACCCAGTAAAATATTTTCAAAATTAGTAAGTCCTT
64 AAGTAAGAAAGCGA-TTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTT
* *
89112 CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTCGGGTTATCT
128 C-GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCT
89164 GTCAGTCTCA
Statistics
Matches: 825, Mismatches: 107, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
255 95 0.12
256 427 0.52
257 302 0.37
258 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (256 bp):
AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAA
GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCGG
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAACTCG
Found at i:88939 original size:513 final size:509
Alignment explanation
Indices: 87960--89163 Score: 1627
Period size: 513 Copynumber: 2.3 Consensus size: 509
87950 AACTTGTTTT
* * *
87960 AAAAATGAGAAATCGATTTCCAAAGTTTCTTATTTAATATTTTCAAAAAATGAAATTTTTGAAAA
1 AAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAAT-AAATTTTTGAAAA
88025 GTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAG-CCATTCG
65 GTAAGAAAG-GATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCC-TTCG
* * * * **
88089 GACCATTAGTAAGTTTTTTGAGCATGATGTTAAATCCTTCGAGTCTTCTATAAGTCCTTCGAGTA
128 G-CCATTAGTAAGTCTTTCGAGCATGATGTTAAATCCTTCGGGTCATCTATAAGTCCTTCGAACA
* * * *
88154 AGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCAGGCTGGATGTTTTCACATGATTTTGAAA
192 AGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGCTCGATGTTTTCACATGACTTCGAAA
* * *
88219 AATGAGAAAGCGATTCTAAAGTTTCTCATTTAAAGTTTCTCAGAAAATGAAATTTTTGAAAAGTA
257 AATGAGAAAGCGATTCCAAAGTTTCTCATTTAAAGTTTCTCAAAAAATGAAATTTTAGAAAAGTA
* * *
88284 AGAAAGCATTTCTAAAGTTTCTTACCCAATAAATTATTTCCAAAATTTGTAAGTCCTTCGAGCTA
322 AGAAAGCATTTCCAAAGTTTCTTACCCAATAAAATATTTCCAAAATTTGTAAGTCCTTCGAGCCA
** * * *
88349 TCAGTAAGTCTTTCGAGAATGATGCTTAAATCCTTCGGATTATCTGTAACTCTTTTGAGCAAGAT
387 TCAACAAGTCTTTCGAGAATGATGATTAAATCCTTCGGATCATCTGTAACTCTTTCGAGCAAGAT
88414 GATAAGTCCTTCGGGCCATCCGTAAGAACTTCGGGTA-GGATGTTTTCACATGAA-CTCG
452 GATAAGTCCTTC-GGCCATCCGTAAGAACTTCGGGTATGG-TGTTTTCACATGAATCTCG
* * ** * *
88472 AAAAATAAGAAAGCGATTTCCATTGTTTCTCATTTAATGTTTTCAGAAAATAAAATCTTTGAAAA
1 AAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAAT-AAATTTTTGAAAA
* *
88537 GTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAATTATTTCCAAAATTTGTAAGTCCTTCAG
65 GTAAGAAAG-GATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTC-G
* * * *
88602 GCCATTAGTAAGTCTTTGGACCATGATGCTTGAATCCTTCGGGTCATCTATAAGTCTTTCGAACA
128 GCCATTAGTAAGTCTTTCGAGCATGATG-TTAAATCCTTCGGGTCATCTATAAGTCCTTCGAACA
*
88667 AGATGATAAGT-CTTCGGGCCATCCATAAGACCTTC-GGGTACGATGTTTTCACATGAACTTCGA
192 AGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGCT-CGATGTTTTCACATG-ACTTCGA
88730 AAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAAG-TTCTCAAAAAATGAAATTTTAGAAAA
255 AAAATGAGAAAGCGA-TTCCAAAGTTTCTCATTTAAAGTTTCTCAAAAAATGAAATTTTAGAAAA
* * *
88794 GTAAGAAATCGATTTCCAAAGTTTCTTA-CCAGTAAAATATTTCCAAAATTTGTAAGTCCTTCGG
319 GTAAGAAAGC-ATTTCCAAAGTTTCTTACCCAATAAAATATTTCCAAAATTTGTAAGTCCTTCGA
* *
88858 GCCATCAACAAGTCTTTCGAGCATGATGATTAAATCCTTCGTG-TCATTTGTAAGC-CTTTCGAG
383 GCCATCAACAAGTCTTTCGAGAATGATGATTAAATCCTTCG-GATCATCTGTAA-CTCTTTCGAG
** * * * * *
88921 TGAGATGATAAGTCCTTCGGTCATCCGTAAGACCTTTGGGTATGGTGTTTTCACATGAATTTTG
446 CAAGATGATAAGTCCTTCGGCCATCCGTAAGAACTTCGGGTATGGTGTTTTCACATGAATCTCG
*
88985 AAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATCTTTAT-AGAAAACTAAATTTTTGAAA
1 AAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATATTT-TCAGAAAA-TAAATTTTTGAAA
* * * * *
89049 AGTAAGAAAGTAGTTTCCAAAGTGTCTTACCCAGTAAAATATTTTCAAAATTAGTAAGTCCTTCG
64 AGTAAGAAAGGA-TTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTC-
* * *
89114 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTCGGGTTATCT
127 GGCCATTAGTAAGTCTTTCGAGCATGATG-TTAAATCCTTCGGGTCATCT
89164 GTCAGTCTCA
Statistics
Matches: 608, Mismatches: 70, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
511 3 0.00
512 210 0.35
513 354 0.58
514 41 0.07
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (509 bp):
AAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATAAATTTTTGAAAAG
TAAGAAAGGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCGGCC
ATTAGTAAGTCTTTCGAGCATGATGTTAAATCCTTCGGGTCATCTATAAGTCCTTCGAACAAGAT
GATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGCTCGATGTTTTCACATGACTTCGAAAAATG
AGAAAGCGATTCCAAAGTTTCTCATTTAAAGTTTCTCAAAAAATGAAATTTTAGAAAAGTAAGAA
AGCATTTCCAAAGTTTCTTACCCAATAAAATATTTCCAAAATTTGTAAGTCCTTCGAGCCATCAA
CAAGTCTTTCGAGAATGATGATTAAATCCTTCGGATCATCTGTAACTCTTTCGAGCAAGATGATA
AGTCCTTCGGCCATCCGTAAGAACTTCGGGTATGGTGTTTTCACATGAATCTCG
Found at i:91275 original size:16 final size:16
Alignment explanation
Indices: 91236--91278 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
91226 TCGAACAAAA
91236 TAATATATTTTATTTT
1 TAATATATTTTATTTT
91252 TGAATATATTTT-TGTTT
1 T-AATATATTTTAT-TTT
91269 TAATATATTT
1 TAATATATTT
91279 AATATACGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TAATATATTTTATTTT
Found at i:93905 original size:258 final size:256
Alignment explanation
Indices: 93438--94332 Score: 1167
Period size: 258 Copynumber: 3.5 Consensus size: 256
93428 GATTTCCAAA
* * *
93438 GTTTCTCAGAAAATGATATTTTTAAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAA
1 GTTT-TCAGAAAATGAAATCTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAA
* * *
93503 TTATTTCCAAAATTTGTAAGTCCTTTGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCC
65 TTATTTCCAAAATTTGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
* * * * *
93568 TTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATTCGTAAGATCTTCA
130 TTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCG
* *
93633 GATAGGATGTTTTCACATGAACTTCGAAAAATGAGAAATCATTTTCCAATGTTTCTCATTTAGT
195 GGTAGGATGTTTTCACATGAACTTCGAAAAATGAGAAAGCA-TTTCCAATGTTTCTCATTTA-T
* * * *
93697 GTTTTCATAAAATGAAATCTTTGAAAAGTAAGAAAGTGACTTCCGAAGTTTCTTACCCAGTAAAT
1 GTTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAAT
* * * * *
93762 TATTTCCAAAATTTGTAAGTAATTTGGTCCATCAGGAAGTCTTTCGAGCATGATGTTTAAATCCT
66 TATTTCCAAAATTTGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCT
*
93827 TCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGG
131 TCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGG
* *
93892 GTAGGACGTTTTCACATGAACTCCGAAAAATGAGAAAGCGATTTCCAATGTTTCTCATTTAAT
196 GTAGGATGTTTTCACATGAACTTCGAAAAATGAGAAAGC-ATTTCCAATGTTTCTCATTT-AT
* *
93955 GTTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAGCGATTTCCAAAATTTATTACCCA-TAAAA
1 GTTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGT-AAA
* *
94019 TTATTTCCAAAATTTGTAAGTCATTCGGGCCATCAATAATTCTTTCGAGCATGATGCTTAAATCC
65 TTATTTCCAAAATTTGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
* * * * * *
94084 TTCGGGTCATATGTAAGTCTTTCGATCAAGATGATAAGTTCTTTGGGCAATCTATAAGACCTTCG
130 TTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCG
** * *
94149 GGCTA-GATGTTTTCACATG-A-TT-TTAAAATGAGAAAG------CAA--TTT-GCA---AA
195 GG-TAGGATGTTTTCACATGAACTTCGAAAAATGAGAAAGCATTTCCAATGTTTCTCATTTAT
* * *
94196 GTTTCTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAA
1 GTTT-TCAGAAAATGAAATCTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAA
* ** * * *
94261 TTTTTTCCAAAATTAATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAATCC
65 TTATTTCCAAAATTTGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
94326 TTCGGGT
130 TTCGGGT
94333 TATATGTCGG
Statistics
Matches: 568, Mismatches: 62, Indels: 29
0.86 0.09 0.04
Matches are distributed among these distances:
241 5 0.01
242 117 0.21
243 1 0.00
245 2 0.00
246 3 0.01
248 3 0.01
255 12 0.02
256 1 0.00
257 2 0.00
258 414 0.73
259 8 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (256 bp):
GTTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAAT
TATTTCCAAAATTTGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCT
TCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGG
GTAGGATGTTTTCACATGAACTTCGAAAAATGAGAAAGCATTTCCAATGTTTCTCATTTAT
Found at i:105797 original size:14 final size:14
Alignment explanation
Indices: 105778--105807 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105768 TTTAGATTTT
*
105778 TTAAAATTACATTA
1 TTAAAAATACATTA
105792 TTAAAAATACATTA
1 TTAAAAATACATTA
105806 TT
1 TT
105808 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:106272 original size:15 final size:16
Alignment explanation
Indices: 106241--106274 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
106231 TAATATAATA
106241 AAATATGATTCAATTT
1 AAATATGATTCAATTT
*
106257 AAATATTATT-AATTT
1 AAATATGATTCAATTT
106272 AAA
1 AAA
106275 AAATATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATATGATTCAATTT
Found at i:106682 original size:7 final size:7
Alignment explanation
Indices: 106667--106712 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
106657 AATTATGTGA
106667 TAGGGTT
1 TAGGGTT
*
106674 TATGGTT
1 TAGGGTT
*
106681 TAGGGAT
1 TAGGGTT
*
106688 TATGGTT
1 TAGGGTT
106695 TAGGGTT
1 TAGGGTT
*
106702 TGGGGTT
1 TAGGGTT
106709 TAGG
1 TAGG
106713 TTTTGAATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.43
Consensus pattern (7 bp):
TAGGGTT
Found at i:106684 original size:14 final size:14
Alignment explanation
Indices: 106667--106712 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
106657 AATTATGTGA
106667 TAGGGTTTATGGTT
1 TAGGGTTTATGGTT
*
106681 TAGGGATTATGGTT
1 TAGGGTTTATGGTT
**
106695 TAGGGTTTGGGGTT
1 TAGGGTTTATGGTT
106709 TAGG
1 TAGG
106713 TTTTGAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.43
Consensus pattern (14 bp):
TAGGGTTTATGGTT
Found at i:109250 original size:23 final size:23
Alignment explanation
Indices: 109220--109293 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
109210 TATAGGATCA
109220 AGCTCAAAAACGAGCTTGAATCG
1 AGCTCAAAAACGAGCTTGAATCG
109243 AGCTCAAAAACGAGCTTGAATCG
1 AGCTCAAAAACGAGCTTGAATCG
*
109266 AGCTCAAAAACGAGCTTCAATCG
1 AGCTCAAAAACGAGCTTGAATCG
109289 AGCTC
1 AGCTC
109294 GAGTCTAGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (23 bp):
AGCTCAAAAACGAGCTTGAATCG
Found at i:109258 original size:12 final size:12
Alignment explanation
Indices: 109220--109281 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
109210 TATAGGATCA
109220 AGCTCAAAAACG
1 AGCTCAAAAACG
** *
109232 AGCT-TGAATCG
1 AGCTCAAAAACG
109243 AGCTCAAAAACG
1 AGCTCAAAAACG
** *
109255 AGCT-TGAATCG
1 AGCTCAAAAACG
109266 AGCTCAAAAACG
1 AGCTCAAAAACG
109278 AGCT
1 AGCT
109282 TCAATCGAGC
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
11 16 0.44
12 20 0.56
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (12 bp):
AGCTCAAAAACG
Found at i:118626 original size:11 final size:12
Alignment explanation
Indices: 118596--118641 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
118586 ATGGTGCTGG
118596 AAACAAGATAAA
1 AAACAAGATAAA
* *
118608 AAATAAGAT-TA
1 AAACAAGATAAA
118619 AAACAAGATAAA
1 AAACAAGATAAA
*
118631 GAA-AAGATAAA
1 AAACAAGATAAA
118642 TGAATTGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (12 bp):
AAACAAGATAAA
Found at i:118626 original size:23 final size:22
Alignment explanation
Indices: 118596--118638 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
118586 ATGGTGCTGG
118596 AAACAAGATAAAAAATAAGATTA
1 AAACAAGATAAAAAA-AAGATTA
*
118619 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAAAAAAGAT
118639 AAATGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAAAAAAGATTA
Found at i:123633 original size:31 final size:32
Alignment explanation
Indices: 123590--123667 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 32
123580 AAACTATATA
*
123590 TTTAATACCTAAACTATCAAATTTATTT-TGT
1 TTTAGTACCTAAACTATCAAATTTATTTATGT
* * ** *
123621 TTTAGTACCTAAACGATTAGTTTTATTTATTT
1 TTTAGTACCTAAACTATCAAATTTATTTATGT
*
123653 TTTAGTATCTAAACT
1 TTTAGTACCTAAACT
123668 TTCATTTGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 23 0.61
32 15 0.39
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (32 bp):
TTTAGTACCTAAACTATCAAATTTATTTATGT
Found at i:124930 original size:23 final size:23
Alignment explanation
Indices: 124903--124952 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
124893 ACTTTTGGGT
*
124903 TGAAATGAAATAACTATTTTTCA
1 TGAAAAGAAATAACTATTTTTCA
** *
124926 TGAAAAGACTTAATTATTTTTCA
1 TGAAAAGAAATAACTATTTTTCA
124949 TGAA
1 TGAA
124953 TAATCATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (23 bp):
TGAAAAGAAATAACTATTTTTCA
Found at i:127828 original size:18 final size:18
Alignment explanation
Indices: 127805--127839 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
127795 ACCGGTCAAC
127805 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
127823 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
127840 AACGGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.49, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:127832 original size:13 final size:13
Alignment explanation
Indices: 127816--127859 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
127806 GTCAACGGGT
127816 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
127829 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
127842 CGGGTCGGTTCAA
1 CGGGTCGGGTCAA
127855 CGGGT
1 CGGGT
127860 AAACGGGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:135054 original size:13 final size:13
Alignment explanation
Indices: 135054--135086 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
135044 GTCAACGGGT
*
135054 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
135067 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
135080 CGGGTCG
1 CGGGTCG
135087 TGACCGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.15
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:135073 original size:18 final size:18
Alignment explanation
Indices: 135025--135076 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
135015 ACCGGTCAAC
*
135025 GGTCAACGGGTCAGGTCG
1 GGTCAACGGGTCGGGTCG
135043 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
135061 GGTCAACGGGTCGGGT
1 GGTCAACGGGTCGGGT
135077 AAACGGGTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.13, C:0.21, G:0.48, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:135096 original size:31 final size:31
Alignment explanation
Indices: 135038--135097 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
135028 CAACGGGTCA
* * *
135038 GGTCGGGTCAACGGGTCGGGTCGGGTCAACG
1 GGTCGGGTAAACGGGTCGGGACCGGTCAACG
*
135069 GGTCGGGTAAACGGGTCGTGACCGGTCAA
1 GGTCGGGTAAACGGGTCGGGACCGGTCAA
135098 ACCGGTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.17, C:0.22, G:0.45, T:0.17
Consensus pattern (31 bp):
GGTCGGGTAAACGGGTCGGGACCGGTCAACG
Found at i:135109 original size:10 final size:10
Alignment explanation
Indices: 135089--135172 Score: 77
Period size: 10 Copynumber: 8.6 Consensus size: 10
135079 ACGGGTCGTG
135089 ACCGGTC-AA
1 ACCGGTCAAA
135098 ACCGGTCAAA
1 ACCGGTCAAA
135108 ACCGGTTCAAA
1 ACCGG-TCAAA
* *
135119 ACTGGT--TA
1 ACCGGTCAAA
135127 ACCGGTCAAA
1 ACCGGTCAAA
*
135137 ACCAGTTCAAA
1 ACC-GGTCAAA
* *
135148 ACTGGT-TAA
1 ACCGGTCAAA
135157 ACCGGTCAAA
1 ACCGGTCAAA
135167 ACCGGT
1 ACCGGT
135173 TTCCAGCGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.10
9 14 0.24
10 22 0.37
11 17 0.29
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:135111 original size:19 final size:20
Alignment explanation
Indices: 135089--135172 Score: 77
Period size: 19 Copynumber: 4.3 Consensus size: 20
135079 ACGGGTCGTG
135089 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGTCAAA
* *
135108 ACCGGTTCAAAACTGGT--TA
1 ACCGG-TCAAAACCGGTCAAA
*
135127 ACCGGTCAAAACCAGTTCAAA
1 ACCGGTCAAAACC-GGTCAAA
* *
135148 ACTGGT-TAAACCGGTCAAA
1 ACCGGTCAAAACCGGTCAAA
135167 ACCGGT
1 ACCGGT
135173 TTCCAGCGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
18 7 0.14
19 24 0.47
20 7 0.14
21 13 0.25
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
ACCGGTCAAAACCGGTCAAA
Found at i:135130 original size:29 final size:30
Alignment explanation
Indices: 135096--135173 Score: 140
Period size: 29 Copynumber: 2.6 Consensus size: 30
135086 GTGACCGGTC
135096 AAACCGGTCAAAACCGGTTCAAAACTGGTT
1 AAACCGGTCAAAACCGGTTCAAAACTGGTT
*
135126 -AACCGGTCAAAACCAGTTCAAAACTGGTT
1 AAACCGGTCAAAACCGGTTCAAAACTGGTT
135155 AAACCGGTCAAAACCGGTT
1 AAACCGGTCAAAACCGGTT
135174 TCCAGCGTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 28 0.62
30 17 0.38
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (30 bp):
AAACCGGTCAAAACCGGTTCAAAACTGGTT
Found at i:139183 original size:16 final size:17
Alignment explanation
Indices: 139146--139187 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
139136 ACCGAAATAA
139146 TAAATATAATATGAAACG
1 TAAATAT-ATATGAAACG
*
139164 -AAATATATAT-TAACG
1 TAAATATATATGAAACG
139179 TAAATATAT
1 TAAATATAT
139188 TACCACGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (17 bp):
TAAATATATATGAAACG
Found at i:148108 original size:15 final size:15
Alignment explanation
Indices: 148081--148118 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
148071 AGAATTAAAT
148081 TTTATAAAATATA-TA
1 TTTA-AAAATATATTA
148096 TTTAAAAATTATATTA
1 TTTAAAAA-TATATTA
148112 TTTAAAA
1 TTTAAAA
148119 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAAAATATATTA
Found at i:148119 original size:15 final size:15
Alignment explanation
Indices: 148063--148120 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
148053 TTTGACCATC
* *
148063 ATTATTTTAGAATTAA
1 ATTA-TTTAAAATTAT
148079 ATT-TTATAAAA-TAT
1 ATTATT-TAAAATTAT
148093 A-TATTTAAAAATTAT
1 ATTATTT-AAAATTAT
148108 ATTATTTAAAATT
1 ATTATTTAAAATT
148121 TTTAAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
13 2 0.06
14 11 0.31
15 14 0.40
16 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTATTTAAAATTAT
Found at i:148131 original size:23 final size:24
Alignment explanation
Indices: 148100--148147 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
148090 TATATATTTA
148100 AAAATTATATTATTTAAAATTTTT
1 AAAATTATATTATTTAAAATTTTT
* * *
148124 AAAA-TATATTTTTTCATATTTTT
1 AAAATTATATTATTTAAAATTTTT
148147 A
1 A
148148 TTAATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
AAAATTATATTATTTAAAATTTTT
Found at i:153020 original size:3 final size:3
Alignment explanation
Indices: 153012--153086 Score: 132
Period size: 3 Copynumber: 25.0 Consensus size: 3
153002 TTTGTAAATG
* *
153012 ATA ATA ATA TTT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
153060 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
153087 GTGGTAGATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:153644 original size:42 final size:41
Alignment explanation
Indices: 153543--153649 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 41
153533 CCCTGATGGT
* * * *
153543 CTTATGGATGGTCCGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
* * * *
153584 TTTATAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGA
153626 CTTACT-GATGGCCCGAAGGACTTA
1 CTTA-TAGATGGCCCGAAGGACTTA
153650 TTAATCAAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
41 18 0.35
42 33 0.63
43 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
Found at i:153740 original size:56 final size:57
Alignment explanation
Indices: 153653--154025 Score: 247
Period size: 56 Copynumber: 6.8 Consensus size: 57
153643 GGACTTATTA
* * *
153653 ATCAAGAAACCCTTGAAAATCAAACTTAGTTTC-TTAAAACTTTCATTT-ACAATTATC
1 ATCAAGAAACCCCTGAAAATCAGACTTAGTTTCTTTAAAAC-TTCATTTGA-AATAATC
*
153710 ATCAAGAAACCCCT-AAAATTAGACTTAGTTTCTTTAAAACTTC-TTTGGAAATAATC
1 ATCAAGAAACCCCTGAAAATCAGACTTAGTTTCTTTAAAACTTCATTT-GAAATAATC
* * * *
153766 ATCAATAAA-CCCTAAAAATCA-AGCTTAGCTTCTTTAAAAATTCATCTTTGGAAATAATC
1 ATCAAGAAACCCCTGAAAATCAGA-CTTAGTTTCTTTAAAACTTCA--TTT-GAAATAATC
* * ** * * *
153825 ATCAAGAAACCCCTGAAAATTAGGCTTAACTTATTTACAA----ATTT---ATCAT-
1 ATCAAGAAACCCCTGAAAATCAGACTTAGTTTCTTTAAAACTTCATTTGAAATAATC
* * *
153874 GTCAAGAAACCTCTGAAAATCAGACTTAGTTTC-TAAAAAC-TCATTTG-AA-AA-C
1 ATCAAGAAACCCCTGAAAATCAGACTTAGTTTCTTTAAAACTTCATTTGAAATAATC
** * * *
153926 ATCAAGAAACCCCCAAAAAATTAGGCTTAGCTTCTTTCAAAA-TTCATTTG-AA-AA-C
1 ATCAAGAAA-CCCCTGAAAATCAGACTTAGTTTCTTT-AAAACTTCATTTGAAATAATC
* * *
153981 ATCAAGAAACCCTTGAAAATCA-AGCTTAGCTTCTTTCAAA-TTCAT
1 ATCAAGAAACCCCTGAAAATCAGA-CTTAGTTTCTTTAAAACTTCAT
154026 ATCGATTAGG
Statistics
Matches: 255, Mismatches: 40, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
48 4 0.02
49 26 0.10
50 4 0.02
51 4 0.02
52 9 0.04
53 27 0.11
54 25 0.10
55 33 0.13
56 58 0.23
57 21 0.08
59 21 0.08
60 23 0.09
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (57 bp):
ATCAAGAAACCCCTGAAAATCAGACTTAGTTTCTTTAAAACTTCATTTGAAATAATC
Found at i:153955 original size:53 final size:55
Alignment explanation
Indices: 153889--153992 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
153879 GAAACCTCTG
153889 AAAATCAGACTTAG-TT-TCTAAAAACTCATTTGAAAACATCAAGAAACCCCCAA
1 AAAATCAGACTTAGCTTCTCTAAAAACTCATTTGAAAACATCAAGAAACCCCCAA
* * * * *
153942 AAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAACATCAAGAAACCC
1 AAAATCAGACTTAGCTTCTCTAAAAACTCATTTGAAAACATCAAGAAACCC
153993 TTGAAAATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 12 0.27
54 2 0.05
55 30 0.68
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (55 bp):
AAAATCAGACTTAGCTTCTCTAAAAACTCATTTGAAAACATCAAGAAACCCCCAA
Found at i:153978 original size:55 final size:54
Alignment explanation
Indices: 153909--154025 Score: 164
Period size: 55 Copynumber: 2.2 Consensus size: 54
153899 TTAGTTTCTA
* * *
153909 AAAACTCATTTGAAAACATCAAGAAACCCCCAAAAAATTAGGCTTAGCTTCTTTC
1 AAAATTCATTTGAAAACATCAAGAAA-CCCCAAAAAATCAAGCTTAGCTTCTTTC
***
153964 AAAATTCATTTGAAAACATCAAGAAACCCTTGAAAATCAAGCTTAGCTTCTTTC
1 AAAATTCATTTGAAAACATCAAGAAACCCCAAAAAATCAAGCTTAGCTTCTTTC
154018 -AAATTCAT
1 AAAATTCAT
154026 ATCGATTAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 8 0.14
54 23 0.41
55 25 0.45
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (54 bp):
AAAATTCATTTGAAAACATCAAGAAACCCCAAAAAATCAAGCTTAGCTTCTTTC
Found at i:158343 original size:2 final size:2
Alignment explanation
Indices: 158336--158361 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
158326 ATAAAGATAG
158336 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
158362 ATCTGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:164217 original size:35 final size:35
Alignment explanation
Indices: 164175--164269 Score: 138
Period size: 35 Copynumber: 2.7 Consensus size: 35
164165 TGAAATACCC
164175 ATCTTTGAG-TCTATTTCCCTTGAAACAAAACAAAT
1 ATCTTTGAGATC-ATTTCCCTTGAAACAAAACAAAT
*
164210 ATCTTTGAGATCGTTTCCCTTGAAACAAAACAAAT
1 ATCTTTGAGATCATTTCCCTTGAAACAAAACAAAT
** *
164245 ATCTTTGAGATTGTTTCCCTAGAAA
1 ATCTTTGAGATCATTTCCCTTGAAA
164270 TGGATTTTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 54 0.96
36 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (35 bp):
ATCTTTGAGATCATTTCCCTTGAAACAAAACAAAT
Found at i:164319 original size:101 final size:101
Alignment explanation
Indices: 164210--164437 Score: 341
Period size: 101 Copynumber: 2.3 Consensus size: 101
164200 CAAAACAAAT
* * ***
164210 ATCTTTGAGATCGTTTCCCTTGAAACAAAACAAATATCTTTGAGATTGTTTCCCTAGAAATGGAT
1 ATCTTTGAGATCGTTTCCCTTGAAACAAAACAAACATCTTTGAGATCGTTTCCCTAGAAACAAAT
*
164275 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCC
66 TTTGTCTCTCTTGAGACAGTTTATCTTGAAACACCC
*
164311 ATCTTTGAG-TCTGTTTCCCTTGAAACAAAACAAACATCTTTGAGATCGTTTCCCTTGAAACAAA
1 ATCTTTGAGATC-GTTTCCCTTGAAACAAAACAAACATCTTTGAGATCGTTTCCCTAGAAACAAA
* *
164375 TTTTTTCTCTCTTGAGACAGTTTATCTTGAAACACTC
65 TTTTGTCTCTCTTGAGACAGTTTATCTTGAAACACCC
* *
164412 ATATTTGAGATCGTTTCCCGTGAAAC
1 ATCTTTGAGATCGTTTCCCTTGAAAC
164438 GAAATTTGTC
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
100 2 0.02
101 110 0.96
102 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (101 bp):
ATCTTTGAGATCGTTTCCCTTGAAACAAAACAAACATCTTTGAGATCGTTTCCCTAGAAACAAAT
TTTGTCTCTCTTGAGACAGTTTATCTTGAAACACCC
Found at i:164374 original size:30 final size:31
Alignment explanation
Indices: 164285--164374 Score: 78
Period size: 35 Copynumber: 2.8 Consensus size: 31
164275 TTTGTCTCTC
* **
164285 TTGAGA-CAGTTTCTCTTGAAACACCCATCT
1 TTGAGATCAGTTTCCCTTGAAACAAACATCT
*
164315 TTGAG-TCTGTTTCCCTTGAAACAAAACAAACATCT
1 TTGAGATCAGTTTCCCTTG-----AAACAAACATCT
164350 TTGAGATC-GTTTCCCTTGAAACAAA
1 TTGAGATCAGTTTCCCTTGAAACAAA
164375 TTTTTTCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
30 22 0.45
35 25 0.51
36 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (31 bp):
TTGAGATCAGTTTCCCTTGAAACAAACATCT
Found at i:164423 original size:66 final size:66
Alignment explanation
Indices: 164338--164500 Score: 186
Period size: 66 Copynumber: 2.5 Consensus size: 66
164328 CCTTGAAACA
* * * * *
164338 AAACAAACATCTTTGAGATCGTTTCCCTTGAAAC-AAATTTTTTCTCTCTTGAGACAGTTTATCT
1 AAACAAAAATATTTGAGATCGTTTCCCTTGAAACGAAA-TTTGTCTCCCTTGACACAGTTTATCT
164402 TG
65 TG
*** * * *
164404 AAACACTCATATTTGAGATCGTTTCCCGTGAAACGAAATTTGTCTCCCTTGACATAGTTTCTCTT
1 AAACAAAAATATTTGAGATCGTTTCCCTTGAAACGAAATTTGTCTCCCTTGACACAGTTTATCTT
164469 G
66 G
*
164470 AAACAAAAATATTTGAG-TCATTCTCCCTTGA
1 AAACAAAAATATTTGAGATCGTT-TCCCTTGA
164501 GACAGTTTCT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
65 4 0.05
66 74 0.91
67 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (66 bp):
AAACAAAAATATTTGAGATCGTTTCCCTTGAAACGAAATTTGTCTCCCTTGACACAGTTTATCTT
G
Found at i:164843 original size:137 final size:135
Alignment explanation
Indices: 164588--165040 Score: 496
Period size: 136 Copynumber: 3.3 Consensus size: 135
164578 GATCTCCTCA
* *
164588 TCACCCTTAGATAG-CTAGACTTCCTCATCACGTAGGAACTATGTTATCACCATATCCCTAAAGA
1 TCACCCTTAGATAGTC-AGACTTCCTCATCACGTAGGAAC-GTGTTATCACCATATCCCTAAAAA
* * * * * * * *
164652 TGGCCAAACATCCTCATCACATAGGAACCATGTCATCCACCGAACATATCTCCTCATCAAGTAGA
64 TGGCCAGACGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATTTCCTCATCACGTAGG
*
164717 AGCCATG
129 AGCCGTG
* * * *
164724 TCACCCTTAGATAGTAAGACTTCCTAATCACGTAGGAACCGGTGTTATCATCATATCCCTAAATA
1 TCACCCTTAGATAGTCAGACTTCCTCATCACGTAGGAA-C-GTGTTATCACCATATCCCTAAAAA
* * * * *
164789 TGGCTAGACGTCCACATCACGTAGAAACCGTATCATCCACCGACCAGATTTCCTCATCACGTAGG
64 TGGCCAGACGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATTTCCTCATCACGTAGG
*
164854 AGTCGTG
129 AGCCGTG
* * * * *
164861 TCACCCTTAGATAGCCATACTTCCTCATCATGCAAGAATCGTGTTATCACCATATCCCTAAAAAT
1 TCACCCTTAGATAGTCAGACTTCCTCATCACGTAGGAA-CGTGTTATCACCATATCCCTAAAAAT
* * * * * *
164926 GACGAGACGTCCTTAACACTTAGGAACCGTGTCATCCACCGACTAGATTTCC-CTATCACGTAGG
65 GGCCAGACGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATTTCCTC-ATCACGTAGG
*
164990 AGCCGCG
129 AGCCGTG
* ** *
164997 CCACCCTTAGATAGTCAGACACCCTCATCACGTTGGAATCGTGT
1 TCACCCTTAGATAGTCAGACTTCCTCATCACGTAGGAA-CGTGT
165041 CATCCACTGA
Statistics
Matches: 263, Mismatches: 51, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
135 1 0.00
136 151 0.57
137 111 0.42
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (135 bp):
TCACCCTTAGATAGTCAGACTTCCTCATCACGTAGGAACGTGTTATCACCATATCCCTAAAAATG
GCCAGACGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATTTCCTCATCACGTAGGAG
CCGTG
Found at i:176888 original size:15 final size:15
Alignment explanation
Indices: 176868--176920 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
176858 AGCGTTTTGA
176868 GGAGGATATCCGTGC
1 GGAGGATATCCGTGC
176883 GGAGGATATCC---C
1 GGAGGATATCCGTGC
*
176895 TGAGGATATCCGTGC
1 GGAGGATATCCGTGC
176910 GGAGGATATCC
1 GGAGGATATCC
176921 TGGAGGTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 11 0.33
15 22 0.67
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.21
Consensus pattern (15 bp):
GGAGGATATCCGTGC
Found at i:176926 original size:27 final size:28
Alignment explanation
Indices: 176868--176926 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 28
176858 AGCGTTTTGA
176868 GGAGGATATCCGTGCGGAGGATATCCCT
1 GGAGGATATCCGTGCGGAGGATATCCCT
176896 -GAGGATATCCGTGCGGAGGATAT-CCT
1 GGAGGATATCCGTGCGGAGGATATCCCT
176922 GGAGG
1 GGAGG
176927 TGGATAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.20
Consensus pattern (28 bp):
GGAGGATATCCGTGCGGAGGATATCCCT
Found at i:177361 original size:26 final size:27
Alignment explanation
Indices: 177317--177380 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
177307 AAATTACGTA
* *
177317 TTTAATACTTATAGTTTTTTTTTTTAT
1 TTTAATACTTATAGATTTTTTTTCTAT
177344 TTTAATACTTATA-ATTTTTTTTCTAT
1 TTTAATACTTATAGATTTTTTTTCTAT
*
177370 TTTATTACTTA
1 TTTAATACTTA
177381 AACTTTTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 21 0.62
27 13 0.38
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTAATACTTATAGATTTTTTTTCTAT
Found at i:178796 original size:20 final size:20
Alignment explanation
Indices: 178781--178823 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
178771 GTAAGATTTT
178781 CAGTACGAATAAAAGATTAC
1 CAGTACGAATAAAAGATTAC
**
178801 CAGTGGGAATAAAAGATTAC
1 CAGTACGAATAAAAGATTAC
178821 CAG
1 CAG
178824 GGAATAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (20 bp):
CAGTACGAATAAAAGATTAC
Found at i:178828 original size:18 final size:19
Alignment explanation
Indices: 178787--178829 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
178777 TTTTCAGTAC
178787 GAATAAAAGATTACCAGTGG
1 GAATAAAAGATTACCAG-GG
178807 GAATAAAAGATTACCA-GG
1 GAATAAAAGATTACCAGGG
178825 GAATA
1 GAATA
178830 GGATTACTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (19 bp):
GAATAAAAGATTACCAGGG
Found at i:185724 original size:66 final size:64
Alignment explanation
Indices: 185645--185826 Score: 226
Period size: 66 Copynumber: 2.8 Consensus size: 64
185635 GAATAAATTG
* *
185645 AACATCGAATGCATTTCATGCATCGATGCACATACTATGCATCGATGCACTCAGAG-TTTTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTCAG-GCTATTT-TG
185709 AA
64 -A
* * *
185711 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCATCGATGCACTCAGGCTATTTTGA
* **
185775 AACATTGAATGCATTTCATGCATCGATGCAC-TAAGAGTGCATCGATGCACTC
1 AACATCGAATGCATTTCATGCATCGATGCACATACCA-TGCATCGATGCACTC
185827 TTAGTGCACC
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
63 2 0.02
64 44 0.43
65 3 0.03
66 51 0.50
67 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:188601 original size:60 final size:61
Alignment explanation
Indices: 188479--188622 Score: 154
Period size: 60 Copynumber: 2.4 Consensus size: 61
188469 GTAAATACAT
* * **
188479 ATAGTTTG-GGATAAAATTGGAATGTTAAAATATTTTGGGTACCAATTTAGAGCGAAAGTC
1 ATAGTTTGAGGATAAAATTGAAATGTTAAAATAATTTGGGTACCAATTTAGAAAGAAAGTC
* * *
188539 ATAGTTTGAGGATGAAATTGAAATGTTAAAA-AATTTGAGG-ACTAATTTAGAAATATAA-TC
1 ATAGTTTGAGGATAAAATTGAAATGTTAAAATAATTTG-GGTACCAATTTAGAAAGA-AAGTC
*
188599 ATAGTTT-AGGGATAAAATTAAAAT
1 ATAGTTTGA-GGATAAAATTGAAAT
188623 ATTTATAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.01
60 46 0.65
61 24 0.34
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.33
Consensus pattern (61 bp):
ATAGTTTGAGGATAAAATTGAAATGTTAAAATAATTTGGGTACCAATTTAGAAAGAAAGTC
Found at i:188839 original size:28 final size:26
Alignment explanation
Indices: 188792--188855 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
188782 GATTAAGGAG
* *
188792 ACCAAGCCCACAAAGTCTAAAATACA
1 ACCAAACCCACAAAGGCTAAAATACA
*
188818 ACTCAAACCCACAAAAGGCTAAAATCCA
1 AC-CAAACCCAC-AAAGGCTAAAATACA
*
188846 ACCGAACCCA
1 ACCAAACCCA
188856 AGTCAAGCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.06
27 15 0.47
28 15 0.47
ACGTcount: A:0.48, C:0.34, G:0.08, T:0.09
Consensus pattern (26 bp):
ACCAAACCCACAAAGGCTAAAATACA
Found at i:188853 original size:27 final size:27
Alignment explanation
Indices: 188798--188855 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
188788 GGAGACCAAG
*
188798 CCCACAAAGTCTAAAATACAACTCAAA
1 CCCACAAAGGCTAAAATACAACTCAAA
* *
188825 CCCACAAAAGGCTAAAATCCAAC-CGAA
1 CCCAC-AAAGGCTAAAATACAACTCAAA
188852 CCCA
1 CCCA
188856 AGTCAAGCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.48, C:0.34, G:0.07, T:0.10
Consensus pattern (27 bp):
CCCACAAAGGCTAAAATACAACTCAAA
Found at i:190109 original size:10 final size:10
Alignment explanation
Indices: 190094--190122 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
190084 TTGTTTAGGT
190094 ATTTCTATTC
1 ATTTCTATTC
190104 ATTTCTATTC
1 ATTTCTATTC
190114 ATTTCTATT
1 ATTTCTATT
190123 TAGACGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTCTATTC
Found at i:203198 original size:20 final size:19
Alignment explanation
Indices: 203173--203408 Score: 183
Period size: 20 Copynumber: 11.9 Consensus size: 19
203163 ACCCAGTTTC
203173 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACAC-GAAGT
**
203193 CAAATTCGCAATGCGATAGT
1 CAAATTCGCAACACGA-AGT
*
203213 CAAATTCGCAACGCGAAGT
1 CAAATTCGCAACACGAAGT
*
203232 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACAC-GAAGT
*
203252 CAAATTCGCAACGCGAA-T
1 CAAATTCGCAACACGAAGT
*
203270 CTGTAAA-TCGCAACGCGAAGTT
1 C---AAATTCGCAACACGAAG-T
*
203292 GTAAA-TCGCAACACAGAAGT
1 -CAAATTCGCAACAC-GAAGT
*
203312 CACATTCGCAACACAGAAGT
1 CAAATTCGCAACAC-GAAGT
*
203332 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-GAA-GT
* *
203353 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACACGAA-GT
* **
203372 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACGA-AGT
*
203392 CGAATTCGCAACACGAA
1 CAAATTCGCAACACGAA
203409 TTTAATTTCG
Statistics
Matches: 183, Mismatches: 20, Indels: 27
0.80 0.09 0.12
Matches are distributed among these distances:
18 2 0.01
19 40 0.22
20 120 0.66
21 20 0.11
22 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (19 bp):
CAAATTCGCAACACGAAGT
Found at i:203242 original size:59 final size:59
Alignment explanation
Indices: 203173--203408 Score: 223
Period size: 60 Copynumber: 4.0 Consensus size: 59
203163 ACCCAGTTTC
*
203173 CAAATTCGCAACACAGAAGTCAAATTCGCAATGCGATAGTCAAATTCGCAACGCGAAGT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAGT
* *
203232 CAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAATCTGT-AAA-TCGCAACGCGAAGTT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACGCG-AT-AGTCAAATTCGCAACGCGAAG-T
* * * * *
203292 GTAAA-TCGCAACACAGAAGTCACATTCGCAACACAGA-AGTCAAATTCGCAACACTGAATTT
1 -CAAATTCGCAACACAGAAGTCAAATTCGCAACGC-GATAGTCAAATTCGCAACGC-GAA-GT
* * * ** * *
203353 CAAATTCGC-A-ACTGAATTTCAAATTCGCAACTCGATTTTCGAATTCGCAACACGAA
1 CAAATTCGCAACACAGAA-GTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAA
203409 TTTAATTTCG
Statistics
Matches: 147, Mismatches: 18, Indels: 24
0.78 0.10 0.13
Matches are distributed among these distances:
58 2 0.01
59 59 0.40
60 72 0.49
61 14 0.10
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (59 bp):
CAAATTCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCGAAGT
Found at i:203381 original size:80 final size:78
Alignment explanation
Indices: 203173--203383 Score: 218
Period size: 80 Copynumber: 2.7 Consensus size: 78
203163 ACCCAGTTTC
* * * *
203173 CAAATTCGCAACACAGAA-GTCAAATTCGCAA-TGCGATAGTCAAATTCGCAACGCGAAGTCAAA
1 CAAATTCGCAACAC-GAATTTCAAATTCGCAACTG-AAT-TTCAAATTCGCAACACGAAGTCAAA
203236 TTCGCAACACAAAAGT
63 TTCGCAACACAAAAGT
* *
203252 CAAATTCGCAACGCGAATCTGT-AAA-TCGCAACGCGAAGTTGT-AAA-TCGCAACACAGAAGTC
1 CAAATTCGCAACACGAAT-T-TCAAATTCGCAAC-TGAA-TT-TCAAATTCGCAACAC-GAAGTC
* *
203313 ACATTCGCAACACAGAAGT
60 AAATTCGCAACACAAAAGT
203332 CAAATTCGCAACACTGAATTTCAAATTCGCAACTGAATTTCAAATTCGCAAC
1 CAAATTCGCAACAC-GAATTTCAAATTCGCAACTGAATTTCAAATTCGCAAC
203384 TCGATTTTCG
Statistics
Matches: 109, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
78 4 0.04
79 33 0.30
80 57 0.52
81 15 0.14
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.20
Consensus pattern (78 bp):
CAAATTCGCAACACGAATTTCAAATTCGCAACTGAATTTCAAATTCGCAACACGAAGTCAAATTC
GCAACACAAAAGT
Found at i:203384 original size:19 final size:19
Alignment explanation
Indices: 203331--203403 Score: 101
Period size: 19 Copynumber: 3.7 Consensus size: 19
203321 AACACAGAAG
203331 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
203352 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
203371 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
*
203391 TCGAATTCGCAAC
1 TCAAATTCGCAAC
203404 ACGAATTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
19 22 0.45
20 17 0.35
21 10 0.20
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:204230 original size:12 final size:12
Alignment explanation
Indices: 204209--204242 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
204199 ACCACATTTC
*
204209 CAATACCAAACA
1 CAATATCAAACA
204221 CAATATCAAACA
1 CAATATCAAACA
*
204233 CAATCTCAAA
1 CAATATCAAA
204243 ACCCACAACC
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:204393 original size:24 final size:24
Alignment explanation
Indices: 204366--204419 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
204356 GTATTCAAAA
204366 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
204390 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
204414 TTTGAT
1 TTTGAT
204420 GATGTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:206701 original size:17 final size:17
Alignment explanation
Indices: 206679--206713 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
206669 AAGCAAAAGG
*
206679 AAATCAAAATCGCAATC
1 AAATCAAAATCCCAATC
206696 AAATCAAAATCCCAATC
1 AAATCAAAATCCCAATC
206713 A
1 A
206714 TAACCGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (17 bp):
AAATCAAAATCCCAATC
Found at i:207031 original size:20 final size:21
Alignment explanation
Indices: 207006--207059 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
206996 AATAGCAACA
207006 CGAATTTGA-CTTTCGCGTTG
1 CGAATTTGACCTTTCGCGTTG
*
207026 CGAATTT-ACCTTTCGTGTTG
1 CGAATTTGACCTTTCGCGTTG
207046 CGAATTTGTACCTT
1 CGAATTTG-ACCTT
207060 CAACAGGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 24 0.80
22 5 0.17
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (21 bp):
CGAATTTGACCTTTCGCGTTG
Found at i:207190 original size:66 final size:64
Alignment explanation
Indices: 207107--207250 Score: 234
Period size: 66 Copynumber: 2.2 Consensus size: 64
207097 AATTTAAAAC
207107 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATAAAGTT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTACACATAAA-TT
207172 A
64 A
* * * *
207173 AACAAATTAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATAAATTA
207237 AACAAATCAACTTT
1 AACAAATCAACTTT
207251 CAATGCAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 16 0.22
65 24 0.33
66 33 0.45
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.31
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATAAATTA
Found at i:208661 original size:21 final size:21
Alignment explanation
Indices: 208637--208735 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
208627 GAGAGACCCA
208637 TTGAACGATGACAGGGGCCTC
1 TTGAACGATGACAGGGGCCTC
*
208658 TTGAACGGTGGA-AGGGGCCTC
1 TTGAACGAT-GACAGGGGCCTC
* *
208679 TTGAACGATGAGAGGAGCCTC
1 TTGAACGATGACAGGGGCCTC
* * *
208700 TTGAACGAT-AGGATGCGCCTC
1 TTGAACGATGA-CAGGGGCCTC
*
208721 TTGAATGATGACAGG
1 TTGAACGATGACAGG
208736 TGAATCGGGC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.05
21 60 0.91
22 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.21
Consensus pattern (21 bp):
TTGAACGATGACAGGGGCCTC
Found at i:208683 original size:42 final size:41
Alignment explanation
Indices: 208613--208735 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 41
208603 GTGAATCGGG
* * *
208613 CTCTTGAACGGTGGGAGAGACC-CATTGAACGATGACAGGGGC
1 CTCTTGAACGGT-GGAGGGGCCTC-TTGAACGATGACAGGAGC
*
208655 CTCTTGAACGGTGGAAGGGGCCTCTTGAACGATGAGAGGAGC
1 CTCTTGAACGGTGG-AGGGGCCTCTTGAACGATGACAGGAGC
* * * *
208697 CTCTTGAACGATAGGATGCGCCTCTTGAATGATGACAGG
1 CTCTTGAACGGT-GGAGGGGCCTCTTGAACGATGACAGG
208736 TGAATCGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 64 0.93
43 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.20
Consensus pattern (41 bp):
CTCTTGAACGGTGGAGGGGCCTCTTGAACGATGACAGGAGC
Found at i:209037 original size:21 final size:21
Alignment explanation
Indices: 209013--209062 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
209003 TGAAACAATC
* *
209013 TCACGTAGAGCGGCTACCTCA
1 TCACGTAGAGCAGATACCTCA
* *
209034 TCACGTAAAGTAGATACCTCA
1 TCACGTAGAGCAGATACCTCA
209055 TCACGTAG
1 TCACGTAG
209063 CGCACCATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (21 bp):
TCACGTAGAGCAGATACCTCA
Done.