Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002147.1 Hibiscus syriacus cultivar Beakdansim tig00004386_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: 128196
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1875 original size:8 final size:8
Alignment explanation
Indices: 1863--1893 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1853 ATAATATATT
*
1863 AAACTAAT
1 AAACTAAC
1871 AAACTAAC
1 AAACTAAC
1879 AAACTAAC
1 AAACTAAC
1887 AAACTAA
1 AAACTAA
1894 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (8 bp):
AAACTAAC
Found at i:1967 original size:22 final size:22
Alignment explanation
Indices: 1942--1990 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
1932 ACAACTAATA
*
1942 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACGTT
1964 AACTATTCTTTAATATAACGTT
1 AACTATTCTTTAATATAACGTT
1986 AACTA
1 AACTA
1991 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
AACTATTCTTTAATATAACGTT
Found at i:1968 original size:30 final size:30
Alignment explanation
Indices: 1934--2059 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
1924 TTCCCTTAAC
1934 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
*
1962 ---T--T-AACTATTCTTTAATATAACGTT
1 AACTAATAAACTATTCTTTAATATAACTTT
* *
1986 AACTAATAAACTATTTTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
2016 AACTAATAAA-TAATT-TTTAATTATAA-TTT
1 AACTAATAAACT-ATTCTTTAA-TATAACTTT
*
2045 ATTACTAAAAAACTA
1 A--ACTAATAAACTA
2060 ATTAACTAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
22 19 0.24
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 10 0.12
30 37 0.46
31 9 0.11
32 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:2018 original size:22 final size:22
Alignment explanation
Indices: 1940--2020 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
1930 TAACAACTAA
*
1940 TAAACTATTCTTTAATATAACT
1 TAAACTATTTTTTAATATAACT
* *
1962 TTAACTATTCTTTAATATAACGTTAACT
1 TAAACTATT-TTTTA-AT-A---TAACT
1990 AATAAACTATTTTTTAATATAACT
1 --TAAACTATTTTTTAATATAACT
2014 TAAACTA
1 TAAACTA
2021 ATAAATAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
22 15 0.33
23 3 0.07
24 7 0.15
25 1 0.02
27 1 0.02
28 7 0.15
29 4 0.09
30 8 0.17
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.44
Consensus pattern (22 bp):
TAAACTATTTTTTAATATAACT
Found at i:7303 original size:34 final size:35
Alignment explanation
Indices: 7260--7332 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
7250 GTTGTGGTTC
7260 CCCATC-AAAACCACCCAAAACTACCCTACTACAT
1 CCCATCAAAAACCACCCAAAACTACCCTACTACAT
7294 CCCATCAAAAACCACCCAAAACTACCCTACTACAT
1 CCCATCAAAAACCACCCAAAACTACCCTACTACAT
7329 CCCA
1 CCCA
7333 CGTACATGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 6 0.16
35 32 0.84
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (35 bp):
CCCATCAAAAACCACCCAAAACTACCCTACTACAT
Found at i:13573 original size:30 final size:30
Alignment explanation
Indices: 13533--13593 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
13523 ACATGCAACA
13533 CAAACCATGGATGTCTACACTAAAAGAAAC
1 CAAACCATGGATGTCTACACTAAAAGAAAC
*
13563 CAAACTATGGATGTCTACACTAAAAGAAAC
1 CAAACCATGGATGTCTACACTAAAAGAAAC
13593 C
1 C
13594 TTCAATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (30 bp):
CAAACCATGGATGTCTACACTAAAAGAAAC
Found at i:21293 original size:6 final size:6
Alignment explanation
Indices: 21282--21309 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21272 GGACAGCCCT
21282 TGAACC TGAACC TGAACC TGAACC TGAA
1 TGAACC TGAACC TGAACC TGAACC TGAA
21310 GACGGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.18
Consensus pattern (6 bp):
TGAACC
Found at i:31847 original size:20 final size:19
Alignment explanation
Indices: 31824--31869 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
31814 GATATACCAT
31824 GTAAAAATATGATAAAACCG
1 GTAAAAA-ATGATAAAACCG
31844 GTAACAAAATGATAAAACCG
1 GTAA-AAAATGATAAAACCG
31864 GTAAAA
1 GTAAAA
31870 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (19 bp):
GTAAAAAATGATAAAACCG
Found at i:31957 original size:181 final size:182
Alignment explanation
Indices: 31611--32083 Score: 633
Period size: 181 Copynumber: 2.6 Consensus size: 182
31601 GATCCAAATT
* * * * * **
31611 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
* ** * ** * * ** *
31676 AAACTGGTAACGCGCTACTAGATACATTTAAAGTGTCGGTACTTTAATATAATGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTTC
* * *
31741 GTGAATTTAAAAGAGGAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
31793 AAAAATATATCGATCCAAAACGATATACCATGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
31858 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTTAATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTTC
** *
31922 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
31974 AAAAATATATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
32039 AAACCGGTAAAATGATACCGAATATATTGAAATTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTT
32084 CGTAAGTACG
Statistics
Matches: 254, Mismatches: 37, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
181 164 0.65
182 90 0.35
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAAATATATCGATCCAAAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCAATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:32052 original size:17 final size:19
Alignment explanation
Indices: 32013--32055 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
32003 ATGTAAAAAT
32013 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
32033 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
32050 ATGATA
1 ATGATA
32056 CCGAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:34301 original size:21 final size:21
Alignment explanation
Indices: 34275--34339 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
34265 AAGACAATCA
*
34275 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
34296 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
34317 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
34338 AG
1 AG
34340 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:34415 original size:33 final size:33
Alignment explanation
Indices: 34373--34438 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
34363 AAATAGATGG
34373 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
34406 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
34439 TATTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:35643 original size:4 final size:4
Alignment explanation
Indices: 35634--35658 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
35624 TAAGAGATTG
35634 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
35659 AAAGGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:36259 original size:19 final size:19
Alignment explanation
Indices: 36235--36283 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
36225 AATGTAGGGT
36235 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
36254 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
36273 TAATTTTGTAT
1 TAATTTTGTAT
36284 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:36860 original size:200 final size:200
Alignment explanation
Indices: 36517--38079 Score: 2718
Period size: 200 Copynumber: 7.8 Consensus size: 200
36507 AATTTACAAT
* *
36517 ATGGCAAACAGGGTGCAACTATAAAGTGTCGATCCATATATAAAATGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
36582 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
36647 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
36712 AATGA
196 AATGA
36717 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
36782 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
36847 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
36912 AATGA
196 AATGA
* *
36917 ATGGCAAACAGGGTGCAACCATAAAGTTTCGATCCATATATAAAAAGTATCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
36982 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
37047 ATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGCAGTTTGTGTTGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
37112 AATGA
196 AATGA
* * *
37117 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
37182 CGAAA-CCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
37246 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
37311 AATGA
196 AATGA
37316 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
37381 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
37446 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
37511 AATGA
196 AATGA
*
37516 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
37581 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
37646 ATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGTAGTTTGTGTTGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
37711 AATGA
196 AATGA
* * *
37716 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
37781 CGAAA-CCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
37845 ATGAGAGAATAGGTCTAAATAATGTGTTGACACTTTTTTTAGTTTATGTCGATATTTTTTGTCCA
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCA
37910 GAATGA
195 GAATGA
*
37916 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
37981 CGAGACCCATAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
38046 ATGAGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTGTCGACACT
38080 GTTTAATGTT
Statistics
Matches: 1296, Mismatches: 63, Indels: 8
0.95 0.05 0.01
Matches are distributed among these distances:
199 274 0.21
200 938 0.72
201 81 0.06
202 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:37729 original size:599 final size:599
Alignment explanation
Indices: 36517--38079 Score: 2912
Period size: 599 Copynumber: 2.6 Consensus size: 599
36507 AATTTACAAT
* * * *
36517 ATGGCAAACAGGGTGCAACTATAAAGTGTCGATCCATATATAAAATGTGTCGATCCCATAAACAT
1 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
* * *
36582 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAA-CCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTT
36647 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
130 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
36712 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
195 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
36777 AACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCG
260 AACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCG
36842 ATTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
325 ATTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
*
36907 TCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTTTCGATCCATATATAAAAAGTATCGATC
390 TCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATC
36972 CCATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTA
455 CCATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTA
37037 TACCGGTTTTATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGCAGTTTGTGTTGATATT
520 TACCGGTTTTATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGCAGTTTGTGTTGATATT
37102 TTTGGTCCAGAATGA
585 TTTGGTCCAGAATGA
37117 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
1 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
37182 CGAAACCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTTA
66 CGAAACCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTTA
37247 TGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGA
131 TGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGA
37312 ATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAA
196 ATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAA
37377 ACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGA
261 ACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGA
37442 TTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
326 TTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
37507 CCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCC
391 CCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCC
37572 CATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTAT
456 CATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTAT
*
37637 ACCGGTTTTATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGTAGTTTGTGTTGATATTT
521 ACCGGTTTTATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGCAGTTTGTGTTGATATTT
37702 TTGGTCCAGAATGA
586 TTGGTCCAGAATGA
37716 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
1 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
37781 CGAAACCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTTA
66 CGAAACCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTTA
* * * * *
37846 TGAGAGAATAGGTCTAAATAATGTGTTGACACTTTTTTTAGTTTATGTCGATATTTTTTGTCCAG
131 TGAGAGAATAGGTCTAAATAATGTATCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
37911 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
195 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
* *
37976 AACATCGAGACCCATAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCG
260 AACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCG
* * *
38041 ATTTTATGAGAGAATTGGTATATAAT-ATGTATCGACACT
325 ATTTTATGAGAGAATAGGTCTA-AATAATGTGTCGACACT
38080 GTTTAATGTT
Statistics
Matches: 941, Mismatches: 20, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
599 684 0.73
600 254 0.27
601 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (599 bp):
ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
CGAAACCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTTA
TGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGA
ATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAA
ACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGA
TTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
CCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCC
CATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTAT
ACCGGTTTTATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGCAGTTTGTGTTGATATTT
TTGGTCCAGAATGA
Found at i:39630 original size:183 final size:183
Alignment explanation
Indices: 39316--40552 Score: 2231
Period size: 183 Copynumber: 6.8 Consensus size: 183
39306 AGATTGGAAG
*
39316 AAAAATGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATAT
1 AAAAA-GTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
39381 AACCGGTATAAGTATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAAACTTTTTAAT
65 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
*
39446 ATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTATCGATACCTTGTC
130 ATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGTC
*
39500 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATAATAGATAATTTTGTAATATA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
*
39565 ACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
* * *
39630 TTGTGTCGATACTTTATGTCCAGATTGGAAGAAAAATGTATCGATACCTTCTC
131 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGTC
39683 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
*
39748 ACCAGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
* * *
39813 TTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATATGCCGATACCTTGTC
131 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGTC
* *
39866 AAAAAGTGTCGACATTTACAAATCAGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
*
39931 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGATACTTTTTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
* *
39996 TTGTGTCGGCACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACCTTGTC
131 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGTC
* *
40049 AAAAAGTATCGATATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
*
40114 ACCGGTATAAATATACCGGTTTTATGGGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
*
40179 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCTTGTC
131 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGTC
40232 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
*
40297 ACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
*
40362 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTC
131 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGTC
* *
40415 AAAAAGTGTCAACATTTACACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATATA
1 AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
40480 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
66 ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
40545 TTGTGTCG
131 TTGTGTCG
40553 CTAATTTTAA
Statistics
Matches: 1010, Mismatches: 43, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
183 1005 1.00
184 5 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (183 bp):
AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGTC
Found at i:43041 original size:25 final size:25
Alignment explanation
Indices: 43013--43077 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
43003 TTATCATTAA
43013 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
43038 ATTTAGGTACGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
43063 ATTTAGGTATGTACA
1 ATTTAGGTATGTACA
43078 TCTTTTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:43405 original size:23 final size:21
Alignment explanation
Indices: 43362--43405 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
43352 ATTACATAAC
*
43362 TTTAAAAAAGTATCGATCTTT
1 TTTAAAAAAGTATCGAACTTT
*
43383 TTTATAAAAAGTATGGACACTTT
1 TTTA-AAAAAGTATCGA-ACTTT
43406 CAATATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (21 bp):
TTTAAAAAAGTATCGAACTTT
Found at i:43454 original size:23 final size:23
Alignment explanation
Indices: 43423--43495 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
43413 ATAGGTAAAA
*
43423 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
43446 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
43469 ATATAATGTAATAGGTAATGCTT
1 ATATAATGTAATAGGTAGCGCTT
43492 ATAT
1 ATAT
43496 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:43944 original size:23 final size:23
Alignment explanation
Indices: 43913--43985 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
43903 ATAGGTAAAA
*
43913 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
43936 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
43959 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
43982 ATAT
1 ATAT
43986 TGTAAAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:44219 original size:489 final size:489
Alignment explanation
Indices: 43077--44876 Score: 3262
Period size: 489 Copynumber: 3.7 Consensus size: 489
43067 AGGTATGTAC
*
43077 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
*
43142 GTTACGTTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
43207 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
43272 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
43337 AAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCTTTTTTATAAAAAGTATGGAC
260 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGAC
*
43401 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
325 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACG
* * *
43466 TTTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCATTTTTTATAAAAGTGTTCA
390 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC-CTTTTTATAAAAGTGTCCA
43531 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
454 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* *
43567 ATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
43632 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
43697 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
43762 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
43827 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
43892 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGT
*
43957 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATA
391 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
*
44022 ATTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
44056 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
*
44121 ATTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
44186 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTGTTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
44251 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
44316 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
* *
44381 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGT
*
44446 TTATATAATGTAATAGGTAGTGTTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
391 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
* *
44511 CTTATTTCACTGTAGAAAACATTAATTTAAGGTT
456 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* * * *
44545 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
* *
44610 GTTACAATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
44675 TTTGGTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
44740 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATT-AAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* * *
44804 AAATTGAAACATAAATTATATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAATATAGAC
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTAT-AAAAAGTATGGAC
44869 ACTTTCAA
325 ACTTTCAA
44877 CATATTATAA
Statistics
Matches: 1271, Mismatches: 37, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
488 53 0.04
489 825 0.65
490 393 0.31
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (489 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGT
TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:44470 original size:23 final size:23
Alignment explanation
Indices: 44402--44474 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
44392 ATAGGTAAAA
* ***
44402 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGTGTTT
44425 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GTTT
44448 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGTGTTT
44471 ATAT
1 ATAT
44475 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGTTT
Found at i:46618 original size:20 final size:21
Alignment explanation
Indices: 46593--46685 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
46583 TTTTCCCAAT
*
46593 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
46613 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
46634 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
46654 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
46675 TCGCAATGCGA
1 TCGCAATGCGA
46686 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:46700 original size:41 final size:41
Alignment explanation
Indices: 46593--46685 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
46583 TTTTCCCAAT
46593 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
46634 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
46675 TCGCAATGCGA
1 TCGCAATGCGA
46686 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:46749 original size:20 final size:20
Alignment explanation
Indices: 46726--46767 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
46716 TCACAACGAA
* *
46726 ATACTTACTTTCGTAACGCG
1 ATACTGACTTTCGCAACGCG
46746 ATACTGACTTTCGCAACGCG
1 ATACTGACTTTCGCAACGCG
46766 AT
1 AT
46768 TTACGTAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (20 bp):
ATACTGACTTTCGCAACGCG
Found at i:47324 original size:19 final size:19
Alignment explanation
Indices: 47286--47352 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
47276 TTCGAGAATG
47286 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
47306 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* **
47325 AAAATTGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
47344 AAAATCGCA
1 AAAATCGCA
47353 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 28 0.72
20 11 0.28
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:47370 original size:19 final size:19
Alignment explanation
Indices: 47348--47551 Score: 203
Period size: 19 Copynumber: 11.1 Consensus size: 19
47338 GAAACCAAAA
*
47348 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
47367 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
47386 TTGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
47405 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
47424 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
47444 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
47460 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
47477 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
47491 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
47510 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
47530 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
47550 TC
1 TC
47552 AACCAAAAGA
Statistics
Matches: 155, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
14 20 0.13
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 77 0.50
20 49 0.32
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:47444 original size:39 final size:38
Alignment explanation
Indices: 47348--47551 Score: 203
Period size: 33 Copynumber: 5.6 Consensus size: 38
47338 GAAACCAAAA
*
47348 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
47386 TTGCGTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
47424 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTC---
1 TCGC-GTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
47460 T-G-GTCGCGATAGTCATTTCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* ** *
47491 TCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTT-CGCGTTGCGATTTTCATT
*
47530 ATCTCGTTGCGATTTTCATTTC
1 -TCGCGTTGCGATTTTCATTTC
47552 AACCAAAAGA
Statistics
Matches: 141, Mismatches: 15, Indels: 19
0.81 0.09 0.11
Matches are distributed among these distances:
31 3 0.02
33 38 0.27
34 10 0.07
35 1 0.01
36 3 0.02
38 38 0.27
39 30 0.21
40 18 0.13
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:47528 original size:20 final size:20
Alignment explanation
Indices: 47494--47551 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
47484 GCGATTCTCT
**
47494 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
47514 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
47534 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
47552 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:49608 original size:42 final size:42
Alignment explanation
Indices: 49548--49670 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
49538 GCCCGACTCG
* * *
49548 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
49590 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
49632 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
49671 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:49628 original size:21 final size:21
Alignment explanation
Indices: 49604--49670 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
49594 TCATTCCTCG
49604 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
49625 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
49646 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
49667 AGAG
1 AGAG
49671 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:51045 original size:14 final size:14
Alignment explanation
Indices: 51026--51061 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
51016 ATTGTTTAAT
51026 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
51040 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
51054 TGATTTGT
1 TGATTTGT
51062 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:51292 original size:33 final size:32
Alignment explanation
Indices: 51243--51369 Score: 166
Period size: 33 Copynumber: 3.9 Consensus size: 32
51233 ATTAAATTCG
51243 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* * **
51276 CGTTACTATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
51309 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
51342 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
51370 AGTAATTTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.04
33 74 0.93
35 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:51332 original size:66 final size:66
Alignment explanation
Indices: 51236--51368 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
51226 ACGCGAAATT
* * *
51236 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTACTATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTACGATTTTCATTTCGCATTGC
51301 G
66 G
* *
51302 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTACGATTTTCATTTCGCATTGC
51367 G
66 G
51368 A
1 A
51369 TAGTAATTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (66 bp):
AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTACGATTTTCATTTCGCATTGC
G
Found at i:53658 original size:12 final size:12
Alignment explanation
Indices: 53641--53665 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53631 TCTTCGGGGA
53641 CTTTTTCTTCTT
1 CTTTTTCTTCTT
53653 CTTTTTCTTCTT
1 CTTTTTCTTCTT
53665 C
1 C
53666 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:53873 original size:24 final size:24
Alignment explanation
Indices: 53839--53892 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
53829 CTGAAACATC
* *
53839 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
53863 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
53887 ATCAAA
1 ATCAAA
53893 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:54634 original size:18 final size:18
Alignment explanation
Indices: 54611--54645 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54601 TCTGTATTCT
*
54611 CGTTGCGAAAGTCAATCG
1 CGTTGCGAAAGGCAATCG
54629 CGTTGCGAAAGGCAATC
1 CGTTGCGAAAGGCAATC
54646 ATTTGACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (18 bp):
CGTTGCGAAAGGCAATCG
Found at i:54976 original size:20 final size:20
Alignment explanation
Indices: 54926--54983 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
54916 ATTCATTTGA
*
54926 CTATCGCAACACGAAAATGG
1 CTATCGCAACGCGAAAATGG
54946 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
54966 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
54984 CGCAATGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:55020 original size:14 final size:15
Alignment explanation
Indices: 55000--55072 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
54990 GTGAAATGAA
55000 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
*
55015 -TTGCGATTTCATTTCG
1 ATTGCGATTT--TCTCG
55031 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC---TCG
55050 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
55066 -TTGCGAT
1 ATTGCGAT
55073 AGCCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 16 0.33
16 8 0.16
18 9 0.18
19 16 0.33
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:55043 original size:19 final size:19
Alignment explanation
Indices: 55015--55062 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
55005 GATTTTCTCG
55015 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55033 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55052 TTGCGATTTTC
1 TTGCGATTTTC
55063 TCGTTGCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:57245 original size:19 final size:19
Alignment explanation
Indices: 57223--57291 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
57213 GAAACTTAAA
57223 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
57242 ATCGC-ACGCGGAAATGGCAACT
1 ATCGCAACGC-GAAAT-G--ACT
* **
57264 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
57283 ATCGCAACG
1 ATCGCAACG
57292 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.10
19 19 0.46
20 1 0.02
21 1 0.02
22 13 0.32
23 3 0.07
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:57277 original size:22 final size:20
Alignment explanation
Indices: 57223--57279 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
57213 GAAACTTAAA
57223 ATCGCAACGCGAAAT-GACT
1 ATCGCAACGCGAAATGGACT
57242 ATCGC-ACGCGGAAATGGCAACT
1 ATCGCAACGC-GAAATGG--ACT
*
57264 ATCGCAATGCGAAATG
1 ATCGCAACGCGAAATG
57280 AAAATCGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.12
19 10 0.31
20 1 0.03
22 14 0.44
23 3 0.09
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGACT
Found at i:57299 original size:14 final size:14
Alignment explanation
Indices: 57280--57336 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
57270 ATGCGAAATG
57280 AAAATCGCAACGAC
1 AAAATCGCAACGAC
57294 AAAATCGCAACG-C
1 AAAATCGCAACGAC
57307 GAAATGAATCGCAACGAC
1 --AA--AATCGCAACGAC
57325 AAAATCGCAACG
1 AAAATCGCAACG
57337 CGAACACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.03
14 22 0.58
15 2 0.05
16 2 0.05
17 10 0.26
18 1 0.03
ACGTcount: A:0.47, C:0.26, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:57320 original size:31 final size:32
Alignment explanation
Indices: 57264--57340 Score: 129
Period size: 31 Copynumber: 2.4 Consensus size: 32
57254 AATGGCAACT
*
57264 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
57297 ATCGCAACGCGAAATG-AATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
57328 ATCGCAACGCGAA
1 ATCGCAACGCGAA
57341 CACAAATCGC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 28 0.65
33 15 0.35
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:57347 original size:18 final size:17
Alignment explanation
Indices: 57280--57351 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 17
57270 ATGCGAAATG
57280 AAAATCGCAA--CG-AC
1 AAAATCGCAACGCGAAC
57294 AAAATCGCAACGCGAA-
1 AAAATCGCAACGCGAAC
*
57310 ATGAATCGCAA--CG-AC
1 A-AAATCGCAACGCGAAC
57325 AAAATCGCAACGCGAAC
1 AAAATCGCAACGCGAAC
57342 ACAAATCGCA
1 A-AAATCGCA
57352 TTGCGATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 19 0.40
15 3 0.06
16 5 0.11
17 12 0.26
18 8 0.17
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (17 bp):
AAAATCGCAACGCGAAC
Found at i:57374 original size:19 final size:19
Alignment explanation
Indices: 57347--57462 Score: 65
Period size: 19 Copynumber: 6.6 Consensus size: 19
57337 CGAACACAAA
*
57347 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
57366 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
57382 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
* *
57398 TCGCATTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
*
57414 T--CGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
57431 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
57450 TCCGCGTTGCGAT
1 T-CGCGTTGCGAT
57463 AGTCATTTTC
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
14 17 0.23
15 3 0.04
16 6 0.08
17 2 0.03
18 13 0.18
19 22 0.30
20 10 0.14
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:57388 original size:14 final size:14
Alignment explanation
Indices: 57369--57426 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
57359 TTTCATTTCG
57369 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
57383 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
57399 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
57415 CGTTGTGATTTT
1 CGTTGCGATTTT
57427 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:57433 original size:33 final size:33
Alignment explanation
Indices: 57352--57442 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
57342 ACAAATCGCA
*
57352 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
57385 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
57417 TTGTGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
57443 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:57461 original size:20 final size:19
Alignment explanation
Indices: 57427--57470 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
57417 TTGTGATTTT
57427 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* *
57446 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCATTGCGATAGC
57466 CATTT
1 CATTT
57471 TCATGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:57478 original size:20 final size:20
Alignment explanation
Indices: 57436--57481 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
57426 TCATTTCGCA
*
57436 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* * *
57456 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCACG
57476 TTGCGA
1 TTGCGA
57482 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:57980 original size:18 final size:18
Alignment explanation
Indices: 57954--57998 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
57944 GTCGATCAGA
*
57954 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
57972 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
57990 TGATGGCTC
1 TGATGGCTC
57999 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:59313 original size:20 final size:20
Alignment explanation
Indices: 59288--59325 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59278 AATAGTTTCT
59288 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
59308 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
59326 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:59374 original size:19 final size:19
Alignment explanation
Indices: 59352--59402 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
59342 GAAACTAAAA
59352 TCGCGTTGCGATTTGCATT
1 TCGCGTTGCGATTTGCATT
59371 TCGCGTTGCGATTTGCATT
1 TCGCGTTGCGATTTGCATT
59390 TCGCGTTGCGATT
1 TCGCGTTGCGATT
59403 CTTGGTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.10, C:0.22, G:0.27, T:0.41
Consensus pattern (19 bp):
TCGCGTTGCGATTTGCATT
Found at i:59633 original size:22 final size:22
Alignment explanation
Indices: 59608--59651 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
59598 GATTTAGATA
59608 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
59630 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
59652 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:59864 original size:20 final size:20
Alignment explanation
Indices: 59839--59932 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
59829 GATTATGTAT
59839 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
59859 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
59879 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
59900 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
59920 TATCGCATTGCGA
1 TATCGCGTTGCGA
59933 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:59933 original size:20 final size:20
Alignment explanation
Indices: 59819--59933 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
59809 CGCTTTGAAA
*
59819 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
59840 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
59860 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
59880 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
59901 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
59921 ATCGCATTGCGAT
1 ATCGCATTGCGAT
59934 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:59951 original size:21 final size:21
Alignment explanation
Indices: 59922--60014 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
59912 ATAGTCAGTA
59922 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
59943 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
59963 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
59984 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
60004 TCGCATTGCGA
1 TCGCATTGCGA
60015 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:59952 original size:41 final size:41
Alignment explanation
Indices: 59861--59995 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
59851 AAAGTCAGTA
* * * ** *
59861 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
59901 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
59943 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
59984 TCGCGTTGCGAT
1 TCGCGTTGCGAT
59996 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:59996 original size:41 final size:41
Alignment explanation
Indices: 59922--60014 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
59912 ATAGTCAGTA
59922 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
59963 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
60004 TCGCATTGCGA
1 TCGCATTGCGA
60015 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:63641 original size:21 final size:21
Alignment explanation
Indices: 63597--63641 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
63587 TGTTTTCATG
* *
63597 TTTTAAAAGCTTTAAAACCTT
1 TTTTAAAAGCTTTAAAAACAT
63618 TTTTAAATA-CTTTAAAAACAT
1 TTTTAAA-AGCTTTAAAAACAT
63639 TTT
1 TTT
63642 AATCAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTAAAAGCTTTAAAAACAT
Found at i:71269 original size:19 final size:19
Alignment explanation
Indices: 71229--71276 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
71219 ACTTTGACAG
* *
71229 AAAACAGAAGAGAAACTGA
1 AAAACAGAAGAAAAAATGA
71248 AAAACAGAAAGAAAAAAT-A
1 AAAACAG-AAGAAAAAATGA
*
71267 AAAACTGAAG
1 AAAACAGAAG
71277 TTCTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 14 0.56
20 8 0.32
ACGTcount: A:0.69, C:0.08, G:0.17, T:0.06
Consensus pattern (19 bp):
AAAACAGAAGAAAAAATGA
Found at i:72237 original size:127 final size:127
Alignment explanation
Indices: 72020--72253 Score: 308
Period size: 127 Copynumber: 1.8 Consensus size: 127
72010 TTTCTACGCC
*
72020 ACTTTTAAAAGTCAAATTTCAAAAATAATGTCAAATTGACCCTTACATAAAAAAGCTCAATACTT
1 ACTTTTAAAAGTCAAATTTCAAAAATAATGTCAAATTGACCATTACATAAAAAAGCTCAATACTT
*
72085 TAGGTACCTATTTTGGTAAAAAAATA-TTTAGGTGCCTATTTCAAAAATTCGTTTCTACATT
66 TAAGTACCTATTTTGGTAAAAAAATATTTTAGGTGCCTATTTCAAAAATTCGTTTCTACATT
** * * * * * *** *
72146 ACTTTTAAAAGTCATTTTTTCAAAAGTAATGTCAAGTTGGCCATTAGATGAAAATTTTTAATACT
1 ACTTTTAAAAGTCA-AATTTCAAAAATAATGTCAAATTGACCATTACATAAAAAAGCTCAATACT
* * *
72211 TTAAGTACTTATTTTGGTTAAGAAATATTTTAGGTGCCTATTT
65 TTAAGTACCTATTTTGGTAAAAAAATATTTTAGGTGCCTATTT
72254 TGATAAAAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
126 14 0.16
127 61 0.68
128 15 0.17
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (127 bp):
ACTTTTAAAAGTCAAATTTCAAAAATAATGTCAAATTGACCATTACATAAAAAAGCTCAATACTT
TAAGTACCTATTTTGGTAAAAAAATATTTTAGGTGCCTATTTCAAAAATTCGTTTCTACATT
Found at i:73437 original size:135 final size:134
Alignment explanation
Indices: 73196--73441 Score: 384
Period size: 135 Copynumber: 1.8 Consensus size: 134
73186 CTCTTGAGCA
* *
73196 GCTCTATAACTGGGATCAATAGAAGCAGCTCTAGAGGTTGGATCCCTCTATAATTGGGTTCGATG
1 GCTCTATAACTGGGATCAATAGAAGCAGCTCGAGAGCTTGGATCCCTCTATAATTGGGTTCGATG
* * **
73261 GATGCAGGTCTAGAGGTTGGATCTGCTCTATAACTGGGTTCAATGGTCGCAGGCCTAGAGATTGG
66 GAAGCAGGTCTAGAGCTTGGATCCACTCTATAACTGGGTTCAATGGTCGCAGGCCTAGAGATTGG
73326 ATTC
131 ATTC
* * * * *
73330 GCTCTATAATTGGGTTCGATGGAAGCAGGTCGAGAGCTTGGATCCACTCTATAATTGGGTTCGAT
1 GCTCTATAACTGGGATCAATAGAAGCAGCTCGAGAGCTTGGATCC-CTCTATAATTGGGTTCGAT
73395 GGAAGCAGGTCTAGAGCTTGGATCCACTCTATAACTGGGTTCAATGG
65 GGAAGCAGGTCTAGAGCTTGGATCCACTCTATAACTGGGTTCAATGG
73442 AAGTAGGTCG
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
134 38 0.38
135 62 0.62
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (134 bp):
GCTCTATAACTGGGATCAATAGAAGCAGCTCGAGAGCTTGGATCCCTCTATAATTGGGTTCGATG
GAAGCAGGTCTAGAGCTTGGATCCACTCTATAACTGGGTTCAATGGTCGCAGGCCTAGAGATTGG
ATTC
Found at i:73465 original size:45 final size:45
Alignment explanation
Indices: 73197--73466 Score: 326
Period size: 45 Copynumber: 6.0 Consensus size: 45
73187 TCTTGAGCAG
* * * *
73197 CTCTATAACTGGGATCAATAGAAGCAGCTCTAGAGGTTGGATCC-
1 CTCTATAACTGGGTTCAATGGAAGCAGGTCTAGAGCTTGGATCCA
* * * * **
73241 CTCTATAATTGGGTTCGATGGATGCAGGTCTAGAGGTTGGATCTG
1 CTCTATAACTGGGTTCAATGGAAGCAGGTCTAGAGCTTGGATCCA
** * * * *
73286 CTCTATAACTGGGTTCAATGGTCGCAGGCCTAGAGATTGGATTCG
1 CTCTATAACTGGGTTCAATGGAAGCAGGTCTAGAGCTTGGATCCA
* * *
73331 CTCTATAATTGGGTTCGATGGAAGCAGGTCGAGAGCTTGGATCCA
1 CTCTATAACTGGGTTCAATGGAAGCAGGTCTAGAGCTTGGATCCA
* *
73376 CTCTATAATTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
1 CTCTATAACTGGGTTCAATGGAAGCAGGTCTAGAGCTTGGATCCA
* *
73421 CTCTATAACTGGGTTCAATGGAAGTAGGTCGAGAGCTTGGATCCA
1 CTCTATAACTGGGTTCAATGGAAGCAGGTCTAGAGCTTGGATCCA
73466 C
1 C
73467 AGAACTCGGC
Statistics
Matches: 196, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
44 37 0.19
45 159 0.81
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (45 bp):
CTCTATAACTGGGTTCAATGGAAGCAGGTCTAGAGCTTGGATCCA
Found at i:85775 original size:29 final size:29
Alignment explanation
Indices: 85689--85778 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
85679 TCAAAATATA
* *
85689 TAACTTTTAAAAATTATATTTTTGGTC-TT
1 TAACTTTTAAAAATTATA-TTTTGGCCACT
* * *
85718 TAAACTTTTTAAAAGTTATACTTTAGCCACT
1 T-AAC-TTTTAAAAATTATATTTTGGCCACT
* *
85749 TAACTTTTAAAACTTACATTTTGGCCACT
1 TAACTTTTAAAAATTATATTTTGGCCACT
85778 T
1 T
85779 TTCAAAATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 23 0.47
30 11 0.22
31 15 0.31
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (29 bp):
TAACTTTTAAAAATTATATTTTGGCCACT
Found at i:89096 original size:143 final size:143
Alignment explanation
Indices: 88759--89187 Score: 709
Period size: 143 Copynumber: 3.0 Consensus size: 143
88749 TATGTGCATT
* * *
88759 TCGACATACTTTGTGTGTGATGGTTATCGATCAATTTTGTTTAAGGCATATGTTACATTTTCGTA
1 TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
88824 TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAG-TTGTGAATT
66 TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATT
* *
88888 ATCATTTCAACAC
131 ACCATTTCGACAC
*
88901 TCGACATACTTTGTGTATGATAGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
1 TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
* * *
88966 TCAGTACTATATGTAATTTCGACACTATGTGTGCATCCATGGAATTCATAACGAGTTTGTGAATT
66 TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATT
89031 ACCATTTCGACAC
131 ACCATTTCGACAC
* *
89044 TCGACATACTTTGTGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGT-ATTTTTGT
1 TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTT-TCATTTTCGT
89108 ATCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAAT
65 ATCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAAT
* * *
89173 TTCTATTTCGGCAC
130 TACCATTTCGACAC
89187 T
1 T
89188 TAAGTGCAAC
Statistics
Matches: 267, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
142 113 0.42
143 153 0.57
144 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (143 bp):
TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATT
ACCATTTCGACAC
Found at i:99314 original size:4 final size:4
Alignment explanation
Indices: 99307--99331 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
99297 TGTGTGTGTG
99307 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
99332 TTGAAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:112231 original size:24 final size:24
Alignment explanation
Indices: 112199--112244 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
112189 TGTTCCTCAC
*
112199 TGCTTCCTCGTCTCTCTTCTTCGA
1 TGCTTCCTCGTCACTCTTCTTCGA
*
112223 TGCTTCCTCTTCACTCTTCTTC
1 TGCTTCCTCGTCACTCTTCTTC
112245 TCCAACCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.04, C:0.39, G:0.09, T:0.48
Consensus pattern (24 bp):
TGCTTCCTCGTCACTCTTCTTCGA
Found at i:117364 original size:24 final size:24
Alignment explanation
Indices: 117332--117377 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
117322 TGTTCCTCAC
*
117332 TGCTTCCTCGTCTCTCTTCTTCGA
1 TGCTTCCTCGTCCCTCTTCTTCGA
*
117356 TGCTTCCTCTTCCCTCTTCTTC
1 TGCTTCCTCGTCCCTCTTCTTC
117378 TCCAACCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.02, C:0.41, G:0.09, T:0.48
Consensus pattern (24 bp):
TGCTTCCTCGTCCCTCTTCTTCGA
Done.