Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008413.1 Hibiscus syriacus cultivar Beakdansim tig00111191_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: 2772818
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:1007829 original size:36 final size:36
Alignment explanation
Indices: 1007782--1007883 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1007772 GATACAATCT
1007782 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
1007818 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
1007854 TTCCATCACCA-TATCACGCCAATAACATCA
1 GTCCATCACCATTATCACGCCTATATCATCA
1007884 TCCTTCCATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 17 0.27
36 46 0.73
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.26
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1007898 original size:33 final size:34
Alignment explanation
Indices: 1007783--1007899 Score: 130
Period size: 36 Copynumber: 3.4 Consensus size: 34
1007773 ATACAATCTG
* *
1007783 TCCATCACCATTATCACGCCTATATCATCACCAT
1 TCCATCACCATTATCACGCCAATAACATCACCAT
* *
1007817 AGTCCATCACCATTATCACGCCTATATCATCACCATAT
1 --TCCATCACCATTATCACGCCAATAACATCACC--AT
1007855 TCCATCACCA-TATCACGCCAATAACATCATCC-T
1 TCCATCACCATTATCACGCCAATAACATCA-CCAT
*
1007888 TCCATTACCATT
1 TCCATCACCATT
1007900 TCATCACCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
33 10 0.14
34 1 0.01
35 17 0.23
36 44 0.59
38 2 0.03
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (34 bp):
TCCATCACCATTATCACGCCAATAACATCACCAT
Found at i:1007917 original size:33 final size:33
Alignment explanation
Indices: 1007783--1007922 Score: 88
Period size: 36 Copynumber: 4.1 Consensus size: 33
1007773 ATACAATCTG
* * *
1007783 TCCATCACCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACACCAATAACATCATCC-T
* * *
1007817 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACACCAATAACATCATCC---T
*
1007855 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACACCAATAACATCATCCT
* * *
1007888 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CACCAATAACATCATCCT
1007921 TC
1 TC
1007923 ATTCATCAAC
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.07
35 17 0.18
36 44 0.47
38 2 0.02
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.30
Consensus pattern (33 bp):
TCCATCACCATATCACACCAATAACATCATCCT
Found at i:1009969 original size:17 final size:17
Alignment explanation
Indices: 1009947--1009999 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
1009937 TGAATAAAGT
1009947 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
1009964 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
* *
1009981 TAGTTCATTTATTAGAC
1 TAGTTCATTAATTAAAC
1009998 TA
1 TA
1010000 ACTCTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:1015782 original size:11 final size:11
Alignment explanation
Indices: 1015766--1015799 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1015756 ACAAGGCAAG
*
1015766 AAACAAGATTA
1 AAACAAGATAA
1015777 AAACAAGATAA
1 AAACAAGATAA
*
1015788 AAAAAAGATAA
1 AAACAAGATAA
1015799 A
1 A
1015800 GAAATTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:1049502 original size:17 final size:19
Alignment explanation
Indices: 1049464--1049508 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1049454 TAAATAAGAA
1049464 AAGATAAAAGAAAATGAAATG
1 AAGAT-AAAGAAAA-GAAATG
1049485 AA-ATAAAGAAAA-AAATG
1 AAGATAAAGAAAAGAAATG
1049502 AAGATAA
1 AAGATAA
1049509 CTTCCAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 8 0.35
20 2 0.09
21 2 0.09
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (19 bp):
AAGATAAAGAAAAGAAATG
Found at i:1049652 original size:30 final size:30
Alignment explanation
Indices: 1049618--1049675 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
1049608 TTTGAGTGTA
1049618 CTTTGCAACTTT-TTATTCTCTTTTCTTTTG
1 CTTTG-AACTTTCTTATTCTCTTTTCTTTTG
* * *
1049648 CTTTGAATTTTCTTCTTTTCTTTTCTTT
1 CTTTGAACTTTCTTATTCTCTTTTCTTT
1049676 CTTTTGCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.09, C:0.19, G:0.05, T:0.67
Consensus pattern (30 bp):
CTTTGAACTTTCTTATTCTCTTTTCTTTTG
Found at i:1049722 original size:13 final size:13
Alignment explanation
Indices: 1049704--1049748 Score: 72
Period size: 13 Copynumber: 3.3 Consensus size: 13
1049694 GATGTAGGAG
1049704 TTTTTTCTTTTCT
1 TTTTTTCTTTTCT
1049717 TTTTTTCTTTTCT
1 TTTTTTCTTTTCT
1049730 TTTTTTCTTCTTTCT
1 TTTTTTC-T-TTTCT
1049745 TTTT
1 TTTT
1049749 ATTTTTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 20 0.67
14 1 0.03
15 9 0.30
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:1054315 original size:13 final size:15
Alignment explanation
Indices: 1054297--1054332 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
1054287 GTAGGAGTTA
1054297 TTTTCTTTTT-TT-T
1 TTTTCTTTTTCTTCT
1054310 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTCT
1054325 TTTT-TTTT
1 TTTTCTTTT
1054333 GTTGCAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.48
14 6 0.29
15 5 0.24
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:1059205 original size:23 final size:22
Alignment explanation
Indices: 1059179--1059224 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
1059169 AAATTTTGGC
1059179 TTTTTG-TTTTTTGTTGTTTTTT
1 TTTTTGCTTTTTTG-TGTTTTTT
1059201 TTTTTGCCTTTTTTGTGTTTTTT
1 TTTTTG-CTTTTTTGTGTTTTTT
1059224 T
1 T
1059225 AAATAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (22 bp):
TTTTTGCTTTTTTGTGTTTTTT
Found at i:1063744 original size:22 final size:22
Alignment explanation
Indices: 1063714--1063755 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1063704 GAGATGGGTG
*
1063714 TGGAATTGATGGTTTTGATGGA
1 TGGAATTGATGGTGTTGATGGA
*
1063736 TGGAGTTGATGGTGTTGATG
1 TGGAATTGATGGTGTTGATG
1063756 ATGAAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
TGGAATTGATGGTGTTGATGGA
Found at i:1082112 original size:90 final size:89
Alignment explanation
Indices: 1081997--1082169 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 89
1081987 TAATCCTGAA
* * *
1081997 TATTTAATTTTAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
*
1082062 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAACATGGATATAAGAGGAT
1082087 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
1082152 AGGGTAACATGGCTATAA
66 AGGGTAACATGGATATAA
1082170 AAGGGTGTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 29 0.37
90 49 0.63
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (89 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACATGGATATAAGAGGAT
Found at i:1093627 original size:23 final size:23
Alignment explanation
Indices: 1093597--1093645 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1093587 CTCTTCATAT
1093597 GGTTCCTATCAACATTATAAATA
1 GGTTCCTATCAACATTATAAATA
1093620 GGTTCCTATCAACATTATAAATA
1 GGTTCCTATCAACATTATAAATA
1093643 GGT
1 GGT
1093646 ACCTCCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (23 bp):
GGTTCCTATCAACATTATAAATA
Found at i:1096876 original size:21 final size:19
Alignment explanation
Indices: 1096848--1096899 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
1096838 GAAATCTCAT
*
1096848 TGAAAATACATGATTTTTAA
1 TGAAAATACATGA-CTTTAA
1096868 TGAAAAATACATGACTTTAA
1 TG-AAAATACATGACTTTAA
1096888 TGAAAATACATG
1 TGAAAATACATG
1096900 CTCTTAGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.33
20 9 0.30
21 11 0.37
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (19 bp):
TGAAAATACATGACTTTAA
Found at i:1101388 original size:187 final size:186
Alignment explanation
Indices: 1101103--1101475 Score: 721
Period size: 187 Copynumber: 2.0 Consensus size: 186
1101093 AGATATTATC
1101103 CTGTCATTTTCCTTTGTTTCAAAAGATCAAACCATTTCCATATCAACAACACTTCCGCAACCATT
1 CTGTCATTTTCCTTTGTTTCAAAAGATCAAACCATTTCCATATCAACAACACTTCCGCAACCATT
1101168 CTTATATAAGAAATAGCCTTCCATATTCACCTACATCAACTACCAAGCCACTCTGTTTGAGCCAT
66 CTTATATAAGAAATAGCCTTCCATATTCACCTACATCAACTACCAAGCCACTCTGTTTGAGCCAT
1101233 TCACTTACTTTCAGGTTGTTTTTTTGCTTC-TTCCTAATTCTATAATTAATTGAGGGT
131 TCACTTACTTTCAGGTTG--TTTTTGCTTCTTTCCTAATTCTATAATTAATTGAGGGT
1101290 CTGTCATTTTCCTTTGTTTCAAAAGATCAAACCATTTCCATATCAACAACACTTCCGCAACCATT
1 CTGTCATTTTCCTTTGTTTCAAAAGATCAAACCATTTCCATATCAACAACACTTCCGCAACCATT
1101355 CTTATATAAGAAATAGCCTTCCATATTCACCTACATCAACTACCAAGCCACTCTGTTTGAGCCAT
66 CTTATATAAGAAATAGCCTTCCATATTCACCTACATCAACTACCAAGCCACTCTGTTTGAGCCAT
1101420 TCACTTACTTTCAGGTTGTTTTTGCTTCTTTCCTAATTCTATAATTAATTGAGGGT
131 TCACTTACTTTCAGGTTGTTTTTGCTTCTTTCCTAATTCTATAATTAATTGAGGGT
1101476 ACATTACCCA
Statistics
Matches: 185, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
185 10 0.05
186 27 0.15
187 148 0.80
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (186 bp):
CTGTCATTTTCCTTTGTTTCAAAAGATCAAACCATTTCCATATCAACAACACTTCCGCAACCATT
CTTATATAAGAAATAGCCTTCCATATTCACCTACATCAACTACCAAGCCACTCTGTTTGAGCCAT
TCACTTACTTTCAGGTTGTTTTTGCTTCTTTCCTAATTCTATAATTAATTGAGGGT
Found at i:1102397 original size:41 final size:41
Alignment explanation
Indices: 1102343--1102460 Score: 200
Period size: 41 Copynumber: 2.8 Consensus size: 41
1102333 AAAACTCCCT
* *
1102343 TTTGAACTTTATGAAAGGTTGGAGATGCAAGAATGTATATCA
1 TTTGAA-TCTATGAAAGGTTGGACATGCAAGAATGTATATCA
1102385 TTTGAATCTATGAAAGGTTGGACATGCAAGAATGTATATCA
1 TTTGAATCTATGAAAGGTTGGACATGCAAGAATGTATATCA
1102426 TTTGAATCTTATGAAAGGTTGGACATGCAAGAATG
1 TTTGAATC-TATGAAAGGTTGGACATGCAAGAATG
1102461 ATTATGATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
41 41 0.56
42 32 0.44
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTGAATCTATGAAAGGTTGGACATGCAAGAATGTATATCA
Found at i:1106964 original size:9 final size:9
Alignment explanation
Indices: 1106950--1106979 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1106940 CAAAGACAAA
1106950 AAGAAAAAG
1 AAGAAAAAG
1106959 AAGAAAAAG
1 AAGAAAAAG
1106968 AAGAAAGAAG
1 AAGAAA-AAG
1106978 AA
1 AA
1106980 ATTGAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:1106966 original size:16 final size:17
Alignment explanation
Indices: 1106942--1106980 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
1106932 AAGGAGTTCA
1106942 AAGACAAAAAGAA-AAAG
1 AAGA-AAAAAGAAGAAAG
1106959 AAG-AAAAAGAAGAAAG
1 AAGAAAAAAGAAGAAAG
1106975 AAGAAA
1 AAGAAA
1106981 TTGAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 5 0.25
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAGAAAG
Found at i:1108015 original size:15 final size:15
Alignment explanation
Indices: 1107990--1108038 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
1107980 TTGAAGCAAT
1107990 GAAAGAGCAACTTAAA
1 GAAA-AGCAACTTAAA
1108006 GAAAAGCAACTTAAA
1 GAAAAGCAACTTAAA
* * *
1108021 GACAATCAACTTGAA
1 GAAAAGCAACTTAAA
1108036 GAA
1 GAA
1108039 GACGTTGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 25 0.86
16 4 0.14
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
GAAAAGCAACTTAAA
Found at i:1137791 original size:27 final size:27
Alignment explanation
Indices: 1137761--1137840 Score: 62
Period size: 27 Copynumber: 3.1 Consensus size: 27
1137751 TCTTTTGATG
1137761 TAATCATTATTTATTCTATTATGTTTT
1 TAATCATTATTTATTCTATTATGTTTT
* ** * *
1137788 TAATTACCATTTA--C--TTGTG-TTG
1 TAATCATTATTTATTCTATTATGTTTT
* *
1137810 TAATCCTTATTTATTCTATTTTGTTTT
1 TAATCATTATTTATTCTATTATGTTTT
1137837 TAAT
1 TAAT
1137841 TACATTGCTA
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 11 0.30
23 4 0.11
24 1 0.03
25 1 0.03
26 4 0.11
27 16 0.43
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.60
Consensus pattern (27 bp):
TAATCATTATTTATTCTATTATGTTTT
Found at i:1141330 original size:16 final size:16
Alignment explanation
Indices: 1141281--1141331 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1141271 ATTCTTAAAG
1141281 AGTGGTCATTCGGGAC
1 AGTGGTCATTCGGGAC
* * *
1141297 ATAGTGGGCCTTCAGGAC
1 --AGTGGTCATTCGGGAC
1141315 AGTGGTCATTCGGGAC
1 AGTGGTCATTCGGGAC
1141331 A
1 A
1141332 AATATACAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.24
Consensus pattern (16 bp):
AGTGGTCATTCGGGAC
Found at i:1141625 original size:19 final size:19
Alignment explanation
Indices: 1141601--1141639 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1141591 ATGATGAATG
*
1141601 TATATATGTGAGCATTGTA
1 TATATATGTAAGCATTGTA
1141620 TATATATGTAAGCATTGTA
1 TATATATGTAAGCATTGTA
1141639 T
1 T
1141640 TTCCTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (19 bp):
TATATATGTAAGCATTGTA
Found at i:1144772 original size:18 final size:18
Alignment explanation
Indices: 1144749--1144801 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
1144739 GTTCTTAAGG
1144749 AGTGGTCATTTGGGACAT
1 AGTGGTCATTTGGGACAT
* *
1144767 AGTGGTCATTCGGGACTT
1 AGTGGTCATTTGGGACAT
1144785 AGTGGTCATTTGGGACA
1 AGTGGTCATTTGGGACA
1144802 AATTTACAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (18 bp):
AGTGGTCATTTGGGACAT
Found at i:1145094 original size:19 final size:19
Alignment explanation
Indices: 1145070--1145108 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1145060 ATGATGGATG
*
1145070 TATATATGTGAGCATTGTA
1 TATATATGTAAGCATTGTA
1145089 TATATATGTAAGCATTGTA
1 TATATATGTAAGCATTGTA
1145108 T
1 T
1145109 TGCATGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (19 bp):
TATATATGTAAGCATTGTA
Found at i:1154595 original size:5 final size:5
Alignment explanation
Indices: 1154576--1154630 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
1154566 GTCCGAGAAT
* *
1154576 TTTTA TTTTA -ATTA TTTTA TTTTA TTTTCA GTTTTA TTTTG TTTTGA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTT-A
1154623 -TTTA TTTT
1 TTTTA TTTT
1154631 GGTTTTAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.10
5 31 0.76
6 2 0.05
7 4 0.10
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:1155768 original size:30 final size:29
Alignment explanation
Indices: 1155734--1155793 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
1155724 TGCATTTGAG
** *
1155734 TCATTAATCTGTTTCTACTTCATTTTAATT
1 TCATTAATCAATTTCTA-TTCAATTTAATT
*
1155764 TCATTATTCAATTTCTATTCAATTTAATT
1 TCATTAATCAATTTCTATTCAATTTAATT
1155793 T
1 T
1155794 AACCCCTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.57
Consensus pattern (29 bp):
TCATTAATCAATTTCTATTCAATTTAATT
Found at i:1158164 original size:13 final size:15
Alignment explanation
Indices: 1158129--1158169 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
1158119 TATGGGATTG
*
1158129 ACACCTTTTGCATAC
1 ACACATTTTGCATAC
*
1158144 ATACA-TTTGCAT-C
1 ACACATTTTGCATAC
1158157 ACACATTTTGCAT
1 ACACATTTTGCAT
1158170 TCTCTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.23
14 14 0.64
15 3 0.14
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (15 bp):
ACACATTTTGCATAC
Found at i:1159764 original size:10 final size:9
Alignment explanation
Indices: 1159746--1159858 Score: 95
Period size: 9 Copynumber: 12.2 Consensus size: 9
1159736 AATAATAAGG
1159746 AAAAAAGAA
1 AAAAAAGAA
1159755 AAAAATAGAA
1 AAAAA-AGAA
* * *
1159765 ATGATAGGAA
1 A-AAAAAGAA
1159775 AAAAGAAG-A
1 AAAA-AAGAA
*
1159784 AAAAAAGAG
1 AAAAAAGAA
1159793 AAAAAAGAA
1 AAAAAAGAA
*
1159802 AAGAAAGAA
1 AAAAAAGAA
* *
1159811 GAAAAA-TA
1 AAAAAAGAA
*
1159819 GAAAAAGAA
1 AAAAAAGAA
1159828 AAAAAAGAAA
1 AAAAAAG-AA
1159838 AAAAAAGAA
1 AAAAAAGAA
1159847 AAAAAGAGAA
1 AAAAA-AGAA
1159857 AA
1 AA
1159859 TGAATCAAGT
Statistics
Matches: 83, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
8 10 0.12
9 45 0.54
10 26 0.31
11 2 0.02
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.04
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:1159810 original size:26 final size:26
Alignment explanation
Indices: 1159775--1159850 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 26
1159765 ATGATAGGAA
*
1159775 AAAAG-AAGAAAAAAAGAGAAAAAAG
1 AAAAGAAAGAAAAAAAAAGAAAAAAG
*
1159800 AAAAGAAAGAAGAAAAATAG-AAAAAG
1 AAAAGAAAGAA-AAAAAAAGAAAAAAG
*
1159826 AAAAAAAAGAAAAAAAAAGAAAAAA
1 AAAAGAAAGAAAAAAAAAGAAAAAA
1159851 AGAGAAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
25 12 0.27
26 26 0.58
27 7 0.16
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (26 bp):
AAAAGAAAGAAAAAAAAAGAAAAAAG
Found at i:1161207 original size:112 final size:112
Alignment explanation
Indices: 1161005--1161234 Score: 415
Period size: 112 Copynumber: 2.1 Consensus size: 112
1160995 AATAGAACTT
* * *
1161005 GTAAAACTTCCTAGTGATGTTGTCGGTAACCCATCGAGAAGTAGATGATTACCTTATTTGAAAGG
1 GTAAAACTTCCTAGTGACGATGTCGGTAACCCATCGAGAAGCAGATGATTACCTTATTTGAAAGG
1161070 GGCACATATCCCAGCTCATGGCAGAATGCAAGAGTGAGACCAGTCAA
66 GGCACATATCCCAGCTCATGGCAGAATGCAAGAGTGAGACCAGTCAA
* *
1161117 GTAACACTTCCTAGTGACGATGTTGGTAACCCATCGAGAAGCAGATGATTACCTTATTTGAAAGG
1 GTAAAACTTCCTAGTGACGATGTCGGTAACCCATCGAGAAGCAGATGATTACCTTATTTGAAAGG
1161182 GGCACATATCCCAGCTCATGGCAGAATGCAAGAGTGAGACCAGTCAA
66 GGCACATATCCCAGCTCATGGCAGAATGCAAGAGTGAGACCAGTCAA
1161229 GTAAAA
1 GTAAAA
1161235 ATTTTTGGAA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (112 bp):
GTAAAACTTCCTAGTGACGATGTCGGTAACCCATCGAGAAGCAGATGATTACCTTATTTGAAAGG
GGCACATATCCCAGCTCATGGCAGAATGCAAGAGTGAGACCAGTCAA
Found at i:1162227 original size:88 final size:88
Alignment explanation
Indices: 1162058--1162278 Score: 259
Period size: 88 Copynumber: 2.5 Consensus size: 88
1162048 AGTGGTGTTG
* * * *
1162058 TTCTTAACTTTCTCGTGGAA-AGAAGTCAAC-CTTTAATGATGTCCTTCTTGACTTTATCA-CGA
1 TTCTTGACTTTCTCGT-GAAGAGAAGTCAACTTTTTAGTGATGTCC-T-TTGACTTTCT-AGCGA
* *
1162120 AGAGGAGTCGATCTCTCAGTGATGTCA
62 AGAGGAGTCAATCTCTCAGTGATATCA
* * *
1162147 TTCTTGACTTTCTCGTGAAGTGAAGTCAATTTTTTAGTGTTGTCCTTTGACTTTCTAGCGAAGAG
1 TTCTTGACTTTCTCGTGAAGAGAAGTCAACTTTTTAGTGATGTCCTTTGACTTTCTAGCGAAGAG
* * *
1162212 GAGTCAATCTTTCAGTGTTATCC
66 GAGTCAATCTCTCAGTGATATCA
* *
1162235 TTCTTTACTTTCTCGTGAAGAGGAGTCAACTTTTTAGTGATGTC
1 TTCTTGACTTTCTCGTGAAGAGAAGTCAACTTTTTAGTGATGTC
1162279 ATCCTCAACT
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
87 1 0.01
88 76 0.68
89 24 0.21
90 11 0.10
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (88 bp):
TTCTTGACTTTCTCGTGAAGAGAAGTCAACTTTTTAGTGATGTCCTTTGACTTTCTAGCGAAGAG
GAGTCAATCTCTCAGTGATATCA
Found at i:1162260 original size:45 final size:45
Alignment explanation
Indices: 1162058--1162278 Score: 200
Period size: 45 Copynumber: 5.0 Consensus size: 45
1162048 AGTGGTGTTG
* * * *
1162058 TTCTTAACTTTCTCGTGGAA-AGAAGTCAACCTTT-AATGATGTCC
1 TTCTTGACTTTCTCGT-GAAGAGGAGTCAATCTTTCAGTGATGTCC
* ** * * *
1162102 TTCTTGACTTTATCACGAAGAGGAGTCGATCTCTCAGTGATGTCA
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGATGTCC
* * * * *
1162147 TTCTTGACTTTCTCGTGAAGTGAAGTCAATTTTTTAGTGTTGTCC
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGATGTCC
* * * *
1162192 -T-TTGACTTTCTAGCGAAGAGGAGTCAATCTTTCAGTGTTATCC
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGATGTCC
* *
1162235 TTCTTTACTTTCTCGTGAAGAGGAGTCAA-CTTTTTAGTGATGTC
1 TTCTTGACTTTCTCGTGAAGAGGAGTCAATC-TTTCAGTGATGTC
1162279 ATCCTCAACT
Statistics
Matches: 138, Mismatches: 34, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
43 38 0.28
44 25 0.18
45 75 0.54
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (45 bp):
TTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGATGTCC
Found at i:1163345 original size:133 final size:134
Alignment explanation
Indices: 1162959--1163766 Score: 812
Period size: 134 Copynumber: 6.1 Consensus size: 134
1162949 AGAGTGGTGG
* * **
1162959 AGTGAATCAAAATTTTCTTGAGTTTGGTCT-CCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTT
* * * * * * *
1163023 CAAATTTGGTCTTCCTAAAGAGTAGTGAAACAAATC-AGATTCGATTCAATCTTCCTTGAATAGC
66 CAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAG-TCCGATTCAATCTTCCCTGAAGAGC
1163087 A-ACGA
130 AGA-GA
* * ** * * *
1163092 ATTGAATCAAAATTTTATCGAGTCTGACCTCCCCTAAAGAGTAGCATAACAAATTCTTTTTCTTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTT
* * ** * **
1163157 CAGTTTTGGTCCTCCACAAGAGCAGTGAAGAAAATCACA-TTTGATTCAATCTTCCCTGAAGAGC
66 CAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCA-AGTCCGATTCAATCTTCCCTGAAGAGC
*
1163221 AGCGA
130 AGAGA
* ** * *
1163226 AGTGAATCAAAATTTTGTCGAGTCTGACCTCCTATAAAGAGTA-CGGAGTAGATTATTCTTCTTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTT
*
1163290 CAGATTTGGT-TTCCCTGAAGAGCAATGAAGCAAATCAAGTCCGATTCAATCTTCCCTGAAGAGC
66 CAGATTTGGTCTT-CCTGAAGAGCAGTGAAGCAAATCAAGTCCGATTCAATCTTCCCTGAAGAGC
*
1163354 AGTGA
130 AGAGA
* *
1163359 AGTGAATCAAAA-TTTCTTGAGTCTGACCTCCCTTAAAGAGT----------ATTCTTTCTTCTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTC-TTCTTCTT
* * * * *
1163413 TCAGATTTGGTCTTCCTGAATAGTAGTGAAGTAAATCAAGTCTGATTCAATCTTCCCTGAAGAGT
65 TCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTCCGATTCAATCTTCCCTGAAGAGC
1163478 AGAGA
130 AGAGA
* ** * * *
1163483 AGTGGA--AAGTTTTTCTCAAGTCTGACATCCCCTAAAGAGTAACGGAGCAGATTCTTTCTTCTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTC-TTCTTCTT
* * * * *
1163546 TCAGATTTGGTCTTCTTGAAAAGTAATGAAGCAAATAAAGTCCGATTCAATCTT-CCTGAAGAGC
65 TCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTCCGATTCAATCTTCCCTGAAGAGC
1163610 AGAGA
130 AGAGA
* * * * * * *
1163615 AGTGGATCAAAGTTTTTCTCAAGTTTGATCTCCCCTAATGAGTAGCGGAGCATATTCTTCTTCTT
1 AGTGAATCAAA-ATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTT
* * * * * *
1163680 TCAGATTCGGTCTTCTTAAAGAGCAGCGAAGTAAATCAAGTTCGATTCAATCTTCCCTGAAGAGC
65 TCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTCCGATTCAATCTTCCCTGAAGAGC
*
1163745 AGTGA
130 AGAGA
*
1163750 AGCGAATC-AAATTTTCT
1 AGTGAATCAAAATTTTCT
1163767 AGACCTAATT
Statistics
Matches: 563, Mismatches: 89, Indels: 46
0.81 0.13 0.07
Matches are distributed among these distances:
122 2 0.00
123 28 0.05
124 73 0.13
125 2 0.00
132 47 0.08
133 173 0.31
134 178 0.32
135 59 0.10
136 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (134 bp):
AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTT
CAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAAGTCCGATTCAATCTTCCCTGAAGAGCA
GAGA
Found at i:1163544 original size:257 final size:262
Alignment explanation
Indices: 1162989--1163766 Score: 764
Period size: 267 Copynumber: 3.0 Consensus size: 262
1162979 AGTTTGGTCT
* * * * *
1162989 CCCTAAAGAGTAGCGGAGCAGATTCTTCTTCTTTCAAATTTGGTCTTCCTAAAGAGTAGTGAAAC
1 CCCTAAAGAGTAACGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAATGAAGC
* * * *
1163054 AAATC-AGATTCGATTCAATCTTCCTTGAATAGCA-ACGAATTGAATCAAAATTTTATCGAGTCT
66 AAATCAAG-TCCGATTCAATCTTCCCTGAAGAGCAGA-GAAGTGAATCAAAATTTTATCGAGTCT
*
1163117 GACCTCCCCTAAAGAGTAGCATAACAAATTCTTTTTCTTTCAGTTTTGGTCCTCCACAAGAGCAG
129 GACCTCCCCTAAAGAGTAG-AT----AATTCTTTTTCTTTCAGATTTGGTCCTCCACAAGAGCAG
* * * *
1163182 TGAAGAAAATCACATTTGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTGTCGA
189 TGAAGAAAATCACATCTGATTCAATCTTCCCTGAAGAGCAGAGAAGTGAA-CAAAATTTTCTCAA
*
1163247 GTCTGACCTC
253 GTCTGACATC
** * * *
1163257 CTATAAAGAGT-ACGGAGTAGATTATTCTTCTTTCAGATTTGGT-TTCCCTGAAGAGCAATGAAG
1 CCCTAAAGAGTAACGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTT-CCTGAAGAGTAATGAAG
*
1163320 CAAATCAAGTCCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGAATCAAAATTTCT-T-GAGTCT
65 CAAATCAAGTCCGATTCAATCTTCCCTGAAGAGCAGAGAAGTGAATCAAAATTT-TATCGAGTCT
* * ** * *
1163383 GACCT-CCCTTAA-AG-AG-T-ATTCTTTCTTCTTTCAGATTTGGTCTTCCTGAATAGTAGTGAA
129 GACCTCCCCTAAAGAGTAGATAATTCTTT-TTCTTTCAGATTTGGTCCTCCACAAGAGCAGTGAA
* * * **
1163443 GTAAATCA-AGTCTGATTCAATCTTCCCTGAAGAGTAGAGAAGTGGA-AAGTTTTTCTCAAGTCT
193 GAAAATCACA-TCTGATTCAATCTTCCCTGAAGAGCAGAGAAGTGAACAAAATTTTCTCAAGTCT
1163506 GACATC
257 GACATC
* *
1163512 CCCTAAAGAGTAACGGAGCAGATTCTTTCTTCTTTCAGATTTGGTCTTCTTGAAAAGTAATGAAG
1 CCCTAAAGAGTAACGGAGCAGATTC-TTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAATGAAG
* * * * * *
1163577 CAAATAAAGTCCGATTCAATCTT-CCTGAAGAGCAGAGAAGTGGATCAAAGTTTTTCTCAAGTTT
65 CAAATCAAGTCCGATTCAATCTTCCCTGAAGAGCAGAGAAGTGAATCAAA-ATTTTATCGAGTCT
* * * * * * *
1163641 GATCTCCCCTAATGAGTAGCGGAGCATATTCTTCTTCTTTCAGATTCGGTCTTCTTA-AAGAGCA
129 GACCTCCCCTAAAGAGTA---GA-TA-ATTCTTTTTCTTTCAGATTTGGTCCTC-CACAAGAGCA
* * * *
1163705 GCGAAGTAAATCA-AGT-TCGATTCAATCTTCCCTGAAGAGCAGTGAAGCGAATC-AAATTTTCT
188 GTGAAGAAAATCACA-TCT-GATTCAATCTTCCCTGAAGAGCAGAGAAGTGAA-CAAAATTTTCT
1163767 AGACCTAATT
Statistics
Matches: 422, Mismatches: 62, Indels: 52
0.79 0.12 0.10
Matches are distributed among these distances:
255 27 0.06
256 44 0.10
257 127 0.30
258 10 0.02
259 5 0.01
260 2 0.00
261 2 0.00
263 2 0.00
264 3 0.01
265 6 0.01
266 14 0.03
267 155 0.37
268 25 0.06
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (262 bp):
CCCTAAAGAGTAACGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAATGAAGC
AAATCAAGTCCGATTCAATCTTCCCTGAAGAGCAGAGAAGTGAATCAAAATTTTATCGAGTCTGA
CCTCCCCTAAAGAGTAGATAATTCTTTTTCTTTCAGATTTGGTCCTCCACAAGAGCAGTGAAGAA
AATCACATCTGATTCAATCTTCCCTGAAGAGCAGAGAAGTGAACAAAATTTTCTCAAGTCTGACA
TC
Found at i:1168906 original size:806 final size:809
Alignment explanation
Indices: 1167349--1168969 Score: 3212
Period size: 806 Copynumber: 2.0 Consensus size: 809
1167339 AATGTTCCCT
*
1167349 ATGATAGTCACTTTGGATCAATTCACACTGTAGCAAAGGTTATTCAGTGTGGATACTATTGGCTA
1 ATGAAAGTCACTTTGGATCAATTCACACTGTAGCAAAGGTTATTCAGTGTGGATACTATTGGCTA
1167414 ACATTGTTTAAAGATGCAAATGATTTTGCTAAGCATTGCTATCATTGTCAACAAACTGGTAGCAT
66 ACATTGTTTAAAGATGCAAATGATTTTGCTAAGCATTGCTATCATTGTCAACAAACTGGTAGCAT
1167479 TTGTTGTTGCAATGAAATGTTGATGCAACCTATATTGGAGATTGAATTGTTTAATGTTTTGGGGT
131 TTGTTGTTGCAATGAAATGTTGATGCAACCTATATTGGAGATTGAATTGTTTAATGTTTTGGGGT
1167544 TGGATTTCATGGAACCTTATCCGTTAACCTTTTGGAATCTTTATATTTTCATTTCTATAGACTAT
196 TGGATTTCATGGAACCTTATCCGTTAACCTTTTGGAATCTTTATATTTTCATTTCTATAGACTAT
1167609 GTATCCAAGTAGGTCGAAGTTGTAGTATTACCTACGAGGGATTCTAAATCGGTTTTGAAGTTTCT
261 GTATCCAAGTAGGTCGAAGTTGTAGTATTACCTACGAGGGATTCTAAATCGGTTTTGAAGTTTCT
1167674 TCACAAGAATATCTTCACCCACTTTGAAATACTGAGAACTTTATTAGTAATGAGGAATCTCATTT
326 TCACAAGAATATCTTCACCCACTTTGAAATACTGAGAACTTTATTAGTAATGAGGAATCTCATTT
1167739 TTAATACAAGCAAGTTGCTAATGCTTTGTTGTGATACGAGGTGAAGATCGCATTGCTACAACATA
391 TTAATACAAGCAAGTTGCTAATGCTTTGTTGTGATACGAGGTGAAGATCGCATTGCTACAACATA
1167804 CCATCCTCAATCAAATGGATAAGCTGAGGTCTCTAACCGTGAAATCAAGAAAATTTTGGAGAAGG
456 CCATCCTCAATCAAATGGATAAGCTGAGGTCTCTAACCGTGAAATCAAGAAAATTTTGGAGAAGG
1167869 TTATGAATCCATCCATGAAAGATTGGTCTTTGTGCTTGACTGAAGTATTGTGGGATTATCATACA
521 TTATGAATCCATCCATGAAAGATTGGTCTTTGTGCTTGACTGAAGTATTGTGGGATTATCATACA
1167934 ACCTACAAAACACCATTGGGTATGGCTCCATTTTGTTTATTATATGGAAAAGCATGTTATTTGTT
586 ACCTACAAAACACCATTGGGTATGGCTCCATTTTGTTTATTATATGGAAAAGCATGTTATTTGTT
1167999 GGTAGAGTTGGAGCACAAGACAATGTGGACACTTAAGAAACTCAATTTTGATCTTGATGCGGCTA
651 GGTAGAGTTGGAGCACAAGACAATGTGGACACTTAAGAAACTCAATTTTGATCTTGATGCGGCTA
1168064 GTGAAAGAGTTTGCTTGACTTGAATGAGCTGGAAGAACTTTACGACAATGGCTATG-GAATGC-A
716 GTGAAAGAGTTTGCTTGACTTGAATGAGCTGGAAGAACTTTACGACAATGGCTATGAGAATGCAA
1168127 AGATTTAAAAGG-AAAAGAAAAAGGTGGC
781 AGATTTAAAAGGAAAAAGAAAAAGGTGGC
1168155 ATGAAAGTCACTTTGGATCAATTCACACTGTAGCAAAGGTTATTCAGTGTGGATACTATTGGCTA
1 ATGAAAGTCACTTTGGATCAATTCACACTGTAGCAAAGGTTATTCAGTGTGGATACTATTGGCTA
1168220 ACATTGTTTAAAGATGCAAATGATTTTGCTAAGCATTGCTATCATTGTCAACAAACTGGTAGCAT
66 ACATTGTTTAAAGATGCAAATGATTTTGCTAAGCATTGCTATCATTGTCAACAAACTGGTAGCAT
1168285 TTGTTGTTGCAATGAAATGTTGATGCAACCTATATTGGAGATTGAATTGTTTAATGTTTTGGGGT
131 TTGTTGTTGCAATGAAATGTTGATGCAACCTATATTGGAGATTGAATTGTTTAATGTTTTGGGGT
1168350 TGGATTTCATGGAACCTTATCCGTTAACCTTTTGGAATCTTTATATTTTCATTTCTATAGACTAT
196 TGGATTTCATGGAACCTTATCCGTTAACCTTTTGGAATCTTTATATTTTCATTTCTATAGACTAT
1168415 GTATCCAAGTAGGTCGAAGTTGTAGTATTACCTACGAGGGATTCTAAATCGGTTTTGAAGTTTCT
261 GTATCCAAGTAGGTCGAAGTTGTAGTATTACCTACGAGGGATTCTAAATCGGTTTTGAAGTTTCT
1168480 TCACAAGAATATCTTCACCCACTTTGAAATACTGAGAACTTTATTAGTAATGAGGAATCTCATTT
326 TCACAAGAATATCTTCACCCACTTTGAAATACTGAGAACTTTATTAGTAATGAGGAATCTCATTT
1168545 TTAATACAAGCAAGTTGCTAATGCTTTGTTGTGATACGAGGTGAAGATCGCATTGCTACAACATA
391 TTAATACAAGCAAGTTGCTAATGCTTTGTTGTGATACGAGGTGAAGATCGCATTGCTACAACATA
1168610 CCATCCTCAATCAAATGGATAAGCTGAGGTCTCTAACCGTGAAATCAAGAAAATTTTGGAGAAGG
456 CCATCCTCAATCAAATGGATAAGCTGAGGTCTCTAACCGTGAAATCAAGAAAATTTTGGAGAAGG
1168675 TTATGAATCCATCCATGAAAGATTGGTCTTTGTGCTTGACTGAAGTATTGTGGGATTATCATACA
521 TTATGAATCCATCCATGAAAGATTGGTCTTTGTGCTTGACTGAAGTATTGTGGGATTATCATACA
1168740 ACCTACAAAACACCATTGGGTATGGCTCCATTTTGTTTATTATATGGAAAAGCATGTTATTTGTT
586 ACCTACAAAACACCATTGGGTATGGCTCCATTTTGTTTATTATATGGAAAAGCATGTTATTTGTT
1168805 GGTAGAGTTGGAGCACAAGACAATGTGGACACTTAAGAAACTCAATTTTGATCTTGATGCGGCTA
651 GGTAGAGTTGGAGCACAAGACAATGTGGACACTTAAGAAACTCAATTTTGATCTTGATGCGGCTA
1168870 GTGAAAGAGTTTGCTTGACTTGAATGAGCTGGAAGAACTTTACGACAATGGCTATGAGAATGCAA
716 GTGAAAGAGTTTGCTTGACTTGAATGAGCTGGAAGAACTTTACGACAATGGCTATGAGAATGCAA
1168935 AGATTTAAAAGGAAAAAGAAAAAGGTGGC
781 AGATTTAAAAGGAAAAAGAAAAAGGTGGC
1168964 ATGAAA
1 ATGAAA
1168970 AGCATATAAT
Statistics
Matches: 811, Mismatches: 1, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
806 770 0.95
807 6 0.01
808 13 0.02
809 22 0.03
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (809 bp):
ATGAAAGTCACTTTGGATCAATTCACACTGTAGCAAAGGTTATTCAGTGTGGATACTATTGGCTA
ACATTGTTTAAAGATGCAAATGATTTTGCTAAGCATTGCTATCATTGTCAACAAACTGGTAGCAT
TTGTTGTTGCAATGAAATGTTGATGCAACCTATATTGGAGATTGAATTGTTTAATGTTTTGGGGT
TGGATTTCATGGAACCTTATCCGTTAACCTTTTGGAATCTTTATATTTTCATTTCTATAGACTAT
GTATCCAAGTAGGTCGAAGTTGTAGTATTACCTACGAGGGATTCTAAATCGGTTTTGAAGTTTCT
TCACAAGAATATCTTCACCCACTTTGAAATACTGAGAACTTTATTAGTAATGAGGAATCTCATTT
TTAATACAAGCAAGTTGCTAATGCTTTGTTGTGATACGAGGTGAAGATCGCATTGCTACAACATA
CCATCCTCAATCAAATGGATAAGCTGAGGTCTCTAACCGTGAAATCAAGAAAATTTTGGAGAAGG
TTATGAATCCATCCATGAAAGATTGGTCTTTGTGCTTGACTGAAGTATTGTGGGATTATCATACA
ACCTACAAAACACCATTGGGTATGGCTCCATTTTGTTTATTATATGGAAAAGCATGTTATTTGTT
GGTAGAGTTGGAGCACAAGACAATGTGGACACTTAAGAAACTCAATTTTGATCTTGATGCGGCTA
GTGAAAGAGTTTGCTTGACTTGAATGAGCTGGAAGAACTTTACGACAATGGCTATGAGAATGCAA
AGATTTAAAAGGAAAAAGAAAAAGGTGGC
Found at i:1173582 original size:25 final size:25
Alignment explanation
Indices: 1173518--1173584 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
1173508 AGTTTAGGGG
* **
1173518 TGTGTTATTCTTTTTGTCATGTTGTA
1 TGTGTTATT-TTTATGTCATGTTCCA
* *
1173544 TTTG-CATTTGTTATGTCATGTTCCA
1 TGTGTTATTT-TTATGTCATGTTCCA
1173569 TGTGTTATTTTTATGT
1 TGTGTTATTTTTATGT
1173585 GTGCATTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
24 1 0.03
25 24 0.75
26 7 0.22
ACGTcount: A:0.13, C:0.09, G:0.18, T:0.60
Consensus pattern (25 bp):
TGTGTTATTTTTATGTCATGTTCCA
Found at i:1175248 original size:357 final size:357
Alignment explanation
Indices: 1174588--1175301 Score: 1320
Period size: 357 Copynumber: 2.0 Consensus size: 357
1174578 ACAATTAGAG
* * *
1174588 AAATATTTAGGGAAAACAACACTTGGACATGGTGCAGCAGCAACTGCGATAGCGGTGGTCGATGA
1 AAATATTTAGGGAAAACAACACTTGGACATGGTGCAACAACAACTGCGATAGCAGTGGTCGATGA
*
1174653 TCGATTGTCATCTTAGTGATTTAGATCGAACTTGAGAAATGGGGATTTATTTTGTTTAATATGAT
66 TCGATTGTCATCTTAGTGATTTAGATCAAACTTGAGAAATGGGGATTTATTTTGTTTAATATGAT
1174718 TTATTTTTATTTTATGTTGAGATATTAAACTTGGATCTTATATTTTTAATATATGTGTAGAATAT
131 TTATTTTTATTTTATGTTGAGATATTAAACTTGGATCTTATATTTTTAATATATGTGTAGAATAT
* *
1174783 CATGTTTATTCACTTTGCCTTGGTAACTTTGATTGGTTTTGCTTGAGGTTTATTTTTCATCTTGT
196 CATGTTTATTCACTTTGCCTTGGTAACTTTGATTGGTTTTGCTTGAGGTTTATTTTTCATATGGT
* *
1174848 TTTTAGAGATATAAATTGCCTAATAATTCCATGAGAGTGGGTTACATCATGAGTAGCATCAGTGT
261 TTTTAGAGATATAAATTGCCCAATAATTCCATGAGAGTGGGTTACATCATGAGTAGCATCAGCGT
1174913 TTATGAGAGTAACATTTAGCATAAAAGAGATT
326 TTATGAGAGTAACATTTAGCATAAAAGAGATT
* *
1174945 AAATCTTTAGGGAAAATAACACTTGGACATGGTGCAACAACAACTGCGATAGCAGTGGTCGATGA
1 AAATATTTAGGGAAAACAACACTTGGACATGGTGCAACAACAACTGCGATAGCAGTGGTCGATGA
*
1175010 TCGATTGTCATCTTAGTGATTTAGATCAAACTTGTGAAATGGGGATTTATTTTGTTTAATATGAT
66 TCGATTGTCATCTTAGTGATTTAGATCAAACTTGAGAAATGGGGATTTATTTTGTTTAATATGAT
1175075 TTATTTTTATTTTATGTTGAGATATTAAACTTGGATCTTATATTTTTAATATATGTGTAGAATAT
131 TTATTTTTATTTTATGTTGAGATATTAAACTTGGATCTTATATTTTTAATATATGTGTAGAATAT
1175140 CATGTTTATTCACTTTGCCTTGGTAACTTTGATTGGTTTTGCTTGAGGTTTATTTTTCATATGGT
196 CATGTTTATTCACTTTGCCTTGGTAACTTTGATTGGTTTTGCTTGAGGTTTATTTTTCATATGGT
*
1175205 TTTTAGAGATATAAATTGCCCAATAATTCCATGATAGTGGGTTACATCATGAGTAGCATCAGCGT
261 TTTTAGAGATATAAATTGCCCAATAATTCCATGAGAGTGGGTTACATCATGAGTAGCATCAGCGT
1175270 TTATGAGAGTAACATTTAGCATAAAAGAGATT
326 TTATGAGAGTAACATTTAGCATAAAAGAGATT
1175302 TTTACTAACT
Statistics
Matches: 345, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
357 345 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (357 bp):
AAATATTTAGGGAAAACAACACTTGGACATGGTGCAACAACAACTGCGATAGCAGTGGTCGATGA
TCGATTGTCATCTTAGTGATTTAGATCAAACTTGAGAAATGGGGATTTATTTTGTTTAATATGAT
TTATTTTTATTTTATGTTGAGATATTAAACTTGGATCTTATATTTTTAATATATGTGTAGAATAT
CATGTTTATTCACTTTGCCTTGGTAACTTTGATTGGTTTTGCTTGAGGTTTATTTTTCATATGGT
TTTTAGAGATATAAATTGCCCAATAATTCCATGAGAGTGGGTTACATCATGAGTAGCATCAGCGT
TTATGAGAGTAACATTTAGCATAAAAGAGATT
Found at i:1182055 original size:22 final size:19
Alignment explanation
Indices: 1182009--1182056 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
1181999 TATGTACATA
*
1182009 ATGCAAAATATTTTTGTCG
1 ATGCAAAATATTTTTGTAG
*
1182028 AGGCAAAATATTTAGATTGTAG
1 ATGCAAAATATTT---TTGTAG
1182050 ATGCAAA
1 ATGCAAA
1182057 CTCTTAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.52
22 11 0.48
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (19 bp):
ATGCAAAATATTTTTGTAG
Found at i:1194486 original size:254 final size:254
Alignment explanation
Indices: 1194024--1194537 Score: 857
Period size: 254 Copynumber: 2.0 Consensus size: 254
1194014 TGTCTCTTGG
* *
1194024 AGGAAGCTGAACAGTCTCAACAGATGCAAGATTATCAGCCAAAATGTCTTCCAATTTTGGATTCC
1 AGGAAGCTGAACAGACTCAACAGATGCAAGATTATCAGCCAAAATGTCTTCCAATTCTGGATTCC
* * *
1194089 ATATAGACGTGTTTGGGTCCAACAATCAATTGGACATTATTCCTATATCTCTTATATTTCTAATG
66 ATACAGACGTGTTTGGGTCCAACAATCAATTGGACATTATTCCTATATCTCTTAGATTTCCAATG
*
1194154 CCTTTTGAATCACCTCAATCCGATATCGGGAGCTTGAGATATGATCGATTTACTGAAGATAGTGC
131 CCTTTTGAATCACCTCAATCCAATATCGGGAGCTTGAGATATGATCGATTTACTGAAGATAGTGC
1194219 AGGCTGAAATTTTCATTACGGGAATTTCATGCATGGATTATTTGGATGAGTTTGAGCCA
196 AGGCTGAAATTTTCATTACGGGAATTTCATGCATGGATTATTTGGATGAGTTTGAGCCA
* * * **
1194278 AGGAAGTTGAACAGACTCAACAGATGCAAGATTATCAGTCAGAATGTCTTCCAATTCTGGATTTT
1 AGGAAGCTGAACAGACTCAACAGATGCAAGATTATCAGCCAAAATGTCTTCCAATTCTGGATTCC
* *
1194343 ATACAGACGTGTTTGGGTCCAACAATCAATTGGACATTATTCCTCTATCTCTTAGCTTTCCAATG
66 ATACAGACGTGTTTGGGTCCAACAATCAATTGGACATTATTCCTATATCTCTTAGATTTCCAATG
* *
1194408 CCTTTTGAATCACCTCAATCCAATATCGGGAGCTTGCGATATGATCGATTTACTGAAGATAGTGT
131 CCTTTTGAATCACCTCAATCCAATATCGGGAGCTTGAGATATGATCGATTTACTGAAGATAGTGC
* * * *
1194473 AGGCTGGAATTTTCATTATGGGGATTTCATGCATGGATTATTTGGATGAGTTTGTGCCA
196 AGGCTGAAATTTTCATTACGGGAATTTCATGCATGGATTATTTGGATGAGTTTGAGCCA
1194532 AGGAAG
1 AGGAAG
1194538 AGTCCTTTCA
Statistics
Matches: 241, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
254 241 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (254 bp):
AGGAAGCTGAACAGACTCAACAGATGCAAGATTATCAGCCAAAATGTCTTCCAATTCTGGATTCC
ATACAGACGTGTTTGGGTCCAACAATCAATTGGACATTATTCCTATATCTCTTAGATTTCCAATG
CCTTTTGAATCACCTCAATCCAATATCGGGAGCTTGAGATATGATCGATTTACTGAAGATAGTGC
AGGCTGAAATTTTCATTACGGGAATTTCATGCATGGATTATTTGGATGAGTTTGAGCCA
Found at i:1197734 original size:17 final size:17
Alignment explanation
Indices: 1197714--1197772 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1197704 TTTAAGGAAG
1197714 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
1197731 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
1197747 TAATTCATTCATGCATT
1 TAGTTCATTTATGCATC
1197764 TAGTTCATT
1 TAGTTCATT
1197773 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:1197741 original size:33 final size:33
Alignment explanation
Indices: 1197703--1197768 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
1197693 CATGTCTTTC
* * * *
1197703 ATTTAAGGAAGTAGTTCATTTATGCATCTAGTT
1 ATTTAAGAAACTAATTCATTCATGCATCTAGTT
* *
1197736 ATTTAATAAACTAATTCATTCATGCATTTAGTT
1 ATTTAAGAAACTAATTCATTCATGCATCTAGTT
1197769 CATTGAATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (33 bp):
ATTTAAGAAACTAATTCATTCATGCATCTAGTT
Found at i:1197786 original size:18 final size:18
Alignment explanation
Indices: 1197763--1197808 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1197753 ATTCATGCAT
1197763 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
1197781 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
1197799 TTATTTCATT
1 TTAGTTCATT
1197809 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:1199349 original size:291 final size:291
Alignment explanation
Indices: 1198825--1199400 Score: 1035
Period size: 291 Copynumber: 2.0 Consensus size: 291
1198815 GTCGGTCTTG
* * *
1198825 AAGCCTTCATCCATTTCATCCTGTTATAGCGTTGGTTCCTTGGTCTACTATGACTAGTGGGTCAA
1 AAGCCTTCATCCATTTCATCCTATTATAGCGTTGGTTCCTAGGTCTACTATAACTAGTGGGTCAA
1198890 GTTCCACCCTCTATCACTTCGATTCCATCTTTGTTATATTGTTGGTTCCTAACTCATATATAGTT
66 GTTCCACCCTCTATCACTTCGATTCCATCTTTGTTATATTGTTGGTTCCTAACTCATATATAGTT
* *
1198955 AGAGGGTCATAATCCATCTTTTGAATTACAACTATTCTCTACGCCAACCACAAACATCCTTCACC
131 AGAGGGTCATAATCCATCCTTTGAATTACAACCATTCTCTACGCCAACCACAAACATCCTTCACC
* *
1199020 ATTTTCGTTACATCCATTCAACCACTATCACCACCACACTTCTTTCATTTATAATCCACTTCAAC
196 ATTTTCGTTACATCCATTCAACCACTATCACCACCACACTTCTTTCATTTACAATCCAATTCAAC
1199085 TTCATTCTATCATTTCCATTACTTTACACAT
261 TTCATTCTATCATTTCCATTACTTTACACAT
* *
1199116 AAGCCTTCATCCATTTCATCCTATTATAGCGTTGGTTCCTAGGTCTACTATAACTGGTGGGTCAC
1 AAGCCTTCATCCATTTCATCCTATTATAGCGTTGGTTCCTAGGTCTACTATAACTAGTGGGTCAA
* *
1199181 GTTCCACCCTCTATCACTTCGATTTCATCTTTGTTATATTGTTGGTTTCTAACTCATATATAGTT
66 GTTCCACCCTCTATCACTTCGATTCCATCTTTGTTATATTGTTGGTTCCTAACTCATATATAGTT
*
1199246 AGAGGGTCATAATCCATCCTTTGAATTACAACCATTCTCTACGCCAACCACAAACATCCTTTACC
131 AGAGGGTCATAATCCATCCTTTGAATTACAACCATTCTCTACGCCAACCACAAACATCCTTCACC
*
1199311 ATTTTCGTTACATCCATTCAACCACTATCACCACCACACTTCTTTTATTTACAATCCAATTCAAC
196 ATTTTCGTTACATCCATTCAACCACTATCACCACCACACTTCTTTCATTTACAATCCAATTCAAC
1199376 TTCATTCTATCATTTCCATTACTTT
261 TTCATTCTATCATTTCCATTACTTT
1199401 CATACACATA
Statistics
Matches: 272, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
291 272 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (291 bp):
AAGCCTTCATCCATTTCATCCTATTATAGCGTTGGTTCCTAGGTCTACTATAACTAGTGGGTCAA
GTTCCACCCTCTATCACTTCGATTCCATCTTTGTTATATTGTTGGTTCCTAACTCATATATAGTT
AGAGGGTCATAATCCATCCTTTGAATTACAACCATTCTCTACGCCAACCACAAACATCCTTCACC
ATTTTCGTTACATCCATTCAACCACTATCACCACCACACTTCTTTCATTTACAATCCAATTCAAC
TTCATTCTATCATTTCCATTACTTTACACAT
Found at i:1199917 original size:24 final size:25
Alignment explanation
Indices: 1199881--1199932 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
1199871 TTTTCTTTTC
* * *
1199881 TTTTCTTCTTTTTGAGTTCTTGTAA
1 TTTTCTTCGTTTTGAGTGCTTGCAA
1199906 TTTTCTT-GTTTTGAGTGCTTGCAA
1 TTTTCTTCGTTTTGAGTGCTTGCAA
1199930 TTT
1 TTT
1199933 CTTTGATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.62
Consensus pattern (25 bp):
TTTTCTTCGTTTTGAGTGCTTGCAA
Found at i:1204840 original size:2 final size:2
Alignment explanation
Indices: 1204833--1204864 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1204823 ATTCCATGTT
1204833 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1204865 GAAAATGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1205240 original size:85 final size:85
Alignment explanation
Indices: 1205090--1205245 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
1205080 ACATACAATC
* * *
1205090 ATGACACACGAATGTGTGCCATCTTTTCTAATGACGTGTGCTTCAATGACACGCAATGTAAGTCA
1 ATGACACACAAATGTGTGCCATCTTTTCTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCA
1205155 TAAATGTGTGCCATAAATTT
66 TAAATGTGTGCCATAAATTT
* * * *
1205175 ATGACACACAAATGTGTGTCATCTTCATT-T-ATGATGGGGGCTTCAATGACGCGCAATG-AGCG
1 ATGACACACAAATGTGTGCCATCTT--TTCTAATGACGGGGGCTTCAATGACACGCAATGTA-AG
1205237 TCATAAATG
63 TCATAAATG
1205246 CACGTCACAG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
84 1 0.02
85 57 0.93
86 1 0.02
87 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (85 bp):
ATGACACACAAATGTGTGCCATCTTTTCTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCA
TAAATGTGTGCCATAAATTT
Found at i:1211443 original size:11 final size:12
Alignment explanation
Indices: 1211417--1211449 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1211407 ACTCCTACAA
*
1211417 CATCATCATATC
1 CATCACCATATC
1211429 CATCACCAT-TC
1 CATCACCATATC
1211440 CATCACCATA
1 CATCACCATA
1211450 AAGCCATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.27
Consensus pattern (12 bp):
CATCACCATATC
Found at i:1212784 original size:46 final size:46
Alignment explanation
Indices: 1212704--1212889 Score: 293
Period size: 46 Copynumber: 4.1 Consensus size: 46
1212694 AATATAAAAT
* * * *
1212704 TTTTATCAATAAACTTTCCATTT-ATCCTATAAGCTCGTAAGCTTA
1 TTTTACCAATATACTTACCATTTAATCCCATAAGCTCGTAAGCTTA
** **
1212749 TTTTACCAATATACTTAAAATTTAATCTTATAAGCTCGTAAGCTTA
1 TTTTACCAATATACTTACCATTTAATCCCATAAGCTCGTAAGCTTA
1212795 TTTTACCAATATACTTACCATTTAATCCCATAAGCTCGTAAGCTTA
1 TTTTACCAATATACTTACCATTTAATCCCATAAGCTCGTAAGCTTA
1212841 TTTTACCAATATACTTACCATTTAATCCCATAAGCTCGTAAGCTTA
1 TTTTACCAATATACTTACCATTTAATCCCATAAGCTCGTAAGCTTA
1212887 TTT
1 TTT
1212890 CATGGTTACC
Statistics
Matches: 130, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 18 0.14
46 112 0.86
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.40
Consensus pattern (46 bp):
TTTTACCAATATACTTACCATTTAATCCCATAAGCTCGTAAGCTTA
Found at i:1214053 original size:31 final size:32
Alignment explanation
Indices: 1213994--1214053 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
1213984 AAACATTCAC
*
1213994 AACTTTTCCAAAATTGTCAAATTAGTCCCCCT
1 AACTTTTCCAAAATTGTCAAAATAGTCCCCCT
*
1214026 AACTTTT-CAAAATT-TACAAAATGGTCCC
1 AACTTTTCCAAAATTGT-CAAAATAGTCCC
1214054 TAAATTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.04
31 17 0.68
32 7 0.28
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (32 bp):
AACTTTTCCAAAATTGTCAAAATAGTCCCCCT
Found at i:1217493 original size:9 final size:9
Alignment explanation
Indices: 1217479--1217590 Score: 67
Period size: 9 Copynumber: 12.6 Consensus size: 9
1217469 ATCTCTCATT
1217479 TTTTTCTTC
1 TTTTTCTTC
1217488 TTTTTCTT-
1 TTTTTCTTC
* *
1217496 TTTCTTTTTA
1 TTT-TTCTTC
1217506 TTTTTCTTC
1 TTTTTCTTC
*
1217515 TTTCTTTTTC
1 TTT-TTCTTC
1217525 TTCTTTCTT-
1 TT-TTTCTTC
1217534 TTTGTT-TTC
1 TTT-TTCTTC
*
1217543 TTCTT-TTC
1 TTTTTCTTC
1217551 TTTTTCTAT-
1 TTTTTCT-TC
1217560 TTTTTCTAT-
1 TTTTTCT-TC
*
1217569 TTTTTC-TA
1 TTTTTCTTC
*
1217577 TTTTTATTC
1 TTTTTCTTC
1217586 TTTTT
1 TTTTT
1217591 TTTATATTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
7 1 0.01
8 20 0.24
9 47 0.56
10 15 0.18
11 1 0.01
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.79
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:1217496 original size:6 final size:6
Alignment explanation
Indices: 1217485--1217562 Score: 86
Period size: 6 Copynumber: 12.3 Consensus size: 6
1217475 CATTTTTTTC
*
1217485 TTCTTT TTCTTT TTCTTT TTATTT TTCTTCT TTCTTT TTCTTCT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTT-T TTCTTT TTCTT-T TTCTTT
*
1217535 TT-GTT TTCTTCTT TTCTTT TTCTATT TT
1 TTCTTT TTC-T-TT TTCTTT TTCT-TT TT
1217563 TTCTATTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.06
6 36 0.58
7 17 0.27
8 5 0.08
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:1217498 original size:18 final size:17
Alignment explanation
Indices: 1217488--1217590 Score: 91
Period size: 19 Copynumber: 5.6 Consensus size: 17
1217478 TTTTTTCTTC
1217488 TTTTTCTTTTTCTTTTT
1 TTTTTCTTTTTCTTTTT
1217505 ATTTTTCTTCTTTCTTTTT
1 -TTTTTCTT-TTTCTTTTT
*
1217524 CTTCTTTCTTTTTGTTTTCT
1 -TT-TTTCTTTTTCTTTT-T
1217544 TCTTTTCTTTTTCTATTTT
1 T-TTTTCTTTTTCT-TTTT
* *
1217563 TTCTAT-TTTTTCTATTT
1 TT-TTTCTTTTTCTTTTT
*
1217580 TTATTCTTTTT
1 TTTTTCTTTTT
1217591 TTTATATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
16 1 0.01
17 10 0.14
18 16 0.23
19 33 0.46
20 11 0.15
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTTT
Found at i:1217523 original size:31 final size:29
Alignment explanation
Indices: 1217476--1217603 Score: 127
Period size: 29 Copynumber: 4.3 Consensus size: 29
1217466 AGCATCTCTC
1217476 ATTTTTTTC-TTCTTTTTCTTTTTCTTTTT
1 ATTTTTTTCTTTCTTTTTCTTTTT-TTTTT
1217505 ATTTTTCTTCTTTCTTTTTCTTCTTTCTTTTT
1 ATTTTT-TTCTTTCTTTTTCTT-TTT-TTTTT
* * * *
1217537 GTTTTCTTCTTTTCTTTTTCTATTTTTTCT
1 ATTTTTTTC-TTTCTTTTTCTTTTTTTTTT
*
1217567 A-TTTTTTCTATT-TTTATTCTTTTTTTTAT
1 ATTTTTTTCT-TTCTTT-TTCTTTTTTTTTT
1217596 ATTTTTTT
1 ATTTTTTT
1217604 AGCTCTTATG
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.05
29 26 0.31
30 13 0.15
31 17 0.20
32 24 0.29
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.80
Consensus pattern (29 bp):
ATTTTTTTCTTTCTTTTTCTTTTTTTTTT
Found at i:1217574 original size:32 final size:29
Alignment explanation
Indices: 1217477--1217601 Score: 107
Period size: 32 Copynumber: 4.2 Consensus size: 29
1217467 GCATCTCTCA
*
1217477 TTTTT-TTC-TTCTTTTTCTTTTTCTTTTT
1 TTTTTCTTCTTTCTTTTTCTTTTT-TTTAT
1217505 ATTTTTCTTCTTTCTTTTTCTTCTTTCTTT-T
1 -TTTTTCTTCTTTCTTTTTCTT-TTT-TTTAT
1217536 TGTTTTCTTCTTTTCTTTTTCTATTTTTTCTAT
1 T-TTTTCTTC-TTTCTTTTTCT-TTTTTT-TAT
* *
1217569 TTTTTC-TATTT-TTATTCTTTTTTTTAT
1 TTTTTCTTCTTTCTTTTTCTTTTTTTTAT
1217596 ATTTTT
1 -TTTTT
1217602 TTAGCTCTTA
Statistics
Matches: 85, Mismatches: 2, Indels: 19
0.80 0.02 0.18
Matches are distributed among these distances:
27 3 0.04
28 11 0.13
29 11 0.13
30 7 0.08
31 23 0.27
32 27 0.32
33 3 0.04
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.80
Consensus pattern (29 bp):
TTTTTCTTCTTTCTTTTTCTTTTTTTTAT
Found at i:1217591 original size:18 final size:18
Alignment explanation
Indices: 1217551--1217602 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 18
1217541 TCTTCTTTTC
1217551 TTTTTCTATTTTTTCTAT
1 TTTTTCTATTTTTTCTAT
*
1217569 TTTTTCTATTTTTATTCTTT
1 TTTTTCTA-TTTT-TTCTAT
*
1217589 TTTTTATATTTTTT
1 TTTTTCTATTTTTT
1217603 TAGCTCTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 10 0.33
19 8 0.27
20 12 0.40
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTCTATTTTTTCTAT
Found at i:1217600 original size:9 final size:9
Alignment explanation
Indices: 1217551--1217602 Score: 68
Period size: 9 Copynumber: 5.6 Consensus size: 9
1217541 TCTTCTTTTC
1217551 TTTTTCTAT
1 TTTTTCTAT
1217560 TTTTTCTAT
1 TTTTTCTAT
1217569 TTTTTCTATT
1 TTTTTCTA-T
*
1217579 TTTATTCTTT
1 TTT-TTCTAT
*
1217589 TTTTTATAT
1 TTTTTCTAT
1217598 TTTTT
1 TTTTT
1217603 TAGCTCTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 26 0.68
10 8 0.21
11 4 0.11
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTAT
Found at i:1217612 original size:29 final size:29
Alignment explanation
Indices: 1217549--1217612 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
1217539 TTTCTTCTTT
* * *
1217549 TCTTTTTCTATTTTTTCTATTTTTTCTAT
1 TCTTATTCTATTTTTTATATTTTTTCTAC
* *
1217578 TTTTATTCTTTTTTTTATATTTTTT-TAGC
1 TCTTATTCTATTTTTTATATTTTTTCTA-C
1217607 TCTTAT
1 TCTTAT
1217613 GCCATATGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.12, C:0.11, G:0.02, T:0.75
Consensus pattern (29 bp):
TCTTATTCTATTTTTTATATTTTTTCTAC
Found at i:1218754 original size:13 final size:13
Alignment explanation
Indices: 1218738--1218762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1218728 GAAGTTTCTT
1218738 TTTATTTTATTTC
1 TTTATTTTATTTC
1218751 TTTATTTTATTT
1 TTTATTTTATTT
1218763 TAATCATAAT
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:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTC
Found at i:1219362 original size:18 final size:18
Alignment explanation
Indices: 1219341--1219393 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 18
1219331 GACTATTTTG
1219341 CTTTGAGAATGTATTCAT
1 CTTTGAGAATGTATTCAT
*
1219359 CTTT--GACTGT-TT--T
1 CTTTGAGAATGTATTCAT
1219372 GCTTTGAGAATGTATTCAT
1 -CTTTGAGAATGTATTCAT
1219391 CTT
1 CTT
1219394 CCCTGATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
13 1 0.04
14 4 0.15
15 2 0.07
16 10 0.37
17 2 0.07
18 7 0.26
19 1 0.04
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (18 bp):
CTTTGAGAATGTATTCAT
Found at i:1219372 original size:32 final size:32
Alignment explanation
Indices: 1219331--1219393 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1219321 ATCTCTAAAC
1219331 GACTATTTTGCTTTGAGAATGTATTCATCTTT
1 GACTATTTTGCTTTGAGAATGTATTCATCTTT
*
1219363 GACTGTTTTGCTTTGAGAATGTATTCATCTT
1 GACTATTTTGCTTTGAGAATGTATTCATCTT
1219394 CCCTGATGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (32 bp):
GACTATTTTGCTTTGAGAATGTATTCATCTTT
Found at i:1222928 original size:16 final size:16
Alignment explanation
Indices: 1222903--1222941 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
1222893 AAAATATGAC
1222903 TTTTCAGAAATTTGGAA
1 TTTTC-GAAATTTGGAA
1222920 TTTTCGAAATTTGGAA
1 TTTTCGAAATTTGGAA
1222936 TTTTCG
1 TTTTCG
1222942 GTCAAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (16 bp):
TTTTCGAAATTTGGAA
Found at i:1225204 original size:32 final size:32
Alignment explanation
Indices: 1225166--1225242 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
1225156 TGGGGTCGTG
* *
1225166 GGGCCTACCTAAGAACAT-ATCTTAGGGCCGTA
1 GGGCCTACCTAAGAA-ATGATCTCAGGGCCGCA
**
1225198 GGGCCTACCCGAG-AATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAATGATCTCAGGGCCGCA
*
1225229 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
1225243 GTCACATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
30 2 0.06
31 23 0.64
32 11 0.31
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (32 bp):
GGGCCTACCTAAGAAATGATCTCAGGGCCGCA
Found at i:1228129 original size:17 final size:18
Alignment explanation
Indices: 1228095--1228134 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
1228085 GCCGGGCAAC
*
1228095 GGTCAACAGGTTGGGTCG
1 GGTCAACAGGTCGGGTCG
1228113 GGTCAAC-GGTCGGGTCG
1 GGTCAACAGGTCGGGTCG
1228130 GGTCA
1 GGTCA
1228135 GGTTGTGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.15, C:0.20, G:0.45, T:0.20
Consensus pattern (18 bp):
GGTCAACAGGTCGGGTCG
Found at i:1235099 original size:18 final size:19
Alignment explanation
Indices: 1235076--1235128 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
1235066 AAGGATTATC
1235076 AGTGGTCCTTCGGA-ACAT
1 AGTGGTCCTTCGGAGACAT
*
1235094 AGTGGTCCTTC-AAGACAT
1 AGTGGTCCTTCGGAGACAT
*
1235112 AGTTGTCCTTCGG-GACA
1 AGTGGTCCTTCGGAGACA
1235129 AATATTCAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 29 0.97
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (19 bp):
AGTGGTCCTTCGGAGACAT
Found at i:1237716 original size:23 final size:24
Alignment explanation
Indices: 1237662--1237719 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
1237652 GGTGAATTGG
1237662 AAATTAAATTTTTTTGGAAGCTTA
1 AAATTAAATTTTTTTGGAAGCTTA
1237686 AAATTAAATTTTTTTGGAAGCTTA
1 AAATTAAATTTTTTTGGAAGCTTA
*
1237710 AAATAAAATT
1 AAATTAAATT
1237720 GTAAACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (24 bp):
AAATTAAATTTTTTTGGAAGCTTA
Found at i:1248605 original size:30 final size:31
Alignment explanation
Indices: 1248556--1248624 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
1248546 TCACCTATGG
*
1248556 CTAGCTCACCTCCAACTCATTCACCCTAAAA
1 CTAGCTCACATCCAACTCATTCACCCTAAAA
* * *
1248587 CTAGCT-ACATCCAGCTCATTCACTCTAGAA
1 CTAGCTCACATCCAACTCATTCACCCTAAAA
1248617 CTAGCTCA
1 CTAGCTCA
1248625 AACATTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.30, C:0.38, G:0.07, T:0.25
Consensus pattern (31 bp):
CTAGCTCACATCCAACTCATTCACCCTAAAA
Found at i:1249323 original size:22 final size:20
Alignment explanation
Indices: 1249298--1249343 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
1249288 TATTGGTACC
*
1249298 ATACCATAGTATGGTAGTATCG
1 ATACCATAGTAAGG--GTATCG
*
1249320 ATACCATGGTAAGGGTATCG
1 ATACCATAGTAAGGGTATCG
1249340 ATAC
1 ATAC
1249344 TAGGCAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (20 bp):
ATACCATAGTAAGGGTATCG
Found at i:1250405 original size:59 final size:59
Alignment explanation
Indices: 1249768--1250402 Score: 968
Period size: 59 Copynumber: 10.8 Consensus size: 59
1249758 ATGGCACTAA
1249768 GTGTGCTAAAATGGTAAGGAAATT-ATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGG-AATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * * * *
1249827 ATGTGCTAAAATGGTAAGGAAATCATACAAATTGTATGAATTTCCAAATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * *
1249886 GTGTGCTAAAATGGAAAGGAAATCATACTAAGTGTATGAATTTCCAGATA-GGCACTTG
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
*
1249944 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* *
1250003 ATGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * *
1250062 GTGTGGTAAAAAGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* ** *
1250121 GTGTGCTAAACTATTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* ** *
1250180 GTGTGCTAAACTATTAAGGAATTCTTACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * *
1250239 GTGTGCTAAACTGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * * *
1250298 GTGTGCTAAAGTGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTT
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* *
1250357 GTGTGCTAAACTGTTAAGGAATTCATACTAAGTGTATGAATTTCCA
1 GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCA
1250403 TATGGGAATT
Statistics
Matches: 542, Mismatches: 32, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
58 59 0.11
59 483 0.89
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (59 bp):
GTGTGCTAAAATGGTAAGGAATTCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
Found at i:1250795 original size:68 final size:68
Alignment explanation
Indices: 1250679--1250808 Score: 179
Period size: 68 Copynumber: 1.9 Consensus size: 68
1250669 AATAAAATAT
* * ** * *
1250679 TTGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATACCAGTTAGATGAAATGTTAAGTG
1 TTGAGGCCTAACTGTGCATTTGATAGAAAAGTATCAACCATACCAGTTAAATGAAAGGTTAAGTG
1250744 CTC
66 CTC
* * *
1250747 TTGAGGCCTAGCTGTGCATTTGATAGAAAAGTATCAACCATGCTAGTTAAATGAAAGGTTAA
1 TTGAGGCCTAACTGTGCATTTGATAGAAAAGTATCAACCATACCAGTTAAATGAAAGGTTAA
1250809 ATGCCTTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (68 bp):
TTGAGGCCTAACTGTGCATTTGATAGAAAAGTATCAACCATACCAGTTAAATGAAAGGTTAAGTG
CTC
Found at i:1252803 original size:59 final size:59
Alignment explanation
Indices: 1252736--1253347 Score: 1019
Period size: 59 Copynumber: 10.4 Consensus size: 59
1252726 GTATTAAATG
*
1252736 ACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAAACTGTTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
* * * *
1252795 ACTAAGTGTATGAATTTCCATACAGAGCACTTCGTATGCTAAACTATTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
* * * * *
1252854 ACTAAGTGTATGAATTTCCATACAGTGCACTTCATATGCTAAACTGTTAAGGAATTCAA
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
* *
1252913 ACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAATTGTTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
* *
1252972 ACTACGTGTATGAATTTCCAGATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1253031 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
* * *
1253090 ACTAAGTGTATGAATTTCCATACATGGCACTTCGTGTGCTAAACTATTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1253149 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1253208 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
* * * * *
1253267 ACTAAGTGTATGAA-TTCCATACATGGTACTTCGTATGCTAAACTATTAAGGAATTCAT
1 ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
1253325 ACTAAGTGTATGAATTTCCATAT
1 ACTAAGTGTATGAATTTCCATAT
1253348 GGGAAATGTG
Statistics
Matches: 520, Mismatches: 32, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
58 53 0.10
59 467 0.90
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (59 bp):
ACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAACTGTTAAGGAATTCAT
Found at i:1254256 original size:25 final size:24
Alignment explanation
Indices: 1254222--1254270 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1254212 ACCATATAAG
* *
1254222 GAAAATGTTAAAAAAATCTAACCAA
1 GAAAAGGTT-AAAAAACCTAACCAA
*
1254247 GAAAAGGTTAACAAACCTAACCAA
1 GAAAAGGTTAAAAAACCTAACCAA
1254271 ATAAACTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.57, C:0.16, G:0.10, T:0.16
Consensus pattern (24 bp):
GAAAAGGTTAAAAAACCTAACCAA
Found at i:1254618 original size:22 final size:23
Alignment explanation
Indices: 1254584--1254638 Score: 103
Period size: 22 Copynumber: 2.4 Consensus size: 23
1254574 AAAAATATGA
1254584 CATAAAGACAGAAGAAGACGTGT
1 CATAAAGACAGAAGAAGACGTGT
1254607 CATAAA-ACAGAAGAAGACGTGT
1 CATAAAGACAGAAGAAGACGTGT
1254629 CATAAAGACA
1 CATAAAGACA
1254639 TAATTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.51, C:0.15, G:0.22, T:0.13
Consensus pattern (23 bp):
CATAAAGACAGAAGAAGACGTGT
Found at i:1255158 original size:14 final size:14
Alignment explanation
Indices: 1255123--1255166 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1255113 ATATGTGAGT
1255123 AAAATATATTT-TA
1 AAAATATATTTATA
*
1255136 AAGATATATTTATA
1 AAAATATATTTATA
*
1255150 AAAACATATTTAATA
1 AAAATATATTT-ATA
1255165 AA
1 AA
1255167 TAAATACAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 10 0.38
14 11 0.42
15 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
AAAATATATTTATA
Found at i:1257652 original size:59 final size:60
Alignment explanation
Indices: 1257510--1257641 Score: 185
Period size: 59 Copynumber: 2.2 Consensus size: 60
1257500 ACATAAAGTT
*
1257510 ATCGGGTGACCATTTTATAACTTTTAATAGTCGAGGGACTCAAAAAAGCAACAACCTATA
1 ATCGGGAGACCATTTTATAACTTTTAATAGTCGAGGGACTCAAAAAAGCAACAACCTATA
* * ****
1257570 ATCGGAAGACCATTTTATAACTTTTAATAGTCG-GGGACTCAACAAAGCAGTGTCCTATA
1 ATCGGGAGACCATTTTATAACTTTTAATAGTCGAGGGACTCAAAAAAGCAACAACCTATA
*
1257629 GTCGGGAGACCAT
1 ATCGGGAGACCAT
1257642 CTGTATACTT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
59 32 0.51
60 31 0.49
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (60 bp):
ATCGGGAGACCATTTTATAACTTTTAATAGTCGAGGGACTCAAAAAAGCAACAACCTATA
Found at i:1265081 original size:13 final size:13
Alignment explanation
Indices: 1265063--1265096 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1265053 GTCATAAATC
*
1265063 TATGACGTGCATT
1 TATGACGCGCATT
1265076 TATGACGCGCATT
1 TATGACGCGCATT
1265089 TATGACGC
1 TATGACGC
1265097 TCAATGCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1274208 original size:20 final size:20
Alignment explanation
Indices: 1274183--1274232 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1274173 ATTCAATCAA
*
1274183 TATCGATACCGAAGGGCGA-G
1 TATCGATACCGAAGGG-AATG
1274203 TATCGATACCGAAGGGAATG
1 TATCGATACCGAAGGGAATG
1274223 TATCGATACC
1 TATCGATACC
1274233 ATTCAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (20 bp):
TATCGATACCGAAGGGAATG
Found at i:1274280 original size:19 final size:21
Alignment explanation
Indices: 1274256--1274309 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
1274246 TGCAAAAATG
1274256 GTATCGATACCATA-AT-ATA
1 GTATCGATACCATAGATGATA
* * *
1274275 GTATCGGTGCCATAGTGTGATA
1 GTATCGATACCATAG-ATGATA
1274297 GTATCGATACCAT
1 GTATCGATACCAT
1274310 GGTATGTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 12 0.44
21 1 0.04
22 14 0.52
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (21 bp):
GTATCGATACCATAGATGATA
Found at i:1274787 original size:42 final size:43
Alignment explanation
Indices: 1274735--1274831 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
1274725 GTTTGTGAAC
* * * *
1274735 AAAAAGCGCCGCAATAGGTCAAGCTCT-TAGCAACGTTTTTAAG
1 AAAAA-CGCCGCAAAAGATCAAGATCTATACCAACGTTTTTAAG
*** *
1274778 AAAAACGCCGCAAAAGATCAAGATCTATACCGGTGTTTTTGAG
1 AAAAACGCCGCAAAAGATCAAGATCTATACCAACGTTTTTAAG
1274821 AAAAACGCCGC
1 AAAAACGCCGC
1274832 TACATGTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 18 0.40
43 27 0.60
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCAAAAGATCAAGATCTATACCAACGTTTTTAAG
Found at i:1278462 original size:42 final size:41
Alignment explanation
Indices: 1278340--1278853 Score: 509
Period size: 41 Copynumber: 12.5 Consensus size: 41
1278330 AGAACTCAAG
* * *
1278340 CGAGTCTATAGCGGCGTTTTTATAAAAATGCCACTAAAGCA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
* *
1278381 CGAGTCTATAGCGGCGTTTGTATAAAAATACCACTAAAGTA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
1278422 CGAGTCTTTAGCGGCGTTTGTATTAAAAATGCCACTAAAGTA
1 CGAGTCTTTAGCGGCGTTTGTA-TAAAAATGCCACTAAAGTA
* **
1278464 CCAGTCTTTAGCGGCGTTTGTATTAAAAACACCACTAAAGTA
1 CGAGTCTTTAGCGGCGTTTGTA-TAAAAATGCCACTAAAGTA
1278506 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
* * * * *
1278547 CGTGTCTTTAGCGGCATTTGTAGGAAAAA-GAACACTAAATTA
1 CGAGTCTTTAGCGGCGTTTGTA-TAAAAATG-CCACTAAAGTA
* * * * ** * *
1278589 CTAGT-TTATAGCGGCATTTTTATATAAACACCAATAAATTA
1 CGAGTCTT-TAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
* * * * ** *
1278630 CGAGTATATAGTGGCGTTTGAATAAAAACACCGCTAAAGTA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
* * * **
1278671 -TAGTCTTTAGCGGAGTTTTTATTAAAAACACCACTAAAGTA
1 CGAGTCTTTAGCGGCGTTTGTA-TAAAAATGCCACTAAAGTA
* * * * ***
1278712 TGTGT-TTTAGCGACGTTTGTTCTAAAAATGCTGTTAAAGTA
1 CGAGTCTTTAGCGGCGTTTG-TATAAAAATGCCACTAAAGTA
* * *
1278753 C-AGTCTTTAGCAGCGTTTGTATAAAAATGTCACTAACGTA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
*
1278793 C-AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
**
1278833 CGAGTAGTTAGCGGCGTTTGT
1 CGAGTCTTTAGCGGCGTTTGT
1278854 TCTAAAACAC
Statistics
Matches: 393, Mismatches: 69, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
40 68 0.17
41 213 0.54
42 112 0.28
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (41 bp):
CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTA
Found at i:1278478 original size:83 final size:82
Alignment explanation
Indices: 1278340--1278853 Score: 534
Period size: 83 Copynumber: 6.3 Consensus size: 82
1278330 AGAACTCAAG
* * * *
1278340 CGAGTCTATAGCGGCGTTTTTATAAAAATGCCACTAAAGCACGAGTCTATAGCGGCGTTTGTATA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATA
*
1278405 AAAATACCACTAAAGTA
66 AAAACACCACTAAAGTA
*
1278422 CGAGTCTTTAGCGGCGTTTGTATTAAAAATGCCACTAAAGTACCAGTCTTTAGCGGCGTTTGTAT
1 CGAGTCTTTAGCGGCGTTTGTA-TAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTA-
1278487 TAAAAACACCACTAAAGTA
64 TAAAAACACCACTAAAGTA
* * *
1278506 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGTGTCTTTAGCGGCATTTGTAGG
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTA-T
* * *
1278571 AAAAAGAACACTAAATTA
65 AAAAACACCACTAAAGTA
* * * * ** * * * * * *
1278589 CTAGT-TTATAGCGGCATTTTTATATAAACACCAATAAATTACGAGTATATAGTGGCGTTTGAAT
1 CGAGTCTT-TAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTAT
*
1278653 AAAAACACCGCTAAAGTA
65 AAAAACACCACTAAAGTA
* * * ** * * * *
1278671 -TAGTCTTTAGCGGAGTTTTTATTAAAAACACCACTAAAGTATGTGT-TTTAGCGACGTTTGTTC
1 CGAGTCTTTAGCGGCGTTTGTA-TAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTG-TA
** ***
1278734 TAAAAATGCTGTTAAAGTA
64 TAAAAACACCACTAAAGTA
* * *
1278753 C-AGTCTTTAGCAGCGTTTGTATAAAAATGTCACTAACGTAC-AGTCTTTAGCGGCGTTTGTATA
1 CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATA
*
1278816 AAAACGCCACTAAAGTA
66 AAAACACCACTAAAGTA
**
1278833 CGAGTAGTTAGCGGCGTTTGT
1 CGAGTCTTTAGCGGCGTTTGT
1278854 TCTAAAACAC
Statistics
Matches: 356, Mismatches: 67, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
80 19 0.05
81 71 0.20
82 89 0.25
83 137 0.38
84 40 0.11
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (82 bp):
CGAGTCTTTAGCGGCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATA
AAAACACCACTAAAGTA
Found at i:1279218 original size:54 final size:54
Alignment explanation
Indices: 1278956--1279201 Score: 384
Period size: 54 Copynumber: 4.6 Consensus size: 54
1278946 TTACCAAATA
*
1278956 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTT
1 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
1279010 GGCACTAAGTGTGCATTTCACGGAATTCATCCAAGGTGGATGAATAACCATTTC
1 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
1279064 GACACTAAGTGTGCATTTCTCGGAATTCATCCTATGTGGATGAATAACTGTTTC
1 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
1279118 GACACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTT
1 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* **
1279172 GGCACTAAGTGTGCATTTCACAAAATTCAT
1 GACACTAAGTGTGCATTTCACGGAATTCAT
1279202 AATATGTTTA
Statistics
Matches: 173, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 173 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (54 bp):
GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:1284690 original size:20 final size:20
Alignment explanation
Indices: 1284665--1284704 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1284655 TGGAGGAACC
1284665 TGTAGAATTAAAGGTAACGA
1 TGTAGAATTAAAGGTAACGA
1284685 TGTAGAATTAAAGGTAACGA
1 TGTAGAATTAAAGGTAACGA
1284705 CAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (20 bp):
TGTAGAATTAAAGGTAACGA
Found at i:1287315 original size:103 final size:103
Alignment explanation
Indices: 1287136--1287330 Score: 293
Period size: 103 Copynumber: 1.9 Consensus size: 103
1287126 TCACATGAAT
** *
1287136 ACTCTACTTGACTAACTCAGGGGTGGAAGGTATGCTCCTTTCACTTAGAGTGTGGGATGGTACTG
1 ACTCTACCCGACTAACTCAGGGGTAGAAGGTATGCTCCTTTCACTTAGAGTGTGGGATGGTACTG
*
1287201 TGATGAGCTGACTCACCTTAAA-TATGTTTTAAAAAAA
66 TGATGAACTGACTCACCTTAAAGTATGTTTTAAAAAAA
* * * *
1287238 ACTCTACCCGACTAGCTTAGGGGTAGAAGGTATGCTATCTTTCACTTAGAGTGTGGGATGGTAGT
1 ACTCTACCCGACTAACTCAGGGGTAGAAGGTATGCT-CCTTTCACTTAGAGTGTGGGATGGTACT
*
1287303 GTGATGAACTGACTCCCCTTAAAGTATG
65 GTGATGAACTGACTCACCTTAAAGTATG
1287331 CTAAAAAAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 31 0.38
103 47 0.57
104 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (103 bp):
ACTCTACCCGACTAACTCAGGGGTAGAAGGTATGCTCCTTTCACTTAGAGTGTGGGATGGTACTG
TGATGAACTGACTCACCTTAAAGTATGTTTTAAAAAAA
Found at i:1304569 original size:21 final size:22
Alignment explanation
Indices: 1304545--1304588 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
1304535 GTGAAAAGGC
*
1304545 TTAATCTTTTTATGAA-AGAAT
1 TTAATCTTTTCATGAATAGAAT
1304566 TTAATCTTTTCATGAATAGAAT
1 TTAATCTTTTCATGAATAGAAT
1304588 T
1 T
1304589 GTTGAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (22 bp):
TTAATCTTTTCATGAATAGAAT
Found at i:1307663 original size:14 final size:14
Alignment explanation
Indices: 1307625--1307664 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1307615 AATGGGGAGT
* *
1307625 AATCCCTGCAAATA
1 AATCCCTGCATAGA
1307639 AATCCCTGCATAGA
1 AATCCCTGCATAGA
*
1307653 AATCTCTGCATA
1 AATCCCTGCATA
1307665 TAGACAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.25
Consensus pattern (14 bp):
AATCCCTGCATAGA
Found at i:1314213 original size:15 final size:15
Alignment explanation
Indices: 1314195--1314280 Score: 63
Period size: 15 Copynumber: 5.8 Consensus size: 15
1314185 AACTATTTTT
1314195 ATAATTCATGTTTAA
1 ATAATTCATGTTTAA
* *
1314210 ATAATTAATATTTAA
1 ATAATTCATGTTTAA
*
1314225 AT--TTTA-GTAGTTAA
1 ATAATTCATGT--TTAA
1314239 ATAATTCATGTTTAA
1 ATAATTCATGTTTAA
* * *
1314254 ATACTTAAT-TATAAA
1 ATAATTCATGT-TTAA
1314269 ATAATTCATGTT
1 ATAATTCATGTT
1314281 GATAAGTATT
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
12 1 0.02
13 3 0.06
14 7 0.13
15 37 0.69
16 4 0.07
17 2 0.04
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (15 bp):
ATAATTCATGTTTAA
Found at i:1315301 original size:2 final size:2
Alignment explanation
Indices: 1315290--1315318 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1315280 CAAATTACAA
1315290 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1315319 TGTTGTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1320292 original size:15 final size:16
Alignment explanation
Indices: 1320263--1320295 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1320253 TATTCTCATA
1320263 TTAAATTCCTTTTTATT
1 TTAAATTCC-TTTTATT
1320280 TTAAATTCC-TTTATT
1 TTAAATTCCTTTTATT
1320295 T
1 T
1320296 ATTCTTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAAATTCCTTTTATT
Found at i:1320479 original size:38 final size:37
Alignment explanation
Indices: 1320437--1320639 Score: 121
Period size: 36 Copynumber: 5.5 Consensus size: 37
1320427 AAATACGTAT
1320437 ATATATAATTTTTAAAAACATTTTAGAACATATATATA
1 ATATATAATTTTTAAAAACATTTTAGAA-ATATATATA
* **
1320475 ATATATATAGTTATT-AAAATGTTTTA-AAA-ATATATA
1 ATATATA-A-TTTTTAAAAACATTTTAGAAATATATATA
* * * *
1320511 ATATATAGTTTTTTTTAAAACATTTTTGAAA-ACATATA
1 ATATATA--ATTTTTAAAAACATTTTAGAAATATATATA
* * * * *
1320549 CTATATAGTTTTGAAAATA-TTTTTA-AAGTATATATA
1 ATATATAATTTTTAAAA-ACATTTTAGAAATATATATA
* * * * *
1320585 ATATATAGTTTTTGAAAGCATTTTTGAAAATCTATATA
1 ATATATAATTTTTAAAAACATTTTAG-AAATATATATA
* * *
1320623 TTATATAGTTTTGAAAA
1 ATATATAATTTTTAAAA
1320640 CGTTTTTGAA
Statistics
Matches: 127, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
35 2 0.02
36 53 0.42
37 11 0.09
38 47 0.37
39 10 0.08
40 4 0.03
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
ATATATAATTTTTAAAAACATTTTAGAAATATATATA
Found at i:1320591 original size:36 final size:36
Alignment explanation
Indices: 1320401--1320741 Score: 184
Period size: 38 Copynumber: 9.1 Consensus size: 36
1320391 ATCTATATGT
** *
1320401 TATATAG-TTTGCAAATGATTTTTGAAAAATACGTAT-A
1 TATATAGTTTTG-AAAACATTTTTGAAATATA--TATAA
* * *
1320438 TATATAATTTTTAAAAACATTTTAGAACATATATATAATA
1 TATAT-AGTTTTGAAAACATTTTTGAA-ATATATAT-A-A
*
1320478 TATATAGTTATT--AAA-ATGTTTT-AAAAATATATAA
1 TATATAGTT-TTGAAAACAT-TTTTGAAATATATATAA
* * *
1320512 TATATAGTTTTTTTTAAAACATTTTTGAAA-ACATATAC
1 TATATAG---TTTTGAAAACATTTTTGAAATATATATAA
*
1320550 TATATAGTTTTGAAAATATTTTT-AAAGTATATATAA
1 TATATAGTTTTGAAAACATTTTTGAAA-TATATATAA
* * *
1320586 TATATAGTTTTTGAAAGCATTTTTGAAAATCTATATAT
1 TATATAG-TTTTGAAAACATTTTTG-AAATATATATAA
* * *
1320624 TATATAGTTTTGAAAACGTTTTTGAAAACATTTATATAT
1 TATATAGTTTTGAAAACATTTTTG--AA-ATATATATAA
* * *
1320663 TATATAGTTTTAAAAAAACGTTTTTGAAAACTTATAAATAA
1 TATATAGTTTT--GAAAACATTTTTG-AAA--TATATATAA
* *
1320704 TATAGAG-TTTAAAAATCA-TTTTGAAATATAT-T-A
1 TATATAGTTTTGAAAA-CATTTTTGAAATATATATAA
1320737 TATAT
1 TATAT
1320742 CATATTATTA
Statistics
Matches: 247, Mismatches: 30, Indels: 58
0.74 0.09 0.17
Matches are distributed among these distances:
33 5 0.02
34 12 0.05
35 19 0.08
36 22 0.09
37 46 0.19
38 65 0.26
39 40 0.16
40 14 0.06
41 24 0.10
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
TATATAGTTTTGAAAACATTTTTGAAATATATATAA
Found at i:1320646 original size:74 final size:73
Alignment explanation
Indices: 1320391--1320692 Score: 265
Period size: 74 Copynumber: 4.0 Consensus size: 73
1320381 TATATATTAT
* * * *
1320391 ATCTATATGTTATATAG-TTTGCAAATGATTTTTGAAAAATACGTAT-ATATATAATTTTTAAAA
1 ATCTATATATTATATAGTTTTGAAAATG-TTTTT-AAATATA--TATAATATATAGTTTTTAAAA
* *
1320454 ACATTTTAGAAC
62 ACATTTTTGAAA
* * *
1320466 ATATATATAATATATATAGTTATT-AAAATG-TTTTAAAAATATATAATATATAGTTTTTTTTAA
1 ATCTATAT-AT-TATATAGTT-TTGAAAATGTTTTTAAATATATATAATATATAG--TTTTTAAA
1320529 AACATTTTTGAAA
61 AACATTTTTGAAA
* * * *
1320542 A-C-ATATACTATATAGTTTTGAAAATATTTTTAAAGTATATATAATATATAGTTTTTGAAAGCA
1 ATCTATATATTATATAGTTTTGAAAATGTTTTTAAA-TATATATAATATATAGTTTTTAAAAACA
1320605 TTTTTGAAA
65 TTTTTGAAA
* * * *
1320614 ATCTATATATTATATAGTTTTGAAAACGTTTTTGAAAACATTTATATATTATATAGTTTTAAAAA
1 ATCTATATATTATATAGTTTTGAAAATGTTTTT---AA-ATATATATAATATATAGTTTT-TAAA
*
1320679 AACGTTTTTGAAA
61 AACATTTTTGAAA
1320692 A
1 A
1320693 CTTATAAATA
Statistics
Matches: 188, Mismatches: 22, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
71 2 0.01
72 34 0.18
73 12 0.06
74 52 0.28
75 14 0.07
76 24 0.13
77 27 0.14
78 21 0.11
79 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (73 bp):
ATCTATATATTATATAGTTTTGAAAATGTTTTTAAATATATATAATATATAGTTTTTAAAAACAT
TTTTGAAA
Found at i:1320681 original size:41 final size:40
Alignment explanation
Indices: 1320636--1320718 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 40
1320626 TATAGTTTTG
* * *
1320636 AAAACGTTTTTGAAAACATTTATATATTATATAG-TTTTAAA
1 AAAACGTTTTTGAAAAC--TTATAAATAATATAGAGTTTAAA
1320677 AAAACGTTTTTGAAAACTTATAAATAATATAGAGTTTAAA
1 AAAACGTTTTTGAAAACTTATAAATAATATAGAGTTTAAA
1320717 AA
1 AA
1320719 TCATTTTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 13 0.34
40 8 0.21
41 17 0.45
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (40 bp):
AAAACGTTTTTGAAAACTTATAAATAATATAGAGTTTAAA
Found at i:1320698 original size:39 final size:38
Alignment explanation
Indices: 1320527--1320729 Score: 161
Period size: 39 Copynumber: 5.4 Consensus size: 38
1320517 AGTTTTTTTT
* *
1320527 AAAACATTTTTGAAAAC--ATATACTATATAGTTTT-G
1 AAAACATTTTTGAAAACTTATATATTATATAGTTTTAA
* * * **
1320562 AAAATATTTTT--AAAGTATATATAATATATAGTTTTTG
1 AAAACATTTTTGAAAACT-TATATATTATATAGTTTTAA
* *
1320599 AAAGCATTTTTGAAAA-TCTATATATTATATAGTTTT-G
1 AAAACATTTTTGAAAACT-TATATATTATATAGTTTTAA
*
1320636 AAAACGTTTTTGAAAACATTTATATATTATATAGTTTTAAA
1 AAAACATTTTTGAAAAC--TTATATATTATATAGTTTT-AA
* * * *
1320677 AAAACGTTTTTGAAAACTTATAAATAATATAGAGTTTAA
1 AAAACATTTTTGAAAACTTATATATTATATAG-TTTTAA
*
1320716 AAATCA-TTTTGAAA
1 AAAACATTTTTGAAA
1320730 TATATTATAT
Statistics
Matches: 141, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
33 3 0.02
35 10 0.07
36 16 0.11
37 25 0.18
38 26 0.18
39 40 0.28
40 4 0.03
41 17 0.12
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (38 bp):
AAAACATTTTTGAAAACTTATATATTATATAGTTTTAA
Found at i:1322152 original size:15 final size:15
Alignment explanation
Indices: 1322132--1322160 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1322122 ATACATATTT
1322132 TTTATTTTTTTTCGG
1 TTTATTTTTTTTCGG
1322147 TTTATTTTTTTTCG
1 TTTATTTTTTTTCG
1322161 TACCATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (15 bp):
TTTATTTTTTTTCGG
Found at i:1326362 original size:84 final size:84
Alignment explanation
Indices: 1326209--1326931 Score: 712
Period size: 84 Copynumber: 8.7 Consensus size: 84
1326199 TTAAGAAAAT
* * *
1326209 ATTTACAGCATAACTCAATGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
1326273 CTCAGCTGCAAGGCACACC
66 CTCAGCTCCAAGGCACATC
* * * * * *
1326292 ATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
1326357 TTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * ** * *
1326376 ATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGGCCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
1326441 CTCAGCTCCAAGGCGCATC
66 CTCAGCTCCAAGGCACATC
* * * * * *
1326460 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT----ACCAAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
1326521 CTCAGCTTCAAGGGCATATC
66 CTCAGCTCCAA-GGCACATC
* * * *
1326541 ATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
1326605 GCTCAGCTCCAAGGCACATC
65 GCTCAGCTCCAAGGCACATC
* * * * * * * * * *
1326625 ATTTGTAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* ** *
1326690 CTTAGCTTTGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * ** ** * **
1326710 ATTTGCAACATAGCTCAAGGTAAGAAGGACTATTTGCCAATAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
1326775 CTCA---ACAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* ** *
1326791 ATTTACAGCATAACTCAAGGCTG-GAAGGGTTATCTATC-ACCAGAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTCAAGGC-GAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
1326854 GCACAGCTCCAAGGCACATC
65 GCTCAGCTCCAAGGCACATC
* * * * * * *
1326874 ATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACATCCGAGTTC
1 ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTC
1326932 AATTACATTC
Statistics
Matches: 518, Mismatches: 108, Indels: 27
0.79 0.17 0.04
Matches are distributed among these distances:
80 59 0.11
81 71 0.14
82 1 0.00
83 73 0.14
84 218 0.42
85 96 0.19
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:1326594 original size:165 final size:163
Alignment explanation
Indices: 1326209--1326994 Score: 675
Period size: 165 Copynumber: 4.7 Consensus size: 163
1326199 TTAAGAAAAT
*
1326209 ATTTACAGCATAACTCAATGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
* * * * * * * *
1326274 TCAGCTGCAAGGCACACCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGA
65 TCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCT--C-ACCAAAGA
* * ** *
1326339 CCTTCGAGTTTGACTACGTTCAGCTCCAAGGCATATC
127 CCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * * * *
1326376 ATTTGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGGCCTTCGAGTTCGACTACA
1 ATTTGCAGCATAAC-TCAAGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACG
* * *
1326441 CTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT-ACCAAAGACC
64 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTCACCAAAGACC
* * *
1326505 CTCGAGTTCGATTACACTCAGCTTCAAGGGCATATC
129 CTCGAGTTCGACTACACTCAGCTCCAA-GGCACATC
* * *
1326541 ATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACG
* * * * * *
1326606 CTCAGCTCCAAGGCACATCATTTGTAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAAG
64 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCT--C-ACCAAAG
* * ** *
1326671 ACCCTCGAGTTCGATTACACTTAGCTTTGAGGGCACATC
126 ACCCTCGAGTTCGACTACACTCAGC-TCCAAGGCACATC
* * * ** * *
1326710 ATTTGCAACATAGCTCAAGGTAAGAAGGACTATTTGCCAATAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGCT-AGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACG
* * * * *
1326775 CTCA---ACAAGGCATATCATTTACAGCATAACTCAAGGCTG-GAAGGGTTATCTATCACCAGAG
64 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGC-GAGAAGGGCTATC--TCACCAAAG
* * *
1326836 ACCTTCGAGTTCGACTACGCACAGCTCCAAGGCACATC
126 ACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * * * * * * * *
1326874 ATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACATCCGAGTTCAATTACA
1 ATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACG
* * * * * * *
1326939 TTCAACT-CAGAGGCAAACCAAATTTACAGCATAACTCATGGCAAGAAGGGCTATCT
64 CTCAGCTCCA-AGGCACATC--ATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCT
1326995 GTCAGTAAAT
Statistics
Matches: 503, Mismatches: 93, Indels: 46
0.78 0.14 0.07
Matches are distributed among these distances:
164 95 0.19
165 133 0.26
166 38 0.08
167 40 0.08
168 71 0.14
169 123 0.24
170 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (163 bp):
ATTTGCAGCATAACTCAAGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTCACCAAAGACCCT
CGAGTTCGACTACACTCAGCTCCAAGGCACATC
Found at i:1326840 original size:249 final size:245
Alignment explanation
Indices: 1326249--1326938 Score: 810
Period size: 249 Copynumber: 2.8 Consensus size: 245
1326239 TATCTGCCAA
* * * * * * *
1326249 CAAAGACCTTCGAGTTCGACTACGCTCAGCTGCAAGGCACACCATTTGCAACATAGCTCAAGGCA
1 CAAAGACCTTCGAGTTCGACTACGCTCA-C-ACAAGGCATATCATTTACAGCATAACTCAAGGCT
* * * * * *
1326314 AGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTTGACTACGTTCAGCTCCAAGGCATATCATT
64 AGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * * *
1326379 TGCAACATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGGCCTTCGAGTTCGACTACACTC
128 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCATCGAGTTCGATTACACTC
* * * * *
1326444 AGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTAC
193 AGCTCCAAGGCACATCATTTGCAACATAACTCAAGTCAAGAAGGACTATCTAC
* * * * *
1326497 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGAC
1 CAAAGACCTTCGAGTTCGACTACGCTCA-C-ACAA-GGCATATCATTTACAGCATAACTCAAGGC
1326562 TAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
63 TAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * *
1326627 TTGTAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAAGACCCTCGAGTTCGATTACACT
127 TTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCATCGAGTTCGATTACACT
* ** * * * *
1326692 TAGCTTTGAGGGCACATCATTTGCAACATAGCTCAAGGT-AAGAAGGACTATTTGC
192 CAGC-TCCAAGGCACATCATTTGCAACATAACTCAA-GTCAAGAAGGACTATCTAC
1326747 CAATAAAAGACCTTCGAGTTCGACTACGCTCA-ACAAGGCATATCATTTACAGCATAACTCAAGG
1 C----AAAGACCTTCGAGTTCGACTACGCTCACACAAGGCATATCATTTACAGCATAACTCAAGG
* * * *
1326811 CTGGAAGGGTTATCTATCACCAGAGACCTTCGAGTTCGACTACGCACAGCTCCAAGGCACATCAT
62 CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* *
1326876 TTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGA-CATCCGAGTTCAATTACA
127 TTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCAT-CGAGTTCGATTACA
1326939 TTCAACTCAG
Statistics
Matches: 380, Mismatches: 53, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
248 35 0.09
249 233 0.61
250 83 0.22
251 5 0.01
254 24 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (245 bp):
CAAAGACCTTCGAGTTCGACTACGCTCACACAAGGCATATCATTTACAGCATAACTCAAGGCTAG
AAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
AGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCATCGAGTTCGATTACACTCAGC
TCCAAGGCACATCATTTGCAACATAACTCAAGTCAAGAAGGACTATCTAC
Found at i:1326931 original size:333 final size:331
Alignment explanation
Indices: 1326209--1326995 Score: 791
Period size: 333 Copynumber: 2.4 Consensus size: 331
1326199 TTAAGAAAAT
*
1326209 ATTTACAGCATAACTCAATG-CTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAC
1 ATTTACAGCATAACTCAA-GACGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
1326272 GCTCAGCTGCAAGGCACACCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAA
65 GCTCAGCTCCAAGGCACACCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAA
* * * * * *
1326337 GACCTTCGAGTTTGACTACGTTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAATCGAGAA
130 GACCCTCGAGTTCGACTACCTTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAATCAAGAA
** * * * * *
1326402 GGGTTATCTGCCAACCAAAGGCCTTCGAGTTCGACTACACTCAGCTCCAAGGCGCATCATTTGCA
195 GGACTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCA-C-ACAAGGCACATCATTTACA
* * * * *
1326467 GCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCAA
258 GCATAACTCAAGGCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGACTACACACAGCTCCAA
*
1326532 GGGCATATC
323 GGGCACATC
* *
1326541 ATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTACAGCATAACTCAAGACGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
* * ** * * * **
1326605 GCTCAGCTCCAAGGCACATCATTTGTAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAA
65 GCTCAGCTCCAAGGCACACCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAA
* ** * * *
1326670 GACCCTCGAGTTCGATTACACTT-AGCTTTGAGGGCACATCATTTGCAACATAGCTCAAGGT-AA
130 GACCCTCGAGTTCGACTAC-CTTCAGC-TCCAAGGCACATCATTTGCAACATAACTCAA-ATCAA
* * * *
1326733 GAAGGACTATTTGCCAATAAAAGACCTTCGAGTTCGACTACGCTCA-ACAAGGCATATCATTTAC
192 GAAGGACTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCACACAAGGCACATCATTTAC
* * * *
1326797 AGCATAACTCAAGGCTG-GAAGGGTTATCTATCACCAGAGACCTTCGAGTTCGACTACGCACAGC
257 AGCATAACTCAAGGC-GAGAAGGGCTATC--T-ACCAAAGACCCTCGAGTTCGACTACACACAGC
1326861 TCCAA-GGCACATC
318 TCCAAGGGCACATC
* * * * * * * * * * *
1326874 ATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACATCCGAGTTCAATTACA
1 ATTTACAGCATAACTCAAGACGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * * * * *
1326939 TTCAACT-CAGAGGCAAACCAAATTTACAGCATAACTCATGGCAAGAAGGGCTATCTG
66 CTCAGCTCCA-AGGCACACC--ATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTG
1326996 TCAGTAAATT
Statistics
Matches: 370, Mismatches: 71, Indels: 25
0.79 0.15 0.05
Matches are distributed among these distances:
331 39 0.11
332 39 0.11
333 162 0.44
334 101 0.27
335 29 0.08
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (331 bp):
ATTTACAGCATAACTCAAGACGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACACCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAG
ACCCTCGAGTTCGACTACCTTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAATCAAGAAG
GACTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCACACAAGGCACATCATTTACAGCA
TAACTCAAGGCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGACTACACACAGCTCCAAGGG
CACATC
Found at i:1327511 original size:13 final size:13
Alignment explanation
Indices: 1327493--1327527 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1327483 GTCCATATTT
1327493 TATTATATATATA
1 TATTATATATATA
*
1327506 TATTATATCTATA
1 TATTATATATATA
*
1327519 TGTTATATA
1 TATTATATA
1327528 GTTTGCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (13 bp):
TATTATATATATA
Found at i:1327664 original size:12 final size:12
Alignment explanation
Indices: 1327647--1327671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1327637 TATATAATTT
1327647 TTTTTGAAAACA
1 TTTTTGAAAACA
1327659 TTTTTGAAAACA
1 TTTTTGAAAACA
1327671 T
1 T
1327672 ATACTATATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:1327680 original size:75 final size:74
Alignment explanation
Indices: 1327555--1327765 Score: 216
Period size: 75 Copynumber: 2.8 Consensus size: 74
1327545 GAAAAATACG
** * *
1327555 TATATAATATATAATTTTTAAAAAACATTTTAGAACATATATATAATATATATAGCTATT-AAAA
1 TATATAATATATAATTTTTTGAAAACATTTTTGAA-A-ACATAT-ATATATATAG-TATTGAAAA
1327619 T-GTTTTAAA-AA
62 TAGTTTTAAAGAA
* *
1327630 TATATAATATATAATTTTTTTTGAAAACATTTTTGAAAACATATA-CTATATAGTTTTGAAAATA
1 TATATAATATATAA--TTTTTTGAAAACATTTTTGAAAACATATATATATATAGTATTGAAAATA
* *
1327694 TTTTTAAAGTA
64 GTTTTAAAGAA
* * * *
1327705 TATATAATATAT-AGTTTTTGAAAGCATTTTTGAAAACCTATATATTATATAGTTTTGAAAA
1 TATATAATATATAATTTTTTGAAAACATTTTTGAAAACATATATA-TATATAGTATTGAAAA
1327766 CATTTTTGAA
Statistics
Matches: 117, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
72 29 0.25
73 12 0.10
74 25 0.21
75 32 0.27
76 1 0.01
77 18 0.15
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (74 bp):
TATATAATATATAATTTTTTGAAAACATTTTTGAAAACATATATATATATAGTATTGAAAATAGT
TTTAAAGAA
Found at i:1327734 original size:37 final size:36
Alignment explanation
Indices: 1327555--1327829 Score: 199
Period size: 37 Copynumber: 7.4 Consensus size: 36
1327545 GAAAAATACG
* * *
1327555 TATATAATATATAATTTTTAAAAAACATTTTAGAACATA
1 TATATAATATAT-AGTTTT-GAAAACATTTTTGAA-ATA
* *
1327594 TATATAATATATATAGCTATT--AAA-ATGTTTT-AAAAA
1 TATAT-A-ATATATAG-TTTTGAAAACAT-TTTTGAAATA
*
1327630 TATATAATATATAATTTTTTTTGAAAACATTTTTGAAA-A
1 TATATAATATAT-A---GTTTTGAAAACATTTTTGAAATA
* * *
1327669 CATATACTATATAGTTTTGAAAATATTTTT-AAAGTA
1 TATATAATATATAGTTTTGAAAACATTTTTGAAA-TA
*
1327705 TATATAATATATAGTTTTTGAAAGCATTTTTGAAA-A
1 TATATAATATATAG-TTTTGAAAACATTTTTGAAATA
*
1327741 CCTATATATTATATAGTTTTGAAAACATTTTTGAAAACTTA
1 --TATATAATATATAGTTTTGAAAACATTTTTG-AAA--TA
*
1327782 TATATAATATATAG-TTTAAAAATCA-TTTTGAAATA
1 TATATAATATATAGTTTTGAAAA-CATTTTTGAAATA
*
1327817 TATATATTATATA
1 TATATAATATATA
1327830 TATCATATTA
Statistics
Matches: 194, Mismatches: 19, Indels: 50
0.74 0.07 0.19
Matches are distributed among these distances:
34 9 0.05
35 31 0.16
36 21 0.11
37 40 0.21
38 38 0.20
39 38 0.20
40 7 0.04
41 10 0.05
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTGAAAACATTTTTGAAATA
Found at i:1327821 original size:74 final size:72
Alignment explanation
Indices: 1327555--1327829 Score: 220
Period size: 74 Copynumber: 3.7 Consensus size: 72
1327545 GAAAAATACG
* * * *
1327555 TATATAATATATAATTTTTAAAAAACATTTTAGAACATATATATAATATATATAGCTATT--AAA
1 TATATAATATAT-AGTTTTAAAAAGCATTTTTGAA-A-ATATAT-AT-TATATAG-TTTTGAAAA
*
1327618 -ATGTTTTAAA-AA
60 CAT-TTTTAAAGTA
* ** * * * *
1327630 TATATAATATATAATTTTTTTTGAAAACATTTTTGAAAACATATACTATATAGTTTTGAAAATAT
1 TATATAATATAT-A--GTTTTAAAAAGCATTTTTGAAAATATATATTATATAGTTTTGAAAACAT
1327695 TTTTAAAGTA
63 TTTTAAAGTA
**
1327705 TATATAATATATAGTTTTTGAAAGCATTTTTGAAAACCTATATATTATATAGTTTTGAAAACATT
1 TATATAATATATAGTTTTAAAAAGCATTTTTGAAAA--TATATATTATATAGTTTTGAAAACATT
*
1327770 TTTGAAAACTTA
64 TTT--AAA-GTA
*
1327782 TATATAATATATAG-TTTAAAAATCA-TTTTGAAATATATATATTATATA
1 TATATAATATATAGTTTTAAAAAGCATTTTTGAAA-ATATATATTATATA
1327830 TATCATATTA
Statistics
Matches: 172, Mismatches: 16, Indels: 25
0.81 0.08 0.12
Matches are distributed among these distances:
72 24 0.14
73 7 0.04
74 52 0.30
75 42 0.24
76 13 0.08
77 34 0.20
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (72 bp):
TATATAATATATAGTTTTAAAAAGCATTTTTGAAAATATATATTATATAGTTTTGAAAACATTTT
TAAAGTA
Found at i:1327829 original size:9 final size:9
Alignment explanation
Indices: 1327815--1327860 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
1327805 CATTTTGAAA
1327815 TATATATAT
1 TATATATAT
1327824 TATATATAT
1 TATATATAT
*
1327833 CATAT-TAT
1 TATATATAT
1327841 TATAT-TAT
1 TATATATAT
1327849 TAT-TATTAT
1 TATATA-TAT
1327858 TAT
1 TAT
1327861 TATTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 1 0.03
8 13 0.39
9 19 0.58
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TATATATAT
Found at i:1327843 original size:3 final size:3
Alignment explanation
Indices: 1327835--1327867 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1327825 ATATATATCA
1327835 TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1327868 TATTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1334131 original size:25 final size:25
Alignment explanation
Indices: 1334102--1334163 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
1334092 TTCTATATTA
1334102 ATTATAATAATTATT-ATTAAATTTT
1 ATTATAATAATTATTAATT-AATTTT
* * *
1334127 TTTATTATAAATATTACATTAATTTT
1 ATTATAATAATTATTA-ATTAATTTT
1334153 ATTA-AATAATT
1 ATTATAATAATT
1334164 TATTTATTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 17 0.59
26 9 0.31
27 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTATAATAATTATTAATTAATTTT
Found at i:1348592 original size:3 final size:3
Alignment explanation
Indices: 1348584--1348623 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
1348574 TTCTTAAGAA
1348584 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
1348624 TAAATCATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1349010 original size:75 final size:75
Alignment explanation
Indices: 1348878--1349040 Score: 238
Period size: 75 Copynumber: 2.2 Consensus size: 75
1348868 CTGCTAAGTC
* *
1348878 AGTACCGATACTATCAAAACAAAATGCTAAAATGGTACCTATACTATTTATGATATCGATACTAC
1 AGTACCGATACTATCAAAACAAAATGCTAAAATGGTACCTATACTATATACGATATCGATACTAC
1348943 TTAGTATAGT
66 TTAGTATAGT
* * *
1348953 AGTACCGATACTGTCAAAACAAAATGCTAAAATGGTA-TTGATACTATATACGGTATCGATACTA
1 AGTACCGATACTATCAAAACAAAATGCTAAAATGGTACCT-ATACTATATACGATATCGATACTA
* *
1349017 CTTTGTGTAGT
65 CTTAGTATAGT
*
1349028 AGTAACGATACTA
1 AGTACCGATACTA
1349041 CCTTTTTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 1 0.01
75 77 0.99
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (75 bp):
AGTACCGATACTATCAAAACAAAATGCTAAAATGGTACCTATACTATATACGATATCGATACTAC
TTAGTATAGT
Found at i:1350632 original size:15 final size:15
Alignment explanation
Indices: 1350614--1350645 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1350604 ATTGTAATAG
*
1350614 TGACAAAATTAATTT
1 TGACAAAATTAAATT
1350629 TGACAAAATTAAATT
1 TGACAAAATTAAATT
1350644 TG
1 TG
1350646 TCACAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (15 bp):
TGACAAAATTAAATT
Found at i:1353588 original size:46 final size:46
Alignment explanation
Indices: 1353532--1353707 Score: 289
Period size: 46 Copynumber: 3.8 Consensus size: 46
1353522 TTATTTATGA
* * *
1353532 CATCCTTTCATGCATTTTATTTATGGTATCCTTTCATACCTTAATG
1 CATCATTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATG
*
1353578 CATCATTTCATGCATTTTATTTATGGCATCCTATCATGCCTTAATG
1 CATCATTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATG
* *
1353624 AATCATTTCATGCATTTTATTTATGGCATCCTTTCATGTCTTAATG
1 CATCATTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATG
*
1353670 CATCCTTTCATGCATTTTATTTATGGCATCCTTTCATG
1 CATCATTTCATGCATTTTATTTATGGCATCCTTTCATG
1353708 GATTTTATTT
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (46 bp):
CATCATTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATG
Found at i:1353745 original size:46 final size:46
Alignment explanation
Indices: 1353695--1354087 Score: 601
Period size: 46 Copynumber: 8.6 Consensus size: 46
1353685 TTTATTTATG
* *
1353695 GCATCCTTTCATGGATTTTATTTATGGCATCCTTTCATGCCTTAGT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* * *
1353741 GCATCCTTTCATGGATTTTATTTATGACATCATTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
*
1353787 GCATCCTTTCATGCATTTTATTTATGGCATCATTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
*
1353833 GCATCCTTTCATGCATTTTATTTATGG-ACTCCTTTAATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCA-TCCTTTCATGCCTTAAT
*
1353879 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATACCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* * * *
1353925 GTATCCTTTCATGCATTTTATTTATGGTATTCTTTCATTCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* *
1353971 ACAT-CTTTCATGCATTTTATTTATGGCATCCTTTCATGTCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* *
1354016 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTAACGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* *
1354062 GCATTCTTTCATCCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
1354088 TATTCTGTTT
Statistics
Matches: 319, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 41 0.13
46 277 0.87
47 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.47
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
Found at i:1353745 original size:92 final size:88
Alignment explanation
Indices: 1353649--1354087 Score: 461
Period size: 92 Copynumber: 4.8 Consensus size: 88
1353639 TTTATTTATG
* *
1353649 GCATCCTTTCATG-TCTTA-ATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGGATT
1 GCATCCTTTCATGATCTTATATGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGCATT
*
1353712 TTATTTATGGCATCCTTTCATGCCTTAGT
60 TTATTTATGGCATCCTTTCATGCCTTAAT
* *
1353741 GCATCCTTTCATGGATTTTATTTATGACATCATTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCCTTTCAT-GATCTTA--TATG-CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
*
1353806 ATTTATGGCATCATTTCATGCCTTAAT
62 ATTTATGGCATCCTTTCATGCCTTAAT
* * *
1353833 GCATCCTTTCATGCATTTTATTTATGGACTCCTTTAATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCCTTTCATG-ATCTTA--TATGCA-TCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
*
1353898 ATTTATGGCATCCTTTCATACCTTAAT
62 ATTTATGGCATCCTTTCATGCCTTAAT
* * * * * *
1353925 GTATCCTTTCATGCATTTTATTTATGGTATTCTTTCATTCCTTAATACAT-CTTTCATGCATTTT
1 GCATCCTTTCATG-ATCTTA--TAT-GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
*
1353989 ATTTATGGCATCCTTTCATGTCTTAAT
62 ATTTATGGCATCCTTTCATGCCTTAAT
* * * * *
1354016 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTAACGCCTTAATGCATTCTTTCATCCATTTT
1 GCATCCTTTCATG-ATCTTA--TAT-GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1354081 ATTTATG
62 ATTTATG
1354088 TATTCTGTTT
Statistics
Matches: 310, Mismatches: 27, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
91 84 0.27
92 199 0.64
93 5 0.02
94 4 0.01
96 3 0.01
97 3 0.01
98 12 0.04
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.47
Consensus pattern (88 bp):
GCATCCTTTCATGATCTTATATGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTT
ATGGCATCCTTTCATGCCTTAAT
Found at i:1353791 original size:138 final size:135
Alignment explanation
Indices: 1353649--1354073 Score: 457
Period size: 138 Copynumber: 3.1 Consensus size: 135
1353639 TTTATTTATG
* *
1353649 GCATCCTTTCATGTCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGGATTTT
1 GCATCCTTTCATGTCTTAATGCATCATTTCATGCA-TTTA-TTAT-GCATCCTTTCATGCATTTT
* * * *
1353714 ATTTATGGCATCCTTTCATGCCTTAGTGCATCCTTTCATGGATTTTATTTATGACATCATTTCAT
63 ATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCAT
1353779 GCCTTAAT
128 GCCTTAAT
* *
1353787 GCATCCTTTCATGCATTTTATTTATGGCATCATTTCATGC-CTTA--ATGCATCCTTTCATGCAT
1 GCATCCTTTCATG--TCTTA---AT-GCATCATTTCATGCATTTATTATGCATCCTTTCATGCAT
*
1353849 TTTATTTATGG-ACTCCTTTAATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTT
60 TTTATTTATGGCA-TCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTT
*
1353913 TCATACCTTAAT
124 TCATGCCTTAAT
* * ** ** * * ** *
1353925 GTATCCTTTCATG-CATTTTATTTATGGTATTCTTTCATTCCTTAATACAT-CTTTCATGCATTT
1 GCATCCTTTCATGTC--TTAATGCATCAT-TTCATGCATTTATT-ATGCATCCTTTCATGCATTT
* *
1353988 TATTTATGGCATCCTTTCATGTCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTAA
62 TATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCA
*
1354053 CGCCTTAAT
127 TGCCTTAAT
*
1354062 GCATTCTTTCAT
1 GCATCCTTTCAT
1354074 CCATTTTATT
Statistics
Matches: 242, Mismatches: 30, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
133 3 0.01
134 7 0.03
135 1 0.00
137 93 0.38
138 114 0.47
139 2 0.01
140 4 0.02
142 3 0.01
143 2 0.01
144 13 0.05
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (135 bp):
GCATCCTTTCATGTCTTAATGCATCATTTCATGCATTTATTATGCATCCTTTCATGCATTTTATT
TATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCC
TTAAT
Found at i:1353799 original size:164 final size:164
Alignment explanation
Indices: 1353518--1353872 Score: 559
Period size: 164 Copynumber: 2.2 Consensus size: 164
1353508 CGTTAAATTT
* *
1353518 CATTTTATTTATGACATCCTTTCATGCATTTTATTTATGGTATCCTTTCATACCTTAATGCATCA
1 CATTTTATTTATGGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATACCTTAATGCATCA
* *
1353583 TTTCATGCATTTTATTTATGGCATCCTATCATGCCTTAATGAATCATTTCATGCATTTTATTTAT
66 TTTCATGCATTTTATTTATGACATCATATCATGCCTTAATGAATCATTTCATGCATTTTATTTAT
* *
1353648 GGCATCCTTTCATGTCTTAATGCATCCTTTCATG
131 GGCATCATTTCATGCCTTAATGCATCCTTTCATG
* * * *
1353682 CATTTTATTTATGGCATCCTTTCATGGATTTTATTTATGGCATCCTTTCATGCCTTAGTGCATCC
1 CATTTTATTTATGGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATACCTTAATGCATCA
* * * *
1353747 TTTCATGGATTTTATTTATGACATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTAT
66 TTTCATGCATTTTATTTATGACATCATATCATGCCTTAATGAATCATTTCATGCATTTTATTTAT
1353812 GGCATCATTTCATGCCTTAATGCATCCTTTCATG
131 GGCATCATTTCATGCCTTAATGCATCCTTTCATG
*
1353846 CATTTTATTTATGG-ACTCCTTTAATGC
1 CATTTTATTTATGGCA-TCCTTTCATGC
1353873 CTTAATGCAT
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
163 1 0.01
164 173 0.99
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (164 bp):
CATTTTATTTATGGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATACCTTAATGCATCA
TTTCATGCATTTTATTTATGACATCATATCATGCCTTAATGAATCATTTCATGCATTTTATTTAT
GGCATCATTTCATGCCTTAATGCATCCTTTCATG
Found at i:1357991 original size:31 final size:32
Alignment explanation
Indices: 1357956--1358042 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 32
1357946 AAGGGAGCAC
1357956 CTTGGGGCCTGAGAGCCTACCCAAGAAAG-TT
1 CTTGGGGCCTGAGAGCCTACCCAAGAAAGATT
*
1357987 CTTGGGGCC-GTAGGGCCTACCCAAGAAAGATT
1 CTTGGGGCCTG-AGAGCCTACCCAAGAAAGATT
* * * *
1358019 -TTGGGCCCTCAAAGCCTACTCAAG
1 CTTGGGGCCTGAGAGCCTACCCAAG
1358043 GGTTGTCTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.94
32 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (32 bp):
CTTGGGGCCTGAGAGCCTACCCAAGAAAGATT
Found at i:1361472 original size:51 final size:50
Alignment explanation
Indices: 1361403--1361562 Score: 153
Period size: 51 Copynumber: 3.2 Consensus size: 50
1361393 AACCCCGAAG
* * * *
1361403 GGAACACAAACA-AAAATAGAAATTAGGATGGGGATGTTACCCTCCGAAGA
1 GGAACCCAAACAGGAAATAGAAATCAGGATGGGGATGTTA-CCTCCAAAGA
* * * * **
1361453 GGAACCCAGACAGTAAATAGAAGTCAGGATGGAGATGTTATCCTTTAAAGA
1 GGAACCCAAACAGGAAATAGAAATCAGGATGGGGATGTTA-CCTCCAAAGA
* * *
1361504 GGAACCCAAACAGGAAACAAAAATCATGAT-GGGATGTTACCTCCAAAGA
1 GGAACCCAAACAGGAAATAGAAATCAGGATGGGGATGTTACCTCCAAAGA
* *
1361553 GAAATCCAAA
1 GGAACCCAAA
1361563 ACTTCCGTAA
Statistics
Matches: 88, Mismatches: 21, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
49 16 0.18
50 18 0.20
51 54 0.61
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (50 bp):
GGAACCCAAACAGGAAATAGAAATCAGGATGGGGATGTTACCTCCAAAGA
Found at i:1367851 original size:35 final size:35
Alignment explanation
Indices: 1367805--1367876 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
1367795 TATACCAAGA
*
1367805 AATAAGTTTATTCACCAAGTGACATTACTTATTAT
1 AATAAGTTTATTCACCAAGTGACATGACTTATTAT
*
1367840 AATAAGTTTATTCATCAAGTGACATGACTTATTAT
1 AATAAGTTTATTCACCAAGTGACATGACTTATTAT
1367875 AA
1 AA
1367877 ATAACATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (35 bp):
AATAAGTTTATTCACCAAGTGACATGACTTATTAT
Found at i:1369096 original size:77 final size:79
Alignment explanation
Indices: 1369007--1369159 Score: 222
Period size: 77 Copynumber: 2.0 Consensus size: 79
1368997 CGAATTAATA
**
1369007 AAAATCTTATTTAATTAATTCAAATTAAATAT-ACATT-AAAGACTTAAAATCTGAATTACAATC
1 AAAATCTTATTTAATTAATTCAAATTAAATATCA-ATTAAAAGACTTAAAATCAAAATTACAATC
1369070 -TTTAATGTTTATTT
65 TTTTAATGTTTATTT
* * **
1369084 AAAATCTTATTTAATTATTTCAAATTAAATATCAATTAAAAGAGTTGTAATCAAAATTACAATCT
1 AAAATCTTATTTAATTAATTCAAATTAAATATCAATTAAAAGACTTAAAATCAAAATTACAATCT
1369149 TTTAATGTTTA
66 TTTAATGTTTA
1369160 CTTACTATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 34 0.51
78 22 0.33
79 11 0.16
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (79 bp):
AAAATCTTATTTAATTAATTCAAATTAAATATCAATTAAAAGACTTAAAATCAAAATTACAATCT
TTTAATGTTTATTT
Found at i:1376321 original size:20 final size:20
Alignment explanation
Indices: 1376278--1376321 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1376268 TCTGGCAATG
* *
1376278 AACCGGCTGAAAACTGGTAG
1 AACCGGCTAAAAACTGGTAA
1376298 AACCGGCTAAAAA-TCGGTAA
1 AACCGGCTAAAAACT-GGTAA
1376318 AACC
1 AACC
1376322 TGGGTGAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (20 bp):
AACCGGCTAAAAACTGGTAA
Found at i:1381600 original size:2 final size:2
Alignment explanation
Indices: 1381593--1381618 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1381583 AGTATAAGTG
1381593 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1381619 AGTATTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.