Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 234 of 444
Found at i:66201135 original size:17 final size:16
Alignment explanation
Indices: 66201103--66201136 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66201093 CATGAAAATG
*
66201103 AATGAAATATTGATAT
1 AATGAAATAATGATAT
66201119 AATGAAATGAATGATAT
1 AATGAAAT-AATGATAT
66201136 A
1 A
66201137 TGTTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (16 bp):
AATGAAATAATGATAT
Found at i:66209536 original size:33 final size:33
Alignment explanation
Indices: 66209448--66209657 Score: 147
Period size: 33 Copynumber: 6.2 Consensus size: 33
66209438 ATTGACGGAT
* * * * *
66209448 AAGACCATAGTTGGACCATGGCAGTGTTTATATGT
1 AAGACCATAGTTGGGCTATGGCACT-ATTA-ATGA
66209483 AAGACCATAGTTGGGCTATGGCA-TATTAATGAA
1 AAGACCATAGTTGGGCTATGGCACTATTAATG-A
** * * *
66209516 AAGACCATAACTGGGTTATGGCACT-TTGAACGT
1 AAGACCATAGTTGGGCTATGGCACTATT-AATGA
* * * * *
66209549 AAGACCATGGTTGGACCATGGCAGTAATTATATGT
1 AAGACCATAGTTGGGCTATGGCACT-ATTA-ATGA
*
66209584 AAGACCATAGCTGGGCTATGGCA-TATTAATGAA
1 AAGACCATAGTTGGGCTATGGCACTATTAATG-A
* * ** *
66209617 AAGACCATAATTGGGTTATGGCACTACGAATGT
1 AAGACCATAGTTGGGCTATGGCACTATTAATGA
66209650 AAGACCAT
1 AAGACCAT
66209658 GACAAGGCCA
Statistics
Matches: 139, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
32 6 0.04
33 75 0.54
34 13 0.09
35 45 0.32
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (33 bp):
AAGACCATAGTTGGGCTATGGCACTATTAATGA
Found at i:66209589 original size:68 final size:66
Alignment explanation
Indices: 66209481--66209606 Score: 164
Period size: 68 Copynumber: 1.9 Consensus size: 66
66209471 GTGTTTATAT
* * *
66209481 GTAAGACCATAGTTGGGCTATGGCATATTAATGAAAAGACCATAACTGGGTTATGGCACTTTGAA
1 GTAAGACCATAGTTGGACCATGGCATATTAATGAAAAGACCATAACTGGGCTATGGCACTTTGAA
66209546 C
66 C
* * *
66209547 GTAAGACCATGGTTGGACCATGGCAGTAATTATATG-TAAGACCATAGCTGGGCTATGGCA
1 GTAAGACCATAGTTGGACCATGGCA-T-ATTA-ATGAAAAGACCATAACTGGGCTATGGCA
66209607 TATTAATGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
66 22 0.43
67 1 0.02
68 25 0.49
69 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (66 bp):
GTAAGACCATAGTTGGACCATGGCATATTAATGAAAAGACCATAACTGGGCTATGGCACTTTGAA
C
Found at i:66209622 original size:101 final size:101
Alignment explanation
Indices: 66209447--66209658 Score: 352
Period size: 101 Copynumber: 2.1 Consensus size: 101
66209437 AATTGACGGA
* ** *
66209447 TAAGACCATAGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATATTAA
1 TAAGACCATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATATTAA
**
66209512 TGAAAAGACCATAACTGGGTTATGGCACTTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCACTACGAACG
66209548 TAAGACCATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATATTAA
1 TAAGACCATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATATTAA
* *
66209613 TGAAAAGACCATAATTGGGTTATGGCACTACGAATG
66 TGAAAAGACCATAACTGGGTTATGGCACTACGAACG
66209649 TAAGACCATG
1 TAAGACCATG
66209659 ACAAGGCCAT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 103 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATATTAA
TGAAAAGACCATAACTGGGTTATGGCACTACGAACG
Found at i:66209669 original size:101 final size:101
Alignment explanation
Indices: 66209460--66209705 Score: 329
Period size: 101 Copynumber: 2.5 Consensus size: 101
66209450 GACCATAGTT
**
66209460 GGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATATTAATGAAAAGACCATA
1 GGACCATGGCAGTAATTATATGTAAGACCATAGTTGGGCTATGGCATATTAATGAAAAGACCATA
** ***
66209525 ACTGGGTTATGGCACTTTGAACGTAAGACCATGGTT
66 ACTGGGTTATGGCACTACGAACGTAAGACCATGCAA
*
66209561 GGACCATGGCAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATATTAATGAAAAGACCATA
1 GGACCATGGCAGTAATTATATGTAAGACCATAGTTGGGCTATGGCATATTAATGAAAAGACCATA
* *
66209626 ATTGGGTTATGGCACTACGAATGTAAGACCATGACAA
66 ACTGGGTTATGGCACTACGAACGTAAGACCATG-CAA
* * *
66209663 GG-CCATGGC---AATGCATGTGTAAGACCATAGTTGGACTATGGCA
1 GGACCATGGCAGTAAT-TATATGTAAGACCATAGTTGGGCTATGGCA
66209706 CAAAGAAAAT
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
98 3 0.02
99 26 0.20
101 98 0.76
102 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (101 bp):
GGACCATGGCAGTAATTATATGTAAGACCATAGTTGGGCTATGGCATATTAATGAAAAGACCATA
ACTGGGTTATGGCACTACGAACGTAAGACCATGCAA
Found at i:66211112 original size:23 final size:23
Alignment explanation
Indices: 66211086--66211129 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
66211076 TTGGTAAACT
*
66211086 TTAGGTATAAATATGCATATAAG
1 TTAGGTATAAATATGAATATAAG
* *
66211109 TTAGTTATACATATGAATATA
1 TTAGGTATAAATATGAATATA
66211130 CCTGTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (23 bp):
TTAGGTATAAATATGAATATAAG
Found at i:66215214 original size:14 final size:14
Alignment explanation
Indices: 66215197--66215243 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
66215187 TATAATGTGT
66215197 TCAATATTTAACTA
1 TCAATATTTAACTA
* *
66215211 TCAA-ATTAAATTAA
1 TCAATATTTAACT-A
66215225 TTCAATATTTAACTA
1 -TCAATATTTAACTA
66215240 TCAA
1 TCAA
66215244 CTATAGGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 6 0.23
14 9 0.35
15 5 0.19
16 6 0.23
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TCAATATTTAACTA
Found at i:66218239 original size:18 final size:18
Alignment explanation
Indices: 66218216--66218253 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
66218206 GATACTTGAT
66218216 TATGGTTTGAGCAAGAAC
1 TATGGTTTGAGCAAGAAC
66218234 TATGGTTTGAGCAAGAAC
1 TATGGTTTGAGCAAGAAC
66218252 TA
1 TA
66218254 AGTGTGCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (18 bp):
TATGGTTTGAGCAAGAAC
Found at i:66225491 original size:40 final size:39
Alignment explanation
Indices: 66225325--66225509 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 39
66225315 AAATTGAATG
* * *
66225325 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
66225365 ATAACCGGGTTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGG-CTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
66225406 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
66225446 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
66225485 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
66225510 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
38 4 0.04
39 3 0.03
40 86 0.76
41 20 0.18
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:66235189 original size:40 final size:39
Alignment explanation
Indices: 66235024--66235207 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
66235014 AAATTGAATG
* * *
66235024 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
66235064 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
66235104 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
66235144 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
66235183 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
66235208 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:66235232 original size:80 final size:81
Alignment explanation
Indices: 66235064--66235252 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
66235054 GCTGGAAATT
* * * *
66235064 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
66235129 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
66235145 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
66235208 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
66235224 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
66235253 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:66239425 original size:29 final size:30
Alignment explanation
Indices: 66239392--66239448 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
66239382 AAATCAATTT
* * *
66239392 TCAAA-CCTAGGGGTAAAATGGTTATTTTG
1 TCAAAGCCTAAGGATAAAATGGTCATTTTG
*
66239421 TCAAAGTCTAAGGATAAAATGGTCATTT
1 TCAAAGCCTAAGGATAAAATGGTCATTT
66239449 CACCGAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (30 bp):
TCAAAGCCTAAGGATAAAATGGTCATTTTG
Found at i:66252206 original size:28 final size:29
Alignment explanation
Indices: 66252166--66252224 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
66252156 TTTTGGGGTA
*
66252166 AAAGGGAAACT-AAAAATAAATTGAAGAG
1 AAAGGGAAACTAAAAAAAAAATTGAAGAG
66252194 AAAGGGAAACTAAAAAAAAAATTGAAGAG
1 AAAGGGAAACTAAAAAAAAAATTGAAGAG
66252223 AA
1 AA
66252225 GAGTTGGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.64, C:0.03, G:0.20, T:0.12
Consensus pattern (29 bp):
AAAGGGAAACTAAAAAAAAAATTGAAGAG
Found at i:66259848 original size:19 final size:19
Alignment explanation
Indices: 66259826--66259894 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 19
66259816 AAAACATAAC
66259826 AAAATTTATAAAAATTATA
1 AAAATTTATAAAAATTATA
* * *
66259845 AAAAATCATTAAAATTAT-
1 AAAATTTATAAAAATTATA
* *
66259863 ACAATTT-TTAAAATTATTA
1 AAAATTTATAAAAATTA-TA
* *
66259882 GAAATTAATAAAA
1 AAAATTTATAAAA
66259895 TAAAAATAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
17 9 0.24
18 5 0.14
19 19 0.51
20 4 0.11
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (19 bp):
AAAATTTATAAAAATTATA
Found at i:66259849 original size:20 final size:20
Alignment explanation
Indices: 66259809--66259863 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
66259799 TTTGGACTAG
*
66259809 AATTATAAAAA-CATAACAA
1 AATTATAAAAATTATAACAA
66259828 AATTTATAAAAATTATAA-AA
1 AA-TTATAAAAATTATAACAA
* *
66259848 AATCATTAAAATTATA
1 AATTATAAAAATTATA
66259864 CAATTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 14 0.45
20 13 0.42
21 4 0.13
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AATTATAAAAATTATAACAA
Found at i:66260041 original size:21 final size:21
Alignment explanation
Indices: 66259990--66260043 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
66259980 AAAATCAATA
*
66259990 TTAATAATTTTTTGATAAAATT
1 TTAATAA-TTTTTAATAAAATT
* * *
66260012 TT-ATGATTTTTAATTAATTT
1 TTAATAATTTTTAATAAAATT
66260032 TTAATAATTTTT
1 TTAATAATTTTT
66260044 TTTATATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 13 0.50
21 11 0.42
22 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTAATAATTTTTAATAAAATT
Found at i:66260089 original size:33 final size:31
Alignment explanation
Indices: 66260029--66260089 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
66260019 TTTTAATTAA
**
66260029 TTTTTAATAATTTTTTTTATATTTTTTATGG
1 TTTTTAATAATTTTTTTTATAAATTTTATGG
*
66260060 TTTTTAGTAAATTATTTTTTATAAATTTTA
1 TTTTTAAT-AATT-TTTTTTATAAATTTTA
66260090 ATCATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
32 4 0.16
33 14 0.56
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (31 bp):
TTTTTAATAATTTTTTTTATAAATTTTATGG
Found at i:66265538 original size:26 final size:26
Alignment explanation
Indices: 66265509--66265558 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
66265499 ACCAATATCA
66265509 GTATCGCAGCAAAGCTACCAGTAACG
1 GTATCGCAGCAAAGCTACCAGTAACG
*
66265535 GTATCGCAGCAAAGCTGCCAGTAA
1 GTATCGCAGCAAAGCTACCAGTAA
66265559 TCAGTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (26 bp):
GTATCGCAGCAAAGCTACCAGTAACG
Found at i:66268356 original size:48 final size:48
Alignment explanation
Indices: 66268285--66268759 Score: 423
Period size: 48 Copynumber: 9.9 Consensus size: 48
66268275 AGGGTAAGAT
* * * *
66268285 GCTGATGCCATGTTCCAAACATGGTTTTACACTAGCGCACATGTCGAG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * * * *
66268333 GCTGATGCCATGTCCCAGACATGGTCTTATACTAACTCTCCTATCAAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
66268381 G-TCGATGCTATGTTCCAAACATGGTCTTGCACCAGCTCACATATCGAG
1 GCT-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * *
66268429 GCCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATATCAAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * * * *
66268477 ACCGATGTCATGTTCCAAATATGGTTTTACACTTGCTCACATATCGAG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * * *
66268525 GCTGATGCCATGTCTCAGACATGGTCTTATACTAGCTCTCATATCAAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * *
66268573 GTTGATGTCATGTTCCAAACATAGTCTTACACTGGCTCACATATCGAG
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
** * * * *
66268621 GCCCATGCCATGTCCCAGACATGGTCTCACACTAGCTCTCATATCGAT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * * *
66268669 GCCGATG-CATTGTCCCAGACATAGTCTTACACTAGCTCTCATATCAAT
1 GCTGATGCCA-TGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * *
66268717 ACCGATGCCATGTTCCAAAGATGGTCTTACACTAACTCACATA
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
66268760 ACCCTAGTAT
Statistics
Matches: 338, Mismatches: 85, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
47 3 0.01
48 333 0.99
49 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:66268452 original size:96 final size:96
Alignment explanation
Indices: 66268283--66268759 Score: 546
Period size: 96 Copynumber: 5.0 Consensus size: 96
66268273 AAAGGGTAAG
* * * * * *
66268283 ATGCTGATGCCATGTTCCAAACATGGTTTTACACTAGCGCACATGTCGAGGCTGATGCCATGTCC
1 ATGCCGATGCTATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* * *
66268348 CAGACATGGTCTTATACTAACTCTCCTATCA
66 CAGACATGGTCTTACACTAGCTCTCATATCA
* * *
66268379 ATGTCGATGCTATGTTCCAAACATGGTCTTGCACCAGCTCACATATCGAGGCCGATGCCATGTCC
1 ATGCCGATGCTATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
* *
66268444 CAAACATGGTTTTACACTAGCTCTCATATCA
66 CAGACATGGTCTTACACTAGCTCTCATATCA
* * * * *
66268475 ATACCGATG-TCATGTTCCAAATATGGTTTTACACTTGCTCACATATCGAGGCTGATGCCATGTC
1 ATGCCGATGCT-ATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
* *
66268539 TCAGACATGGTCTTATACTAGCTCTCATATCA
65 CCAGACATGGTCTTACACTAGCTCTCATATCA
** * * *
66268571 ATGTTGATG-TCATGTTCCAAACATAGTCTTACACTGGCTCACATATCGAGGCCCATGCCATGTC
1 ATGCCGATGCT-ATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
* *
66268635 CCAGACATGGTCTCACACTAGCTCTCATATCG
65 CCAGACATGGTCTTACACTAGCTCTCATATCA
* * * * * ** *
66268667 ATGCCGATGC-ATTGTCCCAGACATAGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTT
1 ATGCCGATGCTA-TGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTC
* * * *
66268731 CCAAAGATGGTCTTACACTAACTCACATA
65 CCAGACATGGTCTTACACTAGCTCTCATA
66268760 ACCCTAGTAT
Statistics
Matches: 323, Mismatches: 55, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
95 2 0.01
96 321 0.99
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
ATGCCGATGCTATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCATATCA
Found at i:66268620 original size:192 final size:192
Alignment explanation
Indices: 66268288--66268759 Score: 606
Period size: 192 Copynumber: 2.5 Consensus size: 192
66268278 GTAAGATGCT
*
66268288 GATGCCATGTTCCAAACATGGTTTTACACTAGCGCACATGTCGAGGCTGATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTTTTACACTAGCGCACATATCGAGGCTGATGCCATGTCCCAGAC
* * *
66268353 ATGGTCTTATACTAACTCTCCTATCAATGTCGATGCTATGTTCCAAACATGGTCTTGCACCAGCT
66 ATGGTCTTATACTAACTCTCATATCAATGTCGATGCTATGTTCCAAACATAGTCTTACACCAGCT
* * *
66268418 CACATATCGAGGCCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATATCAATACC
131 CACATATCGAGGCCCATGCCATGTCCCAAACATGGTCTCACACTAGCTCTCATATCAATACC
* * * * *
66268480 GATGTCATGTTCCAAATATGGTTTTACACTTGCTCACATATCGAGGCTGATGCCATGTCTCAGAC
1 GATGCCATGTTCCAAACATGGTTTTACACTAGCGCACATATCGAGGCTGATGCCATGTCCCAGAC
* * **
66268545 ATGGTCTTATACTAGCTCTCATATCAATGTTGATG-TCATGTTCCAAACATAGTCTTACACTGGC
66 ATGGTCTTATACTAACTCTCATATCAATGTCGATGCT-ATGTTCCAAACATAGTCTTACACCAGC
* * *
66268609 TCACATATCGAGGCCCATGCCATGTCCCAGACATGGTCTCACACTAGCTCTCATATCGATGCC
130 TCACATATCGAGGCCCATGCCATGTCCCAAACATGGTCTCACACTAGCTCTCATATCAATACC
* * * * * * * ** * * *
66268672 GATG-CATTGTCCCAGACATAGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAA
1 GATGCCA-TGTTCCAAACATGGTTTTACACTAGCGCACATATCGAGGCTGATGCCATGTCCCAGA
* * *
66268736 GATGGTCTTACACTAACTCACATA
65 CATGGTCTTATACTAACTCTCATA
66268760 ACCCTAGTAT
Statistics
Matches: 241, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
191 3 0.01
192 238 0.99
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (192 bp):
GATGCCATGTTCCAAACATGGTTTTACACTAGCGCACATATCGAGGCTGATGCCATGTCCCAGAC
ATGGTCTTATACTAACTCTCATATCAATGTCGATGCTATGTTCCAAACATAGTCTTACACCAGCT
CACATATCGAGGCCCATGCCATGTCCCAAACATGGTCTCACACTAGCTCTCATATCAATACC
Found at i:66270299 original size:25 final size:25
Alignment explanation
Indices: 66270271--66270326 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
66270261 AAGCTCCTTT
* *
66270271 GAGCTGAATAACGGTAAACTCATAC
1 GAGCTGAATAACAGTAAACTCATAA
* * *
66270296 GAGCTGAGTATCAGTAAGCTCATAA
1 GAGCTGAATAACAGTAAACTCATAA
66270321 GAGCTG
1 GAGCTG
66270327 GAATCGGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (25 bp):
GAGCTGAATAACAGTAAACTCATAA
Found at i:66271149 original size:21 final size:23
Alignment explanation
Indices: 66271124--66271169 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
66271114 TGGGCTACAC
66271124 AAAAT-AGAGAAAGAA-AGA-AGA
1 AAAATGAGAG-AAGAATAGAGAGA
66271145 AAAATGAGAGAAGAATAGAGAGA
1 AAAATGAGAGAAGAATAGAGAGA
66271168 AA
1 AA
66271170 GAAGGCTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 7 0.32
23 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (23 bp):
AAAATGAGAGAAGAATAGAGAGA
Found at i:66271447 original size:22 final size:22
Alignment explanation
Indices: 66271414--66271457 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
66271404 ATAATTTTAC
*
66271414 GGATTTAAAATTA-AGAGTTTG
1 GGATTTAAAATTACACAGTTTG
*
66271435 GGATGTTACAATTACACAGTTTG
1 GGAT-TTAAAATTACACAGTTTG
66271458 TTTGCACGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (22 bp):
GGATTTAAAATTACACAGTTTG
Found at i:66273750 original size:26 final size:26
Alignment explanation
Indices: 66273689--66273756 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
66273679 GTCCCGTTAT
* *
66273689 ATGGCTCTTCGTGAGTTTCCCAATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
* **
66273715 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
66273741 ATGGCTCTTTG-GAGCT
1 ATGGCTCTTTGTGAGCT
66273757 ACTCGTTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 5 0.14
26 31 0.86
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (26 bp):
ATGGCTCTTTGTGAGCTTCCCAATTA
Found at i:66273820 original size:49 final size:49
Alignment explanation
Indices: 66273726--66273821 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
66273716 AGGCTCTTTG
* *
66273726 TGAGCTTCCTGATTAATGGCTCTTTGGAGCTACTCGTTGTTAGCTCGTA
1 TGAGCTTCCTGATTAATGGCTCTTTGGAGCTACTCGTTATCAGCTCGTA
* * *
66273775 TGAGCTTCCTGATT-ATGGCT-TTTATGAGCTTCTTGTTATACAGCTCG
1 TGAGCTTCCTGATTAATGGCTCTTT-GGAGCTACTCGTTAT-CAGCTCG
66273822 GATAAGTTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 3 0.08
48 17 0.43
49 20 0.50
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (49 bp):
TGAGCTTCCTGATTAATGGCTCTTTGGAGCTACTCGTTATCAGCTCGTA
Found at i:66273845 original size:25 final size:25
Alignment explanation
Indices: 66273823--66273871 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
66273813 TACAGCTCGG
*
66273823 ATAAGTTTCCCGTTACATGGCTCAC
1 ATAAGCTTCCCGTTACATGGCTCAC
* *
66273848 ATGAGCTTCCCGTTATATGGCTCA
1 ATAAGCTTCCCGTTACATGGCTCA
66273872 AGAAAGTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (25 bp):
ATAAGCTTCCCGTTACATGGCTCAC
Found at i:66277442 original size:26 final size:24
Alignment explanation
Indices: 66277403--66277462 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
66277393 TTATTTCATT
* * *
66277403 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
66277427 TAAATTAAATATATTTAAAAACATAA
1 -AAA-TAAATATATTTAAAAACATAA
66277453 AAATAAATAT
1 AAATAAATAT
66277463 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.23
25 6 0.19
26 18 0.58
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:66277474 original size:22 final size:21
Alignment explanation
Indices: 66277433--66277488 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
66277423 ATAATAAATT
* *
66277433 AAATATAT-TTAAAAACATAA
1 AAATAAATATTAAAAAAATAA
66277453 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAA-AAATAA
*
66277475 AAAT-AATACTAAAA
1 AAATAAATATTAAAA
66277489 TAATTATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAAATATTAAAAAAATAA
Found at i:66278177 original size:15 final size:15
Alignment explanation
Indices: 66278151--66278186 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
66278141 AGTAAGGAGC
66278151 AATTCT-TTTTTTTA
1 AATTCTGTTTTTTTA
66278165 AATTCTGTTTTTTTA
1 AATTCTGTTTTTTTA
*
66278180 TATTCTG
1 AATTCTG
66278187 GTTGGATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (15 bp):
AATTCTGTTTTTTTA
Found at i:66278785 original size:16 final size:16
Alignment explanation
Indices: 66278766--66278799 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66278756 TCTCTAATGA
*
66278766 AATAAGATTATAATAG
1 AATAAAATTATAATAG
*
66278782 AATAAAATTGTAATAG
1 AATAAAATTATAATAG
66278798 AA
1 AA
66278800 GTGTAATGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AATAAAATTATAATAG
Found at i:66281749 original size:25 final size:28
Alignment explanation
Indices: 66281703--66281774 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
66281693 TCATACACAT
66281703 TTAAATAAATACCTTAATTTATTT-T-TATA
1 TTAAATAAATA---TAATTTATTTATATATA
66281732 TTAAATAAATATAA-TTATTTATATATA
1 TTAAATAAATATAATTTATTTATATATA
66281759 TTATATATAAATATAA
1 TTA-A-ATAAATATAA
66281775 AATAGTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.15
26 4 0.10
27 7 0.18
28 1 0.03
29 21 0.54
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAATAAATATAATTTATTTATATATA
Found at i:66281751 original size:29 final size:29
Alignment explanation
Indices: 66281721--66281774 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
66281711 ATACCTTAAT
66281721 TTATTT-T-TATATTA-A-ATAAATATAA
1 TTATTTATATATATTATATATAAATATAA
66281746 TTATTTATATATATTATATATAAATATAA
1 TTATTTATATATATTATATATAAATATAA
66281775 AATAGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.24
26 1 0.04
27 7 0.28
28 1 0.04
29 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATTTATATATATTATATATAAATATAA
Found at i:66292117 original size:49 final size:49
Alignment explanation
Indices: 66292062--66292186 Score: 187
Period size: 49 Copynumber: 2.6 Consensus size: 49
66292052 CATCAAAGTT
*
66292062 GATGCCATGTCCTAGACAGGTCTTACACTAACTTTCATATATCGATGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGATGCC
** * *
66292111 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATCTATCGATGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGATGCC
* *
66292160 GATGCCATGTCCCAGAAAGGTATTACA
1 GATGCCATGTCCCAGACAGGTCTTACA
66292187 TTGACACACA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGATGCC
Found at i:66292288 original size:48 final size:48
Alignment explanation
Indices: 66292217--66292330 Score: 174
Period size: 48 Copynumber: 2.4 Consensus size: 48
66292207 GCCATGTACC
* * *
66292217 GACATGTCTTACAGTAGCTTGTATATCTTGAGGCCGATGCATATCCCA
1 GACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATATCCCA
* * *
66292265 GACATGTCTTACACTGGCTTGTATATCTCGAGGCCAATGTATGTCCCA
1 GACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATATCCCA
66292313 GACATGTCTTACACTAGC
1 GACATGTCTTACACTAGC
66292331 ACACATATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (48 bp):
GACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATATCCCA
Found at i:66292915 original size:20 final size:20
Alignment explanation
Indices: 66292890--66292928 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
66292880 ACAATTTCAA
66292890 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
66292910 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
66292929 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:66299833 original size:2 final size:2
Alignment explanation
Indices: 66299826--66299859 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
66299816 ATAATTCCCG
66299826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66299860 ATAATCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:66300720 original size:46 final size:47
Alignment explanation
Indices: 66300669--66300880 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 47
66300659 GTCGATGCCG
* *
66300669 TGTCCCAGACAGGTCTTACACTGGCACAT-GTAACCGT-GCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCGTAA-CATAGCCGATGCA
* *
66300715 TGTCCCAGACATGTCTTACACTAGCACATC-T--CATAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCGTAACATAGCCGATGCA
* * * ** * *
66300759 TGTCCCAGACATGTCTTACACTGTCTC-TCATAATGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCGTAACATAGCCGATGCA
* * * **
66300805 TGTCCCAGACATGTCTTACATTAGC-CTTCGTCTCA-ATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCACATCGTAACATA-GCCGATG-CA
66300852 TGTCCCAGACATGGTCTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTGGCACA
66300881 CAAATCTCAT
Statistics
Matches: 131, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.03
44 33 0.25
45 1 0.01
46 67 0.51
47 14 0.11
48 11 0.08
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTGGCACATCGTAACATAGCCGATGCA
Found at i:66304385 original size:50 final size:50
Alignment explanation
Indices: 66304321--66304504 Score: 160
Period size: 50 Copynumber: 3.7 Consensus size: 50
66304311 GATACCACAC
*
66304321 TAGCCTGCTCTTAGTACTACACACGTGACCTAACCATTTGATACAAGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACAAGTAG
* * * ** *
66304371 TAGCCTCCACTTAGTACTACACACGTGA-TTGGA-GTTGTTGGGTATGC-A-TAG
1 TAGCCTGCACTTAGTACTACACACGTGACCT-AACCAT-TT--G-ATACAAGTAG
* ** * * * *
66304422 TAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACAAGTAG
*
66304472 TACCCTGCACTTAGTACTACACACGTGACCTAA
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA
66304505 AATCATCTTA
Statistics
Matches: 102, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
48 2 0.02
49 3 0.03
50 61 0.60
51 29 0.28
52 4 0.04
53 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACAAGTAG
Found at i:66309074 original size:40 final size:38
Alignment explanation
Indices: 66309017--66309238 Score: 225
Period size: 40 Copynumber: 5.7 Consensus size: 38
66309007 TCGAATGATG
* * *
66309017 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-A
66309057 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACT-AA
*
66309097 TCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* *
66309136 TCCGGGCTAAG-CCGAAGGCATTGGTGCG-GTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACT-AA
** *
66309173 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-A
* * *
66309213 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
66309239 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
36 6 0.04
37 27 0.17
39 29 0.18
40 90 0.56
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:66315377 original size:40 final size:39
Alignment explanation
Indices: 66315298--66315514 Score: 251
Period size: 40 Copynumber: 5.5 Consensus size: 39
66315288 ATGTCCAGGG
* * * * *
66315298 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATTCGGAC
1 TAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGC
*
66315338 TAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGAC
1 TAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
66315378 TAAGATCCGAAGGCATTTGTGCGAGTTACT-AATCCGGGC
1 TAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
* * *
66315417 TAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
*
66315456 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGC
*
66315496 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
66315515 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 23 0.14
39 24 0.15
40 102 0.64
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
Found at i:66315438 original size:78 final size:80
Alignment explanation
Indices: 66315298--66315512 Score: 276
Period size: 78 Copynumber: 2.7 Consensus size: 80
66315288 ATGTCCAGGG
* * * * * *
66315298 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATTCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATTGGTGCGA
66315362 GTTACTAAATCCGGAC
65 GTTACTAAATCCGGAC
66315378 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAG-CCCGAAGGCATTGGTGCGA
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTGGTGCGA
**
66315440 GTTACTAAATCCGGGT
65 GTTACTAAATCCGGAC
* * * *
66315456 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
66315513 TGAACGAGTA
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 59 0.50
79 20 0.17
80 31 0.26
81 8 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTGGTGCGAG
TTACTAAATCCGGAC
Found at i:66315535 original size:78 final size:78
Alignment explanation
Indices: 66315344--66315546 Score: 216
Period size: 78 Copynumber: 2.6 Consensus size: 78
66315334 GGACTAAGAT
* ** ** *
66315344 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGCTACT
*
66315408 AATCCGGGCTAAGC
65 AAACCGGGCTAAGC
** *
66315422 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGCTACTA
*
66315487 TAACCGGGCTATGTC
66 -AACCGGGCTAAG-C
* * *
66315502 CCGAAGGCATTTGAACGAG-TAGCTATAT-C-GGTTAAATTCCGAAGG
1 CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
66315547 TACGTGATTC
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 72 0.67
79 13 0.12
80 22 0.20
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGCTACTA
AACCGGGCTAAGC
Found at i:66319461 original size:47 final size:47
Alignment explanation
Indices: 66319360--66319461 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 47
66319350 AATTTATTAC
* * *
66319360 CCTAGGTTGCCTGGAATCGATGACTCAGTGTACATATAATCTACCAT
1 CCTAGGTTGCATGGAATCGATGACTCAATGTACATATAAGCTACCAT
66319407 -CTCAGGTTGCATAGGAA-CGATGACTCAATGTACATATAAGCTACCAT
1 CCT-AGGTTGCAT-GGAATCGATGACTCAATGTACATATAAGCTACCAT
66319454 CCTAGGTT
1 CCTAGGTT
66319462 AGCCGGCAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
46 2 0.04
47 41 0.84
48 6 0.12
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (47 bp):
CCTAGGTTGCATGGAATCGATGACTCAATGTACATATAAGCTACCAT
Found at i:66322887 original size:57 final size:58
Alignment explanation
Indices: 66322735--66322911 Score: 178
Period size: 57 Copynumber: 3.1 Consensus size: 58
66322725 TTTCAGGTCA
* * * * *
66322735 ATTTCATTTTTTCATTTTTCATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATG
1 ATTTCATTTCTTCATTTTTCATTTTCATTTTAGAGAAAACCACAATAATTTCCAAATG
* * * * * *
66322793 ATTCCATATCTCCA-TTTTCATTTCCATTTTCGAGAAAACCATAATAATTTCCAAATG
1 ATTTCATTTCTTCATTTTTCATTTTCATTTTAGAGAAAACCACAATAATTTCCAAATG
* * * ** * *
66322850 TTTTCATTTCTTCATTTTTC-TTTTCATTATAGTGAAAACCAGTATCACTTCCAAATG
1 ATTTCATTTCTTCATTTTTCATTTTCATTTTAGAGAAAACCACAATAATTTCCAAATG
66322907 ATTTC
1 ATTTC
66322912 CAATTTTTTT
Statistics
Matches: 95, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
57 80 0.84
58 15 0.16
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (58 bp):
ATTTCATTTCTTCATTTTTCATTTTCATTTTAGAGAAAACCACAATAATTTCCAAATG
Found at i:66323825 original size:37 final size:37
Alignment explanation
Indices: 66323784--66323858 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
66323774 CCGATTTGAC
* * *
66323784 TAAGGATACGATTAGTTTCATCTATTAATATAAGTTG
1 TAAGGACACGATTAGTTTCATCTACTAATATAAATTG
*
66323821 TAAGGACATGATTAGTTTCATCTACTAATATAAATTG
1 TAAGGACACGATTAGTTTCATCTACTAATATAAATTG
66323858 T
1 T
66323859 CTTTCCGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (37 bp):
TAAGGACACGATTAGTTTCATCTACTAATATAAATTG
Found at i:66326218 original size:19 final size:19
Alignment explanation
Indices: 66326194--66326286 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
66326184 AATAAATTAC
*
66326194 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
66326213 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * * * *
66326232 T-GT-TGGAATAAATT-A-C
1 TCATCT-TAGTTAATTAAGT
*
66326248 TCGTCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
66326267 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
66326286 T
1 T
66326287 GCTGGAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.02
17 10 0.18
18 9 0.16
19 37 0.65
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:66326231 original size:54 final size:54
Alignment explanation
Indices: 66326168--66326296 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
66326158 TTTAGTTTAA
* *
66326168 TTAATTAAGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
* *
66326222 TTAATTAAGTTGTTGGAATAAATTACTCGTCTTAGTTAATTAAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
*
66326276 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
66326297 TTTATTGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:66327672 original size:18 final size:17
Alignment explanation
Indices: 66327651--66327724 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 17
66327641 ATTTCAAATA
66327651 ACTTTCAATGTCAATTTC
1 ACTTTCAAT-TCAATTTC
*
66327669 ACTTTCAATTCAAATTC
1 ACTTTCAATTCAATTTC
*
66327686 ACAATTCAATTCAATTCTC
1 AC-TTTCAATTCAATT-TC
* *
66327705 A--TTCAAATCAAATTC
1 ACTTTCAATTCAATTTC
66327720 ACTTT
1 ACTTT
66327725 TCCACTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.06
16 10 0.21
17 11 0.23
18 20 0.43
19 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (17 bp):
ACTTTCAATTCAATTTC
Found at i:66327681 original size:17 final size:17
Alignment explanation
Indices: 66327651--66327724 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
66327641 ATTTCAAATA
*
66327651 ACTTTCAATGTCAATTTC
1 ACTTTCAAT-TCAAATTC
66327669 ACTTTCAATTCAAATTC
1 ACTTTCAATTCAAATTC
*
66327686 ACAATTCAATTC-AATTC
1 AC-TTTCAATTCAAATTC
* * *
66327703 TCATTCAAATCAAATTC
1 ACTTTCAATTCAAATTC
66327720 ACTTT
1 ACTTT
66327725 TCCACTTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
16 8 0.17
17 23 0.48
18 17 0.35
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (17 bp):
ACTTTCAATTCAAATTC
Found at i:66328737 original size:5 final size:5
Alignment explanation
Indices: 66328727--66328754 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
66328717 CTATTTCTCC
66328727 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
66328755 CTTTCCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:66328818 original size:17 final size:17
Alignment explanation
Indices: 66328784--66328818 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66328774 CGAAAGCTTC
*
66328784 TGTTTCTTTTCTCCTTT
1 TGTTTCTTTTCTCATTT
*
66328801 TGTTTCTTTTCTTATTT
1 TGTTTCTTTTCTCATTT
66328818 T
1 T
66328819 ACTTTATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.17, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTTTCTCATTT
Found at i:66328855 original size:3 final size:3
Alignment explanation
Indices: 66328849--66328902 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
66328839 ATATATTATT
* * *
66328849 TAA TAA TAT TAA TAA TAA TACA TTA TGA TAA T-A TAA T-A TAA T-A
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
66328892 TAA TAA TAA TA
1 TAA TAA TAA TA
66328903 TTGAATTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
2 6 0.14
3 34 0.81
4 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:66328891 original size:10 final size:11
Alignment explanation
Indices: 66328849--66328903 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
66328839 ATATATTATT
66328849 TAATAATATTAA
1 TAATAATA-TAA
*
66328861 TAATAATACATTA
1 TAATAAT--ATAA
*
66328874 TGATAATATAA
1 TAATAATATAA
66328885 T-ATAATATAA
1 TAATAATATAA
66328895 TAATAATAT
1 TAATAATAT
66328904 TGAATTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 10 0.27
11 11 0.30
12 7 0.19
13 8 0.22
14 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TAATAATATAA
Found at i:66329306 original size:3 final size:3
Alignment explanation
Indices: 66329293--66329377 Score: 95
Period size: 3 Copynumber: 29.3 Consensus size: 3
66329283 ATTTTATTTC
66329293 ATA AT- ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** *
66329339 ATA TTT A-A ATA AAA ACC ATA ATA ATA ATT ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
66329378 ATTGATAACA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 5 0.07
3 63 0.93
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:66329334 original size:26 final size:26
Alignment explanation
Indices: 66329294--66329377 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 26
66329284 TTTTATTTCA
66329294 TAATATAATAATAATAATAAT-ATAA
1 TAATATAATAATAATAATAATAATAA
*
66329319 TAATAATAATAATAATAATAATATTTAAA
1 TAAT-ATAATAATAATAATAATA-AT-AA
* *
66329348 TAA-AAACCATAATAATAATTATAATAA
1 TAATATA--ATAATAATAATAATAATAA
66329375 TAA
1 TAA
66329378 ATTGATAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
25 4 0.08
26 17 0.35
27 7 0.14
28 2 0.04
29 19 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAATATAATAATAATAATAATAATAA
Found at i:66329385 original size:26 final size:25
Alignment explanation
Indices: 66329293--66329379 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 25
66329283 ATTTTATTTC
66329293 ATAA-TATAATAAT-AATAATAAT-
1 ATAATTATAATAATAAATAATAATA
*
66329315 ATAATAATAATAAT-AATAATAATA
1 ATAATTATAATAATAAATAATAATA
* **
66329339 ATATTTA-AATAA-AAACCATAATA
1 ATAATTATAATAATAAATAATAATA
66329362 ATAATTATAATAATAAAT
1 ATAATTATAATAATAAAT
66329380 TGATAACAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 4 0.08
23 36 0.68
24 10 0.19
25 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAATTATAATAATAAATAATAATA
Found at i:66329897 original size:48 final size:48
Alignment explanation
Indices: 66329842--66329934 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
66329832 GAGTGTGGCA
* *
66329842 TTCATATACCTTTTATTCCTATCATTTTTGATAGTGGGTCAAGGTTCG
1 TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGTTCG
*
66329890 TTCATATACCTTTGGTTCCTATCATTTTTGATAGCGGGTCAAGGT
1 TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGT
66329935 CCTTTGCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.44
Consensus pattern (48 bp):
TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGTTCG
Found at i:66331458 original size:22 final size:24
Alignment explanation
Indices: 66331429--66331476 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
66331419 AGCATGTGAA
66331429 AAAGAAAA-AAAAG-GA-TGAAAG
1 AAAGAAAAGAAAAGAGATTGAAAG
66331450 AAAGCAAAAGGAAAAGAGATTGAAAG
1 AAAG-AAAA-GAAAAGAGATTGAAAG
66331476 A
1 A
66331477 GAATAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
24 5 0.23
25 2 0.09
26 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.25, T:0.06
Consensus pattern (24 bp):
AAAGAAAAGAAAAGAGATTGAAAG
Found at i:66335516 original size:14 final size:15
Alignment explanation
Indices: 66335466--66335522 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
66335456 GAGATGACAT
*
66335466 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
66335481 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
*
66335496 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
66335511 -AAATCCAAGATA
1 GAAATCCAAGATA
66335523 CAATATCATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 11 0.31
15 24 0.69
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:66338547 original size:2 final size:2
Alignment explanation
Indices: 66338540--66338564 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66338530 GAGACTAGTC
66338540 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
66338565 CATGTCATGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66339192 original size:26 final size:26
Alignment explanation
Indices: 66339163--66339270 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
66339153 TGGTACAAAT
*
66339163 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66339189 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66339215 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66339241 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66339267 TGAT
1 TGAT
66339271 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66344782 original size:26 final size:26
Alignment explanation
Indices: 66344733--66344839 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
66344723 TGGTACAAAT
66344733 TGATAAT-GAGTT-GGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
66344758 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
66344784 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
66344810 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
66344836 TGAT
1 TGAT
66344840 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
25 9 0.12
26 67 0.88
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:66346374 original size:26 final size:26
Alignment explanation
Indices: 66346322--66346374 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
66346312 TTTATAGTTT
*
66346322 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
66346348 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
66346374 T
1 T
66346375 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:66349254 original size:30 final size:30
Alignment explanation
Indices: 66349220--66349280 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66349210 TCCTTAACTC
66349220 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
66349250 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
66349280 A
1 A
66349281 TGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:66351528 original size:45 final size:44
Alignment explanation
Indices: 66351407--66351529 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 44
66351397 CACCCATTAT
* *
66351407 GAACTCGGACCAACTCAACGAGCTCTAA-TGCTTCACATTTACCAC
1 GAACTCGGACCAACTCAACGAGCTC-AATTTC-TCACATATACCAC
* * * * * *
66351452 TAACTTGGACCAACTAAACAAGTTCAGATTTCTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCA-ATTTCTCACATATACCAC
*
66351497 GAACTCGGACCAACTCAATGAGCTCGAATTTCT
1 GAACTCGGACCAACTCAACGAGCTC-AATTTCT
66351530 TAATTACTAG
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
44 1 0.02
45 57 0.93
46 3 0.05
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.25
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCAATTTCTCACATATACCAC
Found at i:66351673 original size:24 final size:24
Alignment explanation
Indices: 66351641--66351688 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66351631 GCGCTATCCA
66351641 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
66351665 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
66351689 ATAATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (24 bp):
TAGTACCAATTGCCCATTCATGGC
Found at i:66351770 original size:14 final size:16
Alignment explanation
Indices: 66351738--66351776 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
66351728 ATTTGCATAA
*
66351738 CATATATCACATATTT
1 CATATATCACATATGT
66351754 CATATATCAC-T-TGT
1 CATATATCACATATGT
66351768 CATATATCA
1 CATATATCA
66351777 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:66352523 original size:12 final size:12
Alignment explanation
Indices: 66352506--66352530 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66352496 AGAGATTGAT
66352506 AGTGAAAAAGAA
1 AGTGAAAAAGAA
66352518 AGTGAAAAAGAA
1 AGTGAAAAAGAA
66352530 A
1 A
66352531 AAAATAGTGA
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGAAAAAGAA
Found at i:66354137 original size:21 final size:21
Alignment explanation
Indices: 66354113--66354152 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
66354103 TCAACCCATC
*
66354113 TTTAATTTGCTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
66354134 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
66354153 ATTAAATAAT
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:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:66354255 original size:19 final size:19
Alignment explanation
Indices: 66354231--66354318 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 19
66354221 AATAAATTAC
*
66354231 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
66354250 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * * * *
66354269 T--GC-TAGAATAAATCA-C
1 TCATCTTAG-TTAATTAAGT
*
66354285 TCATCTTAGTTCATTAAGT
1 TCATCTTAGTTAATTAAGT
66354304 TCATCTTAGTTAATT
1 TCATCTTAGTTAATT
66354319 TATTTGTTGG
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
18 5 0.10
19 36 0.71
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:66354265 original size:54 final size:54
Alignment explanation
Indices: 66354205--66354333 Score: 179
Period size: 54 Copynumber: 2.4 Consensus size: 54
66354195 TTTAGTTTAA
* *
66354205 TTAATTAATTTTCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
* * * *
66354259 TTAATTAAGTTGCTAGAATAAATCACTCATCTTAGTTCATTAAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
*
66354313 TTAATTTATTTGT-TGGAATAA
1 TTAATTAATTT-TCTGGAATAA
66354334 TTTATTGTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (54 bp):
TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:66354410 original size:19 final size:19
Alignment explanation
Indices: 66354386--66354430 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
66354376 TAAGTCTAAT
*
66354386 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
66354405 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
66354424 ATGTGTT
1 ATGTGTT
66354431 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:66354425 original size:10 final size:10
Alignment explanation
Indices: 66354395--66354431 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
66354385 TATGTGTTCA
66354395 AATGT-TTTT
1 AATGTGTTTT
66354404 AATGTG-TTT
1 AATGTGTTTT
*
66354413 AATGAGTTTT
1 AATGTGTTTT
66354423 AATGTGTTT
1 AATGTGTTT
66354432 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:66354571 original size:45 final size:45
Alignment explanation
Indices: 66354490--66354577 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
66354480 TTATAAAGTG
* *
66354490 TTAATGCGGCTGTTACATTACTTAAAGAAGAACATTATTTATCAC
1 TTAATGCGGCTGTTACATCACTTAAAGAAGAACATTATATATCAC
* *
66354535 TTAATG-GAGCTGTTACATCATTTTAAA-AAGAGCATTATATATC
1 TTAATGCG-GCTGTTACATCA-CTTAAAGAAGAACATTATATATC
66354578 TTTTAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 1 0.03
45 31 0.84
46 5 0.14
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (45 bp):
TTAATGCGGCTGTTACATCACTTAAAGAAGAACATTATATATCAC
Found at i:66355106 original size:48 final size:48
Alignment explanation
Indices: 66355050--66355142 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
66355040 TTGAGTGTGG
**
66355050 CGTTCATATACCTTTGATTCCTATCATTTTTTATAGTGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAGGTT
*
66355098 CGTTCATATACCTTTGGTTCCTATCATTTTTTATAACGGGTCAAG
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAG
66355143 CTCCTTTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAGGTT
Found at i:66355659 original size:28 final size:28
Alignment explanation
Indices: 66355619--66355676 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
66355609 TAAAGTTGCA
66355619 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
66355647 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
66355675 AA
1 AA
66355677 CATATAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (28 bp):
AAGCTGAAAATGATTAAATGAGTGTATT
Found at i:66359760 original size:39 final size:40
Alignment explanation
Indices: 66359624--66359760 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
66359614 CGGATGATAA
66359624 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66359663 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66359703 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
66359743 TC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66359761 TACCTGGTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 28 0.30
40 64 0.70
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66362209 original size:24 final size:24
Alignment explanation
Indices: 66362179--66362317 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
66362169 GCTGGAAATA
66362179 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
66362203 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
66362227 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
66362251 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* **
66362275 TATGGCACTATGTGTGCAATTCGC
1 TATGGCACTATGTGTGCGATTTAC
66362299 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
66362318 ACATAATAAG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 111 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:66362331 original size:72 final size:72
Alignment explanation
Indices: 66362178--66362339 Score: 236
Period size: 72 Copynumber: 2.2 Consensus size: 72
66362168 TGCTGGAAAT
* * *
66362178 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAATTCACTATGGCACTATGTGTG
**
66362243 CGATTTA
66 CGACATA
* * *
66362250 CTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAATTCGCTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAATTCACTATGGCACTATGTGTG
66362315 CGAACATA
66 CG-ACATA
66362323 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
66362340 CACATTCGGT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
72 76 0.94
73 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (72 bp):
ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCAATTCACTATGGCACTATGTGTG
CGACATA
Found at i:66370647 original size:39 final size:40
Alignment explanation
Indices: 66370510--66370647 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
66370500 TGGATGATAA
66370510 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66370550 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
66370590 CCGGGCTAAGTCCCGAAGGCAGTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
66370630 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66370648 TACTTGGTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.18
40 76 0.82
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66377298 original size:35 final size:35
Alignment explanation
Indices: 66377258--66377416 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
66377248 GTATGTACAT
66377258 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
66377293 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
66377328 ATGTGATGTTTTATTGAGCTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
66377363 ATATGATGATATATTGTACTTGTATGTTTGGCGAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
66377398 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
66377417 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:66378356 original size:15 final size:15
Alignment explanation
Indices: 66378336--66378365 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66378326 AGCAATTACC
66378336 CACATTTTTTTTAAA
1 CACATTTTTTTTAAA
66378351 CACATTTTTTTTAAA
1 CACATTTTTTTTAAA
66378366 GTAAAACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
CACATTTTTTTTAAA
Found at i:66393072 original size:15 final size:15
Alignment explanation
Indices: 66393047--66393086 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
66393037 ACTTATTGCC
66393047 TATTTT-TTTA-TAT
1 TATTTTATTTATTAT
66393060 TA--TTATTTATTAT
1 TATTTTATTTATTAT
66393073 TATTTTATTTATTA
1 TATTTTATTTATTA
66393087 GCCCGTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.09
12 4 0.17
13 7 0.30
15 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTATTTATTAT
Found at i:66398255 original size:2 final size:2
Alignment explanation
Indices: 66398248--66398288 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
66398238 ATGAACAAAG
*
66398248 TA TA TA TA CA TA TA TA 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 TA TA TA TA TA T
66398289 GAAATTGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:66401073 original size:29 final size:29
Alignment explanation
Indices: 66401033--66401107 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
66401023 GGTTGAGAGA
* *
66401033 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
* *
66401062 ATGGAACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
66401091 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
66401108 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:66407023 original size:29 final size:28
Alignment explanation
Indices: 66406989--66407091 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
66406979 TAATCGATCA
*
66406989 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
66407018 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
66407047 CACACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
66407076 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
66407092 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:66412431 original size:28 final size:28
Alignment explanation
Indices: 66412391--66412503 Score: 102
Period size: 29 Copynumber: 4.0 Consensus size: 28
66412381 CCTGTATCTA
* *
66412391 GCCCATTAAGCCCAATCATATTCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
*
66412419 GCCCATTAGGCCCAAATCACCTGT-ATATG
1 GCCCATTAGGCCC-AATCACAT-TCATATG
* * *
66412448 GCCCATTTGGCCTAAATCACATTTATATG
1 GCCCATTAGGCC-CAATCACATTCATATG
* * * *
66412477 TCTCGTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
66412504 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 25 0.37
29 42 0.62
30 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:66412584 original size:17 final size:18
Alignment explanation
Indices: 66412562--66412595 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66412552 TGCCTATTAT
66412562 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
66412579 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
66412596 ATGGCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:66412745 original size:24 final size:23
Alignment explanation
Indices: 66412702--66412755 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
66412692 CCGTAGCCAA
66412702 ACTTTTGGCTTTTCGGCATTTCG
1 ACTTTTGGCTTTTCGGCATTTCG
66412725 ACTTTTCGGCATTTT-GGCATTTCG
1 ACTTTT-GGC-TTTTCGGCATTTCG
*
66412749 GCTTTTG
1 ACTTTTG
66412756 CCGATTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 7 0.25
24 17 0.61
25 4 0.14
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.48
Consensus pattern (23 bp):
ACTTTTGGCTTTTCGGCATTTCG
Found at i:66412747 original size:16 final size:16
Alignment explanation
Indices: 66412704--66412755 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
66412694 GTAGCCAAAC
66412704 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
* *
66412720 TTTCGACTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
66412736 TTTTGGCATTTCGGC-
1 TTTTGGCTTTTCGGCA
66412751 TTTTG
1 TTTTG
66412756 CCGATTCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.08, C:0.19, G:0.23, T:0.50
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:66419240 original size:46 final size:45
Alignment explanation
Indices: 66419092--66419308 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 45
66419082 TCAGGTGTCA
* * * **
66419092 ATGCCATGTCCCAGACATGGTCTCACACAAGTTCTAGCATATCTGTGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAG--CTA-CATCTC-AAGCCG
* *
66419142 ATGCCATGTCCCAGACATGGTCTTATACTAAC-ACATCTCATAGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTACATCTCA-AGCCG
* * *
66419188 A-GGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGC-TACATCTC-AAGCCG
* *
66419234 ATG-CATGTCACAGACATGTCTTACACTAGC-ACTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTA--CATCTCAA-GCCG
*
66419280 ATGCCATGTCCCAGACATGTCCTACACTA
1 ATGCCATGTCCCAGACATGTCTTACACTA
66419309 CCTCACACAA
Statistics
Matches: 140, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 59 0.42
47 26 0.19
48 1 0.01
50 27 0.19
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCTACATCTCAAGCCG
Found at i:66425066 original size:13 final size:13
Alignment explanation
Indices: 66425048--66425073 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66425038 ATTTTTATTT
66425048 TTAACATAAAATA
1 TTAACATAAAATA
66425061 TTAACATAAAATA
1 TTAACATAAAATA
66425074 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:66426632 original size:28 final size:28
Alignment explanation
Indices: 66426601--66426757 Score: 163
Period size: 28 Copynumber: 5.5 Consensus size: 28
66426591 CTGACTGATT
*
66426601 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
66426629 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
66426658 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
66426686 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* *
66426715 TGGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
*
66426743 TTGCACACATAGTGC
1 TCGCACACATAGTGC
66426758 CTCATGATTC
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.01
28 57 0.55
29 44 0.43
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:66426668 original size:57 final size:57
Alignment explanation
Indices: 66426601--66426761 Score: 259
Period size: 57 Copynumber: 2.8 Consensus size: 57
66426591 CTGACTGATT
* * *
66426601 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
66426658 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* *
66426715 TGGCACACATAGTGCTCGATTGAAGAACTTGCACACATAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
66426762 TGATTCCAGC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:66426841 original size:40 final size:40
Alignment explanation
Indices: 66426789--66427162 Score: 568
Period size: 40 Copynumber: 9.3 Consensus size: 40
66426779 CCTTCGAGGT
* *
66426789 TTAGCCTGGATATATCACTAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * *
66426829 TTAGCCCAGATATATCAGTAGCACGAATGCTTTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * *
66426869 TTAGCCCGGATACATCACTAGCACAAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
66426909 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
66426949 TTAGCCCGAATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
66426989 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * * **
66427029 TTAGCCTGGATATATCACCAGCACGAATACTCTTCAAGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
66427069 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
66427109 TTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
66427149 TTAGTCCGGATATA
1 TTAGCCCGGATATA
66427163 ACATACTAAA
Statistics
Matches: 300, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 300 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:66428658 original size:46 final size:46
Alignment explanation
Indices: 66428605--66428695 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
66428595 TATATATACA
* * *
66428605 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
66428651 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
66428696 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:66428740 original size:22 final size:22
Alignment explanation
Indices: 66428714--66428833 Score: 63
Period size: 22 Copynumber: 5.2 Consensus size: 22
66428704 CCACGTTCAA
66428714 CACATTGGCCATTCTGCCTTAT
1 CACATTGGCCATTCTGCCTTAT
*
66428736 CACATATATG-CATGT-T-CACATTTAT
1 CACAT-T-GGCCAT-TCTGC-C--TTAT
*
66428761 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCTGCCTTAT
66428783 CACATATGTG-CATGT-T-CACATTCAT
1 CACAT-TG-GCCAT-TCTGC-C-TT-AT
*
66428808 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCTGCCTTAT
66428830 CACA
1 CACA
66428834 CATATGCATG
Statistics
Matches: 75, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 22 0.29
23 18 0.24
24 17 0.23
25 18 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
CACATTGGCCATTCTGCCTTAT
Found at i:66428740 original size:47 final size:47
Alignment explanation
Indices: 66428709--66428954 Score: 420
Period size: 47 Copynumber: 5.2 Consensus size: 47
66428699 CACTTCCACG
* *
66428709 TTCAACACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
66428756 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
66428803 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
66428850 TTCATCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
66428897 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
66428944 TTCATCACATT
1 TTCATCACATT
66428955 AAATCCTAAA
Statistics
Matches: 187, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 187 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:66428880 original size:22 final size:22
Alignment explanation
Indices: 66428757--66428928 Score: 88
Period size: 22 Copynumber: 7.4 Consensus size: 22
66428747 ATGTTCACAT
*
66428757 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGACC
*
66428779 TTATCACATATGTG-CATGTTC-ACA
1 TTATCACAT-TG-GCCA--TTCGACC
*
66428803 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGACC
*
66428826 TTATCACACATAT-G-CATGTTC-ACA
1 TTAT--CACAT-TGGCCA--TTCGACC
66428850 TTCATCACATTGGCCATTCGACC
1 TT-ATCACATTGGCCATTCGACC
* *
66428873 TTATCACATATATG-CATGTTC-ACA
1 TTATCACAT-T-GGCCA--TTCGACC
*
66428897 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGACC
66428920 TTATCACAT
1 TTATCACAT
66428929 ATGTACATGT
Statistics
Matches: 115, Mismatches: 12, Indels: 46
0.66 0.07 0.27
Matches are distributed among these distances:
22 35 0.30
23 27 0.23
24 27 0.23
25 26 0.23
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGACC
Found at i:66432956 original size:27 final size:27
Alignment explanation
Indices: 66432919--66433029 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
66432909 AGCATGGCTG
*
66432919 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGACAGAGCCA
**
66432945 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGATACAGATATTGTGACAGAGCCA
* * *
66432972 CTAGAAACAGATATTTGTGCCAGAGCCA
1 CCAGATACAGATA-TTGTGACAGAGCCA
* * **
66433000 CTAGAT-TAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATA-TTGTGACAGAGCCA
66433027 CCA
1 CCA
66433030 AAACGCTTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 49 0.69
28 17 0.24
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
CCAGATACAGATATTGTGACAGAGCCA
Found at i:66433011 original size:54 final size:55
Alignment explanation
Indices: 66432923--66433027 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
66432913 TGGCTGCCAG
*
66432923 AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGTAGAGCCACTAGA
1 AACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGTAGAGCCACTAGA
* * *
66432977 AACAGATATTTGTGCCAGAGCCACTAGAT-TAGATATTTGTGGTAGAGCCAC
1 AACAGATA-TTGTGACAGAGCCACCAGATACAGATATTTGTGGTAGAGCCAC
66433028 CAAAACGCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 13 0.29
55 32 0.71
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (55 bp):
AACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGTAGAGCCACTAGA
Found at i:66436455 original size:20 final size:20
Alignment explanation
Indices: 66436430--66436470 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
66436420 TAACTTAGTG
66436430 GTAGACATCCCTATTCACCT
1 GTAGACATCCCTATTCACCT
66436450 GTAGACATCCCTATTCACCT
1 GTAGACATCCCTATTCACCT
66436470 G
1 G
66436471 GGTAGTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.34, G:0.12, T:0.29
Consensus pattern (20 bp):
GTAGACATCCCTATTCACCT
Found at i:66438978 original size:16 final size:15
Alignment explanation
Indices: 66438954--66438983 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
66438944 AACTGTTTTA
66438954 TTACAAATTTCACTC
1 TTACAAATTTCACTC
66438969 TTACATAATTTCACT
1 TTACA-AATTTCACT
66438984 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:66439307 original size:50 final size:50
Alignment explanation
Indices: 66439195--66439569 Score: 299
Period size: 50 Copynumber: 7.4 Consensus size: 50
66439185 CTGGTACGCC
* * * * *
66439195 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA-TACACA
* * * * *
66439244 TAATAGCCCGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACA
* * *
66439294 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACA
** ** * *
66439344 TAGTAGCCTGCACTTAGTACTACACACGTGATTGTAGTTGTC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACTATCTGA-TACACA
* * * * * * * *
66439395 TAGTAGCCTACACATAGTACTACACACGTGA-TTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATCTGATACACA
* ** * *
66439446 TAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACA
* * * * * *
66439496 TAGTACCCTACACTTAGTACTACACATGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACTATCTGATACACA
* *
66439548 TAATAGCCTGCACATAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
66439570 GACATGTGTT
Statistics
Matches: 264, Mismatches: 52, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
49 29 0.11
50 126 0.48
51 78 0.30
52 31 0.12
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACA
Found at i:66439420 original size:51 final size:51
Alignment explanation
Indices: 66439294--66439471 Score: 227
Period size: 51 Copynumber: 3.5 Consensus size: 51
66439284 CTGATACACG
* * * * * *
66439294 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CTATCTG-GTACACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTC-GAGTACGCA
*
66439344 TAGTAGCCTGCACTTAGTACTACACACGTGATTGTAGTTGTCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGAGTACGCA
* * *
66439395 TAGTAGCCTACACATAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGAGTACGCA
66439446 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
66439472 TGCAACCTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 32 0.29
51 79 0.71
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGAGTACGCA
Found at i:66442537 original size:40 final size:40
Alignment explanation
Indices: 66442493--66442602 Score: 193
Period size: 40 Copynumber: 2.8 Consensus size: 40
66442483 ATAACCATGT
* *
66442493 GCACAAATGCCTTCAGGTCTTAGCCCGGATGTAGCCACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
66442533 GCACAATTGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
*
66442573 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGAT
66442603 ATAATTTCCA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
Found at i:66442621 original size:40 final size:40
Alignment explanation
Indices: 66442477--66442629 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
66442467 CGGAACATAA
*** * * *
66442477 CCGGATATAACCATGTGCACAAATGCCTTCAGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAAC
* * * *
66442517 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAAC
* * *
66442557 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAAC
*** * *
66442597 CCGGATATAATTTCCAGCATAATTGTCTTCGGG
1 CCGGATATAACCACCAGCACAATTGCCTTCGGG
66442630 ATTTAGCCGG
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAAC
Found at i:66448407 original size:40 final size:39
Alignment explanation
Indices: 66448362--66448491 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
66448352 CGGAATATAA
66448362 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
66448402 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66448442 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
66448482 CCGGATATAA
1 CCGGATATAA
66448492 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:66448506 original size:40 final size:40
Alignment explanation
Indices: 66448378--66448529 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
66448368 ATAACCATGT
* * *
66448378 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
66448418 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
66448458 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
66448498 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
66448530 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:66448512 original size:80 final size:80
Alignment explanation
Indices: 66448378--66448527 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
66448368 ATAACCATGT
*
66448378 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
66448442 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
66448458 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
66448521 CCCGGAT
64 CCCGGAT
66448528 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:66455313 original size:51 final size:50
Alignment explanation
Indices: 66455141--66455682 Score: 307
Period size: 50 Copynumber: 10.8 Consensus size: 50
66455131 GAAGCTATCT
* * * * **
66455141 GGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGA-CAAACAAT-TC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGTC
* * * ****
66455190 GGTACACAAAATAGCCTGCACTTAGTACTACACACGTGA-C-ATAACCATC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGA-AGTTGTC
* * * * * *
66455239 TG-ACACACGTAGTAGCCTACACTTTGTACTAAAAACGTGATCGAAGTTGTC
1 GGTACGCA--TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC
* * * * *
66455290 AGGTACGCATAGTAGCCTGCACTTATTACTACACACGTGACCTAA-CTATC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC
* * * *
66455340 TGGTACACCTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTTG
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTG-TC
* * * *
66455392 GGTATGCATAATAGCCTGCGCTTAGTACTACACACGTGATTGAAGTTGTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC
* * * * * *
66455442 GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CTATC
1 G-GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC
* * * * * * * * *
66455492 TAGTACACGTATTAGCCTGCTCTTAGTACTACACATGTGACCTAACCATT-T-
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA--GTTGTC
* * * * *
66455543 GATAC-AAGTAGTAGGCT-CTACTTAGTACTACACACGTGATTGAAGTTGTTG
1 GGTACGCA-TAGTAGCCTGC-ACTTAGTACTACACACGTGATCGAAGTTG-TC
* * * * * * *
66455594 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CTATC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC
* * *
66455643 TGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGA
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
66455683 CCTAAAATCA
Statistics
Matches: 378, Mismatches: 92, Indels: 45
0.73 0.18 0.09
Matches are distributed among these distances:
48 9 0.02
49 41 0.11
50 174 0.46
51 143 0.38
52 6 0.02
53 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (50 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC
Found at i:66455322 original size:101 final size:101
Alignment explanation
Indices: 66455149--66455682 Score: 481
Period size: 101 Copynumber: 5.3 Consensus size: 101
66455139 CTGGTACTCA
* * * ** * * *
66455149 TAGTAGCCTGCACTTAGTACTACACATGCGA-CAAACAAT-TC-GGTACACAAAATAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGTCAGGTACGCATAGTAGCCTGCAC
* *
66455211 TTAGTACTACACACGTGACATAACCATCTGACACACG
65 TTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *
66455248 TAGTAGCCTACACTTTGTACTAAAAACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTGCACT
* * * *
66455313 TATTACTACACACGTGACCTAACTATCTGGTACACC
66 TAGTACTACACACGTGACCTAACCATCTGATACACG
* ** * * *
66455349 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCATAATAGCCTGCGCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTGCACT
* ** * * *
66455414 TAGTACTACACACGTGA-TTGAA-GTTGTCGAGTACGCA
66 TAGTACTACACACGTGACCT-AACCATCT-GA-TACACG
* * * * * * * * * *
66455451 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CTATCTA-GTACACGTATTAGCCTGCTC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC-AGGTACGCATAGTAGCCTGCAC
* * *
66455514 TTAGTACTACACATGTGACCTAACCATTTGATACAAG
65 TTAGTACTACACACGTGACCTAACCATCTGATACACG
* * ** *
66455551 TAGTAGGCT-CTACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCATAGTAGCCTGCAC
1 TAGTAGCCTGC-ACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTGCAC
* * * *
66455615 TTAGTACTACACATGCGACCTAACTATCTGGTACACG
65 TTAGTACTACACACGTGACCTAACCATCTGATACACG
*
66455652 TAGTACCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
66455683 CCTAAAATCA
Statistics
Matches: 342, Mismatches: 80, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
99 27 0.08
100 39 0.11
101 237 0.69
102 39 0.11
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATAGTAGCCTGCACT
TAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:66455619 original size:151 final size:151
Alignment explanation
Indices: 66455141--66455687 Score: 667
Period size: 151 Copynumber: 3.6 Consensus size: 151
66455131 GAAGCTATCT
* * * ** *
66455141 GGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGA-CAAACAAT-TCGGTACACAAAATAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCT-GGTACACGTAGTAG
* * * * *
66455204 CCTGCACTTAGTACTACACACGTGACATAACCATCTGACACACGTAGTAGCCTACACTTTGTACT
65 CCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACAAGTAGTAGCCTACACTTAGTACT
* * * *
66455269 AAAAACGTGATCGAAGTTGTCA
130 ACACACGTGATTGAAGTTGTCG
* * * *
66455291 GGTACGCATAGTAGCCTGCACTTATTACTACACACGTGACCTAACTATCTGGTACACCTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* ** * * * *
66455356 CTGCACTTAGTACTACACACGTGA-TTGAA-GTTGTTGGGTATGC-A-TAATAGCCTGCGCTTAG
66 CTGCACTTAGTACTACACACGTGACCT-AACCAT-TT--G-ATACAAGTAGTAGCCTACACTTAG
66455417 TACTACACACGTGATTGAAGTTGTCG
126 TACTACACACGTGATTGAAGTTGTCG
* * *
66455443 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTAGTACACGTATTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* * *
66455508 CTGCTCTTAGTACTACACATGTGACCTAACCATTTGATACAAGTAGTAGGCT-CTACTTAGTACT
66 CTGCACTTAGTACTACACACGTGACCTAACCATTTGATACAAGTAGTAGCCTAC-ACTTAGTACT
*
66455572 ACACACGTGATTGAAGTTGTTG
130 ACACACGTGATTGAAGTTGTCG
* *
66455594 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
66455659 CTGCACTTAGTACTACACACGTGACCTAA
66 CTGCACTTAGTACTACACACGTGACCTAA
66455688 AATCATCTTA
Statistics
Matches: 337, Mismatches: 48, Indels: 23
0.83 0.12 0.06
Matches are distributed among these distances:
149 3 0.01
150 40 0.12
151 169 0.50
152 120 0.36
153 3 0.01
154 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATTTGATACAAGTAGTAGCCTACACTTAGTACTA
CACACGTGATTGAAGTTGTCG
Found at i:66459864 original size:13 final size:13
Alignment explanation
Indices: 66459846--66459870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66459836 ACATTGAAAG
66459846 TTGTGTAAAAAAT
1 TTGTGTAAAAAAT
66459859 TTGTGTAAAAAA
1 TTGTGTAAAAAA
66459871 AGGTTTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGTGTAAAAAAT
Found at i:66465073 original size:15 final size:15
Alignment explanation
Indices: 66465048--66465105 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
66465038 GAGATGACAT
*
66465048 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
66465063 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
*
66465078 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
*
66465093 AAAATCCAAGATA
1 GAAATCCAAGATA
66465106 CAATATCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:66468150 original size:2 final size:2
Alignment explanation
Indices: 66468143--66468177 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
66468133 GAGACTAGTC
66468143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66468178 CATGTCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:66469650 original size:40 final size:40
Alignment explanation
Indices: 66469613--66469837 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
66469603 GCTACTCGTT
*
66469613 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
66469653 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
66469693 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66469732 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
66469772 CGAATGCCTTC-TGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
66469813 CAAA-GCCTTAGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66469838 CATCATTCGA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 115 0.72
41 10 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66469713 original size:79 final size:79
Alignment explanation
Indices: 66469615--66469837 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
66469605 TACTCGTTCA
* * *
66469615 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
66469680 TTAGTAACTCACACC
65 TTAGTAACTCACACC
* * *
66469695 AATGCCTTCGGGCTTAGCCC-GAAATTAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA
*
66469758 TTTAGTAACTCACACG
64 TTTAGTAACTCACACC
** * * * *
66469774 AATGCCTTCTGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTAGGGACTTAGCCCGGA
1 AATGCCTTC-GGGCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
66469838 CATCATTCGA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.04
79 62 0.51
80 41 0.34
81 13 0.11
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT
TAGTAACTCACACC
Found at i:66469821 original size:119 final size:120
Alignment explanation
Indices: 66469613--66469835 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 120
66469603 GCTACTCGTT
*
66469613 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* * *
66469678 ATTTAGTAACTCACACCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCACA
66 ATATAGTAACTCACACCAAAGCCTTAGGGACTTAGCCCGAAATTAGTAACTCACA
* * * * **
66469732 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCACACGAATGCCTTC-TGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACC
* *
66469794 CGGATATAGTCACTTAGCA-CAAAGCCTTAGGGACTTAGCCCG
63 CGGATATAGTAACTCA-CACCAAAGCCTTAGGGACTTAGCCCG
66469836 GACATCATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 5 0.06
119 69 0.79
120 13 0.15
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCACACCAAAGCCTTAGGGACTTAGCCCGAAATTAGTAACTCACA
Done.