Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 62
Found at i:2957242 original size:24 final size:24
Alignment explanation
Indices: 2957210--2957256 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2957200 TGTTAAACAT
*
2957210 ACATAAACGAACATAATCGAACGA
1 ACATAAACGAACATAACCGAACGA
2957234 ACATAAACGAACATAACCGAACG
1 ACATAAACGAACATAACCGAACG
2957257 TTCACGAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.13, T:0.11
Consensus pattern (24 bp):
ACATAAACGAACATAACCGAACGA
Found at i:2968053 original size:52 final size:50
Alignment explanation
Indices: 2967983--2968086 Score: 131
Period size: 50 Copynumber: 2.0 Consensus size: 50
2967973 AAAATTAATT
2967983 AAGGACTAAAACGAAAAC-ATGCAAGCAACATGCAAAAATTAAAATAAAAAAA
1 AAGGACTAAAACGAAAACAAT-CAA--AACATGCAAAAATTAAAATAAAAAAA
* * *
2968035 AAGGACTAAAAC-ATAAACAATCAAACCATGCCAAAATTAAAATAAAATAA
1 AAGGACTAAAACGA-AAACAATCAAAACATGCAAAAATTAAAATAAAAAAA
2968085 AA
1 AA
2968087 TATACAAGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
50 25 0.53
51 1 0.02
52 19 0.40
53 2 0.04
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.13
Consensus pattern (50 bp):
AAGGACTAAAACGAAAACAATCAAAACATGCAAAAATTAAAATAAAAAAA
Found at i:2969930 original size:23 final size:22
Alignment explanation
Indices: 2969900--2969948 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
2969890 ATGTTATTGT
2969900 TATTTTTATTATTATTTTCAAGC
1 TATTTTTATTATTA-TTTCAAGC
2969923 TATTTTTATTATTATTTCAAGC
1 TATTTTTATTATTATTTCAAGC
2969945 -ATTT
1 TATTT
2969949 GGCACACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 4 0.15
22 8 0.31
23 14 0.54
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTTTTATTATTATTTCAAGC
Found at i:2971904 original size:30 final size:29
Alignment explanation
Indices: 2971818--2971916 Score: 96
Period size: 30 Copynumber: 3.3 Consensus size: 29
2971808 ATTTAAGTTT
*
2971818 TTAAAGTATTTTTTTATC-AAAATAAGTAC
1 TTAAAGTA-TTTTTTATCAAAAATAGGTAC
* *
2971847 CT-AAGTTATCTTTTTA-CTAAGAATAGGTAC
1 TTAAAG-TAT-TTTTTATC-AAAAATAGGTAC
2971877 TTAAAGTATTTGTTTATCAAAAATAGGTAC
1 TTAAAGTATTT-TTTATCAAAAATAGGTAC
*
2971907 TTAAAATATT
1 TTAAAGTATT
2971917 CATTTCTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
28 5 0.09
29 11 0.19
30 37 0.65
31 4 0.07
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (29 bp):
TTAAAGTATTTTTTATCAAAAATAGGTAC
Found at i:2973996 original size:16 final size:16
Alignment explanation
Indices: 2973975--2974015 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
2973965 ACTCGGCTAC
2973975 TCACTATCACAGTTCA
1 TCACTATCACAGTTCA
2973991 TCACTATCACAGTTCA
1 TCACTATCACAGTTCA
*
2974007 TCACAATCA
1 TCACTATCA
2974016 GGTGAGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (16 bp):
TCACTATCACAGTTCA
Found at i:2974966 original size:3 final size:3
Alignment explanation
Indices: 2974958--2975005 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
2974948 AAAAAACTAT
2974958 ATA ATA ATA AT- ATA ATA ATA AT- ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2975003 ATA
1 ATA
2975006 TAAGGGAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 6 0.14
3 36 0.86
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2974977 original size:14 final size:14
Alignment explanation
Indices: 2974958--2975008 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
2974948 AAAAAACTAT
2974958 ATAATAATAAT-ATA
1 ATAAT-ATAATAATA
2974972 ATAATA-ATATAATA
1 ATAATATA-ATAATA
2974986 ATAATATAATAATA
1 ATAATATAATAATA
2975000 ATAATATAA
1 ATAATATAA
2975009 GGGAGGTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.03
13 3 0.09
14 29 0.85
15 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATATAATAATA
Found at i:2975008 original size:11 final size:11
Alignment explanation
Indices: 2974956--2975002 Score: 94
Period size: 11 Copynumber: 4.3 Consensus size: 11
2974946 ATAAAAAACT
2974956 ATATAATAATA
1 ATATAATAATA
2974967 ATATAATAATA
1 ATATAATAATA
2974978 ATATAATAATA
1 ATATAATAATA
2974989 ATATAATAATA
1 ATATAATAATA
2975000 ATA
1 ATA
2975003 ATATAAGGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAATAATA
Found at i:2975896 original size:15 final size:14
Alignment explanation
Indices: 2975854--2975902 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2975844 TTTCTACTCC
*
2975854 TTTAATTTCTGCAT
1 TTTAATTTCAGCAT
2975868 TTT--TTTCAGTCAT
1 TTTAATTTCAG-CAT
2975881 TTTAATTTCCAGCA-
1 TTTAATTT-CAGCAT
2975895 TTTAATTT
1 TTTAATTT
2975903 TCATTAAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 5 0.17
13 6 0.20
14 11 0.37
15 5 0.17
16 3 0.10
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTAATTTCAGCAT
Found at i:2976925 original size:19 final size:19
Alignment explanation
Indices: 2976903--2976956 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
2976893 TTTTACCTTA
2976903 TTATATTGTTTTATTTATT
1 TTATATTGTTTTATTTATT
* * * *
2976922 TTATCTCGTTTTGTTTGTT
1 TTATATTGTTTTATTTATT
2976941 TT-TATTTGTTTTATTT
1 TTATA-TTGTTTTATTT
2976957 TTATCTTGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (19 bp):
TTATATTGTTTTATTTATT
Found at i:2976941 original size:9 final size:9
Alignment explanation
Indices: 2976903--2976956 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
2976893 TTTTACCTTA
2976903 TTATATTGTT
1 TTAT-TTGTT
*
2976913 TTATTTATT
1 TTATTTGTT
*
2976922 TTATCTCGTT
1 TTAT-TTGTT
*
2976932 TTGTTTGTTT
1 TTATTTG-TT
2976942 TTATTTGTT
1 TTATTTGTT
2976951 TTATTT
1 TTATTT
2976957 TTATCTTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
9 18 0.50
10 18 0.50
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (9 bp):
TTATTTGTT
Found at i:2984881 original size:121 final size:122
Alignment explanation
Indices: 2984656--2984985 Score: 326
Period size: 121 Copynumber: 2.7 Consensus size: 122
2984646 ACTTCTAGAA
* * * *
2984656 CATCTTCAACACCAAATTATCTCTAAATTGATCCAATTTTCTCAACGAGAAGGAACAACATCATC
1 CATCTTCAACACCAAATTATATCCAAATTGATCCAATTTCCTCAACGAGAAAGAACAACATCATC
* * * *
2984721 TTCAAGAAACAATTTATCTGAAAGCGACCATATCTCTTCAACATGGACAAACAGAGT
66 TTCAACAAACAATTTATCTGAAAGCAACCAGATCCCTTCAACATGGACAAACAGAGT
* * * **
2984778 CATCTTCAATATCAAATTATATCCAAATTGA-CCAATTTCCTCAACGATAAAGAACAATGTCATC
1 CATCTTCAACACCAAATTATATCCAAATTGATCCAATTTCCTCAACGAGAAAGAACAACATCATC
* * * ** **
2984842 TTCAACAAACAATTTTTCTGAACGCAACCAGATCCCTTCAACAAGGATGAGTAGAGT
66 TTCAACAAACAATTTATCTGAAAGCAACCAGATCCCTTCAACATGGACAAACAGAGT
* * * * * * * * *
2984899 CGTCTTCAACACCAAA-TATCTCTAGATTGA-CTC-GTCTTCCTTAACAAGAAGGAACAACGTCA
1 CATCTTCAACACCAAATTATATCCAAATTGATC-CAAT-TTCCTCAACGAGAAAGAACAACATCA
* * *
2984961 TCTTCAGCAAATAATTTACCTGAAA
64 TCTTCAACAAACAATTTATCTGAAA
2984986 ATGGCTAGAA
Statistics
Matches: 169, Mismatches: 37, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
120 13 0.08
121 129 0.76
122 27 0.16
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (122 bp):
CATCTTCAACACCAAATTATATCCAAATTGATCCAATTTCCTCAACGAGAAAGAACAACATCATC
TTCAACAAACAATTTATCTGAAAGCAACCAGATCCCTTCAACATGGACAAACAGAGT
Found at i:2986052 original size:32 final size:32
Alignment explanation
Indices: 2986015--2986120 Score: 126
Period size: 32 Copynumber: 3.3 Consensus size: 32
2986005 TTTTCTAACT
2986015 TACTAACATTCTAACTTTTATTTTATCGTTCGA
1 TACTAACATTCTAACTTTTATTTTATCGTTC-A
*
2986048 -ACTAACATTCTAACTTTTATTTTATTGTTCA
1 TACTAACATTCTAACTTTTATTTTATCGTTCA
* * * * *
2986079 TACTAACA-TATGACTTTTTTTTTTATTGTTCT
1 TACTAACATTCTAAC-TTTTATTTTATCGTTCA
2986111 TACTAACATT
1 TACTAACATT
2986121 TTATTTTATT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
31 5 0.08
32 59 0.91
33 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (32 bp):
TACTAACATTCTAACTTTTATTTTATCGTTCA
Found at i:2986358 original size:15 final size:15
Alignment explanation
Indices: 2986334--2986371 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2986324 TTTCTGCCCC
2986334 TTTAATTTTA-TGCAT
1 TTTAATTTTAGT-CAT
*
2986349 TTTTATTTTAGTCAT
1 TTTAATTTTAGTCAT
2986364 TTTAATTT
1 TTTAATTT
2986372 CCAACATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (15 bp):
TTTAATTTTAGTCAT
Found at i:2986875 original size:17 final size:18
Alignment explanation
Indices: 2986858--2986909 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 18
2986848 TTTTACCTTA
2986858 TTATCTGTTTTATTTTAT
1 TTATCTGTTTTATTTTAT
2986876 TTATCTCGTTTTATTTTTAT
1 TTATCT-GTTTTA-TTTTAT
2986896 TTAT-T-TTTTATTTT
1 TTATCTGTTTTATTTT
2986910 TATATTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.12
17 5 0.16
18 6 0.19
19 7 0.22
20 10 0.31
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (18 bp):
TTATCTGTTTTATTTTAT
Found at i:2986895 original size:20 final size:19
Alignment explanation
Indices: 2986858--2986912 Score: 80
Period size: 17 Copynumber: 3.0 Consensus size: 19
2986848 TTTTACCTTA
2986858 TTATCTGTTTTA-TTTTAT
1 TTATCTGTTTTATTTTTAT
2986876 TTATCTCGTTTTATTTTTAT
1 TTATCT-GTTTTATTTTTAT
2986896 TTAT-T-TTTTATTTTTAT
1 TTATCTGTTTTATTTTTAT
2986913 ATTTGATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.34
18 6 0.17
19 7 0.20
20 10 0.29
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (19 bp):
TTATCTGTTTTATTTTTAT
Found at i:2990108 original size:7 final size:7
Alignment explanation
Indices: 2990096--2990121 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2990086 AATTAATTGA
2990096 AAATATT
1 AAATATT
2990103 AAATATT
1 AAATATT
2990110 AAATATT
1 AAATATT
2990117 AAATA
1 AAATA
2990122 CATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAATATT
Found at i:2992244 original size:140 final size:140
Alignment explanation
Indices: 2991992--2992258 Score: 525
Period size: 140 Copynumber: 1.9 Consensus size: 140
2991982 AGGGCCCCAA
2991992 CCATATTAATCTATCAGTGCCCAAGCCACACTTCTTCGCTCTATTTAATACATGGATGAACCCAT
1 CCATATTAATCTATCAGTGCCCAAGCCACACTTCTTCGCTCTATTTAATACATGGATGAACCCAT
2992057 CCCATATGTCGCAACCGTATTTCGGTAGGGCTCCGGAATTAGGCTTCGACTTAGAAAAATGTGGA
66 CCCATATGTCGCAACCGTATTTCGGTAGGGCTCCGGAATTAGGCTTCGACTTAGAAAAATGTGGA
2992122 TGAACCCATC
131 TGAACCCATC
2992132 CCATATTAATCTATCAGTGCCCAAGCCACACTTCTTCGCTCTATTTAATACATGGATGAACCCAT
1 CCATATTAATCTATCAGTGCCCAAGCCACACTTCTTCGCTCTATTTAATACATGGATGAACCCAT
*
2992197 CCCATATGTCGCAACCGTCTTTCGGTAGGGCTCCGGAATTAGGCTTCGACTTAGAAAAATGT
66 CCCATATGTCGCAACCGTATTTCGGTAGGGCTCCGGAATTAGGCTTCGACTTAGAAAAATGT
2992259 AGATTGGAGT
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (140 bp):
CCATATTAATCTATCAGTGCCCAAGCCACACTTCTTCGCTCTATTTAATACATGGATGAACCCAT
CCCATATGTCGCAACCGTATTTCGGTAGGGCTCCGGAATTAGGCTTCGACTTAGAAAAATGTGGA
TGAACCCATC
Found at i:2992570 original size:18 final size:17
Alignment explanation
Indices: 2992550--2992608 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
2992540 GATAAACAAG
*
2992550 ATAAAGAAAACAAATAAG
1 ATAAAGAAAA-AAATAAA
**
2992568 ATACAAGGGAAAAATAAA
1 ATA-AAGAAAAAAATAAA
*
2992586 ATAAATAAAATAAATAAA
1 ATAAAGAAAA-AAATAAA
2992604 ATAAA
1 ATAAA
2992609 TAAGTAAGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 4 0.12
18 24 0.73
19 5 0.15
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.15
Consensus pattern (17 bp):
ATAAAGAAAAAAATAAA
Found at i:2992593 original size:9 final size:9
Alignment explanation
Indices: 2992579--2992611 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
2992569 TACAAGGGAA
2992579 AAATAAAAT
1 AAATAAAAT
2992588 AAATAAAAT
1 AAATAAAAT
2992597 AAATAAAAT
1 AAATAAAAT
2992606 AAATAA
1 AAATAA
2992612 GTAAGATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2992682 original size:2 final size:2
Alignment explanation
Indices: 2992677--2992702 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2992667 AGGAAAAAAA
2992677 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2992703 CAAAGTATTA
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):
AT
Found at i:2993197 original size:43 final size:46
Alignment explanation
Indices: 2993134--2993238 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 46
2993124 TTAAGGAAAT
*
2993134 ATATATATATAATAAAATATAGTAAAAAATAA-ATGAA-AATAATTA
1 ATATATATATAATAAAATATAAT-AAAAATAACATGAATAATAATTA
* *
2993179 ATATATATAT-AT-ACATATAATAATAATAACATGAATAATAA--A
1 ATATATATATAATAAAATATAATAAAAATAACATGAATAATAATTA
*
2993221 A-ATAAATA-AATAAAATAT
1 ATATATATATAATAAAATAT
2993239 CCATATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
41 8 0.16
42 14 0.27
43 12 0.24
44 7 0.14
45 10 0.20
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (46 bp):
ATATATATATAATAAAATATAATAAAAATAACATGAATAATAATTA
Found at i:2993218 original size:18 final size:17
Alignment explanation
Indices: 2993195--2993237 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2993185 ATATATACAT
*
2993195 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATAA
*
2993213 ATAATAAAAATAAATAA
1 ATAATAATAATAAATAA
2993230 ATAA-AATA
1 ATAATAATA
2993238 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATAA
Found at i:2994543 original size:105 final size:105
Alignment explanation
Indices: 2994239--2994902 Score: 854
Period size: 105 Copynumber: 6.3 Consensus size: 105
2994229 GCATTGTTCT
* * * ** * *
2994239 GAGTCCAATATCCTCCGTCGTGAAGTTGACATTGGCTCTG-GAACCGGGAAATAGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
2994303 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2994345 GAGTCCAATATCCTTCGCTGTAAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * *
2994405 TAGCGGTCCTTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2994445 GTGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGAAAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
2994510 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
2994550 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
2994615 CAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
2994655 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGATGTTGTTATTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
2994720 AAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
2994760 GAGTCCAATATCCATCGTTGTGAAGTTGAAATTGGCTCTGAAATTGACAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * *
2994825 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G
* * ** *
2994867 AGTGTCACAATATCCTCCGCCGTGGAGTTGAAATTG
1 -GAGTC-CAATATCCTTCGTTGTGAAGTTGAAATTG
2994903 CGGATGCTTG
Statistics
Matches: 498, Mismatches: 50, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
100 80 0.16
101 1 0.00
102 6 0.01
104 5 0.01
105 298 0.60
106 79 0.16
107 1 0.00
108 4 0.01
109 24 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2995116 original size:36 final size:36
Alignment explanation
Indices: 2995069--2995144 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
2995059 TGTTTGGAGA
* * *
2995069 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
2995105 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
2995141 GAAA
1 GAAA
2995145 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:2995213 original size:39 final size:39
Alignment explanation
Indices: 2995156--2995232 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
2995146 GTTTTCAATG
* * *
2995156 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
1 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAAT
* *
2995195 TTTATGTTTCGAGGGAAACTATCTCAAGAGAGAAAAAA
1 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAA
2995233 AATCATTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (39 bp):
TTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAAT
Found at i:2995319 original size:39 final size:39
Alignment explanation
Indices: 2995265--2995339 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
2995255 TCAATGTTTA
* *
2995265 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
2995304 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
2995340 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:2995378 original size:105 final size:104
Alignment explanation
Indices: 2995044--2995362 Score: 518
Period size: 105 Copynumber: 3.1 Consensus size: 104
2995034 TTTGTTAAAT
* ** *
2995044 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
2995106 AAACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
*
2995145 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTATGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
2995210 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
2995250 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
2995315 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
2995354 TGTTTTCAA
1 TGTTTTCAA
2995363 GAGAAACTGT
Statistics
Matches: 202, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
101 46 0.23
103 2 0.01
104 54 0.27
105 100 0.50
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:2996982 original size:183 final size:183
Alignment explanation
Indices: 2996674--2997210 Score: 961
Period size: 183 Copynumber: 2.9 Consensus size: 183
2996664 ACCAGGTTTA
*
2996674 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * **
2996739 GCCAAGTGTCCGAGTAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
2996803 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
2996857 ACTGAAGGGTT-ATTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAAT
1 ACTGAAGGGTTCA-TCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAAT
2996921 TGCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
65 TGCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
2996986 TTTCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
**
2997040 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAATAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
2997105 ACCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
2997170 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
2997211 CGGATTTAAT
Statistics
Matches: 341, Mismatches: 10, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
182 1 0.00
183 338 0.99
184 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:3001796 original size:18 final size:18
Alignment explanation
Indices: 3001755--3001793 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
3001745 ATATATACAT
*
3001755 ATAATAATAATAACATGA
1 ATAATAAAAATAACATGA
3001773 ATAATAAAAATAA-ATGA
1 ATAATAAAAATAACATGA
3001790 ATAA
1 ATAA
3001794 ATATCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATAAAAATAACATGA
Found at i:3002568 original size:15 final size:15
Alignment explanation
Indices: 3002521--3002569 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
3002511 GACCTTATCT
* *
3002521 GCCCTGCATCTGCCC
1 GCCCTGCATCCGTCC
* * *
3002536 GCCTTGCATCGGTTC
1 GCCCTGCATCCGTCC
3002551 GCCCTGCATCCGTCC
1 GCCCTGCATCCGTCC
3002566 GCCC
1 GCCC
3002570 ACTAAATACC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.06, C:0.49, G:0.22, T:0.22
Consensus pattern (15 bp):
GCCCTGCATCCGTCC
Found at i:3006955 original size:27 final size:27
Alignment explanation
Indices: 3006916--3006967 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
3006906 TTAACAGAAG
* *
3006916 CTCAACCGCTTCCTAACTGCCTAACCT
1 CTCAACAGCTTCCTAACCGCCTAACCT
*
3006943 CTCAACAGTTTCCTAACCGCCTAAC
1 CTCAACAGCTTCCTAACCGCCTAAC
3006968 TTCCTCTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (27 bp):
CTCAACAGCTTCCTAACCGCCTAACCT
Found at i:3016925 original size:23 final size:23
Alignment explanation
Indices: 3016895--3016961 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
3016885 TTTGCTAGAT
*
3016895 AAAAGGTACACTAGTTTATTTAG
1 AAAAGGTATACTAGTTTATTTAG
3016918 AAAAGGTATACTAGTTTATTTAG
1 AAAAGGTATACTAGTTTATTTAG
*
3016941 AAAAGGTATACTAGCTTATTT
1 AAAAGGTATACTAGTTTATTT
3016962 GAACTTTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.37
Consensus pattern (23 bp):
AAAAGGTATACTAGTTTATTTAG
Found at i:3017201 original size:29 final size:30
Alignment explanation
Indices: 3017169--3017237 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
3017159 ATTTTTGAAG
3017169 GTGTTTATGTTT-A-TTTTAGAT-TCATATTT
1 GTGTTT-TGTTTAATTTTTA-ATATCATATTT
3017198 GTG-TTTGTTTAAATTTTTAATATCATATTT
1 GTGTTTTGTTT-AATTTTTAATATCATATTT
3017228 GTG-TTTGTTT
1 GTGTTTTGTTT
3017238 CTTTATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
27 5 0.14
28 2 0.06
29 6 0.17
30 23 0.64
ACGTcount: A:0.20, C:0.03, G:0.14, T:0.62
Consensus pattern (30 bp):
GTGTTTTGTTTAATTTTTAATATCATATTT
Found at i:3017365 original size:23 final size:23
Alignment explanation
Indices: 3017318--3017367 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
3017308 TATGTTTACC
* * *
3017318 ACATGTTCATTTAGCGTTCGCCA
1 ACATGTTCATCTAGCATTCACCA
*
3017341 ACATGTTCATCTAGCATTCATCA
1 ACATGTTCATCTAGCATTCACCA
3017364 ACAT
1 ACAT
3017368 ATTTGTTAGA
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:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (23 bp):
ACATGTTCATCTAGCATTCACCA
Found at i:3018241 original size:30 final size:30
Alignment explanation
Indices: 3018205--3018267 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
3018195 TTTTTAATTT
* **
3018205 TTTGAGGACTAATTTGAAATTTTAATTAAA
1 TTTGAGGACCAAAATGAAATTTTAATTAAA
3018235 TTTGAGGACCAAAATGAAATTTTAATTAAA
1 TTTGAGGACCAAAATGAAATTTTAATTAAA
3018265 TTT
1 TTT
3018268 ATACCCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (30 bp):
TTTGAGGACCAAAATGAAATTTTAATTAAA
Found at i:3025453 original size:21 final size:23
Alignment explanation
Indices: 3025427--3025478 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
3025417 AGGGAATCAA
3025427 TCCCCCCATG-A-GGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
**
3025448 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
3025471 TCCCCCCA
1 TCCCCCCA
3025479 CAGGGGAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.17
Consensus pattern (23 bp):
TCCCCCCATGAAGGGGAACCGAT
Found at i:3026207 original size:21 final size:21
Alignment explanation
Indices: 3026183--3026222 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3026173 ACCGTCAACC
*
3026183 AAATCCACTTCCAAATCCTCA
1 AAATCCAATTCCAAATCCTCA
*
3026204 AAATCCAATTCCTAATCCT
1 AAATCCAATTCCAAATCCT
3026223 AATCCCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATCCAATTCCAAATCCTCA
Found at i:3027488 original size:24 final size:22
Alignment explanation
Indices: 3027438--3027510 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 22
3027428 GCTTCAACTT
*
3027438 TTTGGA-TTGTTTGATTTTGTGAC
1 TTTGGATTTGTTTGA-TTT-TGAA
3027461 TTTGGATTTGTTTGGATGTTTGAA
1 TTTGGATTTGTTT-GAT-TTTGAA
* *
3027485 TTTGTGGTTTGATTGATTTTGAA
1 TTTG-GATTTGTTTGATTTTGAA
3027508 TTT
1 TTT
3027511 TTTGGATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
23 15 0.35
24 17 0.40
25 11 0.26
ACGTcount: A:0.15, C:0.01, G:0.26, T:0.58
Consensus pattern (22 bp):
TTTGGATTTGTTTGATTTTGAA
Found at i:3031561 original size:66 final size:63
Alignment explanation
Indices: 3031481--3031641 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 63
3031471 GTTGAAGGTT
*
3031481 CATCGATGCATAAGGAGTGCATCGATGCA-CTCATTTAAATTAAATGAACATCGAAT-GCCATTT
1 CATCGATGCATAAGGAGTGCATCGATGCACCTC--TTAAA--AAATAAACATCGAATAG-CATTT
3031544 ATG
61 ATG
* * * *
3031547 CATCGATGCATAAGGTGTGCATCGATACACCTGCTTAAAATATAAACATCGAATAGGATTTATG
1 CATCGATGCATAAGGAGTGCATCGATGCACCT-CTTAAAAAATAAACATCGAATAGCATTTATG
* *
3031611 CACCGATGCAT-GGGTAGTGCATCGATGCACC
1 CATCGATGCATAAGG-AGTGCATCGATGCACC
3031642 CGTCAAGGGA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 2 0.02
64 44 0.54
65 1 0.01
66 32 0.39
67 2 0.02
68 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (63 bp):
CATCGATGCATAAGGAGTGCATCGATGCACCTCTTAAAAAATAAACATCGAATAGCATTTATG
Found at i:3032984 original size:22 final size:22
Alignment explanation
Indices: 3032956--3033060 Score: 183
Period size: 22 Copynumber: 4.8 Consensus size: 22
3032946 TTCGGGACAT
3032956 AGTGGTCCTTCGGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
*
3032978 AGTGGTCCTTTGGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
*
3033000 AGTGGTCCTTCGAGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
*
3033022 AGTGGTCTTTCGGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
3033044 AGTGGTCCTTCGGGACG
1 AGTGGTCCTTCGGGACG
3033061 AATACTGAAC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 77 1.00
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACGTATCC
Found at i:3037772 original size:90 final size:89
Alignment explanation
Indices: 3037658--3037830 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
3037648 TCCCGAATAT
* * *
3037658 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAT
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAG
3037723 GGTAACTTGGATATAAAATGATTA
66 GGTAACTTGGATATAAAATGATTA
3037747 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTA
*
3037812 GGGTAACTTGGCTATAAAA
65 GGGTAACTTGGATATAAAA
3037831 AGGTGTGTTA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 7 0.09
90 72 0.91
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGATTAG
GGTAACTTGGATATAAAATGATTA
Found at i:3040619 original size:263 final size:266
Alignment explanation
Indices: 3040148--3040677 Score: 1003
Period size: 263 Copynumber: 2.0 Consensus size: 266
3040138 AGCGATATAA
3040148 CCAGTCCATTCCTAATATCACTTCAAATTCATCAAAAGGTAATTCCATCATATTAGCTTGGAATT
1 CCAGTCCATTCCTAATATCACTTCAAATTCATCAAAAGGTAATTCCATCA-ATTAGCTTGGAATT
*
3040213 CAATTCTCTGAACCTGTATGGGACACCCCCGACACACCATATTTACTCAAGCACTATGTCCTAAT
65 CAATTCCCTGAACCTGTATGGGACACCCCCGACACACCATATTTACTCAAGCACTATGTCCTAAT
3040278 GGATTCGTTACTATCACATCATTGCTAGTAGCTTCAAACTGAATGTTTAATTCCCTCACTAACTT
130 GGATTCGTTACTATCACATCATTGCTAGTAGCTTCAAACTGAATGTTTAATTCCCTCACTAACTT
3040343 ATTACTAATATAGGAATAGGTATAACCCGAATCAATCAGTACTAAAACATTCTTATCATGCAATT
195 ATTACTAATATAGGAATAGGTATAACCCGAATCAATCAGTACTAAAACATTCTTATCATGCAATT
3040408 GAAAAAT
260 GAAAAAT
* *
3040415 CCAGTCCATTCCTAATATCATTTTAAATTCATCAAAA-GTAATTCCATC-ATTAGCTTGGAATTC
1 CCAGTCCATTCCTAATATCACTTCAAATTCATCAAAAGGTAATTCCATCAATTAGCTTGGAATTC
3040478 AATTCCCTGAACCTGTATGGGACA-CCCCGACACACCATATTTACTCAAGCACTATGTCCTAATG
66 AATTCCCTGAACCTGTATGGGACACCCCCGACACACCATATTTACTCAAGCACTATGTCCTAATG
3040542 GATTCGTTACTATCACATCATTGCTAGTAGCTTCAAACTGAATGTTTAATTCCCTCACTAACTTA
131 GATTCGTTACTATCACATCATTGCTAGTAGCTTCAAACTGAATGTTTAATTCCCTCACTAACTTA
3040607 TTACTAATATAGGAATAGGTATAACCCGAATCAATCAGTACTAAAACATTCTTATCATGCAATTG
196 TTACTAATATAGGAATAGGTATAACCCGAATCAATCAGTACTAAAACATTCTTATCATGCAATTG
3040672 AAAAAT
261 AAAAAT
3040678 ACCTGCAATA
Statistics
Matches: 260, Mismatches: 3, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
263 176 0.68
264 38 0.15
266 11 0.04
267 35 0.13
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (266 bp):
CCAGTCCATTCCTAATATCACTTCAAATTCATCAAAAGGTAATTCCATCAATTAGCTTGGAATTC
AATTCCCTGAACCTGTATGGGACACCCCCGACACACCATATTTACTCAAGCACTATGTCCTAATG
GATTCGTTACTATCACATCATTGCTAGTAGCTTCAAACTGAATGTTTAATTCCCTCACTAACTTA
TTACTAATATAGGAATAGGTATAACCCGAATCAATCAGTACTAAAACATTCTTATCATGCAATTG
AAAAAT
Found at i:3042645 original size:18 final size:18
Alignment explanation
Indices: 3042604--3042645 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3042594 ATTTAAAATT
* *
3042604 TGTCTCGAATGACCACTT
1 TGTCCCGAATGACCACTA
*
3042622 TATCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
3042640 TGTCCC
1 TGTCCC
3042646 TCGACTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:3046360 original size:20 final size:22
Alignment explanation
Indices: 3046330--3046375 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
3046320 ACGGTTATAG
3046330 TTTACCCTTT-ATATTAAATAA
1 TTTACCCTTTAATATTAAATAA
* *
3046351 TTTA-CCTTTAATTTTAACTAA
1 TTTACCCTTTAATATTAAATAA
3046372 TTTA
1 TTTA
3046376 TAATTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTACCCTTTAATATTAAATAA
Found at i:3046502 original size:2 final size:2
Alignment explanation
Indices: 3046495--3046539 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
3046485 ACACTCATAC
3046495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3046536 -T AT A
1 AT AT A
3046540 CGAAAATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3053961 original size:23 final size:23
Alignment explanation
Indices: 3053918--3053960 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3053908 TATTACTTTC
3053918 CATTAATTACATGAAATAAAATA
1 CATTAATTACATGAAATAAAATA
* *
3053941 CATTATTTA-ATGAATTAAAA
1 CATTAATTACATGAAATAAAA
3053961 AAGGGAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (23 bp):
CATTAATTACATGAAATAAAATA
Found at i:3061141 original size:6 final size:6
Alignment explanation
Indices: 3061133--3061165 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
3061123 GAACATTGCC
*
3061133 GTGGCC GTGGCT GTGGCT GTGGCT GTGGCT GTG
1 GTGGCT GTGGCT GTGGCT GTGGCT GTGGCT GTG
3061166 CCCATGATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.18, G:0.52, T:0.30
Consensus pattern (6 bp):
GTGGCT
Found at i:3075097 original size:21 final size:20
Alignment explanation
Indices: 3075072--3075132 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
3075062 ACCCAAAGTA
3075072 TCGAAACTTTAAGGAAAGTTT
1 TCGAAACTTT-AGGAAAGTTT
*
3075093 TCGAAACTCTT-GAGATAG-TT
1 TCGAAACT-TTAG-GAAAGTTT
*
3075113 TCGAAACTATAGGAAAGTTT
1 TCGAAACTTTAGGAAAGTTT
3075133 CAAAACATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 5 0.15
20 14 0.42
21 12 0.36
22 2 0.06
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGAAACTTTAGGAAAGTTT
Found at i:3087125 original size:25 final size:25
Alignment explanation
Indices: 3087097--3087170 Score: 139
Period size: 25 Copynumber: 3.0 Consensus size: 25
3087087 GAAAGTTTTA
3087097 ATGTTTTTGTTTAAATTACAACTTT
1 ATGTTTTTGTTTAAATTACAACTTT
3087122 ATGTTTTTGTTTAAATTACAACTTT
1 ATGTTTTTGTTTAAATTACAACTTT
*
3087147 ATGTTTTTGTTTAAATCACAACTT
1 ATGTTTTTGTTTAAATTACAACTT
3087171 GAATCAGTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.54
Consensus pattern (25 bp):
ATGTTTTTGTTTAAATTACAACTTT
Found at i:3100607 original size:68 final size:68
Alignment explanation
Indices: 3100498--3100630 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
3100488 AGCTCTACCT
* * *
3100498 GATAAATCCACCTCGAAGATCCGCCTGGAGGGATCGGCACTACAACCGTTAATTCTGCTGATGAC
1 GATAAATCCACCTCGAAGATCCGCATGGAGGGACCGGCACTACAACCGTCAATTCTGCTGATGAC
3100563 GCC
66 GCC
*
3100566 GATAAATCCACCTCGAAGATCCGCATGGAGGGACCGGCACTACAACCGTCGATTCTGCTGATGAC
1 GATAAATCCACCTCGAAGATCCGCATGGAGGGACCGGCACTACAACCGTCAATTCTGCTGATGAC
3100631 ACCGCCTGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (68 bp):
GATAAATCCACCTCGAAGATCCGCATGGAGGGACCGGCACTACAACCGTCAATTCTGCTGATGAC
GCC
Found at i:3110103 original size:26 final size:26
Alignment explanation
Indices: 3110074--3110125 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
3110064 GAAAGTTTAG
3110074 GATGAAATTGCAAGTTTTTTAATGTT
1 GATGAAATTGCAAGTTTTTTAATGTT
3110100 GATGAAATTGCAAGTTTTTTAATGTT
1 GATGAAATTGCAAGTTTTTTAATGTT
3110126 AAAATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (26 bp):
GATGAAATTGCAAGTTTTTTAATGTT
Found at i:3113380 original size:3 final size:3
Alignment explanation
Indices: 3113368--3113428 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
3113358 ACACACGCAT
3113368 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3113415 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
3113429 CATTGGAAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3117340 original size:16 final size:16
Alignment explanation
Indices: 3117321--3117446 Score: 83
Period size: 16 Copynumber: 7.9 Consensus size: 16
3117311 AATTTAGCAA
* *
3117321 AACCGAAATCAACCAG
1 AACCGAAATTAACCTG
* *
3117337 AACCAAAATTAACCCG
1 AACCGAAATTAACCTG
** * * *
3117353 AACTAAAAGTAGCCCG
1 AACCGAAATTAACCTG
3117369 AACC-AAACTTAACCTG
1 AACCGAAA-TTAACCTG
**
3117385 AACCGAAAGCAACCTG
1 AACCGAAATTAACCTG
* *
3117401 AATCGAAATTAACCAG
1 AACCGAAATTAACCTG
* **
3117417 AACAGAAAGAAACCTG
1 AACCGAAATTAACCTG
*
3117433 AACCGAATTTAACC
1 AACCGAAATTAACC
3117447 CAATCCGAAA
Statistics
Matches: 83, Mismatches: 25, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
15 3 0.04
16 77 0.93
17 3 0.04
ACGTcount: A:0.48, C:0.27, G:0.13, T:0.13
Consensus pattern (16 bp):
AACCGAAATTAACCTG
Found at i:3117413 original size:32 final size:32
Alignment explanation
Indices: 3117321--3117496 Score: 135
Period size: 32 Copynumber: 5.5 Consensus size: 32
3117311 AATTTAGCAA
* * * * *
3117321 AACCGAAATCAACCAGAACCAAAATTAACCCG
1 AACCGAAAGCAACCTGAACCGAATTTAACCTG
** * * * * *
3117353 AACTAAAAGTAGCCCGAACCAAACTTAACCTG
1 AACCGAAAGCAACCTGAACCGAATTTAACCTG
* * *
3117385 AACCGAAAGCAACCTGAATCGAAATTAACCAG
1 AACCGAAAGCAACCTGAACCGAATTTAACCTG
* * *
3117417 AACAGAAAGAAACCTGAACCGAATTTAACC-C
1 AACCGAAAGCAACCTGAACCGAATTTAACCTG
3117448 AATCCGAAAGCAA-CTCGAACCGAATTTAA-CTG
1 AA-CCGAAAGCAACCT-GAACCGAATTTAACCTG
3117480 -ACCTGAAAGCAACCTGA
1 AACC-GAAAGCAACCTGA
3117497 TAGATTGAAA
Statistics
Matches: 114, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
30 2 0.02
31 16 0.14
32 96 0.84
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (32 bp):
AACCGAAAGCAACCTGAACCGAATTTAACCTG
Found at i:3117436 original size:64 final size:63
Alignment explanation
Indices: 3117321--3117461 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 63
3117311 AATTTAGCAA
* * * * *
3117321 AACCGAAATCAACCAGAACCAAAATTAACCCGAACTAAAAGTAGCCCGAACCAAACTTAACCTG
1 AACCGAAAGCAACCAGAACCAAAATTAACCAGAACTAAAAGAAACCCGAACCAAACTTAACC-C
* * * * * *
3117385 AACCGAAAGCAACCTGAATCGAAATTAACCAGAAC-AGAAAGAAACCTGAACCGAATTTAACCC
1 AACCGAAAGCAACCAGAACCAAAATTAACCAGAACTA-AAAGAAACCCGAACCAAACTTAACCC
3117448 AATCCGAAAGCAAC
1 AA-CCGAAAGCAAC
3117462 TCGAACCGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 3 0.05
64 61 0.95
ACGTcount: A:0.48, C:0.28, G:0.13, T:0.12
Consensus pattern (63 bp):
AACCGAAAGCAACCAGAACCAAAATTAACCAGAACTAAAAGAAACCCGAACCAAACTTAACCC
Found at i:3117633 original size:9 final size:10
Alignment explanation
Indices: 3117619--3117680 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 10
3117609 TATTAGATTT
3117619 ATAATA-AAA
1 ATAATATAAA
*
3117628 ATAATAGAAA
1 ATAATATAAA
* *
3117638 ACAA-CTAAA
1 ATAATATAAA
3117647 ATAA-ATAAA
1 ATAATATAAA
**
3117656 ATAATAT-TT
1 ATAATATAAA
3117665 ATAATATAAA
1 ATAATATAAA
3117675 ATAATA
1 ATAATA
3117681 CAAAGTTTAC
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
9 27 0.66
10 14 0.34
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (10 bp):
ATAATATAAA
Found at i:3119296 original size:21 final size:22
Alignment explanation
Indices: 3119241--3119298 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
3119231 TTTTTAAAAG
*
3119241 AAAAAT-AAGTGAAAACTAGAA
1 AAAAATAAAGTAAAAACTAGAA
* *
3119262 AAAAATAAAATAAAAACTTGAA
1 AAAAATAAAGTAAAAACTAGAA
*
3119284 AAAGA-AAAGTAAAAA
1 AAAAATAAAGTAAAAA
3119299 TTTTATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.14
Consensus pattern (22 bp):
AAAAATAAAGTAAAAACTAGAA
Found at i:3119429 original size:22 final size:21
Alignment explanation
Indices: 3119404--3119456 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
3119394 TCTTAAAAGC
* *
3119404 CCTAAAAATGATAAAGATAAAT
1 CCTAAAAAT-ACAAAAATAAAT
*
3119426 CCTATAAAATACAAAAATAATT
1 CCTA-AAAATACAAAAATAAAT
3119448 CCTAAAAAT
1 CCTAAAAAT
3119457 TGTTTGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 5 0.19
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (21 bp):
CCTAAAAATACAAAAATAAAT
Found at i:3119474 original size:45 final size:45
Alignment explanation
Indices: 3119421--3119526 Score: 171
Period size: 45 Copynumber: 2.4 Consensus size: 45
3119411 ATGATAAAGA
*
3119421 TAAATCCTATAAAATACAAAA-ATAATTCCTAAAAATTGTTTGAAT
1 TAAATCCTA-AAAATAAAAAATATAATTCCTAAAAATTGTTTGAAT
*
3119466 TAAATCCTAAAAATAAAAAATATAATTTCTAAAAATTGTTTGAAT
1 TAAATCCTAAAAATAAAAAATATAATTCCTAAAAATTGTTTGAAT
3119511 TAAATCCT-AAAATAAA
1 TAAATCCTAAAAATAAA
3119527 GATAATTCTG
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
44 18 0.31
45 40 0.69
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (45 bp):
TAAATCCTAAAAATAAAAAATATAATTCCTAAAAATTGTTTGAAT
Found at i:3119522 original size:22 final size:23
Alignment explanation
Indices: 3119447--3119522 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
3119437 CAAAAATAAT
3119447 TCCTAAAAATTGTTTGAATTAAA
1 TCCTAAAAATTGTTTGAATTAAA
**** *
3119470 TCCTAAAAA-T-AAAAAATATAAT
1 TCCTAAAAATTGTTTGAAT-TAAA
*
3119492 TTCTAAAAATTGTTTGAATTAAA
1 TCCTAAAAATTGTTTGAATTAAA
3119515 TCCTAAAA
1 TCCTAAAA
3119523 TAAAGATAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 3 0.08
22 12 0.32
23 20 0.53
24 3 0.08
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (23 bp):
TCCTAAAAATTGTTTGAATTAAA
Found at i:3123780 original size:36 final size:36
Alignment explanation
Indices: 3123711--3123907 Score: 166
Period size: 36 Copynumber: 5.6 Consensus size: 36
3123701 TTGGCAAATG
*
3123711 ATTTTGAAAATACTATAT-A-ATATAATTTCTAAAA-
1 ATTTTGAAAAT-CTATATAATATATAATTTTTAAAAC
*
3123745 ATATTTGAAAATGTATATAATATATAATTTTTAAAAC
1 AT-TTTGAAAATCTATATAATATATAATTTTTAAAAC
* *
3123782 ACTTTTGAAAA-CTACATAATATATAGTTTTTAAAAC
1 A-TTTTGAAAATCTATATAATATATAATTTTTAAAAC
*
3123818 ATTTT-AAAA--AATAT-A-ATATAATTTTTAAAATC
1 ATTTTGAAAATCTATATAATATATAATTTTTAAAA-C
* * *
3123850 ATTTTGAAAATTTATGTAATATAGT--TTTTGAAAAC
1 ATTTTGAAAATCTATATAATATA-TAATTTTTAAAAC
* *
3123885 GTTTTTAAAA-CTTATATAATATA
1 ATTTTGAAAATC-TATATAATATA
3123908 GTTTTGAAAA
Statistics
Matches: 135, Mismatches: 15, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
31 14 0.10
32 7 0.05
33 7 0.05
34 11 0.08
35 36 0.27
36 46 0.34
37 12 0.09
38 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (36 bp):
ATTTTGAAAATCTATATAATATATAATTTTTAAAAC
Found at i:3123878 original size:35 final size:34
Alignment explanation
Indices: 3123711--3123918 Score: 183
Period size: 35 Copynumber: 6.0 Consensus size: 34
3123701 TTGGCAAATG
* *
3123711 ATTTTGAAAATACTATATAATATAATTTCTAAAA-
1 ATTTTGAAAAT-TTATATAATATAATTTTTAAAAC
*
3123745 ATATTTGAAAATGTATATAATATATAATTTTTAAAAC
1 AT-TTTGAAAATTTATAT-A-ATATAATTTTTAAAAC
* *
3123782 ACTTTTGAAAA-CTACATAATATATAGTTTTTAAAAC
1 A-TTTTGAAAATTTATATAATATA-A-TTTTTAAAAC
*
3123818 ATTTT-AAAA--AATATAATATAATTTTTAAAATC
1 ATTTTGAAAATTTATATAATATAATTTTTAAAA-C
* *
3123850 ATTTTGAAAATTTATGTAATATAGTTTTTGAAAAC
1 ATTTTGAAAATTTATATAATATAATTTTT-AAAAC
* * * * *
3123885 GTTTTTAAAACTTATATAATATAGTTTTGAAAAC
1 ATTTTGAAAATTTATATAATATAATTTTTAAAAC
3123919 TTATATAATA
Statistics
Matches: 148, Mismatches: 14, Indels: 24
0.80 0.08 0.13
Matches are distributed among these distances:
31 9 0.06
32 7 0.05
33 13 0.09
34 21 0.14
35 55 0.37
36 33 0.22
37 9 0.06
38 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (34 bp):
ATTTTGAAAATTTATATAATATAATTTTTAAAAC
Found at i:3123884 original size:67 final size:69
Alignment explanation
Indices: 3123766--3123918 Score: 172
Period size: 67 Copynumber: 2.2 Consensus size: 69
3123756 TGTATATAAT
3123766 ATATAATTTTTAAAACACTTTTGAAAACTACATAATATATAGTTTTTAAAAC-ATTTTAAAA-AA
1 ATATAATTTTTAAAACACTTTTGAAAACTACATAATATATAGTTTTTAAAACGATTTTAAAACAA
3123829 TATA
66 TATA
** * *
3123833 ATATAATTTTTAAAATCA-TTTTGAAAA-TTTAT-GTAATATAGTTTTTGAAAACGTTTTTAAAA
1 ATATAATTTTTAAAA-CACTTTTGAAAACTACATAAT-ATATAGTTTTT-AAAACGATTTTAAAA
*
3123895 CTTATATA
63 C-AATATA
* *
3123903 ATATAGTTTTGAAAAC
1 ATATAATTTTTAAAAC
3123919 TTATATAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
65 1 0.01
66 14 0.19
67 29 0.40
68 10 0.14
69 1 0.01
70 18 0.25
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (69 bp):
ATATAATTTTTAAAACACTTTTGAAAACTACATAATATATAGTTTTTAAAACGATTTTAAAACAA
TATA
Found at i:3123917 original size:23 final size:24
Alignment explanation
Indices: 3123885--3123957 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 24
3123875 TTTTGAAAAC
*
3123885 GTTTTTAAAACTTATATA-ATATA
1 GTTTTGAAAACTTATATATATATA
3123908 GTTTTGAAAACTTATATAATATATA
1 GTTTTGAAAACTTATAT-ATATATA
*
3123933 ATTTTGAAAACTTATATATAATATA
1 GTTTTGAAAACTTATATAT-ATATA
3123958 TAATTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.36
24 3 0.07
25 26 0.58
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (24 bp):
GTTTTGAAAACTTATATATATATA
Found at i:3123958 original size:27 final size:25
Alignment explanation
Indices: 3123886--3123970 Score: 111
Period size: 27 Copynumber: 3.4 Consensus size: 25
3123876 TTTGAAAACG
* *
3123886 TTTTTAAAACTTATAT-A-ATATAG
1 TTTTGAAAACTTATATAATATATAA
3123909 TTTTGAAAACTTATATAATATATAA
1 TTTTGAAAACTTATATAATATATAA
3123934 TTTTGAAAACTTATATATAATATATAA
1 TTTTGAAAAC-T-TATATAATATATAA
*
3123961 TTTTTAAAAC
1 TTTTGAAAAC
3123971 ATTTTTAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 15 0.27
24 1 0.02
25 15 0.27
26 1 0.02
27 23 0.42
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (25 bp):
TTTTGAAAACTTATATAATATATAA
Found at i:3124058 original size:39 final size:36
Alignment explanation
Indices: 3124001--3124119 Score: 116
Period size: 41 Copynumber: 3.1 Consensus size: 36
3123991 TTTTTGAAAC
*
3124001 TTATATAGTTTTTTAAAAATAGTTTTTAAAATTTATA
1 TTATATAGTTTTTAAAAAATA-TTTTTAAAATTTATA
*
3124038 TATAATATAGTTTTTAAAAAAAATATTTTAAAAAATTTATA
1 T-T-ATATAGTTTTT--AAAAAATATTTT-TAAAATTTATA
*
3124079 TTATATAG-TTTTAAAAATATACTTTTT-ATATTTATTA
1 TTATATAGTTTTTAAAAA-ATA-TTTTTAAAATTTA-TA
3124116 TTAT
1 TTAT
3124120 TATTATTATT
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
36 11 0.16
37 10 0.14
38 9 0.13
39 17 0.24
40 5 0.07
41 18 0.26
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (36 bp):
TTATATAGTTTTTAAAAAATATTTTTAAAATTTATA
Found at i:3124073 original size:41 final size:39
Alignment explanation
Indices: 3124001--3124095 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 39
3123991 TTTTTGAAAC
* *
3124001 TTATATAGTTTTT--TAAAAATAGTTTTTAAAATTTATA
1 TTATATAGTTTTTAAAAAAAATAGTTTTAAAAATTTATA
3124038 TATAATATAGTTTTTAAAAAAAATA-TTTTAAAAAATTTATA
1 T-T-ATATAGTTTTTAAAAAAAATAGTTTT-AAAAATTTATA
3124079 TTATATAG-TTTTAAAAA
1 TTATATAGTTTTTAAAAA
3124096 TATACTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
37 1 0.02
38 10 0.20
39 17 0.33
40 5 0.10
41 18 0.35
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (39 bp):
TTATATAGTTTTTAAAAAAAATAGTTTTAAAAATTTATA
Found at i:3124118 original size:3 final size:3
Alignment explanation
Indices: 3124110--3124157 Score: 60
Period size: 3 Copynumber: 14.7 Consensus size: 3
3124100 CTTTTTATAT
3124110 TTA TTA TTA TTA TTA TTA TTA TTTA TTTA TTTA TTA TTA TTAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TT-A TTA TT
3124158 TTGCAGGCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 29 0.67
4 14 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3124118 original size:37 final size:36
Alignment explanation
Indices: 3124001--3124119 Score: 107
Period size: 39 Copynumber: 3.1 Consensus size: 36
3123991 TTTTTGAAAC
*
3124001 TTATATAGTTTTTTAAAAATAGTTTTTAAAATTTATATA
1 TTATATAGTTTTTAAAAAATA-TTTTT-AAATTTAT-TA
* *
3124040 TAATATAGTTTTTAAAAAAAATATTTTAAAAAATTTA-TA
1 TTATATAGTTTTT--AAAAAATATTTT--TAAATTTATTA
*
3124079 TTATATAG-TTTTAAAAATATACTTTTTATATTTATTA
1 TTATATAGTTTTTAAAAA-ATA-TTTTTAAATTTATTA
3124116 TTAT
1 TTAT
3124120 TATTATTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
36 11 0.16
37 9 0.13
38 8 0.12
39 21 0.31
40 4 0.06
41 14 0.21
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (36 bp):
TTATATAGTTTTTAAAAAATATTTTTAAATTTATTA
Found at i:3124156 original size:21 final size:20
Alignment explanation
Indices: 3124107--3124158 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
3124097 ATACTTTTTA
*
3124107 TATTTATTA-TTATTATTAT
1 TATTAATTATTTATTATTAT
*
3124126 TATTATTTATTTATTTATTAT
1 TATTAATTATTTA-TTATTAT
3124147 TATTAATTATTT
1 TATTAATTATTT
3124159 TGCAGGCCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.25
20 3 0.11
21 18 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTAATTATTTATTATTAT
Found at i:3129968 original size:36 final size:36
Alignment explanation
Indices: 3129908--3129996 Score: 135
Period size: 36 Copynumber: 2.4 Consensus size: 36
3129898 AATTTACTCA
*
3129908 AAACAAAGTTTAGTCTCTCATGAGACAGTTTCCCTTG
1 AAACAAA-TTTTGTCTCTCATGAGACAGTTTCCCTTG
*
3129945 AAACAAATTTTGTCTCT-ATTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCA-TGAGACAGTTTCCCTTG
3129981 AAACAAATTTTGTCTC
1 AAACAAATTTTGTCTC
3129997 CCTTGAAACA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
35 1 0.02
36 41 0.84
37 7 0.14
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCATGAGACAGTTTCCCTTG
Found at i:3129999 original size:57 final size:57
Alignment explanation
Indices: 3129938--3130059 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
3129928 TGAGACAGTT
* *
3129938 TCCCTTGAAACAAATTTTGTCTCTATTGAGACAGTTTCTCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAAATTTGGTC
* *
3129995 TCCCTTGAAACAAATTTTGTCTTTCTTGAGACAGTTTCCCTTGAAACAAATTTGGTC
1 TCCCTTGAAACAAATTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAAATTTGGTC
*
3130052 TCTCTTGA
1 TCCCTTGA
3130060 GACAGTTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.40
Consensus pattern (57 bp):
TCCCTTGAAACAAATTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAAATTTGGTC
Found at i:3130001 original size:21 final size:21
Alignment explanation
Indices: 3129938--3130016 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
3129928 TGAGACAGTT
3129938 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
** * *
3129959 TCTATTGAGAC--A-GTT-TC
1 TCCCTTGAAACAAATTTTGTC
3129976 T--CTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
3129995 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
3130016 T
1 T
3130017 TTCTTGAGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
15 6 0.13
17 4 0.09
18 4 0.09
19 4 0.09
21 27 0.60
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:3130022 original size:21 final size:21
Alignment explanation
Indices: 3129974--3130059 Score: 85
Period size: 21 Copynumber: 4.4 Consensus size: 21
3129964 TGAGACAGTT
3129974 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
3129995 TCCCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* * *
3130016 TTTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
*
3130033 -C-CTTGAAACAAATTTGGTC
1 TCTCTTGAAACAAATTTTGTC
3130052 TCTCTTGA
1 TCTCTTGA
3130060 GACAGTTTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
15 7 0.14
17 3 0.06
18 3 0.06
19 3 0.06
20 1 0.02
21 33 0.66
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:3130033 original size:93 final size:93
Alignment explanation
Indices: 3129908--3130186 Score: 360
Period size: 93 Copynumber: 2.9 Consensus size: 93
3129898 AATTTACTCA
* *
3129908 AAACAAAGTTTAGTCTCTCATGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTATTGAGACAGT
1 AAACAAA-TTTAGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
3129973 TTCTCTTGAAACAAATTTTGTCTCCCTTG
65 TTCTCTTGAAACAAATTTTGTCTCCCTTG
* * *
3130002 AAACAAATTTTGTCTTTCTTGAGACAGTTTCCCTTGAAACAAATTTGGTCTCTCTTGAGACAGTT
1 AAACAAATTTAGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * *
3130067 TCCCTTGAAACAAAATCTCTGAATCTGTTTTCCTTG
66 TCTCTTGAAAC-AAA--T-T---T-TGTCTCCCTTG
* * **
3130103 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAGT
1 AAACAAATTTAGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGT
3130168 TTCTCTTGAAACAAATTTT
65 TTCTCTTGAAACAAATTTT
3130187 TCACTCTTGA
Statistics
Matches: 161, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
93 63 0.39
94 11 0.07
95 1 0.01
96 1 0.01
97 1 0.01
98 1 0.01
99 1 0.01
100 1 0.01
101 50 0.31
102 31 0.19
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (93 bp):
AAACAAATTTAGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
TCTCTTGAAACAAATTTTGTCTCCCTTG
Found at i:3130177 original size:37 final size:35
Alignment explanation
Indices: 3129998--3130424 Score: 377
Period size: 36 Copynumber: 12.3 Consensus size: 35
3129988 TTTTGTCTCC
* *
3129998 CTTGAAACAAATTTTGTCTTTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTT-TCTCTCTTGAGACAGTTTCT
* *
3130034 CTTGAAACAAATTTGGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTT-TTCTCTCTTGAGACAGTTTCT
* *
3130070 CTTGAAACAAA-----ATCTC-TGA-ATCTGTTT-T
1 CTTGAAACAAATTTTTCTCTCTTGAGA-CAGTTTCT
* *
3130098 CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCT
1 -CTTGAAACAAATTT-TTCTCTCTTGAGACAGTTTCT
*
3130135 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAACAAA-TTTT-TCTCTCTTGAGACAGTTTCT
* *
3130172 CTTGAAACAAATTTTTCACTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTTCTCTCTTGAGACAGTTTCT
*
3130207 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTT-TCTCTCTTGAGACAGTTTCT
* *
3130243 CTTGAAACAAA-----ATCT-TTGA-ATATGTTT-T
1 CTTGAAACAAATTTTTCTCTCTTGAGACA-GTTTCT
** *
3130271 ACATT-AAACAAATTTCACCTCCCTTGAGACAGTTTCT
1 -C-TTGAAACAAATTT-TTCTCTCTTGAGACAGTTTCT
* * *
3130308 TTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCT
1 CTTGAAAC-AAATTTT-TCTCTCTTGAGACAGTTTCT
*
3130345 CTTGAAACAAA-TTTTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTTCTCTCTTGAGACAGTTTCT
* *
3130379 CTTGAAACAAAGTTTTATCTCTTTTGAGACATTTTCT
1 CTTGAAACAAA-TTTT-TCTCTCTTGAGACAGTTTCT
3130416 CTTGAAACA
1 CTTGAAACA
3130425 CCAACATTTG
Statistics
Matches: 324, Mismatches: 34, Indels: 65
0.77 0.08 0.15
Matches are distributed among these distances:
28 3 0.01
29 35 0.11
30 9 0.03
34 30 0.09
35 43 0.13
36 112 0.35
37 92 0.28
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (35 bp):
CTTGAAACAAATTTTTCTCTCTTGAGACAGTTTCT
Found at i:3130205 original size:173 final size:173
Alignment explanation
Indices: 3129998--3130424 Score: 678
Period size: 173 Copynumber: 2.5 Consensus size: 173
3129988 TTTTGTCTCC
* *
3129998 CTTGAAACAAATTTTGTCTTTCTTGAGACAGTTTCCCTTGAAACAAATTTGGTCTCTCTTGAGAC
1 CTTGAAACAAATTTT-TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
* * **
3130063 AGTTTCCCTTGAAACAAAATCTCTGAATCTGTTTT-CCTTGAAACAAATTTCGTCTCCCTTGAGA
65 AGTTTCCCTTGAAACAAAATCTCTGAATATGTTTTACATT-AAACAAATTTCACCTCCCTTGAGA
*
3130127 CAGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT
129 CAGTTTCTTTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCT
*
3130172 CTTGAAACAAATTTTTCACTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 CTTGAAACAAATTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
3130237 GTTTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCACCTCCCTTGAGACA
66 GTTTCCCTTGAAACAAAATCTCTGAATATGTTTTACATTAAACAAATTTCACCTCCCTTGAGACA
* *
3130302 GTTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAGTTTCT
131 GTTTCTTTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCT
* *
3130345 CTTGAAACAAA-TTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTATCTCTTTTGAGAC
1 CTTGAAACAAATTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGAC
* *
3130409 ATTTTCTCTTGAAACA
65 AGTTTCCCTTGAAACA
3130425 CCAACATTTG
Statistics
Matches: 235, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
172 33 0.14
173 184 0.78
174 18 0.08
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (173 bp):
CTTGAAACAAATTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
GTTTCCCTTGAAACAAAATCTCTGAATATGTTTTACATTAAACAAATTTCACCTCCCTTGAGACA
GTTTCTTTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCT
Found at i:3130347 original size:15 final size:15
Alignment explanation
Indices: 3130327--3130383 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
3130317 AAGTTTTATC
3130327 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
* *
3130342 TCTCTTGAAACAAATTTT
1 TCTCTTGAGAC--A-GTT
3130360 CTCTCTTGAGACAGTT
1 -TCTCTTGAGACAGTT
*
3130376 TCCCTTGA
1 TCTCTTGA
3130384 AACAAAGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:3130366 original size:19 final size:19
Alignment explanation
Indices: 3130342--3130401 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
3130332 TGAGACAGTT
3130342 TCTCTTGAAACAAATTTTC
1 TCTCTTGAAACAAATTTTC
* *
3130361 TCTCTTGAGAC--AGTTTC
1 TCTCTTGAAACAAATTTTC
*
3130378 -C-CTTGAAACAAAGTTTTA
1 TCTCTTGAAACAAA-TTTTC
3130396 TCTCTT
1 TCTCTT
3130402 TTGAGACATT
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 6 0.19
18 3 0.10
19 11 0.35
20 3 0.10
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (19 bp):
TCTCTTGAAACAAATTTTC
Found at i:3130377 original size:17 final size:17
Alignment explanation
Indices: 3130325--3130377 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 17
3130315 CTAAGTTTTA
3130325 TCTCTCTTGAGACAG-T
1 TCTCTCTTGAGACAGTT
* *
3130341 T-TCTCTTGAAACAAATTT
1 TCTCTCTTGAGAC--AGTT
3130359 TCTCTCTTGAGACAGTT
1 TCTCTCTTGAGACAGTT
3130376 TC
1 TC
3130378 CCTTGAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 10 0.34
16 1 0.03
17 6 0.21
18 2 0.07
19 10 0.34
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (17 bp):
TCTCTCTTGAGACAGTT
Found at i:3130392 original size:17 final size:17
Alignment explanation
Indices: 3130338--3130393 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
3130328 CTCTTGAGAC
*
3130338 AGTTTCTCTTGAAACAA
1 AGTTTCCCTTGAAACAA
* *
3130355 ATTTTCTCTCTTGAGAC--
1 AGTTTC-C-CTTGAAACAA
3130372 AGTTTCCCTTGAAACAA
1 AGTTTCCCTTGAAACAA
3130389 AGTTT
1 AGTTT
3130394 TATCTCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 15 0.50
19 7 0.23
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (17 bp):
AGTTTCCCTTGAAACAA
Found at i:3130524 original size:33 final size:33
Alignment explanation
Indices: 3130482--3130605 Score: 155
Period size: 33 Copynumber: 3.7 Consensus size: 33
3130472 AGACACATTA
3130482 TCTTGAAACACAAAAAACCTTTGAAATCGTTTC
1 TCTTGAAACACAAAAAACCTTTGAAATCGTTTC
*
3130515 TCTTGAAACACAAAAAACCTTTGAAA-CTGTGTC
1 TCTTGAAACACAAAAAACCTTTGAAATC-GTTTC
* *
3130548 TCTTGAAACATAAAAAAAACCTTTGAAAAT-GTTCC
1 TCTTGAAAC--ACAAAAAACCTTTG-AAATCGTTTC
*
3130583 TCTTGAAACAC-AAAGACCTTTGA
1 TCTTGAAACACAAAAAACCTTTGA
3130606 GTTCGACTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
31 1 0.01
32 11 0.14
33 40 0.50
35 25 0.31
36 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (33 bp):
TCTTGAAACACAAAAAACCTTTGAAATCGTTTC
Found at i:3131271 original size:36 final size:36
Alignment explanation
Indices: 3131192--3131320 Score: 137
Period size: 34 Copynumber: 3.7 Consensus size: 36
3131182 TGAAAATACG
*
3131192 TATATAATATATAATTTTT-AAAACATTTTAGAAAA--
1 TATAT-ATATATAGTTTTTGAAAACATTTT-GAAAACT
3131227 TATATATATATAGTTTTT-AAAATCATTTTGAAAAC-
1 TATATATATATAGTTTTTGAAAA-CATTTTGAAAACT
* * *
3131262 T-TATGTATATAGTTTTTGAAAACGTTTT-TAAACT
1 TATATATATATAGTTTTTGAAAACATTTTGAAAACT
3131296 TATATAATATATAGTTTTTGAAAAC
1 TATAT-ATATATAGTTTTTGAAAAC
3131321 TTATATAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
33 4 0.05
34 42 0.51
35 19 0.23
36 18 0.22
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATATATAGTTTTTGAAAACATTTTGAAAACT
Found at i:3131322 original size:26 final size:26
Alignment explanation
Indices: 3131291--3131372 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
3131281 AAACGTTTTT
*
3131291 AAACTTATATAATATATAGTTTTTGA
1 AAACTTATATAATATATAATTTTTGA
3131317 AAACTTATATAATATATAATTTTTGA
1 AAACTTATATAATATATAATTTTTGA
3131343 AAACTTATATAAATATATAATTTTT-A
1 AAACTTATAT-AATATATAATTTTTGA
3131369 AAAC
1 AAAC
3131373 ATTTTTTGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
26 40 0.74
27 14 0.26
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (26 bp):
AAACTTATATAATATATAATTTTTGA
Found at i:3131459 original size:34 final size:35
Alignment explanation
Indices: 3131384--3131462 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 35
3131374 TTTTTTGAAA
3131384 ATTATATAGTTTTTAAAAAATAGTTTTAAAAATTTTAT
1 ATTATATAGTTTTTAAAAAATA---TTAAAAATTTTAT
* * *
3131422 ATTATATAGTTTTTAATAAATA-TATAATTTTTAT
1 ATTATATAGTTTTTAAAAAATATTAAAAATTTTAT
3131456 ATTATAT
1 ATTATAT
3131463 TATTATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 17 0.45
38 21 0.55
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (35 bp):
ATTATATAGTTTTTAAAAAATATTAAAAATTTTAT
Found at i:3131461 original size:16 final size:16
Alignment explanation
Indices: 3131416--3131475 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
3131406 GTTTTAAAAA
*
3131416 TTTTATATTATATAGT
1 TTTTATATTATATAAT
*
3131432 TTTTAATAAATATATAAT
1 TTTT-AT-ATTATATAAT
*
3131450 TTTTATATTATATTAT
1 TTTTATATTATATAAT
*
3131466 TATTAT-TTAT
1 TTTTATATTAT
3131476 TATTAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.11
16 17 0.46
17 4 0.11
18 12 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTATATTATATAAT
Found at i:3131498 original size:13 final size:13
Alignment explanation
Indices: 3131462--3131500 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
3131452 TTATATTATA
3131462 TTATT-ATTATTT
1 TTATTAATTATTT
3131474 ATTATTAA-TATTT
1 -TTATTAATTATTT
3131487 TTATTAATTATTT
1 TTATTAATTATTT
3131500 T
1 T
3131501 GCAGGCCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.29
13 16 0.67
14 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTAATTATTT
Found at i:3136617 original size:768 final size:761
Alignment explanation
Indices: 3135133--3136664 Score: 2796
Period size: 768 Copynumber: 2.0 Consensus size: 761
3135123 TTGGTGATTG
3135133 CATAATCAGAGTCGATATGAGCTTATCTTTCAAGATATTGAGTGACTCCTTGCACTTCGGATTAA
1 CATAATCAGAGTCGATATGAGCTTATCTTTCAAGATATTGAGTGACTCCTTGCACTTCGGATTAA
*
3135198 AGTCGAGATTTGATCTTTTTGAGCAAATTGCATAATGGTTGTGTTATCTTGAAAAATCTTTAATA
66 AGTCGAGATTTGATCTTTTTGAGCAAATTGCATAATGGTCGTGTTATCTTGAAAAATCTTTAATA
3135263 ACATGTGGTAGAATCTTGTATGACCAAGAAAAGATCGTATTTCCCTTACCATTATAGGGTAAGGA
131 ACATGTGGTAGAATCTTGTATGACCAAGAAAAGATCGTATTTCCCTTACCATTATAGGGTAAGGA
3135328 GTGAACCTATAATATCAGCTTGGCTTTATCGACCGTAATTCTATCCGAGAAACAATATGGACTAC
196 GTGAACCTATAATATCAGCTTGGCTTTATCGACCGTAATTCTATCCGAGAAACAATATGGACTAC
3135393 AATCAACCCCTTATCAACCATAAAATGGTATTTTTTGTAATTCAAAGCAAGGTTTAATTCTAGGC
261 AATCAACCCCTTATCAACCATAAAATGGTATTTTTTG--ATTCAAAGCAAGGTTTAATTCTAGG-
3135458 AGCGTTTTAATACATTGTCAAGTTTATAAGACATTCGTCGAAAGAGTTATTGTACACTGTGAAAT
323 AGCGTTTTAATACATTGTCAAGTTTATAAGACATTCGTCGAAAGAGTTATTGTACACTGTGAAAT
3135523 AATTCATAAGACCTCAATAGTTATTTAGGTAATCCAAAAGATGCTAAGCATGCATTCTTGAAAGG
388 AATTCATAAGACCTCAATAGTTATTTAGGTAATCCAAAAGATGCTAAGCATGCATTCTTGAAAGG
3135588 TGGCGGATGCATTATGGTCTGAAAGGCATTCATTAAAAAAAAGTTTTGAAGGGCATGTGAAAGTT
453 TGGCGGATGCATTATGGTCTGAAAGGCATTCATTAAAAAAAAGTTTTGAAGGGCATGTGAAAGTT
3135653 TTATTTCCTGATCTTCTGGCGCCACCGGGATTTGAAAGGAAACCTGAAAATCCATCAAGACAACA
518 TTATTTCCTGATCTTCTGGCGCCACCGGGATTTGAAAGGAAACCTGAAAATCCATCAAGACAACA
3135718 ATAGTGAGTTTTACTGGCTAATTTTCTATAATTTGATCTATAAATGGAAGAGGATTCGAGTTGAA
583 ATAGTGAGTTTTACTGGCTAATTTTCTATAATTTGATCTATAAATGGAAGAGGATTCGAGTTGAA
3135783 GAGTTCAACTTCCTGTAATCGTGAAGACTCGCCATCCATTCTGAACTCTAGTTGGAACTAACTCA
648 GAGTTCAACTTCCTGTAATCGTGAAGACTCGCCATCCATTCTGAACTCTAGTTGGAACTAACTCA
3135848 CCTTCCGAGTTCTAAATTACTGTAACTCTGGTTTTCTTTGGAATCACAT
713 CCTTCCGAGTTCTAAATTACTGTAACTCTGGTTTTCTTTGGAATCACAT
3135897 CATAATCAGAGTCGATATGAGCTTATCTTTCAAGATATTGAGTGACTCCTTGCACTTCGGATTAA
1 CATAATCAGAGTCGATATGAGCTTATCTTTCAAGATATTGAGTGACTCCTTGCACTTCGGATTAA
3135962 AGTCGAAGATTTGATCTTTTTGAAGCAAATTGCATAATGGTCGTGTTATCTTTGAAAAATCTTTA
66 AGTCG-AGATTTGATCTTTTTG-AGCAAATTGCATAATGGTCGTGTTATC-TTGAAAAATCTTTA
3136027 ATAAACATGTGGTAGAATCTTGTATGACCAAGAAAAGATCGTATTTCCCTTACCATTATAGGGTA
128 AT-AACATGTGGTAGAATCTTGTATGACCAAGAAAAGATCGTATTTCCCTTACCATTATAGGGT-
3136092 AAGGAGTGAACCTATAATATCAGCCTTGGCTTTATCGACCGTAATTC-ATCCGAGGAAACAATAT
191 AAGGAGTGAACCTATAATATCAG-CTTGGCTTTATCGACCGTAATTCTATCCGA-GAAACAATAT
3136156 GGACTACAATCAACCCCTTATCAACCATAAAATGGTA-TTTTTG-TTCAAAGCAAGGTTTAATTC
254 GGACTACAATCAACCCCTTATCAACCATAAAATGGTATTTTTTGATTCAAAGCAAGGTTTAATTC
3136219 TA-G-GCGTTTTAATACATTAGTCAAGTTTATAAGACATTCGTCG-AAGAGTTATTGTACACTGT
319 TAGGAGCGTTTTAATACATT-GTCAAGTTTATAAGACATTCGTCGAAAGAGTTATTGTACACTGT
3136281 G-AATAATTCA-AAGACCTCAATAGTTATTTAGGTAATCCAAAAAGATGCTAAGCATGCATTCTT
383 GAAATAATTCATAAGACCTCAATAGTTATTTAGGTAATCC-AAAAGATGCTAAGCATGCATTCTT
*
3136344 GAAAGGTGGCGGATGCATTACATGGTCTGAAAGGCATTCATCGATAAGAAAAAGTTTTGAAGGGC
447 GAAAGGTGGCGGATGCATT--ATGGTCTGAAAGGCATTCAT---TAAAAAAAAGTTTTGAAGGGC
3136409 ATGTGAAAGTTTTATTTTCCTGATCTTCTGGCGCC-CCGGGATTTGAAA-GAAACCTGAAAATCC
507 ATGTGAAAGTTTTA-TTTCCTGATCTTCTGGCGCCACCGGGATTTGAAAGGAAACCTGAAAATCC
3136472 ATCAAGACAACAATAGTGAGTTTTACTGGCTAATTATTCTATAATTTGATCTATAAATGGAAGAG
571 ATCAAGACAACAATAGTGAGTTTTACTGGCTAATT-TTCTATAATTTGATCTATAAATGGAAGAG
3136537 GATTCGAGTTGAAGAGTTCAACTTCCTGTAATCGATGAAGACTCGCCATCCATTCTGAACTCTAG
635 GATTCGAGTTGAAGAGTTCAACTTCCTGTAATCG-TGAAGACTCGCCATCCATTCTGAACTCTAG
3136602 TTGGAACTAACTCACCTTCCGAGTTCTAAATTACTGTAACTCTGGTTTTCTTTGGAATCACAT
699 TTGGAACTAACTCACCTTCCGAGTTCTAAATTACTGTAACTCTGGTTTTCTTTGGAATCACAT
3136665 GGATAATACT
Statistics
Matches: 749, Mismatches: 2, Indels: 30
0.96 0.00 0.04
Matches are distributed among these distances:
761 28 0.04
762 52 0.07
763 35 0.05
764 114 0.15
765 17 0.02
766 98 0.13
767 126 0.17
768 174 0.23
769 35 0.05
770 70 0.09
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (761 bp):
CATAATCAGAGTCGATATGAGCTTATCTTTCAAGATATTGAGTGACTCCTTGCACTTCGGATTAA
AGTCGAGATTTGATCTTTTTGAGCAAATTGCATAATGGTCGTGTTATCTTGAAAAATCTTTAATA
ACATGTGGTAGAATCTTGTATGACCAAGAAAAGATCGTATTTCCCTTACCATTATAGGGTAAGGA
GTGAACCTATAATATCAGCTTGGCTTTATCGACCGTAATTCTATCCGAGAAACAATATGGACTAC
AATCAACCCCTTATCAACCATAAAATGGTATTTTTTGATTCAAAGCAAGGTTTAATTCTAGGAGC
GTTTTAATACATTGTCAAGTTTATAAGACATTCGTCGAAAGAGTTATTGTACACTGTGAAATAAT
TCATAAGACCTCAATAGTTATTTAGGTAATCCAAAAGATGCTAAGCATGCATTCTTGAAAGGTGG
CGGATGCATTATGGTCTGAAAGGCATTCATTAAAAAAAAGTTTTGAAGGGCATGTGAAAGTTTTA
TTTCCTGATCTTCTGGCGCCACCGGGATTTGAAAGGAAACCTGAAAATCCATCAAGACAACAATA
GTGAGTTTTACTGGCTAATTTTCTATAATTTGATCTATAAATGGAAGAGGATTCGAGTTGAAGAG
TTCAACTTCCTGTAATCGTGAAGACTCGCCATCCATTCTGAACTCTAGTTGGAACTAACTCACCT
TCCGAGTTCTAAATTACTGTAACTCTGGTTTTCTTTGGAATCACAT
Found at i:3137219 original size:20 final size:20
Alignment explanation
Indices: 3137196--3137247 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
3137186 AACGCGATCC
3137196 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
3137216 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
3137236 CCAAAATCGCAA
1 CCAGAATCGCAA
3137248 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:3137264 original size:21 final size:20
Alignment explanation
Indices: 3137238--3137335 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
3137228 ATCAGTTTCC
3137238 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* * **
3137259 AAAATCGCGATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
**
3137278 ACAAATTCGCATTGCGATTTT-
1 A-AAA-TCGCAACGCGATTTTG
* *
3137299 ACATAATCGCAACGCGAATATG
1 A-A-AATCGCAACGCGATTTTG
3137321 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
3137336 ACACATAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.28
21 40 0.66
22 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:3137397 original size:20 final size:20
Alignment explanation
Indices: 3137303--3137670 Score: 431
Period size: 20 Copynumber: 18.4 Consensus size: 20
3137293 GATTTTACAT
* ** *
3137303 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
3137323 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
3137343 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3137363 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
3137383 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
3137403 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3137423 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3137443 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
3137463 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3137483 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3137503 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
3137523 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
3137543 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
*
3137563 AATCGCAACGCGTATTCGTA
1 AATCGCAACGCGTATCCGTA
*
3137583 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
3137603 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
3137623 AATCGCAACG-ATAAT-CGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
3137642 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
3137662 AATCACAAC
1 AATCGCAAC
3137671 ACTGAAATTT
Statistics
Matches: 299, Mismatches: 40, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
19 18 0.06
20 278 0.93
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:3138389 original size:24 final size:24
Alignment explanation
Indices: 3138345--3138391 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3138335 AAATTTGGTC
*
3138345 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCAGACTTTGATA
*
3138369 TTGGTCAATA-CACAGATTTTGAT
1 TTGGTCAATATC-CAGACTTTGAT
3138392 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCAGACTTTGATA
Found at i:3138580 original size:12 final size:12
Alignment explanation
Indices: 3138563--3138587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3138553 ATATAATCCT
3138563 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3138575 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3138587 G
1 G
3138588 TCCCGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:3140836 original size:19 final size:19
Alignment explanation
Indices: 3140773--3141066 Score: 375
Period size: 19 Copynumber: 16.7 Consensus size: 19
3140763 AAATCCCAAC
3140773 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
3140793 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
3140808 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
3140826 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
3140845 ATG-AAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
3140859 A-G-AAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
3140876 ATAAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
3140895 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
3140914 ATGAAAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAA
3140931 AT---AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
3140947 ATTAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
3140966 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
3140985 ATG-AAATCGCAATGC-AA
1 ATGAAAATCGCAATGCGAA
3141002 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
3141019 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
3141035 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
3141054 ATGAAAATCGCAA
1 ATGAAAATCGCAA
3141067 CGAGATAATC
Statistics
Matches: 244, Mismatches: 7, Indels: 47
0.82 0.02 0.16
Matches are distributed among these distances:
13 10 0.04
14 27 0.11
15 3 0.01
16 16 0.07
17 16 0.07
18 32 0.13
19 127 0.52
20 13 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:3140955 original size:121 final size:122
Alignment explanation
Indices: 3140773--3141047 Score: 411
Period size: 121 Copynumber: 2.3 Consensus size: 122
3140763 AAATCCCAAC
*
3140773 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCA
3140838 ATGCGAAATG-AAATCGCAA-CG-A-GAAATCGCAATGCGAAATAAAAATCGCAATGCGAA
65 ATGCGAAATGAAAATCGCAAGCGAATGAAATCGCAATGC-AAATAAAAATCGCAA--CGAA
* *
3140895 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAATGCGAAATTAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAA
*
3140960 TGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAATGCAAATGAAAATCGCAACGAA
66 TGCGAAATGAAAATCGCAA-GCG-AATGAAATCGCAATGCAAATAAAAATCGCAACGAA
3141019 A-G--AATCGCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA
3141048 TGCGAAATGA
Statistics
Matches: 143, Mismatches: 4, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
121 82 0.57
122 25 0.17
123 1 0.01
124 7 0.05
126 15 0.10
127 13 0.09
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (122 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAAGCGAATGAAATCGCAATGCAAATAAAAATCGCAACGAA
Found at i:3140975 original size:140 final size:141
Alignment explanation
Indices: 3140812--3141103 Score: 461
Period size: 140 Copynumber: 2.1 Consensus size: 141
3140802 GCAACGAGAG
* *
3140812 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAGAAATCG-CAAT-GCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACG-CAAAT-GAAAATCGC-A
*
3140875 AATAAA-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGC
63 AAGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGC
3140939 AATGCGAAATTA-A
128 AATGCGAAATTATA
* *
3140952 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAATGCAAATGAAAATCGCAACG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGCAAATGAAAATCGCAAAG
*
3141017 AAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAAT
66 AAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAAT
3141082 GCGAAATTATA
131 GCGAAATTATA
3141093 AA-CGC-ATGCGA
1 AATCGCAATGCGA
3141104 TTTTCATTTC
Statistics
Matches: 142, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
138 1 0.01
139 18 0.13
140 120 0.85
141 3 0.02
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (141 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGCAAATGAAAATCGCAAAG
AAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAAT
GCGAAATTATA
Found at i:3141117 original size:19 final size:19
Alignment explanation
Indices: 3141095--3141176 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
3141085 AAATTATAAA
3141095 CGCA-TGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
3141113 CCGCATTGCGA--TTC-TCT
1 -CGCATTGCGATTTTCATTT
3141130 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3141147 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
3141166 CGCATTGCGAT
1 CGCATTGCGAT
3141177 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.11
16 5 0.09
17 6 0.11
18 3 0.05
19 30 0.55
20 5 0.09
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:3141182 original size:19 final size:19
Alignment explanation
Indices: 3141141--3141184 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3141131 GTTGCGATTT
**
3141141 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
3141160 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
3141179 TCATTT
1 TCATTT
3141185 TTGCCTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:3141297 original size:13 final size:14
Alignment explanation
Indices: 3141279--3141314 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3141269 GCATCAATAC
3141279 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
3141292 ACAAATCATCTTTT
1 ACAAATCAACTTTT
3141306 ACAAATCAA
1 ACAAATCAA
3141315 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3143238 original size:19 final size:19
Alignment explanation
Indices: 3143198--3143332 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
3143188 ATATTTACTT
* *
3143198 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
3143218 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
3143237 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
3143256 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
3143270 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
3143289 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
**
3143303 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
3143322 TCGCAATGCGA
1 TCGCAACGCGA
3143333 TTTGGTTTCG
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.19
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:3143273 original size:14 final size:14
Alignment explanation
Indices: 3143254--3143310 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
3143244 GCGAAATGAA
3143254 AATCGCAACGACAG
1 AATCGCAACGACAG
*
3143268 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
3143287 AATCGCAACGAAAG
1 AATCGCAACGACAG
3143301 AATCGCAACG
1 AATCGCAACG
3143311 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.28, G:0.19, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:3143277 original size:33 final size:33
Alignment explanation
Indices: 3143235--3143327 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
3143225 GCGAAACCAA
*
3143235 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
3143268 AATCGCAACGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
3143301 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
3143328 TGCGATTTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:3143324 original size:52 final size:54
Alignment explanation
Indices: 3143198--3143332 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 54
3143188 ATATTTACTT
*
3143198 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
*
3143256 TCGCAA-CGACA-G--AATCGCAACGCGAAACCAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
3143303 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
3143333 TTTGGTTTCG
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.07
50 6 0.09
52 39 0.57
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:3143373 original size:33 final size:33
Alignment explanation
Indices: 3143328--3143418 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
3143318 AAAATCGCAA
3143328 TGCGA-TTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
3143360 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
3143393 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
3143419 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 5 0.09
33 48 0.87
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:3143381 original size:19 final size:19
Alignment explanation
Indices: 3143328--3143455 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
3143318 AAAATCGCAA
3143328 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3143346 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
3143360 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3143379 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
3143393 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3143412 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
3143431 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
3143451 TGCGA
1 TGCGA
3143456 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 7 0.08
19 42 0.47
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:3143768 original size:93 final size:93
Alignment explanation
Indices: 3143498--3144235 Score: 1362
Period size: 93 Copynumber: 8.1 Consensus size: 93
3143488 CTTGAATGGA
3143498 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3143562 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3143590 AAA-TTACTTTCAACC-AAAGAC-AAACAAAGACAAATACTATTTCACA--G-TAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3143649 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3143677 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3143742 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3143770 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3143833 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3143861 AAATTTACTTTC-ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3143925 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3143953 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3144018 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3144046 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTT-AAGAAT--AC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3144106 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3144134 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
3144199 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3144227 AAATTTACT
1 AAATTTACT
3144236 AAGCAATCTA
Statistics
Matches: 630, Mismatches: 1, Indels: 29
0.95 0.00 0.04
Matches are distributed among these distances:
87 43 0.07
88 59 0.09
89 38 0.06
90 68 0.11
91 119 0.19
92 113 0.18
93 190 0.30
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:3143989 original size:276 final size:277
Alignment explanation
Indices: 3143498--3144235 Score: 1372
Period size: 276 Copynumber: 2.7 Consensus size: 277
3143488 CTTGAATGGA
3143498 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
3143562 AGTTTAGCAGAATTGGCAGCAACCGAACAAA-TTACTTTCAACC-AAAGAC-AAACAAAGACAAA
64 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
3143624 TACTATTTCACA--G-TAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
129 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
3143686 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
194 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
3143751 GAATTGGCAGCAACCGAAC
259 GAATTGGCAGCAACCGAAC
3143770 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAG
1 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAG
3143835 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTC-ACCAAAAGACAAAACAAAGACAAATA
66 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
3143899 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
131 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
3143964 CAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
196 CAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
3144029 ATTGGCAGCAACCGAAC
261 ATTGGCAGCAACCGAAC
3144046 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATATATTTCACAGTGTT-AAGAAT--ACAG
1 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAG
3144108 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
66 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
*
3144173 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
131 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
3144236 AAGCAATCTA
Statistics
Matches: 457, Mismatches: 1, Indels: 14
0.97 0.00 0.03
Matches are distributed among these distances:
271 76 0.17
272 34 0.07
273 67 0.15
274 88 0.19
275 7 0.02
276 185 0.40
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (277 bp):
AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAG
TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
CAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
ATTGGCAGCAACCGAAC
Found at i:3145972 original size:33 final size:33
Alignment explanation
Indices: 3145927--3146034 Score: 189
Period size: 33 Copynumber: 3.3 Consensus size: 33
3145917 TCTTTTGGTT
3145927 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
3145960 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
3145993 GAAATGAAAATCGCAACGAGAGAATCGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3146026 GAAATGAAA
1 GAAATGAAA
3146035 TCACAATGCG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3145973 original size:19 final size:18
Alignment explanation
Indices: 3145934--3146036 Score: 77
Period size: 14 Copynumber: 6.3 Consensus size: 18
3145924 GTTGAAATGA
3145934 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
3145949 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
3145966 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
3145982 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
3145999 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
* *
3146015 -AATCGTAACGCGAAATG
1 AAATCGCAACGCGAGATG
3146032 AAATC
1 AAATC
3146037 ACAATGCGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
14 23 0.33
16 15 0.21
17 12 0.17
18 4 0.06
19 16 0.23
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:3146076 original size:14 final size:14
Alignment explanation
Indices: 3146057--3146111 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3146047 TTTGGTTTCG
3146057 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3146071 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
3146090 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3146104 CGTTGCGA
1 CGTTGCGA
3146112 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3146089 original size:33 final size:33
Alignment explanation
Indices: 3146041--3146111 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
3146031 GAAATCACAA
**
3146041 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
3146074 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
3146107 TGCGA
1 TGCGA
3146112 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:3146119 original size:33 final size:33
Alignment explanation
Indices: 3146052--3146133 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
3146042 GCGATTTTGG
***
3146052 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
3146085 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
3146118 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
3146134 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:3146138 original size:20 final size:20
Alignment explanation
Indices: 3146064--3146152 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
3146054 TCGCGTTGCG
3146064 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
3146084 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
3146097 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
3146117 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
3146137 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
3146153 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:3146517 original size:22 final size:22
Alignment explanation
Indices: 3146465--3146519 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3146455 TGGTTGTGAG
**
3146465 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
3146487 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
3146509 GGATTTCTTCG
1 GGATTTCTTCG
3146520 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:3146690 original size:20 final size:20
Alignment explanation
Indices: 3146665--3146857 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
3146655 CTTTAAATAT
3146665 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3146685 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
3146707 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3146726 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
3146746 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
3146766 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3146786 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3146806 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
3146826 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
3146846 CGCGTTGCGATT
1 CGCGTTGCGATT
3146858 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:3146852 original size:60 final size:60
Alignment explanation
Indices: 3146665--3146857 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
3146655 CTTTAAATAT
**
3146665 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
3146726 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
3146786 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
3146846 CGCGTTGCGATT
1 CGCGTTGCGATT
3146858 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:3146938 original size:20 final size:20
Alignment explanation
Indices: 3146913--3146964 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
3146903 AAGAATCGCG
*
3146913 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
3146933 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
3146953 TTGCGATTCTGG
1 TTGCGATTCTGG
3146965 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:3152371 original size:19 final size:20
Alignment explanation
Indices: 3152333--3152371 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3152323 ATGGATTTCT
3152333 GGTTTTGATACCAAGAACCTC
1 GGTTTTGATACC-AGAACCTC
*
3152354 GGTTTTGATGCC-GAACCT
1 GGTTTTGATACCAGAACCT
3152372 TCAGTATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (20 bp):
GGTTTTGATACCAGAACCTC
Found at i:3156762 original size:22 final size:22
Alignment explanation
Indices: 3156737--3156788 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
3156727 CTAAAAGCCT
* * *
3156737 TAAAAATGCTAAAGATAAATCC
1 TAAAAATACAAAAGACAAATCC
*
3156759 TAAAAGATACAAAAGACAATTCC
1 TAAAA-ATACAAAAGACAAATCC
3156782 TAAAAAT
1 TAAAAAT
3156789 TATTTGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (22 bp):
TAAAAATACAAAAGACAAATCC
Done.