Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 29 of 438
Found at i:7210255 original size:42 final size:42
Alignment explanation
Indices: 7210162--7210258 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
7210152 AAGATATGCC
* *
7210162 CATTGTGTCTCAAGACCTCAAGCTCCAATGGTCATATTTGCT
1 CATTCTGTCTCGAGACCTCAAGCTCCAATGGTCATATTTGCT
* *
7210204 CATTGTGTCTCGAGACCTCAAGCTCCAATGGTCATATTTGTT
1 CATTCTGTCTCGAGACCTCAAGCTCCAATGGTCATATTTGCT
7210246 C-TTCCTGTCTCGA
1 CATT-CTGTCTCGA
7210259 TACAAGGGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 2 0.04
42 49 0.96
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (42 bp):
CATTCTGTCTCGAGACCTCAAGCTCCAATGGTCATATTTGCT
Found at i:7212243 original size:19 final size:19
Alignment explanation
Indices: 7212221--7212279 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
7212211 TGCACATAAT
**
7212221 ATTCCACTAATCACACATG
1 ATTCCACTAATCACACACA
* *
7212240 ATTCCACTAATTAGACACA
1 ATTCCACTAATCACACACA
7212259 ATTCCACTAATCGA-ACACA
1 ATTCCACTAATC-ACACACA
7212278 AT
1 AT
7212280 CATAAAAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 33 0.97
20 1 0.03
ACGTcount: A:0.41, C:0.29, G:0.05, T:0.25
Consensus pattern (19 bp):
ATTCCACTAATCACACACA
Found at i:7220171 original size:7 final size:7
Alignment explanation
Indices: 7220159--7220200 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
7220149 TTGAAGACTT
7220159 TTATTTA
1 TTATTTA
7220166 TTATTTA
1 TTATTTA
7220173 TTATTTA
1 TTATTTA
7220180 TTATTT-
1 TTATTTA
*
7220186 TTATCT-
1 TTATTTA
7220192 TTATTTA
1 TTATTTA
7220199 TT
1 TT
7220201 TTTTTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:7223083 original size:47 final size:47
Alignment explanation
Indices: 7222823--7223183 Score: 500
Period size: 46 Copynumber: 7.8 Consensus size: 47
7222813 AGTGTGCTCT
* * *
7222823 CTGATATG-GAATGTGTAGGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7222869 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7222915 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
7222961 CTGATATG-AAATGTGTAAGACCATGGTTGAAACATACCATGGCAAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
7223007 CTGATAT-AAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
7223053 ATGATAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
7223100 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
7223147 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATAC
7223184 TATGACATCA
Statistics
Matches: 294, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 206 0.70
47 88 0.30
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (47 bp):
CTGATATGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7240113 original size:19 final size:19
Alignment explanation
Indices: 7240089--7240126 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7240079 TTATATGTCA
7240089 CTTAATGGTGAGATTAATG
1 CTTAATGGTGAGATTAATG
7240108 CTTAATGGTGAGATTAATG
1 CTTAATGGTGAGATTAATG
7240127 GTTTTAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (19 bp):
CTTAATGGTGAGATTAATG
Found at i:7242444 original size:30 final size:30
Alignment explanation
Indices: 7242378--7242444 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
7242368 ATGAAGGAAA
*
7242378 TGAATTATTTTATTGATTAAATTAATAAAT
1 TGAATTGTTTTATTGATTAAATTAATAAAT
7242408 TGAATTGTTTTATTGATTAAATTAATAAAT
1 TGAATTGTTTTATTGATTAAATTAATAAAT
7242438 TGAATTG
1 TGAATTG
7242445 GGTGAAATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.49
Consensus pattern (30 bp):
TGAATTGTTTTATTGATTAAATTAATAAAT
Found at i:7242972 original size:46 final size:46
Alignment explanation
Indices: 7242920--7243173 Score: 315
Period size: 46 Copynumber: 5.6 Consensus size: 46
7242910 GCTTTCTGAA
** * *
7242920 ATGAAATGTGTAAGACCATGGTTGAAAGGTACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
7242966 ATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
7243012 ATGAAATGAATAAGACCATGGTT----G-TACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
7243053 GA-GAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACACGAC
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
7243099 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
7243145 A-GAAATTGAGTAAGACCATAGTTGAAAGA
1 ATGAAA-TGAATAAGACCATGGTTGAAAGA
7243174 CACTATGACA
Statistics
Matches: 185, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
41 37 0.20
42 2 0.01
45 5 0.03
46 141 0.76
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:7243071 original size:87 final size:87
Alignment explanation
Indices: 7242930--7243173 Score: 292
Period size: 87 Copynumber: 2.7 Consensus size: 87
7242920 ATGAAATGTG
* * *
7242930 TAAGACCATGGTTGAAAGGTACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGGAAGA
1 TAAGACCATGGTT---A-GTACCATGGCAACATGACA-GAAATGAGTAAGACCATGGTTGAAAGA
** *
7242995 TACCATGGCAACGTGACATGAAATGAA
61 TACCATGGCAACACGACAGGAAATGAA
* *
7243022 TAAGACCATGGTT-GTACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATATC
1 TAAGACCATGGTTAGTACCATGGCAACATGAC-AGAAATGAGTAAGACCATGGTTGAAAGATACC
*
7243086 ATGGCAACACGACGGGAAATGAA
65 ATGGCAACACGACAGGAAATGAA
*
7243109 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATTGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTT---AG-TACCATGGCAACATGACAGAAA-TGAGTAAGACCATGGTTGAAAGA
7243174 CACTATGACA
Statistics
Matches: 134, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
87 76 0.57
88 1 0.01
91 6 0.04
92 51 0.38
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (87 bp):
TAAGACCATGGTTAGTACCATGGCAACATGACAGAAATGAGTAAGACCATGGTTGAAAGATACCA
TGGCAACACGACAGGAAATGAA
Found at i:7244606 original size:20 final size:21
Alignment explanation
Indices: 7244583--7244638 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
7244573 AATACTACAT
*
7244583 AAATATGTACATAT-ATATTA
1 AAATAAGTACATATAATATTA
*
7244603 AAATAAATACATAATAATATTA
1 AAATAAGTACAT-ATAATATTA
*
7244625 AAAGTACGTACATA
1 AAA-TAAGTACATA
7244639 AAAACATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.34
21 2 0.07
22 10 0.34
23 7 0.24
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.32
Consensus pattern (21 bp):
AAATAAGTACATATAATATTA
Found at i:7244921 original size:3 final size:3
Alignment explanation
Indices: 7244913--7244945 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7244903 GAACATATAC
7244913 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7244946 GGATAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7245155 original size:21 final size:22
Alignment explanation
Indices: 7245115--7245175 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
7245105 GTACATATAT
* *
7245115 ATATATAATAATAGTGTTAGAA
1 ATATACAATAATAGTATTAGAA
7245137 ATATACAAT-ATAGTATTAGAA
1 ATATACAATAATAGTATTAGAA
*
7245158 ATATACATACAATAGTAT
1 ATATACA-ATAATAGTAT
7245176 AAAAGATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.53
22 9 0.26
23 7 0.21
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (22 bp):
ATATACAATAATAGTATTAGAA
Found at i:7245260 original size:11 final size:11
Alignment explanation
Indices: 7245199--7245260 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
7245189 CTAATGATAC
7245199 TAAAATATATGCA
1 TAAAATATAT--A
*
7245212 TAATAATATATG
1 TAA-AATATATA
7245224 TAAAATATATA
1 TAAAATATATA
* *
7245235 CACAATATAGTTA
1 TAAAATATA--TA
7245248 TAAAATATATA
1 TAAAATATATA
7245259 TA
1 TA
7245261 TACACGTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 18 0.45
12 3 0.08
13 12 0.30
14 7 0.17
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (11 bp):
TAAAATATATA
Found at i:7247369 original size:137 final size:137
Alignment explanation
Indices: 7247161--7247447 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
7247151 CTATTGGCCT
** *
7247161 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTAGATCACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTT
7247226 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
7247291 CATATGC
131 CATATGC
* *
7247298 AATCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTT
7247363 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
7247428 CATATGC
131 CATATGC
7247435 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7247448 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:7248888 original size:26 final size:26
Alignment explanation
Indices: 7248852--7248935 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
7248842 ACATAAATTC
7248852 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7248878 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7248904 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7248930 TTATCA
1 TTATCA
7248936 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7252780 original size:137 final size:136
Alignment explanation
Indices: 7252562--7252847 Score: 545
Period size: 137 Copynumber: 2.1 Consensus size: 136
7252552 CTATTGGCCT
**
7252562 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTAGATTACAATAAACTGGGCCTTA
7252627 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
7252692 ATATGC
131 ATATGC
7252698 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTT-AGATTACAATAAACTGGGCCTT
7252763 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
7252828 CATATGC
130 CATATGC
7252835 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7252848 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 40 0.27
137 107 0.73
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:7253131 original size:25 final size:27
Alignment explanation
Indices: 7253094--7253146 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
7253084 TCAAACATGC
7253094 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
7253120 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
7253146 A
1 A
7253147 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:7254659 original size:26 final size:26
Alignment explanation
Indices: 7254623--7254706 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
7254613 ACATAAATTC
7254623 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7254649 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7254675 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7254701 TTATCA
1 TTATCA
7254707 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7256078 original size:21 final size:19
Alignment explanation
Indices: 7256023--7256083 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
7256013 ACATTTTTTT
*
7256023 ATAAATTTTTAATAATTT-TA
1 ATAAATTTTTAAT--TTTAAA
*
7256043 AT-AATTTTTATTTTTTAAA
1 ATAAATTTTTA-ATTTTAAA
7256062 ATAAATTTTTGAATTTTAAA
1 ATAAATTTTT-AATTTTAAA
7256082 AT
1 AT
7256084 TTATAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 3 0.09
19 11 0.32
20 19 0.56
21 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAAATTTTTAATTTTAAA
Found at i:7257398 original size:3 final size:3
Alignment explanation
Indices: 7257390--7257421 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7257380 ACTTTGTTAA
7257390 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7257422 ACACCTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7257831 original size:19 final size:19
Alignment explanation
Indices: 7257771--7257840 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
7257761 TATATTAATT
* *
7257771 TAAAATATAAATAAATCATA
1 TAAAATATAAA-AAATAAAA
* * *
7257791 TAAAACTCTAAAATATATAA
1 TAAAA-TATAAAAAATAAAA
*
7257811 TAAAATTTAAAAAATAAAA
1 TAAAATATAAAAAATAAAA
*
7257830 TAATATATAAA
1 TAAAATATAAA
7257841 GCTTGAAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
19 20 0.51
20 14 0.36
21 5 0.13
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATATAAAAAATAAAA
Found at i:7257953 original size:20 final size:19
Alignment explanation
Indices: 7257930--7257972 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
7257920 TTAATATTGT
7257930 TTTTCAAA-TTTTATAAATTA
1 TTTTCAAACTTTT-TAAA-TA
*
7257950 TTTTTAAACTTTTTAAATA
1 TTTTCAAACTTTTTAAATA
7257969 TTTT
1 TTTT
7257973 ATAATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTCAAACTTTTTAAATA
Found at i:7262316 original size:3 final size:3
Alignment explanation
Indices: 7262308--7262343 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
7262298 AACAATGACC
* *
7262308 CAT CAT CAT CAT CAT TAT CAT CAT CTT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
7262344 ATGGTTCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (3 bp):
CAT
Found at i:7264784 original size:4 final size:4
Alignment explanation
Indices: 7264775--7264812 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
7264765 ATCTAATTAT
7264775 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
7264813 GTCACATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:7269522 original size:28 final size:27
Alignment explanation
Indices: 7269482--7269538 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
7269472 CATGCCAACC
*
7269482 AATTTAATAATAAAATTAATAATATTAAA
1 AATTGAATAATAAAATT-ATAA-ATTAAA
*
7269511 AATTGAAT-ATAAAATTTTAAATTAAA
1 AATTGAATAATAAAATTATAAATTAAA
7269537 AA
1 AA
7269539 ATAAAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 3 0.12
28 8 0.31
29 7 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
AATTGAATAATAAAATTATAAATTAAA
Found at i:7274132 original size:15 final size:15
Alignment explanation
Indices: 7274108--7274153 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
7274098 ATATAAATAG
*
7274108 AAATAAAAATATAAT
1 AAATAGAAATATAAT
7274123 AAATAGAAATATAAT
1 AAATAGAAATATAAT
7274138 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
7274154 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:7274141 original size:23 final size:23
Alignment explanation
Indices: 7274075--7274141 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
7274065 ATATAAAAGA
*
7274075 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
7274095 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
7274118 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
7274141 A
1 A
7274142 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:7274156 original size:44 final size:44
Alignment explanation
Indices: 7274102--7274188 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
7274092 ATTAGTATAT
7274102 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
7274146 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
7274189 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:7274173 original size:15 final size:14
Alignment explanation
Indices: 7274100--7274186 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
7274090 ATATTAGTAT
*
7274100 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
7274113 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
7274129 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
7274143 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
7274158 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
7274173 ATAAATAATAATAG
1 ATAAATAAAAATAG
7274187 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 34 0.57
16 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:7274754 original size:5 final size:5
Alignment explanation
Indices: 7274746--7274772 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7274736 CTAATTTAAT
7274746 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
7274773 ATAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:7275245 original size:44 final size:42
Alignment explanation
Indices: 7275180--7275859 Score: 244
Period size: 44 Copynumber: 15.5 Consensus size: 42
7275170 ACTTAAAGAG
* * *
7275180 GATAAAATCTGGTAATCTTCAGTCTGCTCCACTATTGCTTAGGGA
1 GATAAGATCT-GTAATTTTC-GTCTGCTCC-CTACTGCTTAGGGA
* * * *
7275225 GATAAGATCTGTAATTTTCAGCCTGTTTCCCTATTGCTTAGGGG
1 GATAAGATCTGTAATTTTC-GTCTG-CTCCCTACTGCTTAGGGA
* * * *
7275269 GATAAG-GCT-CACCATCTTCGATCTGCTCCCCTATTGCTTAGGGA
1 GATAAGATCTGTA--ATTTTCG-TCTGCT-CCCTACTGCTTAGGGA
* * *
7275313 GATAAGATCTGTAATTTTCGGCTTGTTTCCCTACTGCTTAGGGG
1 GATAAGATCTGTAATTTTCGTC-TG-CTCCCTACTGCTTAGGGA
* * * * *
7275357 GATAAG-GCT-CACTGTCTTCAATCTGCTCCGCTACTACTTAGGGA
1 GATAAGATCTGTAAT-T-TTC-GTCTGCTCC-CTACTGCTTAGGGA
* * * *
7275401 GATAAGATCTTTAATTTTTGGCCTGTTTCCCTACTGCTTAAGGG-
1 GATAAGATCTGTAA-TTTTCGTCTG-CTCCCTACTGCTT-AGGGA
* * *
7275445 GATAAG-GCT-CACTGTCTTCGATCTGCTCCGCTACTGCTTAGGGA
1 GATAAGATCTGTAAT-T-TTCG-TCTGCTCC-CTACTGCTTAGGGA
* * *
7275489 GATAAGATCTGTAATTTTCAGTCTGTTTACCTACTGCTTAGGGG
1 GATAAGATCTGTAATTTTC-GTCTG-CTCCCTACTGCTTAGGGA
* * * * *
7275533 GATAAG-GCT-CACCGTCTTCGATCTGCTCCACTACTGTTTAGGGA
1 GATAAGATCTGTA--ATTTTCG-TCTGCTCC-CTACTGCTTAGGGA
* * *
7275577 GATAAGATTTGTAATTTTCAGCCTGTTACCCTACTGCTTAAGGG-
1 GATAAGATCTGTAATTTTC-GTCTGCT-CCCTACTGCTT-AGGGA
* * * *
7275621 GTTAA-AGCT-CACCATCTTCGATCTGCTCCACTACTGCTTTAGGGA
1 GATAAGATCTGTA--ATTTTCG-TCTGCTCC-CTACTGC-TTAGGGA
* * * * **
7275666 GATAAGATCTGTAATTTTTAGCCTGTTACCTTACAACTTAGGG-
1 GATAAGATCTGTAA-TTTTCGTCTGCT-CCCTACTGCTTAGGGA
* * * * * *
7275709 GTTAAGGT-T-CACTGTCTTCGATCTGTTTCACTACTGCTTAGGGA
1 GATAAGATCTGTAAT-T-TTCG-TCTG-CTCCCTACTGCTTAGGGA
* *
7275753 GATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTATGGG-
1 GATAAGATCTGTAATTTTC-GTCTGCT-CCCTACTGCTTA-GGGA
* * * * *
7275797 GTTAA-AGCT-TACCGTTTTTGATCTGCTCTACTACTGCTTAGGGA
1 GATAAGATCTGTA--ATTTTCG-TCTGCTC-CCTACTGCTTAGGGA
*
7275841 GATAAGATCAGTAATTTTC
1 GATAAGATCTGTAATTTTC
7275860 AGCTTGTTAC
Statistics
Matches: 465, Mismatches: 107, Indels: 127
0.67 0.15 0.18
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
42 13 0.03
43 63 0.14
44 300 0.65
45 64 0.14
46 19 0.04
47 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
GATAAGATCTGTAATTTTCGTCTGCTCCCTACTGCTTAGGGA
Found at i:7275343 original size:88 final size:88
Alignment explanation
Indices: 7275202--7275893 Score: 922
Period size: 88 Copynumber: 7.9 Consensus size: 88
7275192 TAATCTTCAG
* * *
7275202 TCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTATTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
*
7275267 GGGATAAGGCTCACCATCTTCGA
66 GGGATAAGGCTCACCGTCTTCGA
* * * * *
7275290 TCTGCTCCCCTATTGCTTAGGGAGATAAGATCTGTAATTTTCGGCTTGTTTCCCTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
* *
7275355 GGGATAAGGCTCACTGTCTTCAA
66 GGGATAAGGCTCACCGTCTTCGA
* * * ** * *
7275378 TCTGCTCCGCTACTACTTAGGGAGATAAGATCTTTAATTTTTGGCCTGTTTCCCTACTGCTTAAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
*
7275443 GGGATAAGGCTCACTGTCTTCGA
66 GGGATAAGGCTCACCGTCTTCGA
* *
7275466 TCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTTA-CCTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG-TTACCCTACTGCTTAG
7275530 GGGGATAAGGCTCACCGTCTTCGA
65 GGGGATAAGGCTCACCGTCTTCGA
* * *
7275554 TCTGCTCCACTACTGTTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTACCCTACTGCTTAAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
* * *
7275619 GGGTTAAAGCTCACCATCTTCGA
66 GGGATAAGGCTCACCGTCTTCGA
* * **
7275642 TCTGCTCCACTACTGCTTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCTTACAACTTA-
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAG
* * *
7275706 GGGGTTAAGGTTCACTGTCTTCGA
65 GGGGATAAGGCTCACCGTCTTCGA
* * *
7275730 TCTGTTTCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTATG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
* * * * *
7275795 GGGTTAAAGCTTACCGTTTTTGA
66 GGGATAAGGCTCACCGTCTTCGA
* * * *
7275818 TCTGCTCTACTACTGCTTAGGGAGATAAGATCAGTAATTTTCAGCTTGTTACTCTACTGCTTA-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
*
7275882 GGGTTAAGGCTC
66 GGGATAAGGCTC
7275894 GTATCTTCAA
Statistics
Matches: 539, Mismatches: 61, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
87 57 0.11
88 438 0.81
89 44 0.08
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (88 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
GGGATAAGGCTCACCGTCTTCGA
Found at i:7276012 original size:131 final size:132
Alignment explanation
Indices: 7275838--7276110 Score: 449
Period size: 132 Copynumber: 2.1 Consensus size: 132
7275828 TACTGCTTAG
* * * *
7275838 GGAGATAAGATCAGTAATTTTCAGCTTGTTACTCTACTGCTTAG-GGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCAGTAATTTTCAGCCTATTACCCTACTGCTTAGTGGGTTAAGGCTCGCATCTTC
*
7275902 AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGATAC
66 AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGACTAAAATCTACTCCATAGCCGATAC
7275967 AT
131 AT
*
7275969 GGAGATAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGTGGGTTAAGGCTCGCATCTTC
1 GGAGATAAGATCAGTAATTTTCAGCCTATTACCCTACTGCTTAGTGGGTTAAGGCTCGCATCTTC
* * * *
7276034 AACCTGTTCTCTTGTTACCTCAGAGAGATAATGCCGGTGACTAAAATCTGCTCCATAGCCGATAC
66 AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGACTAAAATCTACTCCATAGCCGATAC
7276099 AT
131 AT
7276101 GGAGATAAGA
1 GGAGATAAGA
7276111 CTCGCCATTT
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
131 40 0.31
132 91 0.69
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
GGAGATAAGATCAGTAATTTTCAGCCTATTACCCTACTGCTTAGTGGGTTAAGGCTCGCATCTTC
AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGACTAAAATCTACTCCATAGCCGATAC
AT
Found at i:7276153 original size:177 final size:176
Alignment explanation
Indices: 7275947--7276462 Score: 798
Period size: 177 Copynumber: 2.9 Consensus size: 176
7275937 GGTGGCTAAA
* *
7275947 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTA
1 ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA
* * * * *
7276012 GTGGGTTAAGGCTCGCATCTTCAACCTGTTCTCTTGTTACCTCAGAGAGATAATGCCGGTGACTA
66 G-GGGTTAAGGCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTA
7276077 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCAG
130 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCAG
* * * * *
7276124 ATCTGCTCCATAGTCGATACATAGAGATAAGATCTGTATTTTTCAGCCTGTTACTCTACTACTTA
1 ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTT-
* *
7276189 AGGGGTTAAGGCTCGTATCTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCCGTTGGCTA
65 AGGGGTTAAGGCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTA
* *
7276254 AAATCTGCTCCATAGCTGATACATGGAGATAAGACTCGCCATTTCTG
130 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCAG
* * * *
7276301 ATCTACTCCATAGCCGATACATAGAGATAAGATTTGTAATTTTCAACATGTTACCCTATTGCTTA
1 ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA
* *
7276366 GGGGGTTAAGGCTCGTATCTTTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTA
66 -GGGGTTAAGGCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTA
*
7276431 AAATCTGCTCTATAGCCGATACATGGAGATAA
130 AAATCTGCTCCATAGCCGATACATGGAGATAA
7276463 TATCTGTAAT
Statistics
Matches: 306, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
176 1 0.00
177 303 0.99
178 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (176 bp):
ATCTACTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA
GGGGTTAAGGCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAA
AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCAG
Found at i:7281024 original size:19 final size:19
Alignment explanation
Indices: 7281000--7281045 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7280990 TGTAAAGTTT
*
7281000 AATGCACATG-ATGCAATG
1 AATGCAAATGTATGCAATG
*
7281018 CAATGCAAATGTATGGAATG
1 -AATGCAAATGTATGCAATG
7281038 AATGCAAA
1 AATGCAAA
7281046 ATAAAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (19 bp):
AATGCAAATGTATGCAATG
Found at i:7282818 original size:18 final size:16
Alignment explanation
Indices: 7282795--7282856 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
7282785 TCAGTAGTAT
7282795 TCAGTTACTCTATAACAG
1 TCAGTTA-TC-ATAACAG
7282813 TCAGTTATACAATAACAG
1 TCAGTTAT-C-ATAACAG
*
7282831 TCATTTATTCAGTAACAG
1 TCAGTTA-TCA-TAACAG
*
7282849 TCAATTAT
1 TCAGTTAT
7282857 TCCGTAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 34 0.89
19 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (16 bp):
TCAGTTATCATAACAG
Found at i:7282857 original size:18 final size:18
Alignment explanation
Indices: 7282806--7282858 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
7282796 CAGTTACTCT
* *
7282806 ATAACAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
7282824 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
7282842 GTAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
7282859 CGTAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:7283012 original size:6 final size:6
Alignment explanation
Indices: 7283001--7283034 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
7282991 CACCACAACG
*
7283001 GTAACA GTAACA GTAACA GTAACA GTCACA GTAA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAA
7283035 TTGTACACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:7284135 original size:17 final size:17
Alignment explanation
Indices: 7284115--7284169 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
7284105 TGTTTTTCTT
7284115 TTTCTTTTCTTTTTTCA
1 TTTCTTTTCTTTTTTCA
*
7284132 TTTC--TT-TTATTTCA
1 TTTCTTTTCTTTTTTCA
*
7284146 TTT-ATTTCTTTATTTCA
1 TTTCTTTTCTTT-TTTCA
7284163 TTTCTTT
1 TTTCTTT
7284170 ATTTTATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
14 10 0.33
15 4 0.13
16 2 0.07
17 12 0.40
18 2 0.07
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTCTTTTCTTTTTTCA
Found at i:7284149 original size:9 final size:9
Alignment explanation
Indices: 7284131--7284165 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
7284121 TTCTTTTTTC
*
7284131 ATTTCTTTT
1 ATTTCATTT
7284140 ATTTCATTT
1 ATTTCATTT
7284149 ATTTC-TTT
1 ATTTCATTT
7284157 ATTTCATTT
1 ATTTCATTT
7284166 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:7284167 original size:13 final size:13
Alignment explanation
Indices: 7284115--7284173 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 13
7284105 TGTTTTTCTT
*
7284115 TTTCTTTTCTTT-
1 TTTCATTTCTTTA
7284127 TTTCATTTCTTTTA
1 TTTCATTTC-TTTA
7284141 TTTCATTTATTTCTTTA
1 TTTC----ATTTCTTTA
7284158 TTTCATTTCTTTA
1 TTTCATTTCTTTA
7284171 TTT
1 TTT
7284174 TATTATTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 8 0.20
13 15 0.38
14 4 0.10
17 8 0.20
18 5 0.12
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTCATTTCTTTA
Found at i:7285757 original size:22 final size:23
Alignment explanation
Indices: 7285710--7285757 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7285700 CATTCAAGAT
** *
7285710 AAAATAATATATGAAACTCTTTA
1 AAAATAATATATGAAACAATTCA
7285733 AAAATAATATAT-AAACAATTCA
1 AAAATAATATATGAAACAATTCA
7285755 AAA
1 AAA
7285758 TATATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAATATATGAAACAATTCA
Found at i:7286003 original size:23 final size:23
Alignment explanation
Indices: 7285937--7286003 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
7285927 TATAAGAAGA
*
7285937 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
7285957 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
7285980 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
7286003 A
1 A
7286004 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:7286003 original size:29 final size:28
Alignment explanation
Indices: 7285936--7286033 Score: 69
Period size: 29 Copynumber: 3.4 Consensus size: 28
7285926 ATATAAGAAG
* * *
7285936 AATAATAAT-GAAAATAATATTAGTATATA
1 AATAATAATAG-AAA-AATATAAATAGATA
7285965 AATAGA-AATA-AAAATATAATAAATAGA-A
1 AATA-ATAATAGAAAA-AT-ATAAATAGATA
*
7285993 ATATAATAATAGTAGAAATATAAATAGATA
1 A-ATAATAATAG-AAAAATATAAATAGATA
7286023 AATAATAATAG
1 AATAATAATAG
7286034 TATTAGAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
27 1 0.02
28 8 0.14
29 39 0.70
30 5 0.09
31 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (28 bp):
AATAATAATAGAAAAATATAAATAGATA
Found at i:7286010 original size:17 final size:15
Alignment explanation
Indices: 7285970--7286015 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
7285960 ATATAAATAG
*
7285970 AAATAAAAATATAAT
1 AAATAGAAATATAAT
7285985 AAATAGAAATATAAT
1 AAATAGAAATATAAT
7286000 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
7286016 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:7286015 original size:14 final size:15
Alignment explanation
Indices: 7285995--7286035 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
7285985 AAATAGAAAT
7285995 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
7286010 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
7286024 ATAATAATAGTA
1 ATAATAATAGTA
7286036 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:7286030 original size:15 final size:14
Alignment explanation
Indices: 7285970--7286030 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
7285960 ATATAAATAG
*
7285970 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
7285985 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
7286000 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
7286014 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
7286029 AA
1 AA
7286031 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:7290585 original size:38 final size:37
Alignment explanation
Indices: 7290529--7290601 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 37
7290519 TAACTCGAAT
*
7290529 ATTTTTCCAGCACTTAGCCTGCGGACTTTAAGTCCGG
1 ATTTTTCCAGCACTTAGCCTGCAGACTTTAAGTCCGG
7290566 ATTTATTCCAGCA-TATAGCCTGCAGACTTTAAGTCC
1 ATTT-TTCCAGCACT-TAGCCTGCAGACTTTAAGTCC
7290602 AAATTTCTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 5 0.15
38 28 0.85
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (37 bp):
ATTTTTCCAGCACTTAGCCTGCAGACTTTAAGTCCGG
Found at i:7297049 original size:38 final size:37
Alignment explanation
Indices: 7296993--7297064 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 37
7296983 TAACCCGGAT
7296993 ATTTTTCCAGCACTTAGCCTGCGGACTTTAAGTCTGG
1 ATTTTTCCAGCACTTAGCCTGCGGACTTTAAGTCTGG
7297030 ATTTATTCCAGCA-TATAGCCTGCGGACTTTAAGTC
1 ATTT-TTCCAGCACT-TAGCCTGCGGACTTTAAGTC
7297065 CAGATTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 5 0.15
38 28 0.85
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (37 bp):
ATTTTTCCAGCACTTAGCCTGCGGACTTTAAGTCTGG
Found at i:7301305 original size:15 final size:15
Alignment explanation
Indices: 7301285--7301315 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7301275 TTTAACATTT
7301285 AATATATTTATTTCA
1 AATATATTTATTTCA
7301300 AATATATTTATTTCA
1 AATATATTTATTTCA
7301315 A
1 A
7301316 GTATTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
AATATATTTATTTCA
Found at i:7301320 original size:13 final size:14
Alignment explanation
Indices: 7301281--7301328 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
7301271 TTCATTTAAC
7301281 ATTT-AATATATTT
1 ATTTCAATATATTT
7301294 ATTTCAAATATATTT
1 ATTTC-AATATATTT
* *
7301309 ATTTCAA-GTATTC
1 ATTTCAATATATTT
7301322 ATTTCAA
1 ATTTCAA
7301329 ATGTCCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 15 0.48
14 2 0.06
15 14 0.45
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTTCAATATATTT
Found at i:7301381 original size:40 final size:40
Alignment explanation
Indices: 7301337--7301421 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 40
7301327 AAATGTCCCT
* * * *
7301337 TTTCACATATCTATATTC-CTATAAATATTGCGTATAAACA
1 TTTCACATATATAT-TTCTATATAAACATTGCATATAAACA
* * *
7301377 TTTCATATATATATTTCTATATAAACATTTCATATAACCA
1 TTTCACATATATATTTCTATATAAACATTGCATATAAACA
7301417 TTTCA
1 TTTCA
7301422 TCTAAACAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
39 3 0.08
40 34 0.92
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (40 bp):
TTTCACATATATATTTCTATATAAACATTGCATATAAACA
Found at i:7301385 original size:13 final size:13
Alignment explanation
Indices: 7301369--7301473 Score: 84
Period size: 13 Copynumber: 7.8 Consensus size: 13
7301359 AAATATTGCG
7301369 TATAAACATTTCA
1 TATAAACATTTCA
* *
7301382 TATATATATTTCTA
1 TATAAACATTTC-A
7301396 TATAAACATTTCA
1 TATAAACATTTCA
*
7301409 TATAACCATTTCA
1 TATAAACATTTCA
* *
7301422 TCTAAACAATTCA
1 TATAAACATTTCA
* * *
7301435 TTTTACCATTTCA
1 TATAAACATTTCA
* *
7301448 TTTACACATTTGACA
1 TATAAACATTT--CA
*
7301463 TATAATCATTT
1 TATAAACATTT
7301474 TGTATATCAC
Statistics
Matches: 71, Mismatches: 18, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
13 50 0.70
14 11 0.15
15 10 0.14
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.44
Consensus pattern (13 bp):
TATAAACATTTCA
Found at i:7301434 original size:26 final size:26
Alignment explanation
Indices: 7301369--7301473 Score: 95
Period size: 26 Copynumber: 3.9 Consensus size: 26
7301359 AAATATTGCG
*
7301369 TATAAACATTTCATATATA-TATTTCTA
1 TATAAACATTTCATATA-ACCATTTC-A
7301396 TATAAACATTTCATATAACCATTTCA
1 TATAAACATTTCATATAACCATTTCA
* * * *
7301422 TCTAAACAATTCATTTTACCATTTCA
1 TATAAACATTTCATATAACCATTTCA
* * *
7301448 TTTACACATTTGACATATAATCATTT
1 TATAAACATTT--CATATAACCATTT
7301474 TGTATATCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 32 0.50
27 22 0.34
28 10 0.16
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.44
Consensus pattern (26 bp):
TATAAACATTTCATATAACCATTTCA
Found at i:7304751 original size:46 final size:46
Alignment explanation
Indices: 7304684--7304771 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
7304674 GCTTTTCAAC
* *
7304684 GAATGATGAATTTTTTTTGGTAAGGTTCTAACTTTAGTGATCTAAA
1 GAATGATGAATTTTTTCTGGTAAGGTTCTAAATTTAGTGATCTAAA
*
7304730 GAATGATGAATTTTTTCTGGTAGGGTTCTAAATTTAGTGATC
1 GAATGATGAATTTTTTCTGGTAAGGTTCTAAATTTAGTGATC
7304772 ATTGTTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (46 bp):
GAATGATGAATTTTTTCTGGTAAGGTTCTAAATTTAGTGATCTAAA
Found at i:7307786 original size:9 final size:9
Alignment explanation
Indices: 7307772--7307802 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
7307762 GATAAAGTAA
7307772 AATTAAATT
1 AATTAAATT
7307781 AATTAAATT
1 AATTAAATT
7307790 AATTAAAATT
1 AATT-AAATT
7307800 AAT
1 AAT
7307803 ATGATGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:7308353 original size:61 final size:58
Alignment explanation
Indices: 7308284--7308399 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
7308274 AGTGATTATC
* *
7308284 TTAATATTAAATTAAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
* *
7308345 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
7308400 TTAAATTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:7320374 original size:3 final size:3
Alignment explanation
Indices: 7320366--7320420 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
7320356 TCCCTTTAGG
7320366 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7320414 TT- TTA TT
1 TTA TTA TT
7320421 TTTGTTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7342391 original size:17 final size:17
Alignment explanation
Indices: 7342365--7342410 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
7342355 TGACGAGAGT
* *
7342365 TTGGAATGGAGTTGGTA
1 TTGGAGTGGAGATGGTA
7342382 TTGGAGTGGAGATGGTA
1 TTGGAGTGGAGATGGTA
7342399 TTGGAG-GGAGAT
1 TTGGAGTGGAGAT
7342411 ATCGGCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (17 bp):
TTGGAGTGGAGATGGTA
Found at i:7347090 original size:12 final size:13
Alignment explanation
Indices: 7347071--7347109 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
7347061 AAATTAAGTA
7347071 AATATTTAAAAAT
1 AATATTTAAAAAT
7347084 AAT-TTTAAAAA-
1 AATATTTAAAAAT
*
7347095 AATATTTAAATAT
1 AATATTTAAAAAT
7347108 AA
1 AA
7347110 AATATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 3 0.13
12 15 0.65
13 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTTAAAAAT
Found at i:7348800 original size:169 final size:163
Alignment explanation
Indices: 7348493--7348826 Score: 461
Period size: 169 Copynumber: 2.0 Consensus size: 163
7348483 TTAAATTTAA
* * ** * * * *
7348493 ACAAAGACGTTGGAGTGATGGTTTTTATAAGACACTCGTTTAATACGGATTCAAATTACATTTGC
1 ACAAAGACGGTGGAGGGATAATTCTTATAAGACACTCGTTTAATACGAATTCAAATTACAGTAGC
*
7348558 CTCATCTACTATCCCAATATTTAACAAAAAAAACCAATACGGATTGAATGAAAAACCCAATCCCT
66 CTCATCTACTATCCCAATATTTAACAAAAAAAACCAAGACGGATTGAATGAAAAACCCAATCCCT
7348623 AAATCAACTGTAGTCATTTAAATTCCAAGTTCT
131 AAATCAACTGTAGTCATTTAAATTCCAAGTTCT
* * * ***
7348656 ACAAAGACGGTGGAGGGATAATTCTTATAATACACTCGTTTGATACGAATTCAAGTTGTGGTAGC
1 ACAAAGACGGTGGAGGGATAATTCTTATAAGACACTCGTTTAATACGAATTCAAATTACAGTAGC
* *
7348721 CTCATCTACTATCCCAAATATTTAACAAAAAAAAAAAAACCGAGACGGATTGAATGAAAAACTCA
66 CTCATCTACTATCCC-AATATTTAAC-----AAAAAAAACCAAGACGGATTGAATGAAAAACCCA
7348786 ATCCCTAAATCAACTGTAGTCATTTAAATTCCAAGTTCT
125 ATCCCTAAATCAACTGTAGTCATTTAAATTCCAAGTTCT
7348825 AC
1 AC
7348827 TAAAAAAAAC
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
163 66 0.45
164 10 0.07
169 72 0.49
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.28
Consensus pattern (163 bp):
ACAAAGACGGTGGAGGGATAATTCTTATAAGACACTCGTTTAATACGAATTCAAATTACAGTAGC
CTCATCTACTATCCCAATATTTAACAAAAAAAACCAAGACGGATTGAATGAAAAACCCAATCCCT
AAATCAACTGTAGTCATTTAAATTCCAAGTTCT
Found at i:7352342 original size:6 final size:6
Alignment explanation
Indices: 7352326--7352355 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7352316 TTTATTCTTT
*
7352326 TTGTTC CTGTTC TTGTTC TTGTTC TTGTTC
1 TTGTTC TTGTTC TTGTTC TTGTTC TTGTTC
7352356 GTATCTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.17, T:0.63
Consensus pattern (6 bp):
TTGTTC
Found at i:7354664 original size:20 final size:20
Alignment explanation
Indices: 7354639--7354682 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7354629 AAAAGCATTT
*
7354639 CACCGGGAAAGCCCATTGAC
1 CACCGGGAAAACCCATTGAC
* *
7354659 CACCGGGAAAACCCTTTGAT
1 CACCGGGAAAACCCATTGAC
7354679 CACC
1 CACC
7354683 ATTTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.14
Consensus pattern (20 bp):
CACCGGGAAAACCCATTGAC
Found at i:7356271 original size:2 final size:2
Alignment explanation
Indices: 7356259--7356289 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7356249 CTAACCTATC
*
7356259 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7356290 CAATCTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7369748 original size:29 final size:31
Alignment explanation
Indices: 7369708--7369765 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
7369698 AAATAATTTA
*
7369708 TTTTAACTTTT-AATTT-TATTTTTTATCTC
1 TTTTAACTTTTAAATTTATATTATTTATCTC
7369737 TTTTAA-TCTTTAAATTTATATTATTTATC
1 TTTTAACT-TTTAAATTTATATTATTTATC
7369766 AAAGTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 9 0.36
30 5 0.20
31 10 0.40
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTAACTTTTAAATTTATATTATTTATCTC
Found at i:7370132 original size:19 final size:18
Alignment explanation
Indices: 7370110--7370155 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
7370100 GACCTTTAAT
7370110 TATTTAAAAAATTAAAAAA
1 TATTTAAAAAA-TAAAAAA
**
7370129 TATTTTAAAAAATAAAATT
1 TA-TTTAAAAAATAAAAAA
7370148 TATTTAAA
1 TATTTAAA
7370156 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATTTAAAAAATAAAAAA
Found at i:7370620 original size:29 final size:29
Alignment explanation
Indices: 7370555--7370634 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 29
7370545 TTGTATATTT
* * *
7370555 AGAATTTAATTCGTCTATTTTTACTCTTA
1 AGAATTTAATCCATTTATTTTTACTCTTA
* * * * *
7370584 AGAGTTTAGTCCCTTTATTTTTATTTTTA
1 AGAATTTAATCCATTTATTTTTACTCTTA
* *
7370613 GGAATTTAATCTATTTATTTTT
1 AGAATTTAATCCATTTATTTTT
7370635 TAAACAACTC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.10, G:0.09, T:0.56
Consensus pattern (29 bp):
AGAATTTAATCCATTTATTTTTACTCTTA
Found at i:7374586 original size:12 final size:12
Alignment explanation
Indices: 7374569--7374601 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7374559 CGGCCCAGCC
7374569 ATATTAATTTTT
1 ATATTAATTTTT
7374581 ATATT-ATTTTT
1 ATATTAATTTTT
7374592 ATA-TAATTTT
1 ATATTAATTTT
7374602 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:7374830 original size:22 final size:22
Alignment explanation
Indices: 7374805--7374847 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7374795 TATCTAAACA
7374805 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
7374827 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
7374848 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:7374851 original size:11 final size:11
Alignment explanation
Indices: 7374812--7374852 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
7374802 ACAATAACAA
7374812 CAAAATAGTAG
1 CAAAATAGTAG
* *
7374823 CAACATAATAG
1 CAAAATAGTAG
*
7374834 TAAAATAGTAG
1 CAAAATAGTAG
7374845 CAAAATAG
1 CAAAATAG
7374853 AGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:7374860 original size:22 final size:22
Alignment explanation
Indices: 7374813--7374860 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7374803 CAATAACAAC
* *
7374813 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
7374835 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
7374857 AAAA
1 AAAA
7374861 CAATTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:7377886 original size:2 final size:2
Alignment explanation
Indices: 7377879--7377903 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7377869 ATGCGATAAT
7377879 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7377904 GAATATTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7378535 original size:24 final size:26
Alignment explanation
Indices: 7378508--7378558 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
7378498 TCATGAACAA
7378508 GCTCATTTA-AAA-GTTTATTTATTG
1 GCTCATTTATAAACGTTTATTTATTG
7378532 GCTCATTTATAAACTCGTTTATTTATT
1 GCTCATTTATAAA--CGTTTATTTATT
7378559 AATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.39
25 3 0.13
28 11 0.48
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (26 bp):
GCTCATTTATAAACGTTTATTTATTG
Found at i:7378689 original size:23 final size:23
Alignment explanation
Indices: 7378644--7378689 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7378634 TCATTAACAT
**
7378644 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCAATTAA
*
7378667 TGTTCGTGAACGTGTTCAATTAA
1 TGTTCGTGAACATGTTCAATTAA
7378690 GTAAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:7381592 original size:25 final size:23
Alignment explanation
Indices: 7381564--7381613 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
7381554 TATTTGAGAC
* *
7381564 TTGAACTTCGTAATTTTTTTTACAT
1 TTGAACTT-G-AACTTTTTTTAAAT
*
7381589 TTGAGCTTGAACTTTTTTTAAAT
1 TTGAACTTGAACTTTTTTTAAAT
7381612 TT
1 TT
7381614 AAGTTGGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
24 1 0.05
25 7 0.32
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (23 bp):
TTGAACTTGAACTTTTTTTAAAT
Found at i:7381624 original size:22 final size:23
Alignment explanation
Indices: 7381578--7381625 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7381568 ACTTCGTAAT
* *
7381578 TTTTTTTACATTTGAGCTTGAAC
1 TTTTTTTAAATTTAAGCTTGAAC
*
7381601 TTTTTTTAAATTTAAG-TTGGAC
1 TTTTTTTAAATTTAAGCTTGAAC
7381623 TTT
1 TTT
7381626 GAACTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.56
Consensus pattern (23 bp):
TTTTTTTAAATTTAAGCTTGAAC
Found at i:7395335 original size:20 final size:22
Alignment explanation
Indices: 7395287--7395337 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
7395277 TTTCTATGCT
* *
7395287 TGCAAGTGATAGTGGCACTACAG
1 TGCAAGTGAAAGCGGCACTA-AG
7395310 TGCAAGTGAAAGCGGCACT-A-
1 TGCAAGTGAAAGCGGCACTAAG
7395330 TGCAAGTG
1 TGCAAGTG
7395338 TTAGAGGCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
23 17 0.65
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (22 bp):
TGCAAGTGAAAGCGGCACTAAG
Found at i:7395579 original size:2 final size:2
Alignment explanation
Indices: 7395572--7395599 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7395562 TAATAAGAAT
7395572 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7395600 AAATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7396867 original size:17 final size:17
Alignment explanation
Indices: 7396847--7396903 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
7396837 TTAGTAATAT
7396847 AAATAATACAAAATTTG
1 AAATAATACAAAATTTG
* *
7396864 AAATTTAATTCAATAATAT-
1 AAA--TAATACAA-AATTTG
*
7396883 AAATAGTACAAAATTTG
1 AAATAATACAAAATTTG
7396900 AAAT
1 AAAT
7396904 TTAATTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 4 0.13
17 13 0.42
19 10 0.32
20 4 0.13
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATAATACAAAATTTG
Found at i:7396924 original size:36 final size:36
Alignment explanation
Indices: 7396834--7396924 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
7396824 ATGATTAAAC
* *
7396834 AATTTAGTAATATAAATAATACAAAATTTGAAATTT
1 AATTTAATAATATAAATAGTACAAAATTTGAAATTT
*
7396870 AATTCAATAATATAAATAGTACAAAATTTGAAATTT
1 AATTTAATAATATAAATAGTACAAAATTTGAAATTT
7396906 AATTTAATAATATAAATAG
1 AATTTAATAATATAAATAG
7396925 CAGACATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (36 bp):
AATTTAATAATATAAATAGTACAAAATTTGAAATTT
Found at i:7398640 original size:78 final size:78
Alignment explanation
Indices: 7398511--7398740 Score: 363
Period size: 78 Copynumber: 2.9 Consensus size: 78
7398501 GAGTCACATC
* * *
7398511 TCATGTAACTGTAGTGGATCAGGATTACCTTTTCAGGTCCAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
7398576 AATGAATCATATA
66 AATGAATCATATA
*
7398589 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGCTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
7398654 AATGAATCATATA
66 AATGAATCATATA
* * * **
7398667 TCATGTAATTGTAACGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCGCCTTAATTTACCA-
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
7398731 AAGTGAATCA
66 AA-TGAATCA
7398741 GGAATAAATC
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
77 2 0.01
78 139 0.99
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
AATGAATCATATA
Found at i:7398800 original size:40 final size:40
Alignment explanation
Indices: 7398705--7398842 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 40
7398695 CTTTTCAGGT
* * * *
7398705 CAAATCCTATCCGCCTTAATTTACCAAAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
7398745 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* ** **
7398785 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
**
7398825 TGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
7398843 TATTCTCAAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:7400676 original size:18 final size:18
Alignment explanation
Indices: 7400653--7400691 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7400643 TACTTTTCTC
7400653 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
7400671 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
7400689 TTT
1 TTT
7400692 TTTTATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:7400929 original size:41 final size:40
Alignment explanation
Indices: 7400833--7400929 Score: 92
Period size: 38 Copynumber: 2.5 Consensus size: 40
7400823 AAGTAATAAT
* *
7400833 TGACACCCAGTGTCTCAACGGTCTAGCCGAAGTAAAGTTG
1 TGACACCCAGTGTCTCATCGATCTAGCCGAAGTAAAGTTG
* ** * *
7400873 -G-TACCCAGTACCTCATCGAATCTATCCGAAG-AAATTTAG
1 TGACACCCAGTGTCTCATCG-ATCTAGCCGAAGTAAAGTT-G
7400912 TGACACCCAGTGTCTCAT
1 TGACACCCAGTGTCTCAT
7400930 TGACTCGAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
38 18 0.42
39 12 0.28
40 1 0.02
41 12 0.28
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TGACACCCAGTGTCTCATCGATCTAGCCGAAGTAAAGTTG
Found at i:7401942 original size:25 final size:25
Alignment explanation
Indices: 7401886--7401932 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7401876 TGTAACTTTC
*
7401886 TTTCCTTT-TTTTACTTCTTTTACG
1 TTTCATTTGTTTTACTTCTTTTACG
*
7401910 TTTCATTTGTTTTATTTCTTTTA
1 TTTCATTTGTTTTACTTCTTTTA
7401933 TGTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTCATTTGTTTTACTTCTTTTACG
Found at i:7404656 original size:25 final size:25
Alignment explanation
Indices: 7404628--7404675 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7404618 TCTCGAGCCA
* *
7404628 TATAATAGGAAGCTCATATGAGCTG
1 TATAACAGGAAGCTCATAAGAGCTG
*
7404653 TATAACGGGAAGCTCATAAGAGC
1 TATAACAGGAAGCTCATAAGAGC
7404676 CATAATCGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (25 bp):
TATAACAGGAAGCTCATAAGAGCTG
Found at i:7404686 original size:23 final size:24
Alignment explanation
Indices: 7404629--7404693 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
7404619 CTCGAGCCAT
* * *
7404629 ATAATAGGAAGCTCATATGAGCTGT
1 ATAATCGGAAGCTCATAAGAGC-GC
7404654 ATAA-CGGGAAGCTCATAAGAGC-C
1 ATAATC-GGAAGCTCATAAGAGCGC
7404677 ATAATCGGAAAGCTCAT
1 ATAATCGG-AAGCTCAT
7404694 GCTAGCCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 6 0.18
24 9 0.26
25 19 0.56
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (24 bp):
ATAATCGGAAGCTCATAAGAGCGC
Found at i:7405197 original size:11 final size:11
Alignment explanation
Indices: 7405181--7405213 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7405171 CCATTTAATA
*
7405181 CAATTCACATT
1 CAATTCACATC
7405192 CAATTC-CATC
1 CAATTCACATC
7405202 CAATTCACATC
1 CAATTCACATC
7405213 C
1 C
7405214 TAGGCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (11 bp):
CAATTCACATC
Found at i:7407596 original size:18 final size:18
Alignment explanation
Indices: 7407573--7407609 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7407563 TGAGTTTTCA
*
7407573 AATTCAAGTAACTCGAAT
1 AATTCAAATAACTCGAAT
*
7407591 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
7407609 A
1 A
7407610 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:7409187 original size:50 final size:50
Alignment explanation
Indices: 7409123--7409221 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
7409113 TTCGAGCTAT
* **
7409123 GAATCGGTATGCTCTCACGAGCTGTGAATCGGTAAGCTCATACAAGCTGA
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACAAGCTGA
*
7409173 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTG
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACAAGCTG
7409222 TAGTGTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACAAGCTGA
Found at i:7409221 original size:25 final size:24
Alignment explanation
Indices: 7409124--7409221 Score: 110
Period size: 25 Copynumber: 4.0 Consensus size: 24
7409114 TCGAGCTATG
* *
7409124 AATCGGTATGCTCTCACGAGCTGTG
1 AATCGGTAAGCTCTCACGAGCTG-A
*
7409149 AATCGGTAAGCTCAT-ACAAGCTGA
1 AATCGGTAAGCTC-TCACGAGCTGA
7409173 GAATCGGTAAGCTCTCACGAGCTGCA
1 -AATCGGTAAGCTCTCACGAGCTG-A
7409199 AATCGGTAAGCTCAT-ACGAGCTG
1 AATCGGTAAGCTC-TCACGAGCTG
7409222 TAGTGTGTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
24 1 0.02
25 60 0.94
26 3 0.05
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (24 bp):
AATCGGTAAGCTCTCACGAGCTGA
Found at i:7409543 original size:16 final size:16
Alignment explanation
Indices: 7409524--7409555 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7409514 TCTATATGAA
7409524 TCTCATTCAATATAAT
1 TCTCATTCAATATAAT
*
7409540 TCTCATTCAATTTAAT
1 TCTCATTCAATATAAT
7409556 CCAACATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TCTCATTCAATATAAT
Found at i:7415270 original size:38 final size:38
Alignment explanation
Indices: 7415219--7415296 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
7415209 GAACGTTGTG
7415219 TAACGCCCCAATTTTCGGGAATTCTGTGAATGTTGGCA
1 TAACGCCCCAATTTTCGGGAATTCTGTGAATGTTGGCA
*
7415257 TAACGCCCCAATTTTTGGGAATTCTGTGAATGTTGGCA
1 TAACGCCCCAATTTTCGGGAATTCTGTGAATGTTGGCA
7415295 TA
1 TA
7415297 GGTTTAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (38 bp):
TAACGCCCCAATTTTCGGGAATTCTGTGAATGTTGGCA
Found at i:7415621 original size:26 final size:26
Alignment explanation
Indices: 7415588--7415695 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
7415578 TGATACAAAT
*
7415588 TGATAATGGGTTAGGTAAATGGTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
7415614 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7415640 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7415666 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7415692 TGAT
1 TGAT
7415696 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7417212 original size:26 final size:26
Alignment explanation
Indices: 7417183--7417235 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
7417173 TTTACAATTT
7417183 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
7417209 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
7417235 T
1 T
7417236 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:7417731 original size:137 final size:136
Alignment explanation
Indices: 7417486--7417768 Score: 512
Period size: 137 Copynumber: 2.1 Consensus size: 136
7417476 TAGTCTCCCC
* *
7417486 AAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
1 AAATGGGCTTGCATATGTTACTGATGCTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
*
7417551 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCACTG
66 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTAGCCCAGTACCACTG
7417616 TTACCT
131 TTACCT
7417622 AAATGGGCTTGCATATGTTTACTGATGCTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATG-TTACTGATGCTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
*
7417687 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCACT
65 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTAGCCCAGTACCACT
7417752 GTTACCT
130 GTTACCT
*
7417759 GAATGGGCTT
1 AAATGGGCTT
7417769 AGGCCCAATA
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 17 0.12
137 124 0.88
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
AAATGGGCTTGCATATGTTACTGATGCTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTAGCCCAGTACCACTG
TTACCT
Found at i:7419150 original size:45 final size:43
Alignment explanation
Indices: 7419089--7419207 Score: 152
Period size: 43 Copynumber: 2.7 Consensus size: 43
7419079 GCCGCAAAAA
* *
7419089 TTAGTGGCA-TTTTTTCGAAAAAACGCCTCTAAAGACCATGACCT
1 TTAGCGGCACTTTTTTCG--AAAACGCCGCTAAAGACCATGACCT
* *
7419133 TTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGACCATGACCT
1 TTAGCGGCACTTTTTTCGAAAACGCCGCTAAAGACCATGACCT
*
7419176 TTAGCGGCACTTTTTTC-ACAAATGCCGCTAAA
1 TTAGCGGCACTTTTTTCGA-AAACGCCGCTAAA
7419208 AATAATGATC
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
43 51 0.77
44 7 0.11
45 8 0.12
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
TTAGCGGCACTTTTTTCGAAAACGCCGCTAAAGACCATGACCT
Found at i:7419164 original size:43 final size:43
Alignment explanation
Indices: 7419109--7419207 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
7419099 TTTTTCGAAA
* * *
7419109 AAACGCCTCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
7419152 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
*
7419195 AAATGCCGCTAAA
1 AAACGCCGCTAAA
7419208 AATAATGATC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
Found at i:7419561 original size:17 final size:18
Alignment explanation
Indices: 7419531--7419564 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7419521 ATGCCAAAAT
*
7419531 GTTGAACTCTATATTCCA
1 GTTGAACTCCATATTCCA
7419549 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
7419565 CCCACATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:7422230 original size:15 final size:14
Alignment explanation
Indices: 7422195--7422253 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
7422185 AAACACTAAC
*
7422195 CCCTGAACCCTTAA
1 CCCTAAACCCTTAA
7422209 CCCTAAACCCTTACA
1 CCCTAAACCCTTA-A
*
7422224 CCTTAAACTCC--AA
1 CCCTAAAC-CCTTAA
* *
7422237 CCCTAACCCCTAAA
1 CCCTAAACCCTTAA
7422251 CCC
1 CCC
7422254 ATAATTCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 2 0.05
13 7 0.19
14 18 0.49
15 8 0.22
16 2 0.05
ACGTcount: A:0.32, C:0.47, G:0.02, T:0.19
Consensus pattern (14 bp):
CCCTAAACCCTTAA
Found at i:7422320 original size:21 final size:22
Alignment explanation
Indices: 7422296--7422376 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 22
7422286 ACTCCTAAAC
7422296 CTTAAACCCTAAACT-ATATAT
1 CTTAAACCCTAAACTCATATAT
* * *
7422317 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCCTA---AACTCATATAT
7422342 CTTAAACCCTAAA-TCATATAT
1 CTTAAACCCTAAACTCATATAT
7422363 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
7422377 CTTAAACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 29 0.59
22 2 0.04
24 4 0.08
25 14 0.29
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (22 bp):
CTTAAACCCTAAACTCATATAT
Found at i:7422333 original size:46 final size:46
Alignment explanation
Indices: 7422280--7422370 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
7422270 CTTCAAATAC
*
7422280 TAGTTAACTCCTAAACCTTAAACCCTAAA-CTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAATC-ATATATCTTAAACCA
7422326 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
1 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
7422371 CTAAACCTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACCA
Found at i:7422427 original size:25 final size:25
Alignment explanation
Indices: 7422393--7422442 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7422383 CTATAATGAT
7422393 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
7422418 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
7422443 TACTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTAATTCGATATTTTAAATTCAA
Found at i:7422617 original size:41 final size:41
Alignment explanation
Indices: 7422571--7422861 Score: 365
Period size: 41 Copynumber: 7.1 Consensus size: 41
7422561 GTTATATGAC
* * *
7422571 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAGTGCTCTGGT
1 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGT
* *
7422612 TTTTAGCGGCGTTTT-TCCAAAAGCGCCACTAATGCTCTAGT
1 TTTTAGCGGCGTTTTGT-CAAAAGCGCCGCTAATGCTCTGGT
*
7422653 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGT
* *
7422694 TTTTAGCGGCGTTTTGCCAAAAGAGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGT
* *
7422735 TTTTAGCGGTGTTTTG-CTAAAAGCGCCGCTGATGCTCTGGT
1 TTTTAGCGGCGTTTTGTC-AAAAGCGCCGCTAATGCTCTGGT
* *
7422776 TTTTAGCGGCGTTTT-TCCAAAAGCACCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTGT-CAAAAGCGCCGCTAATGCTCTGGT
** ** *
7422816 TTTTAGCGGCGTTTTACCAAAAATGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTG-GT
7422858 TTTT
1 TTTT
7422862 CAACTTTTGT
Statistics
Matches: 222, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
40 37 0.17
41 178 0.80
42 7 0.03
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGT
Found at i:7422708 original size:82 final size:81
Alignment explanation
Indices: 7422571--7422861 Score: 411
Period size: 82 Copynumber: 3.6 Consensus size: 81
7422561 GTTATATGAC
* * * *
7422571 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAGTGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
*
7422636 GCCACTAATGCTCTAGT
66 GCCGCTAATGCTCT-GT
* *
7422653 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGA
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
7422718 GCCGCTAATGCTCTGGT
66 GCCGCTAATGCTCT-GT
* * *
7422735 TTTTAGCGGTGTTTTGCTAAAAGCGCCGCTGATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
* *
7422800 ACCGCTATTGCTCTGT
66 GCCGCTAATGCTCTGT
* ** *
7422816 TTTTAGCGGCGTTTTACCAAAAATGCCGCTATTGCTCTGTGTTTTT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTG-GTTTTT
7422862 CAACTTTTGT
Statistics
Matches: 186, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 34 0.18
82 152 0.82
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
GCCGCTAATGCTCTGT
Found at i:7422790 original size:123 final size:122
Alignment explanation
Indices: 7422571--7422861 Score: 404
Period size: 123 Copynumber: 2.4 Consensus size: 122
7422561 GTTATATGAC
* * * * * *
7422571 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAGTGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGAGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
*
7422636 GCCACTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
66 GCCACTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGCACCGCTAATGCTCT-GT
* *
7422694 TTTTAGCGGCGTTTTGCCAAAAGAGCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTGCTAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGAGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
* * * * *
7422759 GCCGCTGATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGCACCGCTATTGCTCTGT
66 GCCACTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGCACCGCTAATGCTCTGT
* *
7422816 TTTTAGCGGCGTTTTACCAAAA-ATGCCGCTATTGCTCTGTGTTTTT
1 TTTTAGCGGCGTTTTGCCAAAAGA-GCCGCTAATGCTCTG-GTTTTT
7422862 CAACTTTTGT
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
121 1 0.01
122 37 0.25
123 112 0.75
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (122 bp):
TTTTAGCGGCGTTTTGCCAAAAGAGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
GCCACTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGCACCGCTAATGCTCTGT
Found at i:7422900 original size:12 final size:12
Alignment explanation
Indices: 7422885--7422911 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7422875 GTTTTTTGAT
7422885 AAAACGCCGCTA
1 AAAACGCCGCTA
7422897 AAAACGCCGCTA
1 AAAACGCCGCTA
7422909 AAA
1 AAA
7422912 CCCTATTTTC
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:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:7425429 original size:47 final size:48
Alignment explanation
Indices: 7425319--7425496 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 48
7425309 GTAACCCGCC
* * * * *
7425319 CATAAGCGAACTCGGTCTCAACTCAATGAGCACGGGTG---TTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCATTCACAT
* *
7425364 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCC-A-TTCACAT
* *
7425414 C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGA---CATTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCATTCACAT
* *
7425457 CATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCC
1 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCC
7425497 CAAATATCCT
Statistics
Matches: 107, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 28 0.26
46 32 0.30
47 28 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCATTCACAT
Found at i:7425484 original size:92 final size:93
Alignment explanation
Indices: 7425325--7425496 Score: 265
Period size: 92 Copynumber: 1.9 Consensus size: 93
7425315 CGCCCATAAG
* * *** *
7425325 CGAACTCGGTCTCAACTCAATGAGCACGGGTGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7425390 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
7425418 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT-CATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
7425482 ACGAGCTTGGATGCC
66 ACGAGCTCGGATGCC
7425497 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 38 0.54
93 33 0.46
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:7432923 original size:46 final size:46
Alignment explanation
Indices: 7432856--7432979 Score: 203
Period size: 46 Copynumber: 2.7 Consensus size: 46
7432846 TAACCCGCCT
* * *
7432856 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
7432902 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* *
7432948 ACAAGTGAACTTGGACTCAACTCAACGAGCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC
7432980 AGATGCCCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:7434739 original size:16 final size:15
Alignment explanation
Indices: 7434712--7434744 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
7434702 TATTAATTAA
7434712 ATAATATAAAATAAT
1 ATAATATAAAATAAT
7434727 ATAATACTAAAATAAT
1 ATAATA-TAAAATAAT
7434743 AT
1 AT
7434745 TACTTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATAAAATAAT
Found at i:7435354 original size:21 final size:21
Alignment explanation
Indices: 7435328--7435368 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7435318 TAACGGGACT
7435328 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
7435349 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
7435369 TGCTACATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:7437884 original size:26 final size:26
Alignment explanation
Indices: 7437855--7437924 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
7437845 AATGAACTTC
7437855 AAAACAAGTATTATACAAAGA-AATTT
1 AAAACAAGTATTATACAAA-ATAATTT
** * *
7437881 AAAATTAGTGTTACACAAAATAATTT
1 AAAACAAGTATTATACAAAATAATTT
7437907 AAAACCAAG-ATTTATACA
1 AAAA-CAAGTA-TTATACA
7437925 TCAAAATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
25 1 0.03
26 24 0.73
27 8 0.24
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (26 bp):
AAAACAAGTATTATACAAAATAATTT
Found at i:7441085 original size:17 final size:17
Alignment explanation
Indices: 7441056--7441088 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7441046 CAAACAATGC
7441056 AAGTTTAAGAATTAAAA
1 AAGTTTAAGAATTAAAA
7441073 AAGTTATAA-AATTAAA
1 AAGTT-TAAGAATTAAA
7441089 TAGAAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
AAGTTTAAGAATTAAAA
Found at i:7446549 original size:2 final size:2
Alignment explanation
Indices: 7446544--7446577 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7446534 TCTCTCTCTC
7446544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7446578 TTGGTACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7447385 original size:3 final size:3
Alignment explanation
Indices: 7447377--7447427 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
7447367 TAAATGTGTA
7447377 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7447425 TAT
1 TAT
7447428 ATTGGTAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7452112 original size:31 final size:29
Alignment explanation
Indices: 7452069--7452126 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
7452059 TCTATAATAA
* *
7452069 AATTATATTTTAATTTTATAAAATATGAAT
1 AATTATATTTTAATCTCATAAAA-ATGAAT
*
7452099 AATTTTATGTTTAATCTCATAAAAATGA
1 AATTATAT-TTTAATCTCATAAAAATGA
7452127 TGAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (29 bp):
AATTATATTTTAATCTCATAAAAATGAAT
Found at i:7455546 original size:12 final size:12
Alignment explanation
Indices: 7455529--7455553 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7455519 TTGTGTGTTC
7455529 TTTATTTTATTT
1 TTTATTTTATTT
7455541 TTTATTTTATTT
1 TTTATTTTATTT
7455553 T
1 T
7455554 ATTTTTCACA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:7461434 original size:30 final size:29
Alignment explanation
Indices: 7461400--7461500 Score: 103
Period size: 30 Copynumber: 3.3 Consensus size: 29
7461390 TATCTAAATA
*
7461400 AATATTAAGTTAAATTTAATATCTCATATT
1 AATATTAAATT-AATTTAATATCTCATATT
** * * *
7461430 AATATTAAATTAATAAAATATTATCTAAATA
1 AATATTAAATTAATTTAATA-TCTC-ATATT
*
7461461 AATATTAAATTTAATTTAATATCTAATATT
1 AATATTAAA-TTAATTTAATATCTCATATT
7461491 AATATTAAAT
1 AATATTAAAT
7461501 ACTATCAGGA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
29 8 0.14
30 25 0.45
31 14 0.25
32 9 0.16
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (29 bp):
AATATTAAATTAATTTAATATCTCATATT
Found at i:7461443 original size:11 final size:11
Alignment explanation
Indices: 7461427--7461498 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
7461417 AATATCTCAT
7461427 ATTAATATTAA
1 ATTAATATTAA
7461438 ATTAATA--AA
1 ATTAATATTAA
*
7461447 A-TATTATCTAA
1 ATTAATAT-TAA
*
7461458 ATAAATATTAA
1 ATTAATATTAA
7461469 ATTTAAT-TTAA
1 A-TTAATATTAA
7461480 TATCTAATATTAA
1 -AT-TAATATTAA
7461493 TATTAA
1 -ATTAA
7461499 ATACTATCAG
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
11 19 0.39
12 16 0.33
13 7 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:7461449 original size:61 final size:61
Alignment explanation
Indices: 7461374--7461500 Score: 227
Period size: 61 Copynumber: 2.1 Consensus size: 61
7461364 ACATTCATAC
* *
7461374 TAAATTAATAAAATATTATCTAAATAAATATTAAGTTAAATTTAATATCTCATATTAATAT
1 TAAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATATCTAATATTAATAT
*
7461435 TAAATTAATAAAATATTATCTAAATAAATATTAAATTTAATTTAATATCTAATATTAATAT
1 TAAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATATCTAATATTAATAT
7461496 TAAAT
1 TAAAT
7461501 ACTATCAGGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (61 bp):
TAAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTTAATATCTAATATTAATAT
Done.