Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_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: 2670214
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:837054 original size:63 final size:63
Alignment explanation
Indices: 836970--837143 Score: 174
Period size: 63 Copynumber: 2.8 Consensus size: 63
836960 TAGGTTCTTT
* * * * *
836970 ACGTGATGATGTCA-GTGCTTTATGTGATGAGGTCGGTGCTTTATGTGATGACAATGGTGCATG
1 ACGTGATGAGGT-AGGTGCTTTACGTGATGAGGTAGGTGCTTTACGTGATGACAATGGTACATG
* ** * * *
837033 GCGTGATGAGGTAGG-GTCTTTACGT-AGTGAGGTAGCAGCTTTACGTTATGACAATGGTACTTT
1 ACGTGATGAGGTAGGTG-CTTTACGTGA-TGAGGTAGGTGCTTTACGTGATGACAATGGTACATG
* * *
837096 ACGTGGTGAGGTAGTTGCTTTACGTGATGAGGTAGGTGCTCTACGTGA
1 ACGTGATGAGGTAGGTGCTTTACGTGATGAGGTAGGTGCTTTACGTGA
837144 GATTGTTTCA
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
62 3 0.03
63 83 0.94
64 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (63 bp):
ACGTGATGAGGTAGGTGCTTTACGTGATGAGGTAGGTGCTTTACGTGATGACAATGGTACATG
Found at i:837116 original size:21 final size:21
Alignment explanation
Indices: 836952--837143 Score: 124
Period size: 21 Copynumber: 9.1 Consensus size: 21
836942 CACCTCCACA
* *
836952 TGATGAGTTAGGTTCTTTACG
1 TGATGAGGTAGGTGCTTTACG
* *
836973 TGATGATGTCA-GTGCTTTATG
1 TGATGAGGT-AGGTGCTTTACG
* *
836994 TGATGAGGTCGGTGCTTTATG
1 TGATGAGGTAGGTGCTTTACG
** * **
837015 TGATGA-CAATGGTGCATGGCG
1 TGATGAGGTA-GGTGCTTTACG
837036 TGATGAGGTAGG-GTCTTTACG
1 TGATGAGGTAGGTG-CTTTACG
**
837057 T-AGTGAGGTAGCAGCTTTACG
1 TGA-TGAGGTAGGTGCTTTACG
* ** *
837078 TTATGA-CAATGGTACTTTACG
1 TGATGAGGTA-GGTGCTTTACG
* *
837099 TGGTGAGGTAGTTGCTTTACG
1 TGATGAGGTAGGTGCTTTACG
*
837120 TGATGAGGTAGGTGCTCTACG
1 TGATGAGGTAGGTGCTTTACG
837141 TGA
1 TGA
837144 GATTGTTTCA
Statistics
Matches: 128, Mismatches: 33, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.02
21 120 0.94
22 5 0.04
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.35
Consensus pattern (21 bp):
TGATGAGGTAGGTGCTTTACG
Found at i:839234 original size:20 final size:20
Alignment explanation
Indices: 839209--839355 Score: 135
Period size: 20 Copynumber: 7.6 Consensus size: 20
839199 CTATCTTTAA
*
839209 GAAAATCAAATTCGCAACGC
1 GAAAATCAAATTCGCAACTC
839229 GAAAATCAAATTCGCAACTC
1 GAAAATCAAATTCGCAACTC
* *
839249 GAAAATCAAATTCACAATTC
1 GAAAATCAAATTCGCAACTC
839269 GAAAATCAAATTCGCAA--C
1 GAAAATCAAATTCGCAACTC
* * * *
839287 ---ACT-AAAATCGTAACTT
1 GAAAATCAAATTCGCAACTC
* *
839303 GATATTCAAATTCGCAACTC
1 GAAAATCAAATTCGCAACTC
** *
839323 GAAAAATGGAATTCGCAATTC
1 G-AAAATCAAATTCGCAACTC
839344 GAAAATCAAATT
1 GAAAATCAAATT
839356 TTTAACACGA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
14 8 0.08
15 2 0.02
18 1 0.01
19 2 0.02
20 73 0.72
21 15 0.15
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (20 bp):
GAAAATCAAATTCGCAACTC
Found at i:839363 original size:75 final size:74
Alignment explanation
Indices: 839234--839403 Score: 223
Period size: 75 Copynumber: 2.3 Consensus size: 74
839224 AACGCGAAAA
* *
839234 TCAAATTCGCAACTCGAAAATCAAATTCACAATTCGAAAATCAAATTCGCAACACTAAAATCGTA
1 TCAAATTCGCAACTCGAAAATCAAATTCACAATTCGAAAATCAAATTCGCAACACGAAAATCATA
*
839299 ACTTGATAT
66 ACTCGATAT
** * ***
839308 TCAAATTCGCAACTCGAAAAATGGAATTCGCAATTCGAAAATCAAATTTTTAACACGAAAATCAT
1 TCAAATTCGCAACTCG-AAAATCAAATTCACAATTCGAAAATCAAATTCGCAACACGAAAATCAT
839373 AACTCGATAT
65 AACTCGATAT
* **
839383 TCAAATTTGCAAAGCGAAAAT
1 TCAAATTCGCAACTCGAAAAT
839404 GAAAATCGAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 21 0.25
75 62 0.75
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (74 bp):
TCAAATTCGCAACTCGAAAATCAAATTCACAATTCGAAAATCAAATTCGCAACACGAAAATCATA
ACTCGATAT
Found at i:839449 original size:20 final size:19
Alignment explanation
Indices: 839424--839475 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
839414 ATCGATATCA
839424 AGTTGCAAATTTCATTTTTG
1 AGTTGCAAATTT-ATTTTTG
*
839444 AGTTGCGAATTATATTTTTG
1 AGTTGCAAATT-TATTTTTG
839464 AGTTGCAAATTT
1 AGTTGCAAATTT
839476 TAATATCGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (19 bp):
AGTTGCAAATTTATTTTTG
Found at i:839562 original size:20 final size:20
Alignment explanation
Indices: 839424--839571 Score: 73
Period size: 20 Copynumber: 7.7 Consensus size: 20
839414 ATCGATATCA
*
839424 AGTTGCAAATTTCATTTTTG
1 AGTTGCAAATTTGATTTTTG
*
839444 AGTTGCGAATTAT-ATTTTTG
1 AGTTGCAAATT-TGATTTTTG
* * * *
839464 AGTTGCAAATTTTAATATCG
1 AGTTGCAAATTTGATTTTTG
839484 AGTTGC------GATTTTTG
1 AGTTGCAAATTTGATTTTTG
* * *
839498 TGTTGCGAATTTGAGTTTCT-
1 AGTTGCAAATTTGA-TTTTTG
* * *
839518 AATTAG-GAATTTGATTTTCG
1 AGTT-GCAAATTTGATTTTTG
*
839538 TGTTGCAAATTTGATTTTTG
1 AGTTGCAAATTTGATTTTTG
839558 AGTTG-AGAATTTGA
1 AGTTGCA-AATTTGA
839572 GTTGCGAGTT
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
14 9 0.09
19 6 0.06
20 74 0.78
21 6 0.06
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.47
Consensus pattern (20 bp):
AGTTGCAAATTTGATTTTTG
Found at i:840944 original size:40 final size:39
Alignment explanation
Indices: 840900--840988 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 39
840890 GAAACGCGCT
* ** *
840900 TTGCGAATTAGAAACTCTTGTTGCGAAAAGGAAACTT-GGG
1 TTGCGAATTA-AAAATCGAGTTGCGAAAAAGAAA-TTCGGG
*
840940 TTGCGAATTTAAAAATCGAGTTGCGAAAAAGAAATTCGTG
1 TTGCGAA-TTAAAAATCGAGTTGCGAAAAAGAAATTCGGG
840980 TTGCGAATT
1 TTGCGAATT
840989 TGACTTCTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
39 4 0.10
40 35 0.83
41 3 0.07
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (39 bp):
TTGCGAATTAAAAATCGAGTTGCGAAAAAGAAATTCGGG
Found at i:841019 original size:21 final size:20
Alignment explanation
Indices: 840971--841049 Score: 97
Period size: 21 Copynumber: 3.9 Consensus size: 20
840961 TGCGAAAAAG
*
840971 AAATTCGTGTTGCGAATT-T
1 AAATTCGTGTTGCGAATTCC
* *
840990 GACTTCTGTGTTGCGAATTCC
1 AAATTC-GTGTTGCGAATTCC
*
841011 AAATTCTGTGTTGCAAATTCC
1 AAATTC-GTGTTGCGAATTCC
841032 AAATTCGTGTTGCGAATT
1 AAATTCGTGTTGCGAATT
841050 TGGAAACTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.08
20 23 0.45
21 24 0.47
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (20 bp):
AAATTCGTGTTGCGAATTCC
Found at i:845845 original size:19 final size:19
Alignment explanation
Indices: 845818--845859 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
845808 GAATTTAATC
*
845818 ATAATTTTAATTAAATTAA
1 ATAAGTTTAATTAAATTAA
* *
845837 ATAAGTTTAATTTAATTTA
1 ATAAGTTTAATTAAATTAA
845856 ATAA
1 ATAA
845860 CTATATGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAAGTTTAATTAAATTAA
Found at i:854901 original size:18 final size:18
Alignment explanation
Indices: 854874--854909 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
854864 ATGACTGAAG
* *
854874 TAAATGATAAGTTTGGAT
1 TAAATAATAAGATTGGAT
854892 TAAATAATAAGATTGGAT
1 TAAATAATAAGATTGGAT
854910 GGAAGGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (18 bp):
TAAATAATAAGATTGGAT
Found at i:856301 original size:32 final size:31
Alignment explanation
Indices: 856228--856312 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
856218 CTAATGTGAC
* * *
856228 TCTTAGGTAGGCTATGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCATGTGGCCCTAAGATCAT
** **
856259 TCTCCGGTAGGCCATGTGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCATGTGGCCCTAAGAT-CAT
**
856291 TCTTAGGTAGGCCCCGTGGCCC
1 TCTTAGGTAGGCCATGTGGCCC
856313 CGAAACTTTC
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCATGTGGCCCTAAGATCAT
Found at i:859135 original size:113 final size:114
Alignment explanation
Indices: 859011--859215 Score: 335
Period size: 113 Copynumber: 1.8 Consensus size: 114
859001 AAACTACCAC
*
859011 TTAGATCCCTAAACTTTTCC-AAATATTATACTTTGGCCACTAAACTTTCAAAACTTATATTTTC
1 TTAGATCCCTAAACTTTTCCAAAAT-TTATACTTTGACCACTAAACTTTCAAAACTTATATTTT-
*
859075 G-TCAC-GACCAAAATTTAGGATATTACAACTCTTTTGGGAAAATTATCAT
64 GATCACTAACCAAAATTTAGGATATTACAACTCTTTTGGGAAAATTATCAT
*
859124 TTAGATCCCTAAACTTTTCTAAAATTTATACTTTGACCACTAAACTTTCAAAACTTATATTTTGA
1 TTAGATCCCTAAACTTTTCCAAAATTTATACTTTGACCACTAAACTTTCAAAACTTATATTTTGA
*
859189 TCACTAACCAAAATTTAGGGTATTACA
66 TCACTAACCAAAATTTAGGATATTACA
859216 CATTATCCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
112 1 0.01
113 60 0.71
114 24 0.28
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (114 bp):
TTAGATCCCTAAACTTTTCCAAAATTTATACTTTGACCACTAAACTTTCAAAACTTATATTTTGA
TCACTAACCAAAATTTAGGATATTACAACTCTTTTGGGAAAATTATCAT
Found at i:859182 original size:29 final size:31
Alignment explanation
Indices: 859132--859195 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
859122 ATTTAGATCC
*
859132 CTAAACTTTTCTAAAATTTATACTTTGACCA
1 CTAAACTTTTCTAAAACTTATACTTTGACCA
* *
859163 CTAAAC-TTTC-AAAACTTATATTTTGATCA
1 CTAAACTTTTCTAAAACTTATACTTTGACCA
859192 CTAA
1 CTAA
859196 CCAAAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 20 0.67
30 4 0.13
31 6 0.20
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (31 bp):
CTAAACTTTTCTAAAACTTATACTTTGACCA
Found at i:889645 original size:22 final size:22
Alignment explanation
Indices: 889617--889713 Score: 185
Period size: 22 Copynumber: 4.4 Consensus size: 22
889607 TTAATGGAAC
889617 CATTCAGCGTTGAATCGTTTAA
1 CATTCAGCGTTGAATCGTTTAA
889639 CATTCAGCGTTGAATCGTTTAA
1 CATTCAGCGTTGAATCGTTTAA
889661 CATTCAGCGTTGAATCGTTTAA
1 CATTCAGCGTTGAATCGTTTAA
*
889683 CATTCAACGTTGAATCGTTTAA
1 CATTCAGCGTTGAATCGTTTAA
889705 CATTCAGCG
1 CATTCAGCG
889714 CGTTTGTTTC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (22 bp):
CATTCAGCGTTGAATCGTTTAA
Found at i:889806 original size:27 final size:27
Alignment explanation
Indices: 889768--889915 Score: 251
Period size: 27 Copynumber: 5.5 Consensus size: 27
889758 CAAAATAGCG
*
889768 CTGAATGATTCAGCATAGAAGTACAAT
1 CTGAATGATTCAGCATAGAAGTACATT
*
889795 CTGAATGATTCAGTATAGAAGTACATT
1 CTGAATGATTCAGCATAGAAGTACATT
889822 CTGAATGATTCAGCATAGAAGTACATT
1 CTGAATGATTCAGCATAGAAGTACATT
889849 CTGAATGATTCAGCATAGAAGTACATT
1 CTGAATGATTCAGCATAGAAGTACATT
* *
889876 CTGAATGATTCAACATAGAAGTATATT
1 CTGAATGATTCAGCATAGAAGTACATT
*
889903 CTAAATGATTCAG
1 CTGAATGATTCAG
889916 AGCAATTTTC
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (27 bp):
CTGAATGATTCAGCATAGAAGTACATT
Found at i:902936 original size:18 final size:19
Alignment explanation
Indices: 902897--902939 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
902887 AAAAAATATT
*
902897 TAATAAAAATAATTGAAGA
1 TAATAAAAATAATTGAAAA
902916 TAATAAAAAT-ATAT-AAAA
1 TAATAAAAATAAT-TGAAAA
902934 TAATAA
1 TAATAA
902940 GTAAATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TAATAAAAATAATTGAAAA
Found at i:904958 original size:12 final size:12
Alignment explanation
Indices: 904941--904965 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
904931 TTTGAGGGTT
904941 TTTTTTTTTTTC
1 TTTTTTTTTTTC
904953 TTTTTTTTTTTC
1 TTTTTTTTTTTC
904965 T
1 T
904966 GCTTTCTTTT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:904970 original size:15 final size:14
Alignment explanation
Indices: 904939--904981 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
904929 AATTTGAGGG
*
904939 TTTTTTTTTTTTTC
1 TTTTTTTTTTTTGC
904953 TTTTTTTTTTTCTGC
1 TTTTTTTTTTT-TGC
*
904968 TTTCTTTTGTTTTG
1 TTT-TTTTTTTTTG
904982 TTCAAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 7 0.28
16 7 0.28
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTTTTGC
Found at i:906356 original size:30 final size:30
Alignment explanation
Indices: 906260--906359 Score: 155
Period size: 30 Copynumber: 3.3 Consensus size: 30
906250 TGATCGAATT
* * *
906260 GAATTAGTTTGATTAATTCAGTCGGTCATC
1 GAATTAGTTCGGTTAATTCAGTCGGTCACC
* *
906290 GAATTAATTCGGTTAATTCAGTCGGCCACC
1 GAATTAGTTCGGTTAATTCAGTCGGTCACC
906320 GAATTAGTTCGGTTAATTCAGTCGGTCACC
1 GAATTAGTTCGGTTAATTCAGTCGGTCACC
906350 GAATTAGTTC
1 GAATTAGTTC
906360 AGTCAGGGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (30 bp):
GAATTAGTTCGGTTAATTCAGTCGGTCACC
Found at i:912254 original size:17 final size:17
Alignment explanation
Indices: 912234--912278 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
912224 TTATATTAGA
912234 ATAATTTAATCGAATAT
1 ATAATTTAATCGAATAT
*
912251 ATAATTTAAAATTGAATAT
1 ATAATTT--AATCGAATAT
912270 ATAATTTAA
1 ATAATTTAA
912279 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 9 0.36
19 16 0.64
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (17 bp):
ATAATTTAATCGAATAT
Found at i:912269 original size:19 final size:19
Alignment explanation
Indices: 912245--912282 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
912235 TAATTTAATC
912245 GAATATATAATTTAAAATT
1 GAATATATAATTTAAAATT
912264 GAATATATAATTTAAAATT
1 GAATATATAATTTAAAATT
912283 AAAAATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
GAATATATAATTTAAAATT
Found at i:912412 original size:13 final size:13
Alignment explanation
Indices: 912394--912429 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
912384 AAATATTTTC
912394 TTTTTGAAAATCA
1 TTTTTGAAAATCA
912407 TTTTTG-AAATCA
1 TTTTTGAAAATCA
*
912419 ATTTTGAAAAT
1 TTTTTGAAAAT
912430 TACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTTGAAAATCA
Found at i:914232 original size:17 final size:17
Alignment explanation
Indices: 914205--914237 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
914195 CAACATAATT
914205 AAATAAAAAACAATTTTA
1 AAATAAAAAAC-ATTTTA
914223 AAAT-AAAAACATTTT
1 AAATAAAAAACATTTT
914238 TTATTTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAAAAAACATTTTA
Found at i:916725 original size:12 final size:12
Alignment explanation
Indices: 916708--916732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
916698 ATGATGATTC
916708 TCCAACGTCATG
1 TCCAACGTCATG
916720 TCCAACGTCATG
1 TCCAACGTCATG
916732 T
1 T
916733 GCATTTACAA
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:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:919856 original size:71 final size:71
Alignment explanation
Indices: 919773--919914 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
919763 ATCGATACCT
* *
919773 AGGTATCGATACACTATGCACAAAAATGTTAAAATCTGTTTTTAAGCACTTAGAATGCTAAATTA
1 AGGTATCGATACACTATGCACAAAAATGTTAAAATATATTTTTAAGCACTTAGAATGCTAAATTA
919838 ATTTGC
66 ATTTGC
919844 AGGTATCGATACACTATGCACAAAAATGTTAAAATATATTTTTAAGCACTTAGAATGCTAAATTA
1 AGGTATCGATACACTATGCACAAAAATGTTAAAATATATTTTTAAGCACTTAGAATGCTAAATTA
919909 ATTTGC
66 ATTTGC
919915 TCTAGTGGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (71 bp):
AGGTATCGATACACTATGCACAAAAATGTTAAAATATATTTTTAAGCACTTAGAATGCTAAATTA
ATTTGC
Found at i:921851 original size:12 final size:12
Alignment explanation
Indices: 921834--921858 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
921824 ATGATGATTC
921834 TCCAACGTCATG
1 TCCAACGTCATG
921846 TCCAACGTCATG
1 TCCAACGTCATG
921858 T
1 T
921859 GCATTTACAA
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:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:926474 original size:31 final size:31
Alignment explanation
Indices: 926441--926748 Score: 535
Period size: 31 Copynumber: 9.9 Consensus size: 31
926431 TATAATAATT
* **
926441 TGTCCATATGTCCCAAAGAACATAGGTAATT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
926472 TGTCCATATGTCCCGAAGAACATAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* *
926503 TGTCCATATGTCCCGAAAAACATAGGTAAAA
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
926534 TGTCCATATGTCCCGAAGAACATAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
*
926565 TGTCCATATGTCCCGAAGAACATAGGTAAAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
926596 TGTCCATATGTCCCGAAGAACATAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* *
926627 TGTCCATATGTCCCGAAAAACATAGGTAAAA
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
926658 TGTCCATATGTCCCGAAGAACATAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
*
926689 TGTCCATATGTCCCGAAGAACATAGGTAAAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
926720 TGTCCATATGTCCCGAAGAACATAGGTAA
1 TGTCCATATGTCCCGAAGAACATAGGTAA
926749 CCCTCGACTC
Statistics
Matches: 263, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 263 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAC
Found at i:928893 original size:29 final size:29
Alignment explanation
Indices: 928845--928931 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
928835 AATTTGTAAC
*
928845 TTTTT-AAAA-TTATCATTTTGTCCCTAAA
1 TTTTTCAAAATTTAT-ACTTTGTCCCTAAA
928873 TTTTTCAAAATTTATACTTTGGTCACC-AAA
1 TTTTTCAAAATTTATACTTT-GTC-CCTAAA
* * *
928903 CTTTAC-AAATTTATACTTTGCTCACTAAA
1 TTTTTCAAAATTTATACTTTG-TCCCTAAA
928932 CTAAATCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
28 7 0.14
29 26 0.53
30 14 0.29
31 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTTTCAAAATTTATACTTTGTCCCTAAA
Found at i:930180 original size:19 final size:19
Alignment explanation
Indices: 930158--930237 Score: 65
Period size: 19 Copynumber: 4.1 Consensus size: 19
930148 TAAGCATCTC
930158 TCATCTTTTTGTTTTTTTT
1 TCATCTTTTTGTTTTTTTT
930177 TCAT-TTTTTCAGTTTTTTTTCT
1 TCATCTTTTT--G-TTTTTTT-T
* *
930199 TCTTCTTCTTT-TCTTTTTT
1 TCATCTT-TTTGTTTTTTTT
* *
930218 TCCTCTTTTTCTTTTTTTT
1 TCATCTTTTTGTTTTTTTT
930237 T
1 T
930238 TAGCTCTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
18 8 0.16
19 19 0.38
20 7 0.14
21 7 0.14
22 4 0.08
23 2 0.04
24 3 0.06
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.78
Consensus pattern (19 bp):
TCATCTTTTTGTTTTTTTT
Found at i:930210 original size:25 final size:22
Alignment explanation
Indices: 930190--930238 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
930180 TTTTTTCAGT
*
930190 TTTTTTTCTTCTTCTTCTTTTC
1 TTTTTTTCCTCTTCTTCTTTTC
*
930212 TTTTTTTCCTCTTTTTCTTTT-
1 TTTTTTTCCTCTTCTTCTTTTC
930233 TTTTTT
1 TTTTTT
930239 AGCTCTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTTCCTCTTCTTCTTTTC
Found at i:930234 original size:8 final size:8
Alignment explanation
Indices: 930161--930235 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 8
930151 GCATCTCTCA
930161 TCTTTTTGT
1 TCTTTTT-T
930170 T-TTTTTT
1 TCTTTTTT
*
930177 TCATTTTT
1 TCTTTTTT
930185 TCAGTTTTTT
1 TC--TTTTTT
* *
930195 T-TCTTCT
1 TCTTTTTT
*
930202 TCTTCTTT
1 TCTTTTTT
930210 TCTTTTTT
1 TCTTTTTT
*
930218 TCCTCTTTT
1 T-CTTTTTT
930227 TCTTTTTT
1 TCTTTTTT
930235 T
1 T
930236 TTTAGCTCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.14
8 30 0.59
9 8 0.16
10 6 0.12
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (8 bp):
TCTTTTTT
Found at i:933327 original size:63 final size:61
Alignment explanation
Indices: 933246--933367 Score: 199
Period size: 63 Copynumber: 2.0 Consensus size: 61
933236 TATAATAATA
*
933246 TGTCCATATTCCCGAAGAACATAGGTAATCTGTCCATATGTCCCAAAGAACATAGGTAAAC
1 TGTCCATATTCCCGAAGAACATAGGTAAACTGTCCATATGTCCCAAAGAACATAGGTAAAC
* *
933307 TGTCCATATGTCCCCGAAGAACATAGGTAAACTGTCCATATGTCTCGAAGAACATAGGTAA
1 TGTCCATAT-T-CCCGAAGAACATAGGTAAACTGTCCATATGTCCCAAAGAACATAGGTAA
933368 CCCTCGACTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 9 0.16
62 1 0.02
63 46 0.82
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (61 bp):
TGTCCATATTCCCGAAGAACATAGGTAAACTGTCCATATGTCCCAAAGAACATAGGTAAAC
Found at i:933332 original size:32 final size:31
Alignment explanation
Indices: 933246--933367 Score: 201
Period size: 31 Copynumber: 3.9 Consensus size: 31
933236 TATAATAATA
*
933246 TGTCCATAT-TCCCGAAGAACATAGGTAATC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
*
933276 TGTCCATATGTCCCAAAGAACATAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
933307 TGTCCATATGTCCCCGAAGAACATAGGTAAAC
1 TGTCCATATGT-CCCGAAGAACATAGGTAAAC
*
933339 TGTCCATATGTCTCGAAGAACATAGGTAA
1 TGTCCATATGTCCCGAAGAACATAGGTAA
933368 CCCTCGACTT
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
30 9 0.10
31 47 0.55
32 30 0.35
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAC
Found at i:934872 original size:55 final size:55
Alignment explanation
Indices: 934812--934917 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
934802 GGTCACCGAC
* * *
934812 GATGATGTGGCAT-TTTCATGTCACTATTTTATGCTGATATGGAATTTACACAAAT
1 GATGATGTGGCATGTCT-ATGTCACTAATATATGCTGATATGGAATTTACACAAAT
* *
934867 GATGATGTGGCATGTCTATGTCACTAATATGTGCTGATGTGGAATTTACAC
1 GATGATGTGGCATGTCTATGTCACTAATATATGCTGATATGGAATTTACAC
934918 GTATGTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
55 43 0.96
56 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (55 bp):
GATGATGTGGCATGTCTATGTCACTAATATATGCTGATATGGAATTTACACAAAT
Found at i:936018 original size:195 final size:195
Alignment explanation
Indices: 935685--936040 Score: 586
Period size: 195 Copynumber: 1.8 Consensus size: 195
935675 TGGCTGCCGA
935685 TCTTCGGCAACCTCTTCGATCTTAGCGATAAACCCCACAGGTCATTGGCTAAGCTCGCTCAGGTT
1 TCTTCGGCAACCTCTTCGATCTTAGCGATAAACCCCACAGGTCATTGGCTAAGCTCGCTCAGGTT
* * *
935750 CAAGGCCCCGTTATGGGTCTCCAACTCGACAGCTTATTCACTATCATCGTTTCATTTAAAACAAC
66 CAAGGCACCGTTATGGGTCTCCAACTCGACAGCTTATTCACCATCATCGTTTCATTGAAAACAAC
* *
935815 CGCGAAAGAAGTCTTGAAAGAACAGGACCTCATCTTCTATAACCATACCGTTGTCGATGTTGTCC
131 CACGAAAGAAGTCTTGAAAGAACAAGACCTCATCTTCTATAACCATACCGTTGTCGATGTTGTCC
* * * *
935880 TCTTCGGCAACCTCTTCGATCTTGGTGATAAACCCCACATGTTATTGGCTAAGCTCGCTCAGGTT
1 TCTTCGGCAACCTCTTCGATCTTAGCGATAAACCCCACAGGTCATTGGCTAAGCTCGCTCAGGTT
* * * * *
935945 CACGGCACCGTTATGGGTCTCTAACTCGGCAGCTTATTCACCGTCGTCGTTTCATTGAAAACAAC
66 CAAGGCACCGTTATGGGTCTCCAACTCGACAGCTTATTCACCATCATCGTTTCATTGAAAACAAC
936010 CACGAAAGAAGTCTTGAAAGAACAAGACCTC
131 CACGAAAGAAGTCTTGAAAGAACAAGACCTC
936041 GTATTTTGTA
Statistics
Matches: 147, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
195 147 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (195 bp):
TCTTCGGCAACCTCTTCGATCTTAGCGATAAACCCCACAGGTCATTGGCTAAGCTCGCTCAGGTT
CAAGGCACCGTTATGGGTCTCCAACTCGACAGCTTATTCACCATCATCGTTTCATTGAAAACAAC
CACGAAAGAAGTCTTGAAAGAACAAGACCTCATCTTCTATAACCATACCGTTGTCGATGTTGTCC
Found at i:937782 original size:29 final size:30
Alignment explanation
Indices: 937717--937790 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
937707 AAATTATCAG
* * *
937717 TTTGGTCTCTAAACTTTTCAAAGTTTATAC
1 TTTGGTCACTAAACTTTACAAAGTTTATAA
*
937747 TTTGGTCACCAAACTTTACAAA-TTTATAA
1 TTTGGTCACTAAACTTTACAAAGTTTATAA
937776 TTTGGTCACTAAACT
1 TTTGGTCACTAAACT
937791 AAATCCATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 20 0.51
30 19 0.49
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (30 bp):
TTTGGTCACTAAACTTTACAAAGTTTATAA
Found at i:941711 original size:60 final size:60
Alignment explanation
Indices: 941598--941712 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
941588 ATAGTCAGGT
** * *
941598 GACCATTTTGTAACTTCTAATAGTTGATGGACTTAACAAAGCAATATCATATAGTCGGAG
1 GACCATTTTGTAACTTCTAATAGCCGATGGACTCAACAAAGCAACATCATATAGTCGGAG
* *
941658 GACCATTTTGTAACTTTTAATAGCCCGAT-GACTCAACAAAGTAACACTC-TATAGT
1 GACCATTTTGTAACTTCTAATAG-CCGATGGACTCAACAAAGCAACA-TCATATAGT
941713 TAAAGAACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 42 0.89
61 5 0.11
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (60 bp):
GACCATTTTGTAACTTCTAATAGCCGATGGACTCAACAAAGCAACATCATATAGTCGGAG
Found at i:944564 original size:19 final size:18
Alignment explanation
Indices: 944529--944568 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
944519 CCTGACAATC
944529 TTATTTTTATCTTTAATT
1 TTATTTTTATCTTTAATT
944547 TTATTTTT-TCTTGATAATT
1 TTATTTTTATCTT--TAATT
944566 TTA
1 TTA
944569 AATCTATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (18 bp):
TTATTTTTATCTTTAATT
Found at i:949961 original size:29 final size:30
Alignment explanation
Indices: 949900--949955 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
949890 GGGACTATCT
*
949900 TTTCAAATAAAAAATAGTATAGGGACTCAA
1 TTTCAAATAAAAAATAGTATAGCGACTCAA
949930 TTTCAAA-AAAATAA-AGTATAGCGACT
1 TTTCAAATAAAA-AATAGTATAGCGACT
949956 AGATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.27
Consensus pattern (30 bp):
TTTCAAATAAAAAATAGTATAGCGACTCAA
Found at i:952618 original size:125 final size:118
Alignment explanation
Indices: 952338--952636 Score: 436
Period size: 118 Copynumber: 2.5 Consensus size: 118
952328 TGTACTTCTC
* * * *
952338 AAAATAATATCCAAATGCATTGTGTATAACACTGTGTATCAAAATGCAACTCGAAATTGGTGTTA
1 AAAACAATATCCAAATGCATTATGTATAACACAGTGTATCCAAATGCAACTCGAAATTGGTGTTA
*
952403 TCTTGTTAAGAGTTTGCTCAGTAGTGTATGCTTTTAAGTTAGAGTAACAGATA
66 TCTTGTTAAGAGTTTGCTCAGTAGTGTACGCTTTTAAGTTAGAGTAACAGATA
*
952456 AAAACAATATCCAAATACATTATGTATAACACAGTGTATCCAAATGCAACTCGAAATTGGTGTTA
1 AAAACAATATCCAAATGCATTATGTATAACACAGTGTATCCAAATGCAACTCGAAATTGGTGTTA
*
952521 TCTTGTTAAGAGTTTGCTCAGTAGAACATGGTGTACGCTTTTAAGTTAGAGTATCAGATA
66 TCTTGTTAAGAGTTTGCTCAGT-----A--GTGTACGCTTTTAAGTTAGAGTAACAGATA
* * * *
952581 AAAACAATATCTAAATGCATTCTGTATAACACGGTGTATCCAAATGCAACTTGAAA
1 AAAACAATATCCAAATGCATTATGTATAACACAGTGTATCCAAATGCAACTCGAAA
952637 CTTGTTGAAA
Statistics
Matches: 162, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
118 82 0.51
123 1 0.01
125 79 0.49
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (118 bp):
AAAACAATATCCAAATGCATTATGTATAACACAGTGTATCCAAATGCAACTCGAAATTGGTGTTA
TCTTGTTAAGAGTTTGCTCAGTAGTGTACGCTTTTAAGTTAGAGTAACAGATA
Found at i:958733 original size:20 final size:20
Alignment explanation
Indices: 958708--958768 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
958698 TTTTGGTGCA
*
958708 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
958728 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
958749 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATACCCCC
958769 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:958777 original size:21 final size:21
Alignment explanation
Indices: 958751--958790 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
958741 CCCCCTTTGA
*
958751 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
958772 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
958791 TGGGGTTCTA
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:960775 original size:17 final size:17
Alignment explanation
Indices: 960742--960775 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
960732 TTGAATATTT
* *
960742 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
960759 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
960776 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:961112 original size:29 final size:30
Alignment explanation
Indices: 961065--961122 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
961055 GAGAAATTTT
961065 AAAGTAAGGGGGAGTAATTTTTCAAAAACG
1 AAAGTAAGGGGGAGTAATTTTTCAAAAACG
961095 AAAGTAA-GGGGAGTAATTTTTCAAAAAC
1 AAAGTAAGGGGGAGTAATTTTTCAAAAAC
961123 AGTTTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (30 bp):
AAAGTAAGGGGGAGTAATTTTTCAAAAACG
Found at i:962423 original size:125 final size:125
Alignment explanation
Indices: 962218--962700 Score: 707
Period size: 125 Copynumber: 3.9 Consensus size: 125
962208 TAATTCAACA
* *
962218 AAACTGGTGTTATCCTATTAAGAGTTTTCTCAGTAGAACAT-GTGTATGCTTTTAAGTTAGAGTA
1 AAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACATGGTGTATGCTTTTAAGTTAGAGTA
* * * *
962282 GCAAATAAAAACAATATCCAAATACATTGTGTATAACATTGTGTATCGAATTGCAACTCG
66 GCAGATAAAAACAATATCCAAATACATTGTGTATAACATGGTGTATCCAAATGCAACTCG
* *
962342 AAACTGGTGTTATACTGTTAAAAGTTTGCTCAGTAGAACATGGTGTATGCTTTTAAGTTAGAGTA
1 AAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACATGGTGTATGCTTTTAAGTTAGAGTA
* * * *
962407 GCAGATAAAAACAATATCCAAATGCATTGTGTATAATATGATGTTTCCAAATGCAACTCG
66 GCAGATAAAAACAATATCCAAATACATTGTGTATAACATGGTGTATCCAAATGCAACTCG
* * * * * *
962467 AAGCTGGTGTTATCCTGGTAAGAGTTTTCTCATTAGAACATGGTGTCTGCTTTTAAATTAGAGTA
1 AAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACATGGTGTATGCTTTTAAGTTAGAGTA
* *
962532 GCAGATAAAAACAATATCCAAATGCATTGTGTATAATATGGTGTATCCAAATGCAACTCG
66 GCAGATAAAAACAATATCCAAATACATTGTGTATAACATGGTGTATCCAAATGCAACTCG
* * * * *
962592 AAACTGGTGTTATCCTGCTAAGAGTTTGTTCATTAGAATATGGTGTATGCTTTTAAGTTAAAGTA
1 AAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACATGGTGTATGCTTTTAAGTTAGAGTA
* * *
962657 TCAGATAAAAACAATATCGAAATACATTATGTATAACATGGTGT
66 GCAGATAAAAACAATATCCAAATACATTGTGTATAACATGGTGT
962701 GTAACCCCCT
Statistics
Matches: 323, Mismatches: 35, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
124 37 0.11
125 286 0.89
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.34
Consensus pattern (125 bp):
AAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACATGGTGTATGCTTTTAAGTTAGAGTA
GCAGATAAAAACAATATCCAAATACATTGTGTATAACATGGTGTATCCAAATGCAACTCG
Found at i:964275 original size:29 final size:28
Alignment explanation
Indices: 964243--964395 Score: 191
Period size: 29 Copynumber: 5.3 Consensus size: 28
964233 AAAAATTATA
964243 AAAATATCACATTTTTAAAAATAATTACC
1 AAAATATCAC-TTTTTAAAAATAATTACC
964272 AAAATATCACTGTTTTAAAAATAATTACC
1 AAAATATCACT-TTTTAAAAATAATTACC
** *
964301 AAAATATCATCGATTTAAAAATAATTCCC
1 AAAATATCA-CTTTTTAAAAATAATTACC
*
964330 AAAATATC-CTGTTTTAAAAATAATTCCC
1 AAAATATCACT-TTTTAAAAATAATTACC
* * *
964358 AAAATATCACCTTTTTCAAAATATTTACT
1 AAAATATCA-CTTTTTAAAAATAATTACC
964387 AAAATATCA
1 AAAATATCA
964396 TCCGGTCGGC
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
27 1 0.01
28 25 0.23
29 81 0.74
30 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATATCACTTTTTAAAAATAATTACC
Found at i:964379 original size:57 final size:58
Alignment explanation
Indices: 964243--964395 Score: 218
Period size: 57 Copynumber: 2.7 Consensus size: 58
964233 AAAAATTATA
*
964243 AAAATATCACATTTTTAAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTACC
1 AAAATATCACCTTTTTAAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTACC
* ** * *
964301 AAAATATCATCGATTTAAAAATAATTCCCAAAATATC-CTGTTTTAAAAATAATTCCC
1 AAAATATCACCTTTTTAAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTACC
* * *
964358 AAAATATCACCTTTTTCAAAATATTTACTAAAATATCA
1 AAAATATCACCTTTTTAAAAATAATTACCAAAATATCA
964396 TCCGGTCGGC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 49 0.60
58 32 0.40
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.35
Consensus pattern (58 bp):
AAAATATCACCTTTTTAAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTACC
Found at i:969625 original size:32 final size:31
Alignment explanation
Indices: 969589--969663 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
969579 GGGTCGTGGG
* *
969589 GCCTACCTAAGAACACATCTTAGGGTCGCAGA
1 GCCTACCTAAGAA-ACATCTCAGGGCCGCAGA
** ** *
969621 GCCTACCCGAGAATGATCTCAGGGCCGTAGA
1 GCCTACCTAAGAAACATCTCAGGGCCGCAGA
969652 GCCTACCTAAGA
1 GCCTACCTAAGA
969664 GTCACATTAG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
31 23 0.68
32 11 0.32
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (31 bp):
GCCTACCTAAGAAACATCTCAGGGCCGCAGA
Found at i:970649 original size:57 final size:57
Alignment explanation
Indices: 970557--970711 Score: 202
Period size: 57 Copynumber: 2.7 Consensus size: 57
970547 GAAAATTAAA
*
970557 AAAATATCACCTTTTAAAAAATAATTACCAAAATATCATTGTTCTAAAAATAATTCTC
1 AAAATATCACCTTTT-AAAAATAATTACCAAAATATCATTGTTCTAAAAATAATTCCC
* * *** *
970615 AAAATATCACGTTTTAAAAATAATTCCCAAAATATCCCCGTTTTAAAAATAATTCCC
1 AAAATATCACCTTTTAAAAATAATTACCAAAATATCATTGTTCTAAAAATAATTCCC
* * **
970672 AAAATATCACCTTTTCAAAATATTTATTAAAATATCATTG
1 AAAATATCACCTTTTAAAAATAATTACCAAAATATCATTG
970712 GGTTTGGTCG
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
57 67 0.83
58 14 0.17
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.35
Consensus pattern (57 bp):
AAAATATCACCTTTTAAAAATAATTACCAAAATATCATTGTTCTAAAAATAATTCCC
Found at i:970708 original size:28 final size:28
Alignment explanation
Indices: 970557--970693 Score: 177
Period size: 29 Copynumber: 4.8 Consensus size: 28
970547 GAAAATTAAA
*
970557 AAAATATCACCTTTTAAAAAATAATTACC
1 AAAATATCACCTTTT-AAAAATAATTCCC
* *
970586 AAAATATCA-TTGTTCTAAAAATAATTCTC
1 AAAATATCACCT-TT-TAAAAATAATTCCC
*
970615 AAAATATCACGTTTTAAAAATAATTCCC
1 AAAATATCACCTTTTAAAAATAATTCCC
*
970643 AAAATATCCCCGTTTTAAAAATAATTCCC
1 AAAATATCACC-TTTTAAAAATAATTCCC
*
970672 AAAATATCACCTTTTCAAAATA
1 AAAATATCACCTTTTAAAAATA
970694 TTTATTAAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
28 33 0.35
29 60 0.63
30 2 0.02
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATATCACCTTTTAAAAATAATTCCC
Found at i:970739 original size:13 final size:13
Alignment explanation
Indices: 970717--970751 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
970707 CATTGGGTTT
970717 GGTC-GGTCAACG
1 GGTCGGGTCAACG
970729 GGTCGGGTCAACG
1 GGTCGGGTCAACG
970742 GGTCGGGTCA
1 GGTCGGGTCA
970752 TGTCAGACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (13 bp):
GGTCGGGTCAACG
Found at i:971728 original size:125 final size:124
Alignment explanation
Indices: 971506--971763 Score: 453
Period size: 125 Copynumber: 2.1 Consensus size: 124
971496 CTGGGTTGTT
* *
971506 ACATGGTGTATCCAAATGCAACTCGAAATTAGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
1 ACATGGTGTATCCAAATACAACTCGAAATTAGTGTTATCCTGTTAAGAGTTTGCTCAGTAAAACA
*
971571 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGTATTGTGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGAT-AAAACAATATCCAAATGCATTGTGTATA
* *
971631 ACATGGTGTATCCAAATACAACTCGAAATTGGTGTTATCCTGTTAAGAGTTTGCTCATTAAAACA
1 ACATGGTGTATCCAAATACAACTCGAAATTAGTGTTATCCTGTTAAGAGTTTGCTCAGTAAAACA
*
971696 TGGTGTATGCTTTTAAGTTAGAGTAGCCGATAAAACAATATCCAAATGCATTGTGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAACAATATCCAAATGCATTGTGTATA
971755 ACATGGTGT
1 ACATGGTGT
971764 GTAACATCCT
Statistics
Matches: 127, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
124 36 0.28
125 91 0.72
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (124 bp):
ACATGGTGTATCCAAATACAACTCGAAATTAGTGTTATCCTGTTAAGAGTTTGCTCAGTAAAACA
TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAACAATATCCAAATGCATTGTGTATA
Found at i:974202 original size:23 final size:23
Alignment explanation
Indices: 974172--974237 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
974162 TCTTATATGA
*
974172 CACTTCGGTGTATTTCTACGTGG
1 CACTTCGGTGCATTTCTACGTGG
*
974195 CACTTCGGTGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGTGG
* *
974218 CACTTTGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
974238 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGTGG
Found at i:975312 original size:125 final size:125
Alignment explanation
Indices: 975086--975939 Score: 1287
Period size: 125 Copynumber: 6.8 Consensus size: 125
975076 TGGGGGTGTT
* *
975086 ACATGGTGTATCCAAATGCAACTTGAAACTGGTGTTATCTTGTTAAGAGTTTGCTCAGTAGAACA
1 ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
* *
975151 TGGTGGATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTCTGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
* * * * *
975211 ACACGGTGTATCCAAATGCAACTCGAAAATGGTGTTATCCTGTTAAAAGTTTGCTCATTAGAATA
1 ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
* * * * *
975276 CGATGTATGCTTTTAACTTAGAGTAGCAAATAAAAACAATATCCAAATACATTGTGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
* * * *
975336 GCATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCTTGCTAAGAGTTTGCCCAGTAGAACA
1 ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
*
975401 TGGTGTATTCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
* * * * * *
975461 ACATGGCGTATCCATATACAACTCGAAACTGGTGTTATCTTGCTAAGAGTTTGCCCAGTAGAACA
1 ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
*
975526 TGGTGTATTCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
* * * * *
975586 ACATGGCGTATCCATATACAACTCGAAACTGGTGTTATCCTGTTATGAGTTTGCTCATTAGAACA
1 ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
* *
975651 TTGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGGGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
* *
975711 ACATGGTGTATCCAAATGCAACTCTAAACTGATGTTAT-CTGTTAAGAGTTTGCTCAGTAGAACA
1 ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
* * * * * *
975775 TGATTTAAGCTTTTAAGTTAGAGTAACAGATAAAAACAATATCTAAATGTATTGTGTATA
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
*
975835 ACATGGTGTATCCAAATGCAACTCGAAACTAGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
1 ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
* * **
975900 TGGTGTATGTTTTTAAGTTAAAGCGGCAGATAAAAACAAT
66 TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAAT
975940 GAAACATTGG
Statistics
Matches: 661, Mismatches: 67, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
124 111 0.17
125 550 0.83
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (125 bp):
ACATGGTGTATCCAAATGCAACTCGAAACTGGTGTTATCCTGTTAAGAGTTTGCTCAGTAGAACA
TGGTGTATGCTTTTAAGTTAGAGTAGCAGATAAAAACAATATCCAAATGCATTGTGTATA
Found at i:980844 original size:58 final size:58
Alignment explanation
Indices: 980661--980845 Score: 155
Period size: 55 Copynumber: 3.2 Consensus size: 58
980651 CACAAATTTA
* *
980661 ATTATAAATTGGTCTCTAAAACTTTACAACATTCTATACTAGTCATCCAACAATGACCC
1 ATTATAAATTGGTCTCT-AAACTTTAAAACATTCTATACTAGTCATCAAACAATGACCC
* * * ** * * * * * * * *
980720 ATTTTAAATTGGTAC-ATAAATTTTAAAATGTTATATACCAATCCTTATGAC-TTTA---
1 ATTATAAATTGGT-CTCTAAACTTTAAAACATTCTATACTAGTCATCA-AACAATGACCC
*
980775 ATTATAAATTGGTCTCTAAACTTTATAACATTCTATACTAGTCATCAAACAATGACCC
1 ATTATAAATTGGTCTCTAAACTTTAAAACATTCTATACTAGTCATCAAACAATGACCC
*
980833 ATTCTAAATTGGT
1 ATTATAAATTGGT
980846 ACATAAATTT
Statistics
Matches: 89, Mismatches: 30, Indels: 15
0.66 0.22 0.11
Matches are distributed among these distances:
54 3 0.03
55 36 0.40
58 34 0.38
59 15 0.17
60 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (58 bp):
ATTATAAATTGGTCTCTAAACTTTAAAACATTCTATACTAGTCATCAAACAATGACCC
Found at i:980856 original size:113 final size:114
Alignment explanation
Indices: 980657--980879 Score: 403
Period size: 113 Copynumber: 2.0 Consensus size: 114
980647 AAACCACAAA
*
980657 TTTAATTATAAATTGGTCTCTAAAACTTTACAACATTCTATACTAGTCATCCAACAATGACCCAT
1 TTTAATTATAAATTGGTCTCTAAAACTTTACAACATTCTATACTAGTCATCAAACAATGACCCAT
*
980722 TTTAAATTGGTACATAAATTTTAAAATGTTATATACCAATCCTTATGAC
66 TCTAAATTGGTACATAAATTTTAAAATGTTATATACCAATCCTTATGAC
*
980771 TTTAATTATAAATTGGTCTCT-AAACTTTATAACATTCTATACTAGTCATCAAACAATGACCCAT
1 TTTAATTATAAATTGGTCTCTAAAACTTTACAACATTCTATACTAGTCATCAAACAATGACCCAT
*
980835 TCTAAATTGGTACATAAATTTTAAAATGTTTTATACCAATCCTTA
66 TCTAAATTGGTACATAAATTTTAAAATGTTATATACCAATCCTTA
980880 AACTATTGGT
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
113 84 0.80
114 21 0.20
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.39
Consensus pattern (114 bp):
TTTAATTATAAATTGGTCTCTAAAACTTTACAACATTCTATACTAGTCATCAAACAATGACCCAT
TCTAAATTGGTACATAAATTTTAAAATGTTATATACCAATCCTTATGAC
Found at i:980870 original size:58 final size:58
Alignment explanation
Indices: 980695--980870 Score: 146
Period size: 58 Copynumber: 3.1 Consensus size: 58
980685 TACAACATTC
* *
980695 TATACTAGTCATCCAACAATGACCCATTTTAAATTGGTACATAAATTTTAAAATGTTA
1 TATACTAGTCATCAAACAATGACCCATTATAAATTGGTACATAAATTTTAAAATGTTA
* * * * * * * * * * ** *
980753 TATACCAATCCTTATGAC-TTTA---ATTATAAATTGGT-CTCTAAACTTTATAACATTC
1 TATACTAGTCATCA-AACAATGACCCATTATAAATTGGTAC-ATAAATTTTAAAATGTTA
* *
980808 TATACTAGTCATCAAACAATGACCCATTCTAAATTGGTACATAAATTTTAAAATGTTT
1 TATACTAGTCATCAAACAATGACCCATTATAAATTGGTACATAAATTTTAAAATGTTA
980866 TATAC
1 TATAC
980871 CAATCCTTAA
Statistics
Matches: 82, Mismatches: 29, Indels: 14
0.66 0.23 0.11
Matches are distributed among these distances:
54 3 0.04
55 36 0.44
58 40 0.49
59 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (58 bp):
TATACTAGTCATCAAACAATGACCCATTATAAATTGGTACATAAATTTTAAAATGTTA
Found at i:981410 original size:224 final size:222
Alignment explanation
Indices: 981002--981453 Score: 710
Period size: 224 Copynumber: 2.0 Consensus size: 222
980992 TTTTGGGAAT
* *** *
981002 TGAACATGTGACCTGAAAAAATTCATTTTTGAAGGTCCTAAAATTTTTTTTTAGATCACAAGTTC
1 TGAACATGTGACCTAAAAAAATTCATTTTTGAAGGTCCTAAAA---TAAATTAAATCACAAGTTC
* *
981067 AACTCTCACAACCTTTAAAAATAAATTAATTTTTTAATTAATAGAGTTAACAACACAATAATAGA
63 AACTCTCACAACCTTCAAAAATAAATTAATTTTTTAACTAATAGAGTTAACAACACAATAATAGA
* * *
981132 ATGGTCAAAATAGAATGATAATGATAGTTTGAGGATTGATATAAAATGTTTTAAAGTTTAATGAC
128 ATGGTCAAAAGAGAATGATAATGATAGTTTGAGGATTGATATAAAATATTTTAAAATTTAATGAC
981197 TAATTTAAAATTGAAGTCATAATTTAGGCC
193 TAATTTAAAATTGAAGTCATAATTTAGGCC
*
981227 TGAACATGTGACCTAAAAAATAATTCATTTTTGAAGGTCCTAAAA-AAATTAAATCACAGGTTCA
1 TGAACATGTGACCT-AAAAA-AATTCATTTTTGAAGGTCCTAAAATAAATTAAATCACAAGTTCA
*
981291 ACTCTCA-ATACCTTCAAAAATAAATTAATTTTTTTAACTAATAGAGTTAACAACACATTAATAG
64 ACTCTCACA-ACCTTCAAAAATAAATTAA-TTTTTTAACTAATAGAGTTAACAACACAATAATAG
*
981355 AATGGTCAAAAGAGAATGATACTGATAGTTTGAGGATTGATATAAAATATTTTAAAATTTAATGA
127 AATGGTCAAAAGAGAATGATAATGATAGTTTGAGGATTGATATAAAATATTTTAAAATTTAATGA
981420 CTAATTTAAAATTGAAGTCATAATTTAGGCC
192 CTAATTTAAAATTGAAGTCATAATTTAGGCC
981451 TGA
1 TGA
981454 TATAAAAAAA
Statistics
Matches: 210, Mismatches: 13, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
222 1 0.00
223 39 0.19
224 128 0.61
225 14 0.07
226 4 0.02
227 24 0.11
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (222 bp):
TGAACATGTGACCTAAAAAAATTCATTTTTGAAGGTCCTAAAATAAATTAAATCACAAGTTCAAC
TCTCACAACCTTCAAAAATAAATTAATTTTTTAACTAATAGAGTTAACAACACAATAATAGAATG
GTCAAAAGAGAATGATAATGATAGTTTGAGGATTGATATAAAATATTTTAAAATTTAATGACTAA
TTTAAAATTGAAGTCATAATTTAGGCC
Found at i:993133 original size:12 final size:12
Alignment explanation
Indices: 993116--993141 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
993106 TAAAAGTTCA
993116 ATGGTATAAACG
1 ATGGTATAAACG
993128 ATGGTATAAACG
1 ATGGTATAAACG
993140 AT
1 AT
993142 ATATCGTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (12 bp):
ATGGTATAAACG
Found at i:994120 original size:13 final size:13
Alignment explanation
Indices: 994102--994126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
994092 TCAATCAACC
994102 CGTTGACTTTGAT
1 CGTTGACTTTGAT
994115 CGTTGACTTTGA
1 CGTTGACTTTGA
994127 CCGAAAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (13 bp):
CGTTGACTTTGAT
Found at i:1000219 original size:21 final size:20
Alignment explanation
Indices: 1000176--1000242 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
1000166 TTTTCCTATT
**
1000176 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTTGTAAA
*
1000196 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTT-GTAAA
*
1000217 TCGCAATGCGAATCTGTAAA
1 TCGCAATGCGAATTTGTAAA
1000237 TCGCAA
1 TCGCAA
1000243 CGAGATTCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 23 0.56
21 18 0.44
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATTTGTAAA
Found at i:1000252 original size:20 final size:20
Alignment explanation
Indices: 1000191--1000252 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
1000181 ATGCGAATAC
* * *
1000191 GTAAATCGCAATGCGAATTT
1 GTAAATCGCAACGAGAATCT
* * *
1000211 GGAAAATCGCAATGCGAATCT
1 -GTAAATCGCAACGAGAATCT
*
1000232 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
1000252 G
1 G
1000253 ACTATCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:1001155 original size:24 final size:24
Alignment explanation
Indices: 1001098--1001157 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1001088 TAGTCAGTAT
1001098 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
1001122 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
1001146 TCGAATTTTGAT
1 TCGAAATTTGAT
1001158 GATTTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:1001642 original size:28 final size:28
Alignment explanation
Indices: 1001602--1001669 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
1001592 GAAACAAGGT
1001602 GTATGATTGACAAAAAACTGTATGTGGC
1 GTATGATTGACAAAAAACTGTATGTGGC
1001630 GTATGATTGAC-AAAAACTGTATGTGGC
1 GTATGATTGACAAAAAACTGTATGTGGC
1001657 GTATGATTG-CAAA
1 GTATGATTGACAAA
1001670 GAGGATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.03
27 27 0.69
28 11 0.28
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (28 bp):
GTATGATTGACAAAAAACTGTATGTGGC
Found at i:1003642 original size:20 final size:20
Alignment explanation
Indices: 1003617--1003703 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
1003607 ATGCGGAAAC
1003617 CGCAACGC-GAATATGACTAT
1 CGCAACGCGGAA-ATGACTAT
*
1003637 CGCAACACGGAAATGACTAT
1 CGCAACGCGGAAATGACTAT
* *
1003657 CGCAATGCGGAATTGACTAT
1 CGCAACGCGGAAATGACTAT
1003677 CGCAACGCGGAAATGACTAT
1 CGCAACGCGGAAATGACTAT
1003697 CGCAACG
1 CGCAACG
1003704 AGAGAATCGC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.17
Consensus pattern (20 bp):
CGCAACGCGGAAATGACTAT
Found at i:1003735 original size:19 final size:19
Alignment explanation
Indices: 1003708--1003795 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
1003698 GCAACGAGAG
1003708 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1003727 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1003746 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
1003760 AATCGCAATGCAAAAATGAA
1 AATCGCAATGC-GAAATGAA
1003780 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
1003796 TAGTTTCGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 8 0.14
16 4 0.07
17 2 0.04
18 3 0.05
19 29 0.51
20 11 0.19
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1003751 original size:52 final size:53
Alignment explanation
Indices: 1003686--1003795 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 53
1003676 TCGCAACGCG
** *
1003686 GAAATGACTATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCACAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAAATGAAAATCACAATGC
* *
1003738 GAAATGAAAATCGCAACGAGTGAATCGCAATGCAAAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAAATGAAAATCACAATGC
1003791 GAAAT
1 GAAAT
1003796 TAGTTTCGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
52 30 0.58
53 22 0.42
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAAATGAAAATCACAATGC
Found at i:1003866 original size:33 final size:33
Alignment explanation
Indices: 1003799--1003868 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
1003789 GCGAAATTAG
* * *
1003799 TTTCGCATTGCGATTCACTCGTTGTGACTTTCA
1 TTTCGCATTACGATTCACTCGTTGCGACTGTCA
*
1003832 TTTCGCATTACGATTCTCTCGTTGCGA-TAGTCA
1 TTTCGCATTACGATTCACTCGTTGCGACT-GTCA
1003865 TTTC
1 TTTC
1003869 CGCGTTGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (33 bp):
TTTCGCATTACGATTCACTCGTTGCGACTGTCA
Found at i:1004000 original size:14 final size:14
Alignment explanation
Indices: 1003981--1004017 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1003971 CATCAATTAA
1003981 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1003995 ACAAATCATCTTTT
1 ACAAATCAACATTT
1004009 ACAAATCAA
1 ACAAATCAA
1004018 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1005476 original size:42 final size:42
Alignment explanation
Indices: 1005372--1005480 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
1005362 AGAATGTTGT
* * *
1005372 GAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACTGTGA
1 GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACTGTGA
* ** *
1005414 GAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAAC-GAT-A
1 GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACTG-TGA
*
1005455 GGGGAGGCCTCTTGAACGATGACAGG
1 GAGG-GGCCTCTTGAACGATGACAGG
1005481 TGATTCGGGC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 5 0.09
42 48 0.91
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACTGTGA
Found at i:1005983 original size:20 final size:20
Alignment explanation
Indices: 1005960--1006046 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
1005950 GAAACTTAAA
*
1005960 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1005980 ATCGCAATGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1006000 ATCGTAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
1006020 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
1006040 ATCGCAA
1 ATCGCAA
1006047 CGAGAGAATC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:1006118 original size:20 final size:20
Alignment explanation
Indices: 1006093--1006196 Score: 121
Period size: 20 Copynumber: 5.5 Consensus size: 20
1006083 GATTCTTTTG
**
1006093 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1006113 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1006133 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
* *
1006147 TTGCAATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1006167 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1006187 TTGCGATAGT
1 TTGCGATAGT
1006197 AAACTATTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.08
16 6 0.08
18 6 0.08
20 53 0.75
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1006138 original size:54 final size:54
Alignment explanation
Indices: 1006074--1006193 Score: 186
Period size: 54 Copynumber: 2.2 Consensus size: 54
1006064 GATTTTCATC
* * *
1006074 TCGCATTGCGATTCTTTTGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATTCTCTCGTTGCAATAGTCAAATTCGCATTGCGATAGTCATTT
** *
1006128 TCGCATTGCGATTCTCTCGTTGCAATAGTCATTTTCGCGTTGCGATAGTCATTT
1 TCGCATTGCGATTCTCTCGTTGCAATAGTCAAATTCGCATTGCGATAGTCATTT
1006182 TCGCATTGCGAT
1 TCGCATTGCGAT
1006194 AGTAAACTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (54 bp):
TCGCATTGCGATTCTCTCGTTGCAATAGTCAAATTCGCATTGCGATAGTCATTT
Found at i:1008100 original size:20 final size:20
Alignment explanation
Indices: 1008075--1008124 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1008065 CTGAAACTTT
1008075 AAATCGCAACACAAAAATGA
1 AAATCGCAACACAAAAATGA
**
1008095 AAATCGCAACATGAAAATGA
1 AAATCGCAACACAAAAATGA
**
1008115 CTATCGCAAC
1 AAATCGCAAC
1008125 GCGAATTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.22, G:0.12, T:0.14
Consensus pattern (20 bp):
AAATCGCAACACAAAAATGA
Found at i:1008215 original size:20 final size:20
Alignment explanation
Indices: 1008190--1008236 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
1008180 GATTCTCTCG
1008190 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
1008210 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
1008230 TTGCGAT
1 TTGCGAT
1008237 TCACTCGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:1008630 original size:22 final size:22
Alignment explanation
Indices: 1008569--1008630 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
1008559 TAACCGTGAA
*
1008569 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
1008591 T-ATTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
1008609 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1008631 GGATGTCGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
18 12 0.36
19 4 0.12
21 4 0.12
22 13 0.39
ACGTcount: A:0.19, C:0.15, G:0.37, T:0.29
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1008881 original size:21 final size:21
Alignment explanation
Indices: 1008855--1008900 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1008845 TATTCGTATT
1008855 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
1008876 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1008897 GCGA
1 GCGA
1008901 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1009480 original size:39 final size:39
Alignment explanation
Indices: 1009437--1009527 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 39
1009427 ATTCTATGAC
*
1009437 TGCATGACATCTTCAGGTAAA-TGAAGAAGAATCCACA-AG
1 TGCATGACATCTTCAGGCAAATTG-AGAAGAATCCA-AGAG
* *
1009476 TGCATGGCATCTTCAGGCAAATTGAGAAGACTCCAAGAG
1 TGCATGACATCTTCAGGCAAATTGAGAAGAATCCAAGAG
* *
1009515 TGCACGACGTCTT
1 TGCATGACATCTT
1009528 TAGACCAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
38 1 0.02
39 41 0.93
40 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (39 bp):
TGCATGACATCTTCAGGCAAATTGAGAAGAATCCAAGAG
Found at i:1011967 original size:30 final size:31
Alignment explanation
Indices: 1011909--1011979 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
1011899 TGTTAAACTT
* *
1011909 AACTCGACTCAAAAAATTTAAAATTGAGCTC
1 AACTCGACTCAAAAAACTTAAAACTGAGCTC
* * *
1011940 AACTTGACTTAAAAAACTT-AAACTGAGCTT
1 AACTCGACTCAAAAAACTTAAAACTGAGCTC
*
1011970 GACTCGACTC
1 AACTCGACTC
1011980 TAAATGCACG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (31 bp):
AACTCGACTCAAAAAACTTAAAACTGAGCTC
Found at i:1023108 original size:17 final size:19
Alignment explanation
Indices: 1023068--1023108 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1023058 CAGAAATTGT
1023068 TTAAGGTGCATCGATGCACA
1 TTAAGGTGCATCGATG-ACA
1023088 TTAA-GTGCATCGATG-CA
1 TTAAGGTGCATCGATGACA
1023105 TTAA
1 TTAA
1023109 TTTAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (19 bp):
TTAAGGTGCATCGATGACA
Found at i:1023852 original size:23 final size:23
Alignment explanation
Indices: 1023819--1023886 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
1023809 ATTATTATAT
1023819 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1023842 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * * *
1023865 GGTACTTCAGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1023887 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1026901 original size:20 final size:20
Alignment explanation
Indices: 1026873--1026912 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1026863 CATAATGTTT
*
1026873 TTGTACATATAGTATCGATA
1 TTGTACATATAGTACCGATA
* *
1026893 TTGTTCATATGGTACCGATA
1 TTGTACATATAGTACCGATA
1026913 CCAAATGTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGTACATATAGTACCGATA
Found at i:1031745 original size:16 final size:18
Alignment explanation
Indices: 1031726--1031768 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1031716 CAAAAATAAA
*
1031726 TAAAA-AATTAAAT-TAT
1 TAAAATAATAAAATATAT
1031742 TAAAATAATAAAATACTAT
1 TAAAATAATAAAATA-TAT
1031761 TAAAATAA
1 TAAAATAA
1031769 AAATATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 7 0.30
19 11 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATAATAAAATATAT
Found at i:1031751 original size:24 final size:25
Alignment explanation
Indices: 1031702--1031779 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 25
1031692 ATACAAAAAC
1031702 AAAAATATTAAATTCAAAAATAAAT
1 AAAAATATTAAATTCAAAAATAAAT
1031727 AAAAA-ATTAAATT-ATTAAAAT-AAT
1 AAAAATATTAAATTCA--AAAATAAAT
*
1031751 AAAATACTATTAAAAT-AAAAATATAAT
1 AAAA-A-TATTAAATTCAAAAATA-AAT
1031778 AA
1 AA
1031780 GTTATAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
23 1 0.02
24 15 0.33
25 16 0.36
27 13 0.29
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATATTAAATTCAAAAATAAAT
Found at i:1031939 original size:21 final size:20
Alignment explanation
Indices: 1031914--1031972 Score: 50
Period size: 21 Copynumber: 3.0 Consensus size: 20
1031904 ATTTTTAAAA
1031914 ATTATATATTTTAATAATTT
1 ATTATATATTTTAATAATTT
* * * *
1031934 ATTTATTTTTTTTCATAAGTT
1 A-TTATATATTTTAATAATTT
*
1031955 A-TA-ATATTTTTATAATTT
1 ATTATATATTTTAATAATTT
1031973 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 1 0.03
21 16 0.53
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTATATATTTTAATAATTT
Found at i:1031981 original size:17 final size:19
Alignment explanation
Indices: 1031935--1031981 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
1031925 TAATAATTTA
*
1031935 TTTATTTTTTTTCATAAGT
1 TTTAATTTTTTTCATAAGT
* *
1031954 TATAATATTTTT-ATAA-T
1 TTTAATTTTTTTCATAAGT
1031971 TTTAATTTTTT
1 TTTAATTTTTT
1031982 AATATTCCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 9 0.39
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTAATTTTTTTCATAAGT
Found at i:1043131 original size:23 final size:25
Alignment explanation
Indices: 1043104--1043155 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 25
1043094 AAACAATATT
1043104 TTCAAAATATAAGAATAT-TG-AAA
1 TTCAAAATATAAGAATATATGAAAA
1043127 TTCAAAATATAAGAATATATGAAAA
1 TTCAAAATATAAGAATATATGAAAA
1043152 TTCA
1 TTCA
1043156 TAACTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 18 0.67
24 2 0.07
25 7 0.26
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (25 bp):
TTCAAAATATAAGAATATATGAAAA
Found at i:1048394 original size:3 final size:3
Alignment explanation
Indices: 1048386--1048442 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
1048376 ATTTTAGTTA
* *
1048386 TAT TAT TAT TAT TA- TAT TATT TAT TAT ATAT TTT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT
1048432 TAT TAT TAT TA
1 TAT TAT TAT TA
1048443 CAAACAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1048416 original size:28 final size:28
Alignment explanation
Indices: 1048384--1048440 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
1048374 CGATTTTAGT
1048384 TATATTATTATTATT-ATATTATTTATTA
1 TATATTATTATTATTAATATTA-TTATTA
*
1048412 TATATTTTTATTATTAATATTATTATTA
1 TATATTATTATTATTAATATTATTATTA
1048440 T
1 T
1048441 TACAAACAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
TATATTATTATTATTAATATTATTATTA
Found at i:1049908 original size:43 final size:45
Alignment explanation
Indices: 1049861--1049950 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
1049851 TATATTAAAA
1049861 TATTATTA-TTATAAAT-ATATATATAAATAATATTTATT-TATTT
1 TATTATTATTTATAAATCATATATATAAATAAT-TTTATTCTATTT
* * * *
1049904 TATTATTATTTTTAAATCTTTTATATAAATTATTTTATTCTATTT
1 TATTATTATTTATAAATCATATATATAAATAATTTTATTCTATTT
1049949 TA
1 TA
1049951 ATTAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 8 0.20
44 13 0.32
45 19 0.47
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (45 bp):
TATTATTATTTATAAATCATATATATAAATAATTTTATTCTATTT
Found at i:1050215 original size:47 final size:45
Alignment explanation
Indices: 1050137--1050225 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 45
1050127 ATCTTATTTA
*
1050137 TATAAATTAATATATTTTCATAATTATAATTTCGAAATAATAGGAT
1 TATAAATTAATATATTTTAATAATTATAATTTC-AAATAATAGGAT
** *
1050183 TATAAATTAAATATATTTTGAATTTTTA-AATTTCTAATAATAG
1 TATAAATT-AATATATTTT-AATAATTATAATTTCAAATAATAG
1050226 AGACAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 16 0.43
47 16 0.43
48 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (45 bp):
TATAAATTAATATATTTTAATAATTATAATTTCAAATAATAGGAT
Found at i:1050713 original size:18 final size:19
Alignment explanation
Indices: 1050652--1050714 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
1050642 TCAAAATTTT
1050652 TATTACTTATTATTTTCATAA
1 TATTA-TTATTATTTTCA-AA
* **
1050673 TATTTATTATT-TTTTTATT
1 TA-TTATTATTATTTTCAAA
1050692 TATTATT-TTATTTTCAAA
1 TATTATTATTATTTTCAAA
1050710 TATTA
1 TATTA
1050715 AATTTCATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 2 0.06
18 15 0.44
19 2 0.06
20 5 0.15
21 7 0.21
22 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTATTATTTTCAAA
Found at i:1052240 original size:20 final size:20
Alignment explanation
Indices: 1052217--1052266 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1052207 TTCATGCATA
*
1052217 CATTTGTATTTTTCAT-TTTG
1 CATTTGTACTTTT-ATATTTG
*
1052237 CATTTATACTTTTATATTTG
1 CATTTGTACTTTTATATTTG
*
1052257 CTTTTGTACT
1 CATTTGTACT
1052267 ATACAATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.62
Consensus pattern (20 bp):
CATTTGTACTTTTATATTTG
Found at i:1052317 original size:12 final size:12
Alignment explanation
Indices: 1052300--1052327 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1052290 ACATTCACAT
1052300 ATTTACATTTGC
1 ATTTACATTTGC
1052312 ATTTACATTTGC
1 ATTTACATTTGC
1052324 ATTT
1 ATTT
1052328 TTTTACGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:1056624 original size:114 final size:114
Alignment explanation
Indices: 1056423--1056646 Score: 376
Period size: 114 Copynumber: 2.0 Consensus size: 114
1056413 GTGCCACGTT
1056423 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATATG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATATG
* * *
1056488 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
66 GTTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
* * *
1056537 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTTTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATATG
* *
1056602 GTTCGGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GTTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
1056647 CTGCATGATC
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATATG
GTTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
Found at i:1059222 original size:44 final size:44
Alignment explanation
Indices: 1059165--1059265 Score: 175
Period size: 44 Copynumber: 2.3 Consensus size: 44
1059155 ACATCTACAT
**
1059165 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATTGATTCTC
1 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGAAAGATTCTC
1059209 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGAAAGATTCTC
1 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGAAAGATTCTC
*
1059253 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1059266 AAGCTTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (44 bp):
TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGAAAGATTCTC
Found at i:1059268 original size:22 final size:22
Alignment explanation
Indices: 1059167--1059265 Score: 153
Period size: 22 Copynumber: 4.5 Consensus size: 22
1059157 ATCTACATTC
1059167 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* * *
1059189 TTTAAAGATGATTGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
1059211 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
1059233 TTTAAAGATGAAAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1059255 TTCAAAGATGA
1 TTCAAAGATGA
1059266 AAGCTTTATT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 68 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1060509 original size:112 final size:113
Alignment explanation
Indices: 1060229--1060765 Score: 798
Period size: 112 Copynumber: 4.8 Consensus size: 113
1060219 TTTTTATTAA
* * *
1060229 AACATTTCTAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAGGAAGTTCATAA
1 AACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* *
1060293 TGAGAAGAACTTGTTTAACCTTTTG-TTCGAATCCATCACTTGATGGATC
65 TGAGAAGAACTTGTTCAACCTTTTGCTT-GAATTCATCACTTGATGGATC
1060342 AACATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
1 AACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* *
1060406 TAAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCA-TTCGATGGATC
65 TGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTT-GATGGATC
*
1060455 AACATTTCCAGA-AGAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
1060519 GAAAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTTGATGGATC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
* * *
1060567 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAATTCATAAT
1 AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * *
1060631 GAGAAGAATTTGTTCAACATTTTGCCTGAATTCATCACTTGATGGATT
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
* * *
1060679 AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAC
1 AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
1060744 GAGAAGAGCTTGTTCAACCTTT
66 GAGAAGAACTTGTTCAACCTTT
1060766 GTTTGATGCT
Statistics
Matches: 387, Mismatches: 31, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
112 207 0.53
113 178 0.46
114 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
Found at i:1060700 original size:225 final size:225
Alignment explanation
Indices: 1060244--1060765 Score: 825
Period size: 225 Copynumber: 2.3 Consensus size: 225
1060234 TTCTAGGTAG
* *
1060244 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAGGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
* *
1060309 AACCTTTTGTTCGAATCCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGA
66 AACCTTTTGCTCGAATCCATCACTTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGA
* * *
1060374 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTGAATT
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACATTTTGCCTGAATT
*
1060439 CATCATTCGATGGATCAACATTTCCAGAAG
196 CATCATTCGATGGATCAACATTTCCAGAAA
* *
1060469 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
*
1060534 AACCTTTTGCTCGAATTCATCACTTGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAG
66 AACCTTTTGCTCGAATCCATCACTTGATGGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAG
* * *
1060598 AACTTATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACATTTTGCCTGAAT
130 AACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACATTTTGCCTGAAT
* *
1060662 TCATCACTT-GATGGATTAACTTTTCCAGAGAA
195 TCATCA-TTCGATGGATCAACATTTCCAGA-AA
* * *
1060694 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAACGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1060759 AACCTTT
66 AACCTTT
1060766 GTTTGATGCT
Statistics
Matches: 273, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
224 70 0.26
225 202 0.74
226 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (225 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
AACCTTTTGCTCGAATCCATCACTTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACATTTTGCCTGAATT
CATCATTCGATGGATCAACATTTCCAGAAA
Found at i:1061009 original size:113 final size:113
Alignment explanation
Indices: 1060811--1061187 Score: 655
Period size: 113 Copynumber: 3.3 Consensus size: 113
1060801 CAGCATTTCC
1060811 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1060876 ACGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
1060924 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAGTCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1060989 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * * *
1061037 TGAAGAAATTCATAATGAGAAGAATTTGGTCAACCTTTTGCTCAAATCCATCACTTGATGAATTA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1061102 ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1061150 ATAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
1061188 GTTTGATGCT
Statistics
Matches: 247, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 247 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (113 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:1061072 original size:309 final size:308
Alignment explanation
Indices: 1060503--1061074 Score: 948
Period size: 309 Copynumber: 1.9 Consensus size: 308
1060493 TGAAGAAGGA
* * *
1060503 AGAAGAAGTTCATAATGAAAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1060568 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAATTCATAATGA
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGA
* * * *
1060633 GAAGAATTTGTTCAACATTTTGCCTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAAAGTT
131 GAAGAACTTGTTCAACATTTTGCCTCAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTT
* * *
1060698 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAACGAGAAGAGCTTGTTCAACC
196 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAACGAGAAGAACTTGGTCAACC
1060763 TTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
261 TTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
*
1060811 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
* *
1060876 ACGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATG
* *
1060941 AGAAGAACTTGTTCAACCTTTTG-CTCAAGTCCATCACTTGATGGATCAGCTTTTCCAGAGAAAG
130 AGAAGAACTTGTTCAACATTTTGCCTCAA-TCCATCACTTGATGGATCAACTTTTCCAGAGAAAG
* * *
1061005 TTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAATTCATAATGAGAAGAATTTGGTCAA
194 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAACGAGAAGAACTTGGTCAA
1061070 CCTTT
259 CCTTT
1061075 TGCTCAAATC
Statistics
Matches: 243, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
308 106 0.44
309 137 0.56
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (308 bp):
AGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGA
GAAGAACTTGTTCAACATTTTGCCTCAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTT
CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAACGAGAAGAACTTGGTCAACC
TTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
Found at i:1061191 original size:422 final size:422
Alignment explanation
Indices: 1060391--1061593 Score: 2076
Period size: 422 Copynumber: 2.9 Consensus size: 422
1060381 TGAAGAAGGA
* * ** *
1060391 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCA-TTCGATGGATC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTT-GATGGATC
* *
1060455 AACATTTCCAGA-AGAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
65 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * *
1060519 GAAAAGAACTTGTTTAACCTTTTGCTCGAA-TTCATCACTTGATGGATCAACATTTCCAGAGAAA
130 GAGAAGAACTTGTTCAACCTTTTGCTC-AAGTCCATCACTTGATGGATCAACTTTTCCAGAGAAA
* *
1060583 GTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
194 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGGTCA
* * *
1060647 ACATTTTGC-CTGAATTCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
259 ACCTTTTGCTC-AAATCCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
*
1060711 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAACGAGAAGAGCTTGTTCAACCTTTGTTTGATGCT
323 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATGCT
1060776 ATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
388 ATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
1060811 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1060876 ACGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
1060941 AGAAGAACTTGTTCAACCTTTTGCTCAAGTCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGT
131 AGAAGAACTTGTTCAACCTTTTGCTCAAGTCCATCACTTGATGGATCAACTTTTCCAGAGAAAGT
*
1061006 TCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAATTCATAATGAGAAGAATTTGGTCAAC
196 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGGTCAAC
*
1061071 CTTTTGCTCAAATCCATCACTTGATGAATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
261 CTTTTGCTCAAATCCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
*
1061136 CATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATGCTATC
326 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATGCTATC
1061201 ACAGAAGGAAATAGATCAGTATCAGCATTTCC
391 ACAGAAGGAAATAGATCAGTATCAGCATTTCC
*
1061233 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
* *
1061298 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
1061363 AGAAGAGCTTGTTCAACCGTTTGCTCAAGTCCATCACTTGATGGATCAACTTTTCCAGAGAAAGT
131 AGAAGAACTTGTTCAACCTTTTGCTCAAGTCCATCACTTGATGGATCAACTTTTCCAGAGAAAGT
1061428 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGGTCAAC
196 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGGTCAAC
*
1061493 CTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
261 CTTTTGCTCAAATCCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
*
1061558 CATCTGAAGAAGAAAGAAG-AGTTCATAATGAGAAGA
326 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1061594 ACTCATCTGA
Statistics
Matches: 745, Mismatches: 33, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
420 69 0.09
421 152 0.20
422 523 0.70
423 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (422 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTGCTCAAGTCCATCACTTGATGGATCAACTTTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGGTCAAC
CTTTTGCTCAAATCCATCACTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATGCTATC
ACAGAAGGAAATAGATCAGTATCAGCATTTCC
Found at i:1061239 original size:309 final size:309
Alignment explanation
Indices: 1060924--1061496 Score: 1002
Period size: 309 Copynumber: 1.9 Consensus size: 309
1060914 TGAAGAAGGA
*
1060924 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAGTCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1060989 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAATTCATAATG
66 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
* * *
1061054 AGAAGAATTTGGTCAACCTTTTGCTCAAATCCATCACTTGATGAATTAACTTTTCCAGAGAAAGT
131 AGAAGAACTTGGTCAACCGTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAGAGAAAGT
* * * *
1061119 TCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC
196 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGGTCAAC
1061184 CTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
261 CTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
*
1061233 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1061298 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
* * * *
1061363 AGAAGAGCTTGTTCAACCGTTTGCTCAAGTCCATCACTTGATGGATCAACTTTTCCAGAGAAAGT
131 AGAAGAACTTGGTCAACCGTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAGAGAAAGT
*
1061428 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGGTCAAC
196 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGGTCAAC
1061493 CTTT
261 CTTT
1061497 TGCTCAAATC
Statistics
Matches: 248, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
309 248 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (309 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
AGAAGAACTTGGTCAACCGTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGGTCAAC
CTTTGTTTGATGCTATCACAGAAGGAAATAGATCAGTATCAGCATTTCC
Found at i:1061431 original size:113 final size:113
Alignment explanation
Indices: 1061233--1061593 Score: 634
Period size: 113 Copynumber: 3.2 Consensus size: 113
1061223 CAGCATTTCC
1061233 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1061298 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1061346 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCGTTTGCTCAAGTCCATCACTTGATGGATCA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1061411 ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* ** * *
1061459 AGAAGAAATTCATAATGAGAAGAATTTGGTCAACCTTTTGCTCAAATCCATCACTTGATGGATTA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
*
1061524 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
66 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1061572 AGAAG-AGTTCATAATGAGAAGA
1 AGAAGAAGTTCATAATGAGAAGA
1061594 ACTCATCTGA
Statistics
Matches: 235, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
112 16 0.07
113 219 0.93
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (113 bp):
AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:1061592 original size:39 final size:39
Alignment explanation
Indices: 1061534--1061634 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
1061524 GCTTTTCCAG
1061534 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
1061572 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
*
1061611 AGAATGAATTCATAATGAGAAGAA
1 AGAA-GAGTTCATAATGAGAAGAA
1061635 TTTGTTCAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 4 0.07
39 38 0.63
40 18 0.30
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (39 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
Found at i:1061614 original size:152 final size:150
Alignment explanation
Indices: 1061421--1061745 Score: 453
Period size: 152 Copynumber: 2.2 Consensus size: 150
1061411 ACTTTTCCAG
*
1061421 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-GAAATTCATAATGAGAAGAAT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAATG-AATTCATAATGAGAAGAAT
* *
1061484 TTGGTCAACCTTTTGCTCAAATCCATCACTT-GATGGATTAGCT-TTTCCAGAGAA-AGTTCATA
65 TTGGTCAACCTTTTGCTCAAATCCATCA-TTCGATGGATCAG-TATTGCCAGA-AAGAGTTCATA
*
1061546 ATGAGAAGAACTCATCTGAAGAAGAA
127 ATAAGAAGAACTCATCTGAAG-AG-A
1061572 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAATGAATTCATAATGAGAAGAATT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAATGAATTCATAATGAGAAGAATT
* * * * *
1061637 TGTTCAACTTTTTGCTCGATTTCATCATTCGATGGATCAGTATTGCCAGAAAGAGTTCATAATAA
66 TGGTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGTATTGCCAGAAAGAGTTCATAATAA
* *
1061702 GAAGAACTCATTTGAAGAGG
131 GAAGAACTCATCTGAAGAGA
1061722 AGAAGAAGTTCATAATGAGAAGAA
1 AGAAG-AGTTCATAATGAGAAGAA
1061746 TTTGTTCAGC
Statistics
Matches: 157, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
150 5 0.03
151 29 0.18
152 122 0.78
153 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (150 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAATGAATTCATAATGAGAAGAATT
TGGTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGTATTGCCAGAAAGAGTTCATAATAA
GAAGAACTCATCTGAAGAGA
Found at i:1062100 original size:3 final size:3
Alignment explanation
Indices: 1062092--1062151 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
1062082 GTTTTATTTA
* *
1062092 TAT TAT TAT TAT TAT TA- TAT TATT TAT TAT ATAT TTT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT
1062138 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
1062152 CAAACAGACC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1062148 original size:12 final size:12
Alignment explanation
Indices: 1062085--1062148 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
1062075 TGTCCCGGTT
*
1062085 TTATTTATATTA
1 TTATTAATATTA
*
1062097 TTATTATTATTA
1 TTATTAATATTA
1062109 -TATT-AT-TTA
1 TTATTAATATTA
* *
1062118 TTATATATTTTTA
1 TTAT-TAATATTA
1062131 TTATTAATATTA
1 TTATTAATATTA
1062143 TTATTA
1 TTATTA
1062149 TTACAAACAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 3 0.07
10 4 0.10
11 5 0.12
12 23 0.55
13 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:1063581 original size:15 final size:16
Alignment explanation
Indices: 1063535--1063591 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 16
1063525 TTTCATTTAT
1063535 TATAGTTATTATTTAAA
1 TATA-TTATTATTTAAA
*
1063552 CTTTATATATATATTTAAA
1 -TATAT-TAT-TATTTAAA
1063571 -ATATTATTATTATAAA
1 TATATTATTATT-TAAA
1063587 TATAT
1 TATAT
1063592 ATATAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 4 0.12
16 7 0.21
17 8 0.24
18 6 0.18
19 8 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
TATATTATTATTTAAA
Found at i:1063609 original size:28 final size:26
Alignment explanation
Indices: 1063554--1063605 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1063544 TATTTAAACT
* * *
1063554 TTATATATATATTTAAAATATTATTA
1 TTATAAATATATATAAAATAATATTA
1063580 TTATAAATATATATATAAATAATATT
1 TTATAAATATATATA-AAATAATATT
1063606 TATTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTATAAATATATATAAAATAATATTA
Found at i:1063619 original size:43 final size:45
Alignment explanation
Indices: 1063572--1063661 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
1063562 ATATTTAAAA
1063572 TATTATTA-TTATAAAT-ATATATATAAATAATATTTATT-TATTT
1 TATTATTATTTATAAATCATATATATAAATAAT-TTTATTCTATTT
* * * *
1063615 TATTATTATTTTTAAATCTTTTATATAAATTATTTTATTCTATTT
1 TATTATTATTTATAAATCATATATATAAATAATTTTATTCTATTT
1063660 TA
1 TA
1063662 ATTAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 8 0.20
44 13 0.32
45 19 0.47
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (45 bp):
TATTATTATTTATAAATCATATATATAAATAATTTTATTCTATTT
Found at i:1063930 original size:47 final size:45
Alignment explanation
Indices: 1063852--1063940 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 45
1063842 ATCTTATTTA
*
1063852 TATAAATTAATATATTTTCATAATTATAATTTCGAAATAATAGGAT
1 TATAAATTAATATATTTTAATAATTATAATTTC-AAATAATAGGAT
** *
1063898 TATAAATTAAATATATTTTGAATTTTTA-AATTTCTAATAATAG
1 TATAAATT-AATATATTTT-AATAATTATAATTTCAAATAATAG
1063941 AGACAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 16 0.43
47 16 0.43
48 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (45 bp):
TATAAATTAATATATTTTAATAATTATAATTTCAAATAATAGGAT
Found at i:1069842 original size:21 final size:21
Alignment explanation
Indices: 1069818--1069857 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1069808 CAAGGAGAAA
*
1069818 TACAGGCAG-GAAATGGAGGTT
1 TACAAGCAGAGAAA-GGAGGTT
1069839 TACAAGCAGAGAAAGGAGG
1 TACAAGCAGAGAAAGGAGG
1069858 AAGAAGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.40, C:0.10, G:0.38, T:0.12
Consensus pattern (21 bp):
TACAAGCAGAGAAAGGAGGTT
Found at i:1076596 original size:41 final size:41
Alignment explanation
Indices: 1076482--1076671 Score: 122
Period size: 41 Copynumber: 4.6 Consensus size: 41
1076472 AAAATGATAC
* *
1076482 TTTAGCGGCATTTTTTAAACAAACGCCGCAATAGAGTGGTAA
1 TTTAGTGGCATTTTTTCAACAAACGCCGCAATAGAGTGGT-A
* ** * * ** *
1076524 TTTAGTGGCGTTTATAGC-TCAAATGATGCAATAGAGTTGT-
1 TTTAGTGGCATTT-TTTCAACAAACGCCGCAATAGAGTGGTA
1076564 TTATAGTGGCATTTTTTCAACAAACGCCGCAATAGAGTGGTAA
1 TT-TAGTGGCATTTTTTCAACAAACGCCGCAATAGAGTGGT-A
* * * *
1076607 TTTAGCGG--TGTTTTT-ATACAAACGCCGCGATAGTGTTGT-
1 TTTAGTGGCAT-TTTTTCA-ACAAACGCCGCAATAGAGTGGTA
* * *
1076646 TTATAGAGTCATTTGTTCAACAAACG
1 TT-TAGTGGCATTTTTTCAACAAACG
1076672 ACACTATTGA
Statistics
Matches: 112, Mismatches: 25, Indels: 23
0.70 0.16 0.14
Matches are distributed among these distances:
39 2 0.02
40 10 0.09
41 62 0.55
42 35 0.31
43 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTAGTGGCATTTTTTCAACAAACGCCGCAATAGAGTGGTA
Found at i:1076989 original size:41 final size:41
Alignment explanation
Indices: 1076926--1077062 Score: 136
Period size: 41 Copynumber: 3.3 Consensus size: 41
1076916 CATTTATGCG
* * *
1076926 AAAACGCCGCAATAGCCTTGTAC-TTATCTGGCGTTTGT-GA
1 AAAACGCCGCAATATCCATGTACTTTAGC-GGCGTTTGTAGA
* *
1076966 TCAAACGCCACAATATCCATGTACTTTAGCGGCGTTTGTAGA
1 -AAAACGCCGCAATATCCATGTACTTTAGCGGCGTTTGTAGA
* * *
1077008 AAAACGCCGTAATATCCATG-ATCTTTAGCGGCGTTTATAAA
1 AAAACGCCGCAATATCCATGTA-CTTTAGCGGCGTTTGTAGA
* *
1077049 AAAATGCAGCAATA
1 AAAACGCCGCAATA
1077063 GTTTAGTCAT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.01
41 73 0.91
42 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
AAAACGCCGCAATATCCATGTACTTTAGCGGCGTTTGTAGA
Found at i:1077118 original size:42 final size:42
Alignment explanation
Indices: 1077061--1077160 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
1077051 AATGCAGCAA
* * * *
1077061 TAGTTTAGTCATTTAGTGGCGTTTCTT-TAATAAACGCCGCAG
1 TAGTTTAGTCCTTTAGGGGCATTT-TTGTAATAAACACCGCAG
*
1077103 TAGTTTTGTCCTTTAGGGGCATTTTTGTAATAAACACCGCAG
1 TAGTTTAGTCCTTTAGGGGCATTTTTGTAATAAACACCGCAG
* * *
1077145 AAGTTTGGTCCCTTAG
1 TAGTTTAGTCCTTTAG
1077161 AATTTTAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (42 bp):
TAGTTTAGTCCTTTAGGGGCATTTTTGTAATAAACACCGCAG
Found at i:1081109 original size:137 final size:135
Alignment explanation
Indices: 1080823--1081079 Score: 330
Period size: 137 Copynumber: 1.9 Consensus size: 135
1080813 AATTTATATA
* * *
1080823 TATATAAATAAGATATTTATTTATTTAGAAATATCAGAAAAAGACTTCTAGGTGCTTTAAGACAG
1 TATA-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCTAGGTGCTTTAAGACAG
* *
1080888 CTCTTTTCTTAATATAAAAAAAATAAATATTAATAAAACATTTATCTAAAAATAATTAAAATATA
65 CTCCTTTCTTAATATAAAAAAAATAAATATT-ATAAAACATTGATCTAAAAATAATTAAAATATA
1080953 TATAATT
129 TATAATT
* * *
1080960 TATAAAAGTAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCTAGTTGCTTTAAGACT
1 TATAAAA-TAAAATATTTATTTATTTAAAAATATCAGAAAAAG-ACATCTAGGTGCTTTAAGACA
* *
1081025 GC-CCTTTCTTATTAT-TAAAAAATAAATA-T-TAAAACA-TGAT-T-AAAATAATTTAAAA
64 GCTCCTTTCTTAATATAAAAAAAATAAATATTATAAAACATTGATCTAAAAATAA-TTAAAA
1081080 GTAATTTATA
Statistics
Matches: 107, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
130 7 0.07
131 7 0.07
132 3 0.03
133 7 0.07
135 1 0.01
136 15 0.14
137 47 0.44
138 20 0.19
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.37
Consensus pattern (135 bp):
TATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCTAGGTGCTTTAAGACAGC
TCCTTTCTTAATATAAAAAAAATAAATATTATAAAACATTGATCTAAAAATAATTAAAATATATA
TAATT
Found at i:1081188 original size:21 final size:21
Alignment explanation
Indices: 1081160--1081209 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
1081150 ATGACTACAT
1081160 AATA-ATAACA-ATAATAATTA
1 AATATATAACATATAA-AATTA
1081180 AATATATAAACATATAAAATTA
1 AATATAT-AACATATAAAATTA
1081202 AAT-TATAA
1 AATATATAA
1081210 ATAAACAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 6 0.22
21 5 0.19
22 12 0.44
23 4 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATATAACATATAAAATTA
Found at i:1081210 original size:21 final size:22
Alignment explanation
Indices: 1081166--1081210 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1081156 ACATAATAAT
1081166 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
1081188 AACATATAA-AATTAAAT-TATA
1 AACA-ATAATAATTAAATATATA
1081209 AA
1 AA
1081211 TAAACAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:1081232 original size:37 final size:37
Alignment explanation
Indices: 1081191--1081278 Score: 158
Period size: 37 Copynumber: 2.4 Consensus size: 37
1081181 ATATATAAAC
*
1081191 ATATAAAATTAAATTATAAATAAACAATGACTAAAAT
1 ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
1081228 ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
1 ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
*
1081265 AAATAAAATTAAAA
1 ATATAAAATTAAAA
1081279 AGTAATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (37 bp):
ATATAAAATTAAAATATAAATAAACAATGACTAAAAT
Done.