Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008475.1 Hibiscus syriacus cultivar Beakdansim tig00111303_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: 982705
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 1 of 4
Found at i:939 original size:117 final size:117
Alignment explanation
Indices: 694--942 Score: 367
Period size: 117 Copynumber: 2.1 Consensus size: 117
684 TGCCCAAACA
*
694 AAGCAAAGCTCGGTGCCAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
* * * * *
759 TTGAAGTGTTTCCGATGTGATGGAGAACACAAGGTGCGAGATTGTACCAATG
66 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
**
811 AAGCAGGGCTCGGTGACAATGCGAGTGGCGAAGC-ACTAAGCCGAGG-TAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
* *
874 TTGAAGTGTTTTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACCACCG
66 TTGAAGTG--TTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
*
928 AAGTAAAGCTCGGTG
1 AAGCAAAGCTCGGTG
943 CGAAAGCCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
115 25 0.21
116 12 0.10
117 80 0.68
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.17
Consensus pattern (117 bp):
AAGCAAAGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
Found at i:1615 original size:15 final size:15
Alignment explanation
Indices: 1595--1629 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1585 GACAAGGCTC
1595 TTCGAGTGAAGCTTG
1 TTCGAGTGAAGCTTG
*
1610 TTCGAGTGAAGTTTG
1 TTCGAGTGAAGCTTG
1625 TTCGA
1 TTCGA
1630 TGGTGAGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.37
Consensus pattern (15 bp):
TTCGAGTGAAGCTTG
Found at i:6875 original size:29 final size:29
Alignment explanation
Indices: 6843--6914 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
6833 GTGCCAAAAA
*
6843 ATAAATAACA-AAAA-TAAAAGGATAGAAAT
1 ATAAAT-ACATAAAAGT-AAAGGACAGAAAT
*
6872 ATAAATACATAAAAGTAAAGGGCAGAAAT
1 ATAAATACATAAAAGTAAAGGACAGAAAT
*
6901 ATAAATGCATAAAA
1 ATAAATACATAAAA
6915 TTAATGCTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.08
29 34 0.89
30 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (29 bp):
ATAAATACATAAAAGTAAAGGACAGAAAT
Found at i:7002 original size:36 final size:36
Alignment explanation
Indices: 6943--7011 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
6933 TTTGGTCGCC
*
6943 ATTTATGTCAGTTTTATTGGATCAAATT-AAAAGGAA
1 ATTTATGTCAGTTTTAATGGATC-AATTGAAAAGGAA
*
6979 ATTTATGTCATTTTTACAT-GATCAATTGAAAAG
1 ATTTATGTCAGTTTTA-ATGGATCAATTGAAAAG
7012 CAGAGTATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 4 0.14
36 24 0.83
37 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (36 bp):
ATTTATGTCAGTTTTAATGGATCAATTGAAAAGGAA
Found at i:12872 original size:65 final size:64
Alignment explanation
Indices: 12758--12956 Score: 210
Period size: 65 Copynumber: 3.1 Consensus size: 64
12748 AGTGATACAC
* * *
12758 CGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGCATTTCATG
1 CGATGCACCAA-CCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATGCATTTGATG
12820 CAT
62 CAT
* *
12823 TGATGCA-CATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGC
1 CGATGCACCA-ACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCATTTGATGC
12886 AT
63 AT
* * * * *
12888 CGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCAT
1 CGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTGATGCAT
12952 CGATG
1 CGATG
12957 TACTCTTAGT
Statistics
Matches: 114, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 45 0.39
65 61 0.54
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (64 bp):
CGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTGATGCAT
Found at i:12975 original size:64 final size:63
Alignment explanation
Indices: 12800--12979 Score: 168
Period size: 65 Copynumber: 2.8 Consensus size: 63
12790 AATTAAATTG
* * * * * *
12800 AACATCGAATGCATTTCATGCATTGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCACTTGATGCATCGATGCAC-CAGC-TGCACCGATGCACTCAGGATTTTATGAA
* * * *
12865 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTT-TG-
1 AACATCGAATGCACTTGATGCATCGATGCACCAG-C-TGCACCGATGCACTCAGGAT-TTTATGA
12928 A
63 A
*
12929 AACATCGAATGCACTTGATGCATCGATGTACTCTTAG-TGCACCGATGCACT
1 AACATCGAATGCACTTGATGCATCGATGCAC-C--AGCTGCACCGATGCACT
12980 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
64 44 0.44
65 50 0.51
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCACTTGATGCATCGATGCACCAGCTGCACCGATGCACTCAGGATTTTATGAA
Found at i:23749 original size:16 final size:16
Alignment explanation
Indices: 23728--23759 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23718 TCATACTGAG
23728 GCTAGGGATTTAATTT
1 GCTAGGGATTTAATTT
23744 GCTAGGGATTTAATTT
1 GCTAGGGATTTAATTT
23760 CCACGATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (16 bp):
GCTAGGGATTTAATTT
Found at i:25648 original size:108 final size:107
Alignment explanation
Indices: 25443--25677 Score: 260
Period size: 108 Copynumber: 2.2 Consensus size: 107
25433 TGCAAAATGA
* * *
25443 TCACCTGTAGGGACCAGTTTTATAATTTACCCATTTCTTATTCTAGTTATATATTTTTGGTTTAA
1 TCACCTGTAGGGA-CTGTTTTATAATTTACCCACTTCTTATGCTAGTTATATATTTTTGGTTTAA
* * * *
25508 TTTTTGTTTAGGCCTTATACTTTAGTGTGTTTTTGC-ATGTTAG
65 TTTTCGTTTAGGCATTATACTTTAGCGTGTTTTTACAAT-TTAG
* * *
25551 TCACCTGTAGGGACTGTTTTTTGATTTACCCACTT-TTATGC-ATGTTATTTATTTTTTGGTTTA
1 TCACCTGTAGGGACTGTTTTATAATTTACCCACTTCTTATGCTA-GTTATATA-TTTTTGGTTTA
* * *
25614 ATTTTCGTTTAGTCATTGTATGTTTAGCGTGTTTTTACAATTTAG
64 ATTTTCGTTTAGGCATTATA-CTTTAGCGTGTTTTTACAATTTAG
** *
25659 TCATGTGTAGTGACTGTTT
1 TCACCTGTAGGGACTGTTT
25678 AATTTTTTAA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
105 1 0.01
106 12 0.11
107 45 0.42
108 47 0.44
109 2 0.02
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.51
Consensus pattern (107 bp):
TCACCTGTAGGGACTGTTTTATAATTTACCCACTTCTTATGCTAGTTATATATTTTTGGTTTAAT
TTTCGTTTAGGCATTATACTTTAGCGTGTTTTTACAATTTAG
Found at i:26392 original size:4 final size:4
Alignment explanation
Indices: 26383--26412 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
26373 AATATTGGTA
26383 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
26413 TTGCTTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:33449 original size:76 final size:77
Alignment explanation
Indices: 33360--33508 Score: 212
Period size: 76 Copynumber: 1.9 Consensus size: 77
33350 TACATAATTC
*
33360 ATCTATAGAAGATCCAGGTGTGC-ATCGAAAAGAACATAACATCTCAAATTTTTCACACATT-TT
1 ATCTATAGAAGATCCAGGTGTACGA-CGAAAAGAACATAACATCTCAAATTTTTCACACATTCTT
33423 CCATTATTAGTTA
65 CCATTATTAGTTA
* * ** *
33436 ATCTATATAAGATCCGGGTGTACGACGAAAATCACATAACATCTCAATTTTTTCACACATTCTTC
1 ATCTATAGAAGATCCAGGTGTACGACGAAAAGAACATAACATCTCAAATTTTTCACACATTCTTC
*
33501 TATTATTA
66 CATTATTA
33509 ATTACTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
76 53 0.83
77 11 0.17
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (77 bp):
ATCTATAGAAGATCCAGGTGTACGACGAAAAGAACATAACATCTCAAATTTTTCACACATTCTTC
CATTATTAGTTA
Found at i:46964 original size:64 final size:64
Alignment explanation
Indices: 46895--47115 Score: 243
Period size: 64 Copynumber: 3.5 Consensus size: 64
46885 TTGAAGGTGT
**
46895 ATCGATGCATTAGTAGTGCATCGATGCA-CTCTTTTAA-AATTCAAACATCGAATGCAATTCATG
1 ATCGATGCATTAGTAGTGCATCGATGCATC-CCATTAATAA-TCAAACATCGAATGCAATTCATG
46958 C
64 C
* * ** *
46959 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGT
1 ATCGATGCATTAGTAGTGCATCGATGCATCCCATTAATAATCAAACATCGAATGCAATTCATGC
* ** * ** *
47023 ATCGATGCATTAAG-AGTGCATCGATGTATCCCAGCAATAAT-AATACATCGAATACCTTTTATG
1 ATCGATGCATT-AGTAGTGCATCGATGCATCCCATTAATAATCAA-ACATCGAATGCAATTCATG
47086 C
64 C
*
47087 ATCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATTAGTAGTGCATCGATGCAT
47116 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
63 4 0.03
64 124 0.93
65 5 0.04
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (64 bp):
ATCGATGCATTAGTAGTGCATCGATGCATCCCATTAATAATCAAACATCGAATGCAATTCATGC
Found at i:47433 original size:12 final size:12
Alignment explanation
Indices: 47415--47450 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
47405 TATATATGTT
47415 CATGTGATATGA
1 CATGTGATATGA
*
47427 TATGTGATATGA
1 CATGTGATATGA
*
47439 CCTGTGATATGA
1 CATGTGATATGA
47451 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:47613 original size:15 final size:15
Alignment explanation
Indices: 47595--47672 Score: 147
Period size: 15 Copynumber: 5.2 Consensus size: 15
47585 GAGGGTATAA
*
47595 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
47610 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
47625 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
47640 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
47655 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
47670 TAG
1 TAG
47673 GAGTCCTACG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 62 1.00
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:53578 original size:64 final size:63
Alignment explanation
Indices: 53510--53730 Score: 266
Period size: 64 Copynumber: 3.5 Consensus size: 63
53500 TTGAAGGTGT
* **
53510 ATCGATGCATTAGTAGTGCATCGATGCA-CTCTTTTAA-AATTCAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAA-T-AAACATCGAATGCAATTCATG
53573 C
63 C
**
53574 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAT-AAACATCGAATGCAATTCATGC
* * * * ** *
53638 ATCGATGCATAAGGAGTGTATCGATGCATCCCAGTAATAATAATACATCGAATACCTTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAA-ACATCGAATGCAATTCATGC
*
53702 ATCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
53731 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
63 2 0.01
64 132 0.96
65 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAACATCGAATGCAATTCATGC
Found at i:54057 original size:12 final size:12
Alignment explanation
Indices: 54040--54073 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
54030 TATATGTTCA
54040 TGTGATATGA-T
1 TGTGATATGACT
54051 CTGTGATATGACT
1 -TGTGATATGACT
54064 TGTGATATGA
1 TGTGATATGA
54074 GAACATGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (12 bp):
TGTGATATGACT
Found at i:54235 original size:15 final size:15
Alignment explanation
Indices: 54217--54279 Score: 117
Period size: 15 Copynumber: 4.2 Consensus size: 15
54207 GAGGGTATAA
*
54217 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
54232 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
54247 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
54262 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
54277 TAG
1 TAG
54280 GAGTCCTACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:61040 original size:37 final size:37
Alignment explanation
Indices: 60977--61063 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 37
60967 TTTAGTATAT
* *
60977 ATATATATATATATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATA-ATAAATAATTTTTGAAAACATTTTGAAA
61015 ATATATATAATAAATAATTTTTGAAAACATTTTGAAA
1 ATATATATAATAAATAATTTTTGAAAACATTTTGAAA
* *
61052 AAATATAAAATA
1 ATATATATAATA
61064 TTTATGTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 36 0.80
38 9 0.20
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (37 bp):
ATATATATAATAAATAATTTTTGAAAACATTTTGAAA
Found at i:61090 original size:17 final size:17
Alignment explanation
Indices: 61065--61123 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
61055 TATAAAATAT
*
61065 TTATGTATTATATTTTA
1 TTATTTATTATATTTTA
*
61082 TTATTTATTATATTTTC
1 TTATTTATTATATTTTA
* *
61099 TT-TTCATTTTA-TTTA
1 TTATTTATTATATTTTA
61114 TTTATTTATT
1 -TTATTTATT
61124 TTCTTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 3 0.09
16 9 0.26
17 22 0.65
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTATTATATTTTA
Found at i:61109 original size:28 final size:26
Alignment explanation
Indices: 61075--61144 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 26
61065 TTATGTATTA
61075 TATTTTATTATTTATTATATTTTCTTT
1 TATTTTATTATTTATT-TATTTTCTTT
61102 TCATTTTATTTATTTATTTATTTTCTTT
1 T-ATTTTA-TTATTTATTTATTTTCTTT
61130 T-TTTTA-TATTTATTT
1 TATTTTATTATTTATTT
61145 TGGTCCAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.22
26 5 0.12
27 1 0.02
28 17 0.41
29 9 0.22
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (26 bp):
TATTTTATTATTTATTTATTTTCTTT
Found at i:61112 original size:33 final size:33
Alignment explanation
Indices: 61070--61145 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
61060 AATATTTATG
61070 TATTATATTTTA-TTATTTATTATATTTTCTTTTCA
1 TATT-TATTTTATTTATTTATTATATTTT-TTTT-A
* *
61105 T-TTTA-TTTATTTATTTATTTTCTTTTTTTTA
1 TATTTATTTTATTTATTTATTATATTTTTTTTA
61136 TATTTATTTT
1 TATTTATTTT
61146 GGTCCAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
31 2 0.06
32 12 0.33
33 19 0.53
34 2 0.06
35 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (33 bp):
TATTTATTTTATTTATTTATTATATTTTTTTTA
Found at i:62153 original size:15 final size:15
Alignment explanation
Indices: 62133--62167 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
62123 CCTTTTTATT
*
62133 TTTTTATTTATTGAC
1 TTTTTATTTATTAAC
*
62148 TTTTTATTTTTTAAC
1 TTTTTATTTATTAAC
62163 TTTTT
1 TTTTT
62168 TTAAATTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTATTTATTAAC
Found at i:65008 original size:24 final size:24
Alignment explanation
Indices: 64981--65080 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
64971 TATATCAAAA
* *
64981 ATCAAAACATAATTCAGGTCAAGT
1 ATCAAATCAGAATTCAGGTCAAGT
* * *
65005 ATCATATCA-AAATCTATGTCAAGT
1 ATCAAATCAGAATTC-AGGTCAAGT
* *
65029 ATCAGATCAGAATCCAGGTCAAGT
1 ATCAAATCAGAATTCAGGTCAAGT
* * *
65053 ATCAATTCAGAATCCAAGTCAAGT
1 ATCAAATCAGAATTCAGGTCAAGT
65077 ATCA
1 ATCA
65081 TAACAAAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 4 0.06
24 56 0.89
25 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (24 bp):
ATCAAATCAGAATTCAGGTCAAGT
Found at i:69945 original size:24 final size:24
Alignment explanation
Indices: 69918--70026 Score: 121
Period size: 24 Copynumber: 4.5 Consensus size: 24
69908 TATATCAAAA
* * *
69918 ATCAAAACATAATTCAGGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
* *
69942 ATCATATCAAAATCCATGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
* *
69966 ATCAGATCAGAATCCAGGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
* *
69990 ATCAAATCAGAATCCATGTCAAGT
1 ATCAAATCAAAATCCAGGTCAAGT
70014 ATCATAA-CAAAAT
1 ATCA-AATCAAAAT
70027 TAAAATCGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
24 71 0.97
25 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (24 bp):
ATCAAATCAAAATCCAGGTCAAGT
Found at i:75739 original size:17 final size:17
Alignment explanation
Indices: 75719--75759 Score: 66
Period size: 16 Copynumber: 2.4 Consensus size: 17
75709 TGTATCGCCG
75719 ACAAAATTTTACTATTC
1 ACAAAATTTTACTATTC
75736 ACAAAA-TTTACTATTC
1 ACAAAATTTTACTATTC
75752 ACATAAAT
1 ACA-AAAT
75760 AGTAACCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
ACAAAATTTTACTATTC
Found at i:79005 original size:15 final size:15
Alignment explanation
Indices: 78985--79074 Score: 144
Period size: 15 Copynumber: 6.0 Consensus size: 15
78975 TAATAAGGTC
78985 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
79000 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
79015 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
79030 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
79045 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
79060 AATTATTATAAAATA
1 ATTTATTTTAAAATA
79075 TGGATTGATT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 69 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:79126 original size:54 final size:53
Alignment explanation
Indices: 79062--79908 Score: 361
Period size: 54 Copynumber: 15.8 Consensus size: 53
79052 TTAAAATAAA
*
79062 TTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTACGAATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA-GAATTGAT
79116 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATT-AT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA-GAATTGAT
*
79169 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAGA-ATTGAT
* * *
79223 TTATTTTAAAATATGGATTGATTTATTATT--GT-AGTT-GTA-TAG-ATTGAT
1 TTATTTTAAAATATGGATTGATTTATT-TTAAATAATTTATTAGTAGAATTGAT
** ** * * *
79271 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA-ATATGGATT-GATTTATTTTAA
1 TTATTTT-AA-AA--TA-T-G---G-ATTGATTTATTTTAAATA-ATTTATTAG-TAGAATTGAT
* * * * ** ** * * *
79334 ATAATTTATTAGTATGGATTGATTTATTTTAAA-ATATAGATT-GATTTATTTTAA
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATA-ATTTATTAG-TAGAATTGAT
* * * *
79388 ATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T--T-G-ATTGAT
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTAGAATTGAT
* *
79433 TTATTTTAAAATATGGATTGATTTATTCTAAATAAATTATTAGTATGAATTGAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA-GAATTGAT
* * * * * * * *
79487 TTATTTT-AAATA---ATTTATTTGTATGGGTTGATTTATTT-TAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGA-TT-TAT--TTTAAATAATTTAT-TAGTA-GAATTGAT
*** *
79541 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTA-GAATTGAT
* ** ** * * *
79599 TTATTTTAAAATATGAATTGATTTATTTTAAA-ATATGGATT-GATTTATTTTAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATA-ATTTATTAG-TAGAATTGAT
* * * * * * *
79652 ATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGTATAGATTGAT
1 TTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTAGA-ATTGAT
* * * * *
79707 TTATTTTAAAATATAGATTGATTTATTATT--GTAGTTGTATGTA-TTG-ATTTATT
1 TTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TAT-TAGTAGAATTGA-T
* *
79760 TTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G--G-ATTGAT
1 TT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTAGAATTGAT
*** *
79809 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTA-GAATTGAT
79867 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
79909 TTGTAGTTAT
Statistics
Matches: 621, Mismatches: 97, Indels: 150
0.72 0.11 0.17
Matches are distributed among these distances:
44 18 0.03
45 11 0.02
46 2 0.00
47 5 0.01
48 38 0.06
49 9 0.01
50 16 0.03
51 5 0.01
52 17 0.03
53 81 0.13
54 287 0.46
55 24 0.04
56 6 0.01
57 14 0.02
58 60 0.10
59 4 0.01
60 6 0.01
61 3 0.00
62 7 0.01
63 8 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (53 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAGAATTGAT
Found at i:79183 original size:21 final size:22
Alignment explanation
Indices: 79159--79200 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
79149 AATTTATTAG
79159 TATGAATT-ATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
79180 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
79201 TAATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:79275 original size:80 final size:79
Alignment explanation
Indices: 79180--79893 Score: 500
Period size: 80 Copynumber: 8.9 Consensus size: 79
79170 TATTTTAAAA
79180 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
79245 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
*
79260 TATAGATTGATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGA
*
79324 TTTATTTTAAATAATTTATTAG
65 TTTA--TT--AT--TGTATT-G
* * * *
79346 TATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATGG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGA-TTT--AT--TTTA-AAATATGG
***
79405 ATTGATTTA-T-TT-TAAAA
60 ATTGATTTATTATTGTATTG
* * * * * * * * *
79422 TATTGATTGATTTATTTTAAAATATGGATTGATTTATTCTA-AATAAATTATTAGTATGAAT-T-
1 TATGGATTGATTTATTTT-AAATA---ATTTA-TTAGTATAGATTGATTTATT-TTA-AAATATG
* *
79484 GATTTATTTTAAATAATT-TATTTG
59 GATTGA-TTT--ATTATTGTA-TTG
* * * * * ***
79508 TATGGGTTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA-AAATATGGATTGA
*
79566 TTTATTTTAAATAATTTATTAG
65 TTTA--TT--AT--TGTATT-G
79588 TATGGATTGATTTATTTT-AA-AA--TA-T-G---A-ATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
*
79643 TTATTTTAAATAATTTATTAG
66 TTA--TT--AT--TGTATT-G
* * *
79664 TATAGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
79729 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
* *
79744 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
79809 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
*
79824 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
79889 TTATT
66 TTATT
79894 TTAAATAATT
Statistics
Matches: 522, Mismatches: 56, Indels: 112
0.76 0.08 0.16
Matches are distributed among these distances:
73 1 0.00
74 4 0.01
75 11 0.02
76 79 0.15
77 13 0.02
78 6 0.01
79 5 0.01
80 256 0.49
81 15 0.03
82 13 0.02
83 7 0.01
84 9 0.02
85 15 0.03
86 87 0.17
87 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (79 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTATTG
Found at i:79306 original size:32 final size:30
Alignment explanation
Indices: 79259--79528 Score: 190
Period size: 32 Copynumber: 9.7 Consensus size: 30
79249 TATTGTAGTT
79259 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAA-TTATTA
79291 GTATGAATTGATTTATTTT-AA-AA-TA-T-
1 GTATG-ATTGATTTATTTTAAATAATTATTA
79317 G---GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAA-TTATTA
79345 GTATGGATTGATTTATTTT--A-AA--A-TA
1 GTAT-GATTGATTTATTTTAAATAATTATTA
79370 -TA-GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAA-TTATTA
79399 GTATGGATTGATTTATTTT--A-AA--A-TA
1 GTAT-GATTGATTTATTTTAAATAATTATTA
79424 -T-TGATTGATTTATTTT-AA-AA-TA-T-
1 GTATGATTGATTTATTTTAAATAATTATTA
*
79447 G---GATTGATTTATTCTAAATAAATTATTA
1 GTATGATTGATTTATTTTAAAT-AATTATTA
*
79475 GTATGAATTGATTTATTTTAAATAATTTATTT
1 GTATG-ATTGATTTATTTTAAATAA-TTATTA
*
79507 GTATGGGTTGATTTATTTTAAA
1 GTAT-GATTGATTTATTTTAAA
79529 ATATGGATTG
Statistics
Matches: 198, Mismatches: 4, Indels: 72
0.72 0.01 0.26
Matches are distributed among these distances:
22 54 0.27
23 9 0.05
24 8 0.04
25 8 0.04
26 7 0.04
27 3 0.02
28 5 0.03
29 6 0.03
30 6 0.03
31 6 0.03
32 85 0.43
33 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (30 bp):
GTATGATTGATTTATTTTAAATAATTATTA
Found at i:79317 original size:22 final size:22
Alignment explanation
Indices: 79292--79334 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
79282 AATTTATTAG
79292 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
79314 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
79335 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:79375 original size:22 final size:22
Alignment explanation
Indices: 79350--79464 Score: 104
Period size: 22 Copynumber: 4.8 Consensus size: 22
79340 TATTAGTATG
79350 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
79372 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
* *
79399 GTATGGATTGATTTATTTTAAAATATT
1 G-ATTGA-T---TTATTTTAAAATATA
*
79426 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATA
*
79448 GATTGATTTATTCTAAA
1 GATTGATTTATTTTAAA
79465 TAAATTATTA
Statistics
Matches: 78, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
22 44 0.56
23 2 0.03
24 2 0.03
25 1 0.01
26 6 0.08
27 5 0.06
28 6 0.08
29 1 0.01
30 2 0.03
31 2 0.03
32 7 0.09
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:79396 original size:188 final size:184
Alignment explanation
Indices: 79062--79908 Score: 1016
Period size: 188 Copynumber: 4.5 Consensus size: 184
79052 TTAAAATAAA
* *
79062 TTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTACGAATTGATTTATTTTAAAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
* * *
79127 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATT-ATTTATTTTAAAATATGGATTGAT
66 TATGGATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATAGATTGAT
*
79191 TTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
131 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*** *
79245 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
1 TTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
*
79310 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGAT
62 AAAATATGGATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATAGAT
*
79375 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTGAT
127 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
79433 TTATTTTAAAATATGGATTGATTTATTCTAAATAAATTATTAGTATGAATTGATTTATTTT-AAA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
* * * * * * ***
79497 TA---ATTTATTTGTATGGGTTGATTTATTT-TAAAATATGGATTGATTTATTATTGTAGTTGTA
66 TATGGATTGA-TT-TAT--TTTAAATAATTTAT-TAATATGGATTGATTTA-T-TT-TA-AAATA
* *
79558 TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
122 TAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
79621 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTT-AA
1 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAA
* * * * * * * ** *
79684 ATA---ATTTATTT-GTATAGATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTGT
65 ATATGGATTGATTTATTTTA-AATAATTTA--TT--AATATGGATTGATTTATT-TT-AAAATAT
79745 ATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
123 A-G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*** *
79809 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
1 TTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
79874 AAAATATGGATTGATTTATTTTAAATAATTTATTA
62 AAAATATGGATTGATTTATTTTAAATAATTTATTA
79909 TTGTAGTTAT
Statistics
Matches: 575, Mismatches: 54, Indels: 61
0.83 0.08 0.09
Matches are distributed among these distances:
180 4 0.01
181 2 0.00
182 3 0.01
183 10 0.02
184 78 0.14
185 4 0.01
186 11 0.02
187 101 0.18
188 284 0.49
189 1 0.00
190 2 0.00
191 2 0.00
192 49 0.09
193 5 0.01
194 2 0.00
196 14 0.02
197 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (184 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
TATGGATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATAGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
Found at i:79399 original size:108 final size:109
Alignment explanation
Indices: 79260--79813 Score: 484
Period size: 108 Copynumber: 5.1 Consensus size: 109
79250 ATTGTAGTTG
79260 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
79325 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA-
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
* *
79368 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTGAT
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
* * * **
79433 TTATTTT-AA-AA--TA-T-GGATTGATTTATTCTA-AATAAATTAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATT-TATTTTAAA--AT
* **
79473 TAGTATGAATTGATTTATTTTAAATAATTTATTTGTATGGGTTGATTTATTTTAAAATATGGATT
1 TA-TA-G-ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATT
*
79538 GATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATT
63 GATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA-T
* * * *
79582 TATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGAATTGATTTATTTTAAAATATGGATTG
1 TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
*
79641 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTT
64 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A--T
* * *** *
79695 GTATAGATTGATTTATTTT-AA-AA--TA-TAG-ATTG-ATTTA-TTATTGTAGTTGTATGTATT
1 -TATAGATTGATTTATTTTAAATAATTTATTAGTA-TGAATTGATTTATTTTA-AAATATGGATT
79752 GATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA-
63 GATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
*
79798 TATGGATTGATTTATT
1 TATAGATTGATTTATT
79814 ATTGTAGTTG
Statistics
Matches: 372, Mismatches: 38, Indels: 78
0.76 0.08 0.16
Matches are distributed among these distances:
102 63 0.17
103 7 0.02
104 5 0.01
105 5 0.01
106 11 0.03
107 10 0.03
108 172 0.46
109 12 0.03
110 3 0.01
111 7 0.02
112 61 0.16
113 13 0.03
114 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (109 bp):
TATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
Found at i:79430 original size:76 final size:76
Alignment explanation
Indices: 79350--79496 Score: 258
Period size: 76 Copynumber: 1.9 Consensus size: 76
79340 TATTAGTATG
* * *
79350 GATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
1 GATTGATTTATTTTAAAATATAGATTGATTTATTCTAAATAAATTATTAGTATGAATTGATTTAT
79415 TTTAAAATATT
66 TTTAAAATATT
*
79426 GATTGATTTATTTTAAAATATGGATTGATTTATTCTAAATAAATTATTAGTATGAATTGATTTAT
1 GATTGATTTATTTTAAAATATAGATTGATTTATTCTAAATAAATTATTAGTATGAATTGATTTAT
79491 TTTAAA
66 TTTAAA
79497 TAATTTATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (76 bp):
GATTGATTTATTTTAAAATATAGATTGATTTATTCTAAATAAATTATTAGTATGAATTGATTTAT
TTTAAAATATT
Found at i:79596 original size:32 final size:31
Alignment explanation
Indices: 79553--79716 Score: 157
Period size: 32 Copynumber: 5.8 Consensus size: 31
79543 ATTATTGTAG
79553 TTGTATGGATTGATTTATTTTAAATAATTTA
1 TTGTATGGATTGATTTATTTTAAATAATTTA
79584 TTAGTATGGATTGATTTATTTT-AA-AA--TA
1 TT-GTATGGATTGATTTATTTTAAATAATTTA
79612 -TG-A---ATTGATTTATTTTAAA-A-----
1 TTGTATGGATTGATTTATTTTAAATAATTTA
79632 ---TATGGATTGATTTATTTTAAATAATTTA
1 TTGTATGGATTGATTTATTTTAAATAATTTA
*
79660 TTAGTATAGATTGATTTATTTTAAATAATTTA
1 TT-GTATGGATTGATTTATTTTAAATAATTTA
*
79692 TTTGTATAGATTGATTTATTTTAAA
1 -TTGTATGGATTGATTTATTTTAAA
79717 ATATAGATTG
Statistics
Matches: 115, Mismatches: 1, Indels: 33
0.77 0.01 0.22
Matches are distributed among these distances:
19 1 0.01
22 29 0.25
23 4 0.03
25 1 0.01
26 1 0.01
27 1 0.01
28 2 0.02
30 2 0.02
31 4 0.03
32 68 0.59
33 2 0.02
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (31 bp):
TTGTATGGATTGATTTATTTTAAATAATTTA
Found at i:79613 original size:22 final size:22
Alignment explanation
Indices: 79588--79652 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
79578 AATTTATTAG
79588 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
79610 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
79632 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
79653 TAATTTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:79660 original size:14 final size:14
Alignment explanation
Indices: 79641--79694 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
79631 ATATGGATTG
79641 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
79655 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
79673 ATTTATTTTAAATA
1 ATTTATTTTAAATA
79687 ATTTATTT
1 ATTTATTT
79695 GTATAGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:79678 original size:18 final size:18
Alignment explanation
Indices: 79655--79734 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
79645 ATTTTAAATA
79655 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
* *
79673 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
*
79687 ATTTATTTGTATAGATTG
1 ATTTATTAGTATAGATTG
*
79705 ATTTATTTTAAAATATAGATTG
1 ATTTA--TT--AGTATAGATTG
79727 ATTTATTA
1 ATTTATTA
79735 TTGTAGTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
14 9 0.19
15 2 0.04
16 2 0.04
17 2 0.04
18 15 0.31
20 4 0.08
22 14 0.29
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:79792 original size:22 final size:23
Alignment explanation
Indices: 79767--79840 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
79757 ATTTTAAATA
79767 ATTTAT-TAGTATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
79789 ATTT-TAAAATATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
79811 ATTATTGTAGTTGTATGGATTGATTT
1 A-T-TTATA-TAGTATGGATTGATTT
79837 ATTT
1 ATTT
79841 TAAATAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.02
22 19 0.45
23 1 0.02
24 4 0.10
25 3 0.07
26 14 0.33
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (23 bp):
ATTTATATAGTATGGATTGATTT
Found at i:79881 original size:22 final size:22
Alignment explanation
Indices: 79856--79898 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79846 AATTTATTAG
79856 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
79878 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
79899 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:79958 original size:31 final size:31
Alignment explanation
Indices: 79923--79981 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
79913 AGTTATATGG
* * *
79923 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAATATTGCAAAACTAAA
79954 ATTATTTAAATCTCAATATTGCAAAACT
1 ATTATTTAAATCTCAATATTGCAAAACT
79982 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAATATTGCAAAACTAAA
Found at i:84140 original size:24 final size:24
Alignment explanation
Indices: 84056--84140 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
84046 AAACGAAGAT
*
84056 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
84080 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
84104 ATAAGAAATCAGAACATAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
84128 ATCATAAACCAGA
1 ATCAGAAATCAGA
84141 TAAAAAATCA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:84140 original size:36 final size:36
Alignment explanation
Indices: 84100--84181 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
84090 ATAACAGAAT
* * *
84100 CCAGATAAGAAATCAGAACATAATTCAGATC-ATAAA
1 CCAGATAAAAAATCAGAACAGAATTCAAATCGA-AAA
84136 CCAGATAAAAAATCAGAACAGAATTCAAATCGAAAA
1 CCAGATAAAAAATCAGAACAGAATTCAAATCGAAAA
*
84172 TCAGATAAAA
1 CCAGATAAAA
84182 CATTCATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 40 0.98
37 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.11, T:0.17
Consensus pattern (36 bp):
CCAGATAAAAAATCAGAACAGAATTCAAATCGAAAA
Found at i:94327 original size:3 final size:3
Alignment explanation
Indices: 94314--94369 Score: 94
Period size: 3 Copynumber: 18.0 Consensus size: 3
94304 CTTTAAAAAC
94314 TTA TTA TTTA TTA TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94361 TTA TTA TTA
1 TTA TTA TTA
94370 CATTTGTGCA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:97271 original size:30 final size:31
Alignment explanation
Indices: 97231--97290 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
97221 ACATGCTGCC
**
97231 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
97262 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
97291 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:99693 original size:5 final size:5
Alignment explanation
Indices: 99683--99730 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
99673 TTTGAACTTC
99683 TCTTT TCTTT TCTTT TCTTT TC--T TCTTT TCTTCT T-TTCT TCTTT TCTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTT-T TCTT-T TCTTT TCTT
99731 CTTTACTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.08
5 32 0.82
6 4 0.10
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:99710 original size:8 final size:8
Alignment explanation
Indices: 99683--99734 Score: 81
Period size: 8 Copynumber: 6.6 Consensus size: 8
99673 TTTGAACTTC
99683 TCTTTTCT
1 TCTTTTCT
99691 T-TTCTT-T
1 TCTT-TTCT
99698 TCTTTTCT
1 TCTTTTCT
99706 TCTTTTCT
1 TCTTTTCT
99714 TCTTTTCT
1 TCTTTTCT
99722 TCTTTTCT
1 TCTTTTCT
99730 TCTTT
1 TCTTT
99735 ACTGATTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
7 6 0.15
8 35 0.85
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TCTTTTCT
Found at i:99730 original size:13 final size:13
Alignment explanation
Indices: 99687--99722 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
99677 AACTTCTCTT
99687 TTCTTTTCTTTTC
1 TTCTTTTCTTTTC
99700 TT-TTCTTCTTTTC
1 TTCTT-TTCTTTTC
99713 TTCTTTTCTT
1 TTCTTTTCTT
99723 CTTTTCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.10
13 17 0.81
14 2 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTTCTTTTC
Found at i:99743 original size:24 final size:24
Alignment explanation
Indices: 99697--99743 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
99687 TTCTTTTCTT
* **
99697 TTCTTTTCTTCTTTTCTTCTTTTC
1 TTCTTTTCTTCTTTACTGATTTTC
99721 TTCTTTTCTTCTTTACTGATTTT
1 TTCTTTTCTTCTTTACTGATTTT
99744 TATCTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.72
Consensus pattern (24 bp):
TTCTTTTCTTCTTTACTGATTTTC
Found at i:101915 original size:23 final size:25
Alignment explanation
Indices: 101870--101921 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
101860 AATAAAGGGG
*
101870 ATAATAATATAAGTAATGAAAATAA
1 ATAATAATATAAGAAATGAAAATAA
*
101895 ATAATAATA-ATGAAATG-AAATAA
1 ATAATAATATAAGAAATGAAAATAA
101918 ATAA
1 ATAA
101922 AGGATAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.40
24 6 0.24
25 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (25 bp):
ATAATAATATAAGAAATGAAAATAA
Found at i:107163 original size:8 final size:8
Alignment explanation
Indices: 107150--107192 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
107140 ATCTTTTTCT
107150 TTTTCTTC
1 TTTTCTTC
107158 TTTTCTTC
1 TTTTCTTC
107166 TTTTCTTC
1 TTTTCTTC
107174 TTTT-TGTC
1 TTTTCT-TC
107182 TTTTCTT-
1 TTTTCTTC
107189 TTTT
1 TTTT
107193 TGCACTCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 5 0.15
8 27 0.82
9 1 0.03
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTCTTC
Found at i:107169 original size:16 final size:16
Alignment explanation
Indices: 107141--107194 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
107131 CTTTTTGAAA
*
107141 TCTTTTTCT-TTTTCT
1 TCTTTTTGTCTTTTCT
107156 TCTTTTCT-TCTTTTCT
1 TCTTTT-TGTCTTTTCT
107172 TCTTTTTGTCTTTTCT
1 TCTTTTTGTCTTTTCT
107188 T-TTTTTG
1 TCTTTTTG
107195 CACTCCAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
15 14 0.39
16 22 0.61
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.78
Consensus pattern (16 bp):
TCTTTTTGTCTTTTCT
Found at i:107183 original size:24 final size:25
Alignment explanation
Indices: 107146--107193 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
107136 TGAAATCTTT
*
107146 TTCTTTTTCTTCTTTTCTTCTTTTC
1 TTCTTTTTCGTCTTTTCTTCTTTTC
*
107171 TTCTTTTT-GTCTTTTCTTTTTTT
1 TTCTTTTTCGTCTTTTCTTCTTTT
107194 GCACTCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (25 bp):
TTCTTTTTCGTCTTTTCTTCTTTTC
Found at i:107193 original size:8 final size:8
Alignment explanation
Indices: 107143--107185 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
107133 TTTTGAAATC
107143 TTTTTCTT
1 TTTTTCTT
107151 TTTCTTCTT
1 TTT-TTCTT
*
107160 TTCTTCTT
1 TTTTTCTT
*
107168 TTCTTCTT
1 TTTTTCTT
*
107176 TTTGTCTT
1 TTTTTCTT
107184 TT
1 TT
107186 CTTTTTTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTCTT
Found at i:107502 original size:23 final size:25
Alignment explanation
Indices: 107457--107508 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
107447 AATAAAGGGG
*
107457 ATAATAATATAAGTAATGAAAATAA
1 ATAATAATATAAGAAATGAAAATAA
*
107482 ATAATAATA-ATGAAATG-AAATAA
1 ATAATAATATAAGAAATGAAAATAA
107505 ATAA
1 ATAA
107509 AGGATAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.40
24 6 0.24
25 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (25 bp):
ATAATAATATAAGAAATGAAAATAA
Found at i:115200 original size:34 final size:34
Alignment explanation
Indices: 115152--115218 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
115142 TGATGGTGTT
**
115152 TTTCTAAAAACAAATTTTGTCTCACTTGAGACAA
1 TTTCTAAAAACAAATTTCATCTCACTTGAGACAA
* * *
115186 TTTCTTAAATCAAATTTCATCTCGCTTGAGACA
1 TTTCTAAAAACAAATTTCATCTCACTTGAGACA
115219 TTTTTCCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (34 bp):
TTTCTAAAAACAAATTTCATCTCACTTGAGACAA
Found at i:115574 original size:33 final size:34
Alignment explanation
Indices: 115537--115616 Score: 110
Period size: 33 Copynumber: 2.4 Consensus size: 34
115527 ATTCTGAAAT
*
115537 TGTTTCACTTGAAATAAAAATCATCTTTGAG-TC
1 TGTTTCACTTGAAATAAAAACCATCTTTGAGATC
* *
115570 TGTTTCACTGGAAATAACAACCATCTTTGAGATC
1 TGTTTCACTTGAAATAAAAACCATCTTTGAGATC
*
115604 -GTTTCTCTTGAAA
1 TGTTTCACTTGAAA
115617 CAAATCTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
33 39 0.95
34 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (34 bp):
TGTTTCACTTGAAATAAAAACCATCTTTGAGATC
Found at i:115807 original size:33 final size:35
Alignment explanation
Indices: 115723--115846 Score: 120
Period size: 35 Copynumber: 3.7 Consensus size: 35
115713 GTGAAATACC
*
115723 CATCTTTGAGTCTGTTTCCCTTTAAACAAAACAAA
1 CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAA
** **
115758 CATCTTTGAGAT-TGTTTCCCTTGAAA-TGAATTAA
1 CATCTTTGAG-TCTGTTTCCCTTGAAACAAAACAAA
*
115792 -ATCTTTGAGTCTGTTTCTCTTGAAACAAAAC---
1 CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAA
*
115823 CATCTTTGAGTC--ATTCCCTTGAAA
1 CATCTTTGAGTCTGTTTCCCTTGAAA
115847 TAAATTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
30 10 0.14
32 12 0.16
33 22 0.30
34 6 0.08
35 23 0.31
36 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (35 bp):
CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAA
Found at i:116295 original size:126 final size:125
Alignment explanation
Indices: 116153--116485 Score: 357
Period size: 126 Copynumber: 2.7 Consensus size: 125
116143 AAGTATAATT
* *
116153 GTGTTATCACCCTTAGATGGCAAAGACTCATGAACAGATGAGCAATGTCATCACATGACCAGATC
1 GTGTTATCACCCTTAGATGACCAAGACTCATGAACAGATGAGCAATGTCATCACATGACCAGATC
** * * * * * *
116218 TCCTCAATATGTAGGAGCTGTGTCAA-CTTAGATAA-CTAGTCGTCCGCAGTAGAGAGGAACC
66 TCCTCAATATGTAGGAGCCATATCAATCCTAGATAACCAAGAC-TCAGCA-TAG-GAGGAACA
* * *
116279 GTGTTATCACCCTTAGATGACCAAGACTCATGAACAGATGAGCAGTGTCATCACTTGACCAAATC
1 GTGTTATCACCCTTAGATGACCAAGACTCATGAACAGATGAGCAATGTCATCACATGACCAGATC
* * * * * * * * *
116344 TACTC-ATCACGTATGAGCCATATCAATCCTAGGTAACCAAGACTTATCATAGTATGAGCA
66 TCCTCAAT-ATGTAGGAGCCATATCAATCCTAGATAACCAAGACTCAGCATAGGAGGAACA
* * * * *
116404 GTGTTATCACTCTTAGATGACCAAGACTCGTGAACAGATGAGCAATGTCATCACCTAACTAGATC
1 GTGTTATCACCCTTAGATGACCAAGACTCATGAACAGATGAGCAATGTCATCACATGACCAGATC
*
116469 TCCTCATTATGTAGGAG
66 TCCTCAATATGTAGGAG
116486 TCTTGCCACC
Statistics
Matches: 170, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
125 75 0.44
126 81 0.48
127 10 0.06
128 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (125 bp):
GTGTTATCACCCTTAGATGACCAAGACTCATGAACAGATGAGCAATGTCATCACATGACCAGATC
TCCTCAATATGTAGGAGCCATATCAATCCTAGATAACCAAGACTCAGCATAGGAGGAACA
Found at i:116695 original size:3 final size:3
Alignment explanation
Indices: 116687--116743 Score: 91
Period size: 3 Copynumber: 19.3 Consensus size: 3
116677 GCTTTAAAAA
116687 ATT ATT ATTT ATT ATT A-T ATT ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
116731 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
116744 CATTTGTACA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:116714 original size:14 final size:14
Alignment explanation
Indices: 116689--116743 Score: 92
Period size: 14 Copynumber: 3.8 Consensus size: 14
116679 TTTAAAAAAT
116689 TATTATTTATTATTA
1 TATTA-TTATTATTA
116704 TATTATTATTATTA
1 TATTATTATTATTA
116718 TATTATTATTATTA
1 TATTATTATTATTA
116732 TTATTATTATTA
1 -TATTATTATTA
116744 CATTTGTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 23 0.59
15 16 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:124944 original size:27 final size:28
Alignment explanation
Indices: 124887--124944 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
124877 ATTTAATACT
* **
124887 TATATATATAACTCCTTCCGATGTCAATA
1 TATATATATAACCCCTTCC-ACCTCAATA
*
124916 TATATATATAACCCCTTCC-CCTCATTA
1 TATATATATAACCCCTTCCACCTCAATA
124943 TA
1 TA
124945 ATTTTCTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 7 0.28
29 18 0.72
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
TATATATATAACCCCTTCCACCTCAATA
Found at i:129623 original size:21 final size:21
Alignment explanation
Indices: 129597--129636 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
129587 AAAATGGGGG
*
129597 GAATCGGTACCCCTTCATAGA
1 GAATCGATACCCCTTCATAGA
129618 GAATCGATACCCCTTCATA
1 GAATCGATACCCCTTCATA
129637 ATATTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (21 bp):
GAATCGATACCCCTTCATAGA
Found at i:129880 original size:29 final size:31
Alignment explanation
Indices: 129848--129907 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
129838 AAATTTTGAA
*
129848 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
129877 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
129908 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:136258 original size:23 final size:23
Alignment explanation
Indices: 136232--136300 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
136222 CACCACAGCT
* *
136232 CGTATAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
136255 CGTAGAATTGCACC-ATAGTGCCG
1 CGTAGAAATGCACCGA-AGTGCCA
136278 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
136301 TATAAGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 36 0.95
24 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:141821 original size:12 final size:12
Alignment explanation
Indices: 141801--141870 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
141791 GATACATTAC
*
141801 CTGAATTCTGTT
1 CTGATTTCTGTT
*
141813 CTGATTTCTGAT
1 CTGATTTCTGTT
141825 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* * *
141837 ATGATATCTGAT
1 CTGATTTCTGTT
*
141849 CTGAATTCTGTT
1 CTGATTTCTGTT
*
141861 TTGATTTCTG
1 CTGATTTCTG
141871 ATATCTCCGT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:141835 original size:48 final size:49
Alignment explanation
Indices: 141764--141872 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 49
141754 AAATATTTTA
* *
141764 TCTGATTTCCGA-CTTGAATTCTGTTATGATA-CATTACCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTGTTATGATATC-TGACCTGAATTCTGT
* *
141812 TCTGATTTCTGATC-TGGATTCTGTTATGATATCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTGTTATGATATCTGACCTGAATTCTGT
*
141860 TTTGATTTCTGAT
1 TCTGATTTCTGAT
141873 ATCTCCGTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 52 0.96
49 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.48
Consensus pattern (49 bp):
TCTGATTTCTGATCTTGAATTCTGTTATGATATCTGACCTGAATTCTGT
Found at i:141870 original size:24 final size:24
Alignment explanation
Indices: 141778--141872 Score: 111
Period size: 24 Copynumber: 4.0 Consensus size: 24
141768 ATTTCCGACT
* * *
141778 TGAATTCTGTTATGA-TACATTACC
1 TGAATTCTGTTATGATTTC-TGATC
*
141802 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTATGATTTCTGATC
* *
141826 TGGATTCTGTTATGATATCTGATC
1 TGAATTCTGTTATGATTTCTGATC
*
141850 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTATGATTTCTGAT
141873 ATCTCCGTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 58 0.97
25 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATC
Found at i:160805 original size:29 final size:28
Alignment explanation
Indices: 160771--160837 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
160761 CTTTTTCACG
*
160771 CTTTTAATTCA-ATTTTAATTTCATTTTTT
1 CTTTTAATTCATA-ATTAATTTCA-TTTTT
* *
160800 CTTTTAAGTTCATAATTCATTTTATTTTT
1 CTTTTAA-TTCATAATTAATTTCATTTTT
160829 CTTTTAATT
1 CTTTTAATT
160838 TAGTTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 19 0.58
30 11 0.33
31 1 0.03
ACGTcount: A:0.24, C:0.10, G:0.01, T:0.64
Consensus pattern (28 bp):
CTTTTAATTCATAATTAATTTCATTTTT
Found at i:160996 original size:25 final size:23
Alignment explanation
Indices: 160968--161013 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
160958 AACTTTTTGG
*
160968 TTTTTTTACTTTTTTTTATATATAA
1 TTTTTTT-CATTTTTTTA-ATATAA
160993 TTTTTTTCATTTTTTTAATAT
1 TTTTTTTCATTTTTTTAATAT
161014 TAGCCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTTCATTTTTTTAATATAA
Found at i:183158 original size:22 final size:22
Alignment explanation
Indices: 183130--183174 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
183120 ACTTTTTGGG
*
183130 TTTTTTTACTTTTTTATATATTA
1 TTTTTTCACTTTTTTA-ATATTA
*
183153 TTTTTTCATTTTTTTAATATTA
1 TTTTTTCACTTTTTTAATATTA
183175 GCCATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTTCACTTTTTTAATATTA
Found at i:183950 original size:12 final size:12
Alignment explanation
Indices: 183933--183959 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
183923 AAATGAAAAA
183933 TTTAAGTTAATT
1 TTTAAGTTAATT
183945 TTTAAGTTAATT
1 TTTAAGTTAATT
183957 TTT
1 TTT
183960 CGATCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTAAGTTAATT
Found at i:184560 original size:12 final size:10
Alignment explanation
Indices: 184532--184579 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
184522 ATGTTGTTCT
*
184532 AAGAAAGCAC
1 AAGAAATCAC
184542 AAGAAATCAC
1 AAGAAATCAC
184552 GAGAGAAATACAC
1 -A-AGAAAT-CAC
184565 AAGAAATCA-
1 AAGAAATCAC
184574 AAGAAA
1 AAGAAA
184580 AAAAGACACT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
9 6 0.18
10 11 0.32
11 7 0.21
12 7 0.21
13 3 0.09
ACGTcount: A:0.62, C:0.15, G:0.17, T:0.06
Consensus pattern (10 bp):
AAGAAATCAC
Found at i:185414 original size:34 final size:32
Alignment explanation
Indices: 185376--185449 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 32
185366 CTATATATTC
185376 TTTTTTCATTTATTTT-CTTTTTTAGTATTAGCCA
1 TTTTTT-ATTTATTTTCCTTTTTTA-T-TTAGCCA
*
185410 TTTTTATATTTATTTTCCTTTTTTATTTAGCTA
1 TTTTT-TATTTATTTTCCTTTTTTATTTAGCCA
185443 TTTTTTA
1 TTTTTTA
185450 GGTTTTTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 2 0.05
33 11 0.30
34 15 0.41
35 9 0.24
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (32 bp):
TTTTTTATTTATTTTCCTTTTTTATTTAGCCA
Found at i:187591 original size:76 final size:77
Alignment explanation
Indices: 187502--187650 Score: 237
Period size: 76 Copynumber: 1.9 Consensus size: 77
187492 TACATAATTC
* *
187502 ATCTATAGAAGATCCGGGTGTGCAACGAAAAGCACATAACATCTCAACTTTTTCACACATT-TTC
1 ATCTATAGAAGATCCGGGTGTACAACAAAAAGCACATAACATCTCAACTTTTTCACACATTCTTC
187566 CATTATTAGTTA
66 CATTATTAGTTA
* * *
187578 ATCTATAGAAGATCCGGGTGTACGACAAAAATCACATAACATCTCAACTTTTTCATACATTCTTC
1 ATCTATAGAAGATCCGGGTGTACAACAAAAAGCACATAACATCTCAACTTTTTCACACATTCTTC
*
187643 TATTATTA
66 CATTATTA
187651 ATTACTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
76 56 0.85
77 10 0.15
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (77 bp):
ATCTATAGAAGATCCGGGTGTACAACAAAAAGCACATAACATCTCAACTTTTTCACACATTCTTC
CATTATTAGTTA
Found at i:193412 original size:199 final size:201
Alignment explanation
Indices: 193072--193590 Score: 709
Period size: 199 Copynumber: 2.5 Consensus size: 201
193062 TGTATTGTTC
* * * * * * * *
193072 CGAGTCCAATATCATCCGCCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGGTTGTTGACA
1 CGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * *
193137 ATCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
*
193202 AGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCC-C-TGAACTTGTG
131 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCTCGTGAACTTGTG
193265 CTGTCT
196 CTGTCT
* *
193271 CGAGTCCAATGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
193336 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGGTGTGA
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
* **
193401 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGTGGTCCATTCGTTGTGAAG
131 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCC--TC--------G
*
193466 TTGAACTTGTGTTGTCT
186 -TGAACTTGTGCTGTCT
* * * *
193483 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTGTTGACA
1 CGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
193548 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
193591 GGTGGCGCGA
Statistics
Matches: 280, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
199 163 0.58
202 1 0.00
212 116 0.41
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (201 bp):
CGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCTCGTGAACTTGTG
CTGTCT
Found at i:193440 original size:106 final size:106
Alignment explanation
Indices: 193255--193588 Score: 578
Period size: 106 Copynumber: 3.2 Consensus size: 106
193245 CAGCCGTCCC
* * **
193255 TGAACTTGTGCTGTCTCGAGTCCAATGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
1 TGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
193320 AAATTATTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGT
66 AAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGT
*
193361 TGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGGCTCTGAAATTGGG
1 TGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
193426 AAGTTGTTTGTTGACAACCAGTGGTCCATTCGTTGTGAAGT
66 AAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGT
*
193467 TGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGG
1 TGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
193532 AAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGT
66 AAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGT
193573 TGAACTTGTGTTGTCT
1 TGAACTTGTGTTGTCT
193589 CGGGTGGCGC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 215 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (106 bp):
TGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
AAGTTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGT
Found at i:194299 original size:37 final size:37
Alignment explanation
Indices: 194217--194301 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
194207 GTTTCATGAG
* * * * **
194217 AAACGGTCTCAAGGGAGACAAAATTTTGTTTTAAGAA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
194254 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
*
194290 GAAATTGTCTCA
1 -AAACTGTCTCA
194302 CGGGGAGATG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (37 bp):
AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
Found at i:194479 original size:29 final size:32
Alignment explanation
Indices: 194415--194479 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 32
194405 TGTTTATGTT
* *
194415 TCAAAGGTTTTTGTGTTTCAAGAGAAACAATT
1 TCAAAGGTTTTTGTGTTCCAAGAGAAACAATC
* *
194447 TCAAAGG-TTTT-T-TTCCAAGGGAAACTATC
1 TCAAAGGTTTTTGTGTTCCAAGAGAAACAATC
194476 TCAA
1 TCAA
194480 GAGAGACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 17 0.59
30 1 0.03
31 4 0.14
32 7 0.24
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
TCAAAGGTTTTTGTGTTCCAAGAGAAACAATC
Found at i:194992 original size:18 final size:18
Alignment explanation
Indices: 194966--195000 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
194956 GTTGAATCCT
*
194966 CAAAGATGCCCCAATATC
1 CAAAAATGCCCCAATATC
194984 CAAAAATGCCCCAATAT
1 CAAAAATGCCCCAATAT
195001 TTGATGTTGA
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:0.43, C:0.31, G:0.09, T:0.17
Consensus pattern (18 bp):
CAAAAATGCCCCAATATC
Found at i:196124 original size:15 final size:15
Alignment explanation
Indices: 196075--196125 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
196065 TTTTGCTTCT
*
196075 TTCTTTTCTGTTCTTG
1 TTCTTTTCT-TTTTTG
196091 TT-TTTTCTTTTTTG
1 TTCTTTTCTTTTTTG
196105 CTTCTTTTCTTTTTTG
1 -TTCTTTTCTTTTTTG
196121 TTCTT
1 TTCTT
196126 GATTGAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 5 0.16
15 13 0.41
16 14 0.44
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTTTTTTG
Found at i:202413 original size:43 final size:43
Alignment explanation
Indices: 202352--202496 Score: 245
Period size: 43 Copynumber: 3.4 Consensus size: 43
202342 CGTTCCTGGC
*
202352 TTCCTGCCTTGATTTTCTTGGTTCTCCTTTCCAGGTGATCAAG
1 TTCCTGCCTTGATTTTCTTGGTGCTCCTTTCCAGGTGATCAAG
202395 TTCCTGCCTTGATTTTCTTGGTGCTCCTTTCCAGGTGATCAAG
1 TTCCTGCCTTGATTTTCTTGGTGCTCCTTTCCAGGTGATCAAG
* * * *
202438 TTCCTGCCTTGATTTTCTTGGCGCTCCTTTTCAAGTGATCGAG
1 TTCCTGCCTTGATTTTCTTGGTGCTCCTTTCCAGGTGATCAAG
202481 TTCCTGCCTTGATTTT
1 TTCCTGCCTTGATTTT
202497 TTTTATTTGC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.11, C:0.26, G:0.19, T:0.44
Consensus pattern (43 bp):
TTCCTGCCTTGATTTTCTTGGTGCTCCTTTCCAGGTGATCAAG
Found at i:204389 original size:27 final size:28
Alignment explanation
Indices: 204332--204389 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
204322 ATTTAATACT
* **
204332 TATATATATAACTCCTTCCGATGTCAATA
1 TATATATATAACCCCTTCC-ACCTCAATA
*
204361 TATATATATAACCCCTTCC-CCTCATTA
1 TATATATATAACCCCTTCCACCTCAATA
204388 TA
1 TA
204390 ATTTTCTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 7 0.28
29 18 0.72
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
TATATATATAACCCCTTCCACCTCAATA
Found at i:204802 original size:24 final size:24
Alignment explanation
Indices: 204770--204818 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
204760 TGAATTCGGA
204770 TTCGGATAAAGATAAAATCAACAC
1 TTCGGATAAAGATAAAATCAACAC
*
204794 TTCGGATAAAGATCAAATCAACAC
1 TTCGGATAAAGATAAAATCAACAC
204818 T
1 T
204819 ATTCCAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (24 bp):
TTCGGATAAAGATAAAATCAACAC
Found at i:210973 original size:3 final size:3
Alignment explanation
Indices: 210965--211003 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
210955 GTGCCAGAAA
210965 TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA
211004 ATTAGTTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:212603 original size:30 final size:29
Alignment explanation
Indices: 212547--212642 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 29
212537 TTTTATCTAT
*
212547 TTTAGTCCTTTAA-ATGT-TAGTATTTGTTA
1 TTTAGTCCTTTAACAT-TCTA-TTTTTGTTA
*
212576 TTTTAGTCCTTTAACCTTCTATTTTTGTTA
1 -TTTAGTCCTTTAACATTCTATTTTTGTTA
* * *
212606 TTTAGACCCTTTAACATTCT-GTTTTGGTA
1 TTTAG-TCCTTTAACATTCTATTTTTGTTA
212635 TTTAGTCC
1 TTTAGTCC
212643 CTTAGGCTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
28 2 0.04
29 17 0.30
30 34 0.61
31 3 0.05
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (29 bp):
TTTAGTCCTTTAACATTCTATTTTTGTTA
Found at i:212659 original size:29 final size:28
Alignment explanation
Indices: 212577--212659 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
212567 TATTTGTTAT
* * *
212577 TTTAGTCCTTTAACCTTCTATTTTTGTTA
1 TTTAGTCCCTTAA-CTTCTGTTTTTGGTA
*
212606 TTTAGACCCTTTAACATTCTG-TTTTGGTA
1 TTTAGTCCC-TTAAC-TTCTGTTTTTGGTA
*
212635 TTTAGTCCCTTAGGCTTCTGTTTTT
1 TTTAGTCCCTTA-ACTTCTGTTTTT
212660 ACCATTTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 8 0.18
29 28 0.64
30 8 0.18
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.54
Consensus pattern (28 bp):
TTTAGTCCCTTAACTTCTGTTTTTGGTA
Found at i:213374 original size:13 final size:14
Alignment explanation
Indices: 213351--213383 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
213341 TAAAAATGAT
213351 TTTTATTAAAAT-TG
1 TTTT-TTAAAATATG
213365 TTTTTTAAAATATG
1 TTTTTTAAAATATG
213379 TTTTT
1 TTTTT
213384 AGGTATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTTTAAAATATG
Found at i:218828 original size:47 final size:46
Alignment explanation
Indices: 218761--219146 Score: 270
Period size: 47 Copynumber: 8.8 Consensus size: 46
218751 AGTGTCAACC
* *
218761 CTAGATAACCAAAACTTATCACAGTATGAGCAGTGTTATCACCCTT
1 CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
** *
218807 CTGAGATGGCCAAGACTTATCATAGTATGAGCAGTGTCAT--CCC--
1 CT-AGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
** * * *
218850 CT-G---ACC-AGATCTCCTCATCACGTAGGAGCCGTG---TCAACC--
1 CTAGATAACCAAGA-CTTATCAT-A-GTATGAGCAGTGTTATCACCCTT
218889 CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
1 CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
** *
218935 CCTAGATGGCCAAGACTTATCATAGTATGAGCAGTGTCAT--CCC--
1 -CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
** * * *
218978 CT-G---ACC-AGATCTCCTCATCACGTAGGAGCCGTG---TCAACC--
1 CTAGATAACCAAGA-CTTATCAT-A-GTATGAGCAGTGTTATCACCCTT
219017 CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
1 CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
* *
219063 CCTAGATAACAAAGACTTATCATAGTATGAGCATTGTTATCACCCTT
1 -CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
* ** *
219110 CCTAGGTGGCCAAGACTTATCATAGTATGAGTAGTGT
1 -CTAGATAACCAAGACTTATCATAGTATGAGCAGTGT
219147 CATTAACCGA
Statistics
Matches: 269, Mismatches: 38, Indels: 65
0.72 0.10 0.17
Matches are distributed among these distances:
37 8 0.03
38 16 0.06
39 10 0.04
40 22 0.08
41 22 0.08
42 4 0.01
43 20 0.07
44 16 0.06
45 6 0.02
46 2 0.01
47 143 0.53
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (46 bp):
CTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
Found at i:218980 original size:128 final size:128
Alignment explanation
Indices: 218747--219095 Score: 628
Period size: 128 Copynumber: 2.7 Consensus size: 128
218737 GATTGCATAT
* * *
218747 GAGCAGTGTCAACCCTAGATAACCAAAACTTATCACAGTATGAGCAGTGTTATCACCCTT-CTGA
1 GAGCCGTGTCAACCCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCT-A
218811 GATGGCCAAGACTTATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCACGTAG
65 GATGGCCAAGACTTATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCACGTAG
218875 GAGCCGTGTCAACCCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAG
1 GAGCCGTGTCAACCCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAG
218940 ATGGCCAAGACTTATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCACGTAG
66 ATGGCCAAGACTTATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCACGTAG
219003 GAGCCGTGTCAACCCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAG
1 GAGCCGTGTCAACCCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAG
** *
219068 ATAACAAAGACTTATCATAGTATGAGCA
66 ATGGCCAAGACTTATCATAGTATGAGCA
219096 TTGTTATCAC
Statistics
Matches: 214, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
128 212 0.99
129 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (128 bp):
GAGCCGTGTCAACCCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAG
ATGGCCAAGACTTATCATAGTATGAGCAGTGTCATCCCCTGACCAGATCTCCTCATCACGTAG
Found at i:231406 original size:14 final size:15
Alignment explanation
Indices: 231376--231414 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
231366 GATAAACCCA
231376 AAAAGAAAATCGAAAT
1 AAAAGAAAA-CGAAAT
231392 AAAAGAAAA-GAAAT
1 AAAAGAAAACGAAAT
*
231406 AAAGGAAAA
1 AAAAGAAAA
231415 TGCAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.08
Consensus pattern (15 bp):
AAAAGAAAACGAAAT
Found at i:232323 original size:30 final size:29
Alignment explanation
Indices: 232292--232440 Score: 104
Period size: 29 Copynumber: 5.1 Consensus size: 29
232282 TATTCGTTAT
*
232292 TTTAGTCCTATAACCTTCTGTTTTTGCTA
1 TTTAGTCCTTTAACCTTCTGTTTTTGCTA
* * *
232321 TTTAGACCCTTTAACTTTCTG-TTTTGGTA
1 TTTAG-TCCTTTAACCTTCTGTTTTTGCTA
** * *
232350 TTTAGTCCTTTAGGCTTCTATTTTTGCCA
1 TTTAGTCCTTTAACCTTCTGTTTTTGCTA
* * * *
232379 TTTAGTTCTTTAA-ATTCCTGTTTGTACTA
1 TTTAGTCCTTTAACCTT-CTGTTTTTGCTA
* * ** *
232408 TTTTGGTCCTTTCAGTTTCCGTTTTTGCTA
1 -TTTAGTCCTTTAACCTTCTGTTTTTGCTA
232438 TTT
1 TTT
232441 TGGTTCTTGT
Statistics
Matches: 90, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
28 12 0.13
29 45 0.50
30 31 0.34
31 2 0.02
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (29 bp):
TTTAGTCCTTTAACCTTCTGTTTTTGCTA
Found at i:233302 original size:27 final size:27
Alignment explanation
Indices: 233272--233323 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
233262 ACATAATACT
233272 GAAGATAGAAAACAAGTAAACATTACA
1 GAAGATAGAAAACAAGTAAACATTACA
* *
233299 GAAGATATAAAACAAGTAAGCATTA
1 GAAGATAGAAAACAAGTAAACATTA
233324 TTAACATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (27 bp):
GAAGATAGAAAACAAGTAAACATTACA
Found at i:241164 original size:40 final size:40
Alignment explanation
Indices: 241109--241189 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
241099 ATTCGGGTTC
241109 GGATAAAGAAAGATTGTGGGAGATGGTACGTTTTTATGTT
1 GGATAAAGAAAGATTGTGGGAGATGGTACGTTTTTATGTT
241149 GGATAAAGAAAGATTGTGGGAGATGGTACGTTTTTATGTT
1 GGATAAAGAAAGATTGTGGGAGATGGTACGTTTTTATGTT
241189 G
1 G
241190 CTCTCAACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.33, T:0.35
Consensus pattern (40 bp):
GGATAAAGAAAGATTGTGGGAGATGGTACGTTTTTATGTT
Found at i:242058 original size:14 final size:14
Alignment explanation
Indices: 242039--242077 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
242029 TAATGGGGAG
242039 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
242053 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
242067 GAATCTCTGCA
1 TAATCCCTGCA
242078 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:247885 original size:21 final size:23
Alignment explanation
Indices: 247850--247897 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
247840 TATTATCTTG
247850 TAATTATCTTAAATTAATAAAAA
1 TAATTATCTTAAATTAATAAAAA
* *
247873 TAATTAT-TT-AATTGATTAAAA
1 TAATTATCTTAAATTAATAAAAA
247894 TAAT
1 TAAT
247898 AAGATAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 2 0.09
23 7 0.30
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATTATCTTAAATTAATAAAAA
Found at i:251547 original size:63 final size:62
Alignment explanation
Indices: 251445--251577 Score: 221
Period size: 63 Copynumber: 2.1 Consensus size: 62
251435 TACGTATCAC
251445 CAGCCTGAACCTTTACCAAGGTCGAAAAACAATACTGATAACGCTGAATCTCATACTCCCCAA
1 CAGCCTGAACCTTTACCAAGGTCGAAAAACAATACTGATAACGCTGAATCTCATAC-CCCCAA
* * * *
251508 CAGCCTGAACCTTTACCAAGGTCGAAAAACAATATTGATAATGCTGACTCTCATACCCCCAG
1 CAGCCTGAACCTTTACCAAGGTCGAAAAACAATACTGATAACGCTGAATCTCATACCCCCAA
251570 CAGCCTGA
1 CAGCCTGA
251578 GTCCTTGTCT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 13 0.20
63 53 0.80
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (62 bp):
CAGCCTGAACCTTTACCAAGGTCGAAAAACAATACTGATAACGCTGAATCTCATACCCCCAA
Found at i:261928 original size:76 final size:77
Alignment explanation
Indices: 261838--261986 Score: 228
Period size: 76 Copynumber: 1.9 Consensus size: 77
261828 TACATAATTC
* * *
261838 ATCTATAGAAGATCCGGGTGTGCAACGAAAAGCACATAACATCTCAACTTTTTCACACATT-TTC
1 ATCTATAGAAGATCCGGGTGTACAACGAAAAGCACACAACATCTCAACGTTTTCACACATTCTTC
261902 CATTATTAGTTA
66 CATTATTAGTTA
* * *
261914 ATCTATATAAGATCCGGGTGTACGACGAAAATCACACAACATCTCAACGTTTTCACACATTCTTC
1 ATCTATAGAAGATCCGGGTGTACAACGAAAAGCACACAACATCTCAACGTTTTCACACATTCTTC
*
261979 TATTATTA
66 CATTATTA
261987 ATTACTAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
76 55 0.85
77 10 0.15
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (77 bp):
ATCTATAGAAGATCCGGGTGTACAACGAAAAGCACACAACATCTCAACGTTTTCACACATTCTTC
CATTATTAGTTA
Found at i:283281 original size:31 final size:31
Alignment explanation
Indices: 283200--283294 Score: 129
Period size: 31 Copynumber: 3.0 Consensus size: 31
283190 AGAGTCGAGG
283200 GTTTACATATG-TCTTTCGGGACATATGGACA
1 GTTTACATATGTTC-TTCGGGACATATGGACA
* *
283231 GGATTACATATATTCTTCGGGACATATGGACA
1 -GTTTACATATGTTCTTCGGGACATATGGACA
* *
283263 GTTTACCTATGTTCTTCGGGATATATGGACA
1 GTTTACATATGTTCTTCGGGACATATGGACA
283294 G
1 G
283295 ATTATTATAC
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 28 0.50
32 26 0.46
33 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACATATGTTCTTCGGGACATATGGACA
Found at i:283745 original size:28 final size:27
Alignment explanation
Indices: 283689--283745 Score: 62
Period size: 28 Copynumber: 2.0 Consensus size: 27
283679 AATCATATGT
*
283689 TGATTAAAAGAATAGATATAAGAGGATA
1 TGATTAAAAGAATAAATATAAGA-GATA
*
283717 TGATTATAAGATATAAATAATAAGA-ATA
1 TGATTAAAAGA-ATAAAT-ATAAGAGATA
283745 T
1 T
283746 TGATAGTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 14 0.56
29 5 0.20
30 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (27 bp):
TGATTAAAAGAATAAATATAAGAGATA
Found at i:284608 original size:21 final size:20
Alignment explanation
Indices: 284577--284629 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
284567 GATTCTGACT
* *
284577 ATCGCATTGCGATTTCCCAA
1 ATCGCAATGCGATTACCCAA
**
284597 ATTCGCAATGCGATTACGTAA
1 A-TCGCAATGCGATTACCCAA
284618 ATCGCAATGCGA
1 ATCGCAATGCGA
284630 ATCTGACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATTACCCAA
Found at i:284853 original size:22 final size:22
Alignment explanation
Indices: 284828--284887 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 22
284818 GGTGACATCC
284828 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
284850 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
284868 GTCTCCATCTCCGGCGAAAT
1 GTCCCCATCTCCGACGAAAT
284888 TATTCACGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
18 14 0.47
19 2 0.07
21 2 0.07
22 12 0.40
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:285246 original size:20 final size:20
Alignment explanation
Indices: 285221--285269 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
285211 CAACGAGTGA
285221 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
285241 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
285261 ATCGCAACG
1 ATCGCAACG
285270 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:285351 original size:20 final size:20
Alignment explanation
Indices: 285311--285380 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
285301 TGCGATTCTT
**
285311 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCATTTTC
285331 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCATTTTC
* * **
285351 GTGTTGCAATTTTCATTTTC
1 GCGTTGCGATAGTCATTTTC
*
285371 GTGTTGCGAT
1 GCGTTGCGAT
285381 TTAAAGTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (20 bp):
GCGTTGCGATAGTCATTTTC
Found at i:285390 original size:20 final size:20
Alignment explanation
Indices: 285347--285390 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
285337 CGATAGTCAT
** *
285347 TTTCGTGTTGCAATTTTCAT
1 TTTCGTGTTGCAATTTAAAG
*
285367 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCAATTTAAAG
285387 TTTC
1 TTTC
285391 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTAAAG
Found at i:287283 original size:20 final size:20
Alignment explanation
Indices: 287255--287378 Score: 170
Period size: 20 Copynumber: 6.5 Consensus size: 20
287245 AGAATAGTTT
*
287255 ACTAACGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
287275 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
287291 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
287309 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
287329 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
287349 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
287369 ACTATCGCAA
1 ACTATCGCAA
287379 CGAAAGAATC
Statistics
Matches: 93, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
14 7 0.08
16 4 0.04
17 4 0.04
18 4 0.04
20 74 0.80
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:287336 original size:40 final size:40
Alignment explanation
Indices: 287255--287399 Score: 170
Period size: 40 Copynumber: 3.9 Consensus size: 40
287245 AGAATAGTTT
* *
287255 ACTAACGCAATGCGAAAATGACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
287291 A--ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
**
287329 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
287369 ACTATCGCAA--CG-AAA-GA--ATCGCAATGCGAAA
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAA
287400 TGAAAATCTC
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 39 0.40
36 5 0.05
37 5 0.05
38 4 0.04
40 45 0.46
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:287450 original size:20 final size:20
Alignment explanation
Indices: 287425--287531 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
287415 TATTCTCTCG
** *
287425 TTGCGATAGTCAAATTCGTA
1 TTGCGATAGTCATTTTCGCA
287445 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
287465 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
287485 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
287505 TTGCGATAATCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
287525 TTGCGAT
1 TTGCGAT
287532 TTTAAGTTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:288106 original size:21 final size:21
Alignment explanation
Indices: 288015--288111 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
288005 GACTCACCTG
*
288015 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
288037 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
288057 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
288078 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
288099 TCATCGTTGAAGA
1 TCATCGTTCAAGA
288112 AGTCCTTCCC
Statistics
Matches: 58, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.05
21 54 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:288122 original size:42 final size:41
Alignment explanation
Indices: 288012--288122 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 41
288002 CCTGACTCAC
* * * *
288012 CTGTCATCGTTCAAGAGGCCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCCTTCCC-ACCGTTCAAGAGGCCA
* ** *
288054 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGT-CCTTCCCACCGTTCAAGAGGCCA
*
288096 CTGTCATCGTTGAAGAAGTCCTTCCCA
1 CTGTCATCGTTCAAG-AGTCCTTCCCA
288123 ACATTCTAGA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 46 0.85
43 8 0.15
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGTCCTTCCCACCGTTCAAGAGGCCA
Found at i:289488 original size:14 final size:14
Alignment explanation
Indices: 289469--289504 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
289459 ATTGTTTAAT
289469 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
289483 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
289497 TGATTTGT
1 TGATTTGT
289505 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:289656 original size:33 final size:33
Alignment explanation
Indices: 289606--289700 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
289596 AAAACAGACT
* ** *
289606 ATCGCAACGCGGAAATGACTATCACAATGAGAGA
1 ATCGCAATGC-GAAATGAAAATCACAACGAGAGA
* *
289640 ATCGCAATGCGAAATGAAAATCTCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
*
289673 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCACAACG
289701 CGAAACTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 45 0.83
34 9 0.17
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGAGAGA
Found at i:289696 original size:19 final size:19
Alignment explanation
Indices: 289639--289705 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
289629 ACAATGAGAG
289639 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
289658 AATCTCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
289672 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
289691 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
289706 CTAATTTCGC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
14 7 0.18
16 5 0.13
17 5 0.13
19 21 0.55
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:289731 original size:19 final size:19
Alignment explanation
Indices: 289709--289796 Score: 89
Period size: 19 Copynumber: 4.8 Consensus size: 19
289699 CGCGAAACTA
*
289709 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
289728 ATTTTTGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
289746 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
289762 AGTTT-GCATTGCGATTTTC
1 A-TTTCGCATTGCGATTTTC
289781 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
289797 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
14 6 0.11
16 6 0.11
17 1 0.02
18 8 0.14
19 24 0.43
20 11 0.20
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:289826 original size:20 final size:20
Alignment explanation
Indices: 289801--289894 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
289791 GCGATTCTCT
289801 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
289821 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
**
289841 TATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
289861 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
289881 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
289895 AATGAATGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 65 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:292341 original size:24 final size:24
Alignment explanation
Indices: 292307--292360 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
292297 CTGAAAAATC
292307 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
292331 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
292355 ATCAAA
1 ATCAAA
292361 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:292374 original size:24 final size:24
Alignment explanation
Indices: 292307--292374 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
292297 CTGAAAAATC
* * *
292307 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
292331 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
292355 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
292375 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:293245 original size:20 final size:20
Alignment explanation
Indices: 293222--293407 Score: 293
Period size: 20 Copynumber: 9.3 Consensus size: 20
293212 CAAAATATCG
* *
293222 TTGCGATTTACAG-ATTCGTA
1 TTGCGATTTAC-GTAATCGCA
293242 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
* * *
293262 TTGCGATTTTCGTATTCACA
1 TTGCGATTTACGTAATCGCA
293282 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
293302 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
293322 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
*
293342 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
293362 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
*
293382 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
293402 TTGCGA
1 TTGCGA
293408 ATTAGGAAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
19 1 0.01
20 153 0.99
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:293428 original size:21 final size:21
Alignment explanation
Indices: 293404--293449 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
293394 TATTCGCATT
293404 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
293425 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
293446 GCGA
1 GCGA
293450 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:296814 original size:22 final size:22
Alignment explanation
Indices: 296789--296831 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
296779 AATATATATG
*
296789 AAAATTTTAATTTTTAAAATTA
1 AAAATTATAATTTTTAAAATTA
*
296811 AAAATTATAATTTTTTAAATT
1 AAAATTATAATTTTTAAAATT
296832 TTATTCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATTATAATTTTTAAAATTA
Done.