Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 28 of 135
Found at i:7315720 original size:19 final size:18
Alignment explanation
Indices: 7315696--7315761 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
7315686 ATTAGTGTAA
7315696 TATTTGTCATGAATAGCTG
1 TATTTGTCA-GAATAGCTG
*
7315715 TATTTGTCAGAAT-TCT-
1 TATTTGTCAGAATAGCTG
***
7315731 TA-GAATCATGAATAGCTG
1 TATTTGTCA-GAATAGCTG
7315749 TATTTGTCAGAAT
1 TATTTGTCAGAAT
7315762 TCTTAGACAT
Statistics
Matches: 35, Mismatches: 8, Indels: 9
0.67 0.15 0.17
Matches are distributed among these distances:
15 3 0.09
16 6 0.17
17 4 0.11
18 10 0.29
19 12 0.34
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (18 bp):
TATTTGTCAGAATAGCTG
Found at i:7315745 original size:34 final size:34
Alignment explanation
Indices: 7315702--7315768 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
7315692 GTAATATTTG
7315702 TCATGAATAGCTGTATTTGTCAGAATTCTTAGAA
1 TCATGAATAGCTGTATTTGTCAGAATTCTTAGAA
7315736 TCATGAATAGCTGTATTTGTCAGAATTCTTAGA
1 TCATGAATAGCTGTATTTGTCAGAATTCTTAGA
7315769 CATTCGGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (34 bp):
TCATGAATAGCTGTATTTGTCAGAATTCTTAGAA
Found at i:7317289 original size:17 final size:17
Alignment explanation
Indices: 7317269--7317306 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7317259 AAGGAAAAGG
*
7317269 AAAAACCCATTTCAATA
1 AAAAAACCATTTCAATA
*
7317286 AAAAAAGCATTTCAATA
1 AAAAAACCATTTCAATA
7317303 AAAA
1 AAAA
7317307 GGATTTGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.16, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAAACCATTTCAATA
Found at i:7330781 original size:12 final size:12
Alignment explanation
Indices: 7330766--7330790 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7330756 ATAAAATAAA
7330766 ATAAATAAATCC
1 ATAAATAAATCC
7330778 ATAAATAAATCC
1 ATAAATAAATCC
7330790 A
1 A
7330791 ATTGTAATTA
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAATAAATCC
Found at i:7331042 original size:30 final size:30
Alignment explanation
Indices: 7331010--7331143 Score: 89
Period size: 30 Copynumber: 4.4 Consensus size: 30
7331000 TAATTTGAAA
7331010 TTTATAAATATTGAGACTAAATTTATTAAAT
1 TTTATAAATATTGAGA-TAAATTTATTAAAT
* * * * *
7331041 TTTTTAAA-GTTGAAATTAAA-ATAATAAAT
1 TTTATAAATATTGAGA-TAAATTTATTAAAT
7331070 TTTATAAATATTGAAAGATAAATTTATTAAAT
1 TTTATAAATATTG--AGATAAATTTATTAAAT
* * * *
7331102 ATTT-TATAT-TTAAGATCAAATTGATAAAAT
1 -TTTATAAATATTGAGAT-AAATTTATTAAAT
*
7331132 GTT-TAAATATTG
1 TTTATAAATATTG
7331144 GAGGGTTTAA
Statistics
Matches: 78, Mismatches: 18, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
29 24 0.31
30 25 0.32
31 13 0.17
32 13 0.17
33 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTATAAATATTGAGATAAATTTATTAAAT
Found at i:7331129 original size:61 final size:61
Alignment explanation
Indices: 7331010--7331143 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 61
7331000 TAATTTGAAA
* *
7331010 TTTATAAATATTGAGACTAAATTTATTAAATTTTTTAAAGTTGAAATTAAAATAAT-AAAT
1 TTTATAAATATTGAGACTAAATTTATTAAATATTTTAAAGTTGAAATCAAAATAATAAAAT
* * * *
7331070 TTTATAAATATTGAAAGA-TAAATTTATTAAATATTTTATA-TTTAAGATCAAATTGATAAAAT
1 TTTATAAATATTG--AGACTAAATTTATTAAATATTTTAAAGTTGAA-ATCAAAATAATAAAAT
*
7331132 GTT-TAAATATTG
1 TTTATAAATATTG
7331144 GAGGGTTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 17 0.27
61 37 0.59
62 9 0.14
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (61 bp):
TTTATAAATATTGAGACTAAATTTATTAAATATTTTAAAGTTGAAATCAAAATAATAAAAT
Found at i:7336984 original size:36 final size:36
Alignment explanation
Indices: 7336932--7337002 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
7336922 TGGAACAGCA
* * *
7336932 CCTAAATTGCTCCCTTCAATTCCT-CCATTGTTCCCT
1 CCTAAATTACTACCTTCAATT-CTACCACTGTTCCCT
7336968 CCTAAATTACTACCTTCAATTCTACCACTGTTCCC
1 CCTAAATTACTACCTTCAATTCTACCACTGTTCCC
7337003 ACCAAAATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.37
Consensus pattern (36 bp):
CCTAAATTACTACCTTCAATTCTACCACTGTTCCCT
Found at i:7338646 original size:29 final size:27
Alignment explanation
Indices: 7338614--7338690 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 27
7338604 ACTCAAAAAA
7338614 TTGATTAATTATGTAAATGATCTATTTTT
1 TTGA-TAA-TATGTAAATGATCTATTTTT
7338643 TTG---ATATGTAAATGATCTATTTTT
1 TTGATAATATGTAAATGATCTATTTTT
*
7338667 TTGATAAAATACGTAAATGATCTA
1 TTGAT--AATATGTAAATGATCTA
7338691 AAATCTACCG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
24 23 0.55
25 1 0.02
29 18 0.43
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (27 bp):
TTGATAATATGTAAATGATCTATTTTT
Found at i:7338655 original size:24 final size:24
Alignment explanation
Indices: 7338623--7338672 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
7338613 ATTGATTAAT
7338623 TATGTAAATGATCTATTTTTTTGA
1 TATGTAAATGATCTATTTTTTTGA
7338647 TATGTAAATGATCTATTTTTTTGA
1 TATGTAAATGATCTATTTTTTTGA
7338671 TA
1 TA
7338673 AAATACGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (24 bp):
TATGTAAATGATCTATTTTTTTGA
Found at i:7338971 original size:69 final size:69
Alignment explanation
Indices: 7338924--7339063 Score: 235
Period size: 69 Copynumber: 2.0 Consensus size: 69
7338914 TTTTTTCATT
* *
7338924 TATAAAACAATATTATTTATATTTTAAAACTCTAAGCATTTTTCTTTTTTGCTCAAATTTTCTTA
1 TATAAAACAATATTATTTATATTTTAAAACTCTAAACATTTTTCTTTTTTGATCAAATTTTCTTA
7338989 ACCC
66 ACCC
* * *
7338993 TATAAAACAATATTATTTATATTTTAAAACTCTAAACATTTTTATTTTTTGCTCAAATTTTTTTA
1 TATAAAACAATATTATTTATATTTTAAAACTCTAAACATTTTTCTTTTTTGATCAAATTTTCTTA
7339058 ACCC
66 ACCC
7339062 TA
1 TA
7339064 AATTTTTTCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (69 bp):
TATAAAACAATATTATTTATATTTTAAAACTCTAAACATTTTTCTTTTTTGATCAAATTTTCTTA
ACCC
Found at i:7339071 original size:36 final size:35
Alignment explanation
Indices: 7339031--7339099 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
7339021 ACTCTAAACA
**
7339031 TTTTTATTTTTTGCTCA-AATTTTTTTAACCCTAAAT
1 TTTTTATTTTTT-CT-ATAATTTTCCTAACCCTAAAT
*
7339067 TTTTTCTTTTTTCTATAATTTTCCTAACCCTAA
1 TTTTTATTTTTTCTATAATTTTCCTAACCCTAA
7339100 GTTTGAGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.23, C:0.17, G:0.01, T:0.58
Consensus pattern (35 bp):
TTTTTATTTTTTCTATAATTTTCCTAACCCTAAAT
Found at i:7341792 original size:23 final size:23
Alignment explanation
Indices: 7341766--7341892 Score: 157
Period size: 23 Copynumber: 5.4 Consensus size: 23
7341756 AGTGTTGGGC
7341766 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* *
7341789 AACAGAGAGTACACAAAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* *
7341812 ATCAGATAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
*
7341835 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACACAGTGCT-A
*
7341859 TAACAGAGAGCACGAGAC-GTGCTA
1 -AACAGAGAGCAC-ACACAGTGCTA
*
7341883 AATAGAGAGC
1 AACAGAGAGC
7341893 GCGCTAGTGT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 70 0.77
24 2 0.02
25 16 0.18
26 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.13
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:7345916 original size:16 final size:17
Alignment explanation
Indices: 7345897--7345928 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7345887 TTTTTTATTT
7345897 TTAAATTTA-AAAAAAA
1 TTAAATTTAGAAAAAAA
7345913 TTAAATTTAGAAAAAA
1 TTAAATTTAGAAAAAA
7345929 CGTACATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
TTAAATTTAGAAAAAAA
Found at i:7346092 original size:18 final size:18
Alignment explanation
Indices: 7346066--7346101 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7346056 CCACAAAAAA
7346066 TAAAATATACATTTAAAT
1 TAAAATATACATTTAAAT
* *
7346084 TAAACTATATATTTAAAT
1 TAAAATATACATTTAAAT
7346102 ATTATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATACATTTAAAT
Found at i:7350265 original size:3 final size:3
Alignment explanation
Indices: 7350257--7350289 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7350247 CAAGGTCACT
7350257 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7350290 GCCGCCGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:7352626 original size:2 final size:2
Alignment explanation
Indices: 7352615--7352645 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7352605 AGTATTTAAA
7352615 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7352646 TTAAGTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7355804 original size:28 final size:27
Alignment explanation
Indices: 7355757--7355833 Score: 113
Period size: 28 Copynumber: 2.9 Consensus size: 27
7355747 TATAATAATG
*
7355757 TAAAAGAA-AAAAAAGAAAGAAAATGA
1 TAAAAGAATAAAAAAGAAAGAAAATAA
7355783 T-AAAGAATTAAAAAAGGAAAGAAAATAA
1 TAAAAGAA-TAAAAAA-GAAAGAAAATAA
7355811 TAAAAGAATAAAAAAGAAAGAAA
1 TAAAAGAATAAAAAAGAAAGAAA
7355834 GAAAGAAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 6 0.13
26 1 0.02
27 14 0.30
28 19 0.41
29 6 0.13
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.10
Consensus pattern (27 bp):
TAAAAGAATAAAAAAGAAAGAAAATAA
Found at i:7356114 original size:12 final size:12
Alignment explanation
Indices: 7356099--7356124 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7356089 ATACACTTAA
7356099 AAATATTAAAAC
1 AAATATTAAAAC
7356111 AAATATTAAAAC
1 AAATATTAAAAC
7356123 AA
1 AA
7356125 CAAACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:7356162 original size:41 final size:41
Alignment explanation
Indices: 7356101--7356180 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
7356091 ACACTTAAAA
*
7356101 ATATTAAAACAAATATTAAAACAACAAACAAATTAAAAACG
1 ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAACG
* * * *
7356142 ATATTAAAACAATTCGTAAAACAATAAACAAATTGAAAA
1 ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAA
7356181 TACAATAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.64, C:0.11, G:0.04, T:0.21
Consensus pattern (41 bp):
ATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAACG
Found at i:7356871 original size:24 final size:23
Alignment explanation
Indices: 7356832--7356877 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
7356822 TATTATAAGC
7356832 AAAAAAAATTAGTATTAAAAATA
1 AAAAAAAATTAGTATTAAAAATA
* *
7356855 AAAATAAAATTATTATTATAAAT
1 AAAA-AAAATTAGTATTAAAAAT
7356878 CCGGGTCGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAAAAATTAGTATTAAAAATA
Found at i:7358677 original size:38 final size:38
Alignment explanation
Indices: 7358576--7358668 Score: 186
Period size: 38 Copynumber: 2.4 Consensus size: 38
7358566 GACCCACTTC
7358576 ACAGCTCGTGTGAGCATATATGGTTACATGTTACAGTT
1 ACAGCTCGTGTGAGCATATATGGTTACATGTTACAGTT
7358614 ACAGCTCGTGTGAGCATATATGGTTACATGTTACAGTT
1 ACAGCTCGTGTGAGCATATATGGTTACATGTTACAGTT
7358652 ACAGCTCGTGTGAGCAT
1 ACAGCTCGTGTGAGCAT
7358669 TACAGGTTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (38 bp):
ACAGCTCGTGTGAGCATATATGGTTACATGTTACAGTT
Found at i:7359370 original size:23 final size:23
Alignment explanation
Indices: 7359297--7359469 Score: 147
Period size: 23 Copynumber: 7.4 Consensus size: 23
7359287 TATACGGAAC
* * *
7359297 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACACAGTGCT
*
7359319 -AACAGAGAGCACATA-AGTGCT
1 AAACAGAGAGCACACACAGTGCT
* *
7359340 GGGTAACAGAGAGCACACACAGCGCT
1 ---AAACAGAGAGCACACACAGTGCT
* * *
7359366 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACACAGTGCT
* *
7359389 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACACAGTGCT
*
7359412 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACACAGTGCT
*
7359435 AATAACAGAGAGCACGAGAC-GTGCT
1 -A-AACAGAGAGCAC-ACACAGTGCT
7359460 AAACAGAGAG
1 AAACAGAGAG
7359470 TGCGCTAGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
21 16 0.13
22 1 0.01
23 69 0.55
24 2 0.02
25 30 0.24
26 8 0.06
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACACAGTGCT
Found at i:7359419 original size:69 final size:67
Alignment explanation
Indices: 7359297--7359446 Score: 196
Period size: 69 Copynumber: 2.1 Consensus size: 67
7359287 TATACGGAAC
*
7359297 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGTAACAGAGAGCACACACAG
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGC---GTAACAGAGAGCACACACAG
7359362 CGCT-
63 CGCTA
7359366 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGC-TAATCAGAGAGCACACACA
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCGTAA-CAGAGAGCACACACA
*
7359430 GTGCTA
62 GCGCTA
7359436 ATAACAGAGAG
1 A-AACAGAGAG
7359447 CACGAGACGT
Statistics
Matches: 73, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
68 3 0.04
69 32 0.44
70 12 0.16
71 20 0.27
72 6 0.08
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.12
Consensus pattern (67 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCGTAACAGAGAGCACACACAGCGC
TA
Found at i:7364520 original size:37 final size:37
Alignment explanation
Indices: 7364470--7364599 Score: 116
Period size: 37 Copynumber: 3.4 Consensus size: 37
7364460 ATTAAGTGAC
**
7364470 ACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTGGT
1 ACCCAGTACCTCATCGGCCTAGCCGAAGTAAAGTGGT
* *** * * **
7364507 ACCCAATACCTCATCAAATCTATCCGAAGTAAAATAATGAC
1 ACCCAGTACCTCATC-GGCCTAGCCGAAGT--AA-AGTGGT
*
7364548 ACCCAGTATCTCATCGGCCTAGCCGAAGTAAAGTGGT
1 ACCCAGTACCTCATCGGCCTAGCCGAAGTAAAGTGGT
*
7364585 ACCCAGTACCACATC
1 ACCCAGTACCTCATC
7364600 AAATCTATCC
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
37 28 0.41
38 12 0.18
40 12 0.18
41 16 0.24
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (37 bp):
ACCCAGTACCTCATCGGCCTAGCCGAAGTAAAGTGGT
Found at i:7364561 original size:41 final size:41
Alignment explanation
Indices: 7364507--7364632 Score: 134
Period size: 41 Copynumber: 3.2 Consensus size: 41
7364497 GTAAAGTGGT
*
7364507 ACCCAATACCTCATCAAATCTATCCGAAGTAAAATAATGAC
1 ACCCAGTACCTCATCAAATCTATCCGAAGTAAAATAATGAC
* *** * * **
7364548 ACCCAGTATCTCATC-GGCCTAGCCGAAGT--AA-AGTGGT
1 ACCCAGTACCTCATCAAATCTATCCGAAGTAAAATAATGAC
*
7364585 ACCCAGTACCACATCAAATCTATCCGAAGTAAAATAATGAC
1 ACCCAGTACCTCATCAAATCTATCCGAAGTAAAATAATGAC
7364626 ACCCAGT
1 ACCCAGT
7364633 GTCTCATCGA
Statistics
Matches: 63, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
37 16 0.25
38 12 0.19
40 12 0.19
41 23 0.37
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (41 bp):
ACCCAGTACCTCATCAAATCTATCCGAAGTAAAATAATGAC
Found at i:7364582 original size:78 final size:78
Alignment explanation
Indices: 7364466--7364641 Score: 325
Period size: 78 Copynumber: 2.3 Consensus size: 78
7364456 AGCAATTAAG
*
7364466 TGACACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTGGTACCCAATACCTCATCAAATCTATC
1 TGACACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTGGTACCCAATACCACATCAAATCTATC
7364531 CGAAGTAAAATAA
66 CGAAGTAAAATAA
* *
7364544 TGACACCCAGTATCTCATCGGCCTAGCCGAAGTAAAGTGGTACCCAGTACCACATCAAATCTATC
1 TGACACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTGGTACCCAATACCACATCAAATCTATC
7364609 CGAAGTAAAATAA
66 CGAAGTAAAATAA
7364622 TGACACCCAGTGTCTCATCG
1 TGACACCCAGTGTCTCATCG
7364642 ACTCAAGGTC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 94 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (78 bp):
TGACACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTGGTACCCAATACCACATCAAATCTATC
CGAAGTAAAATAA
Found at i:7364617 original size:38 final size:38
Alignment explanation
Indices: 7364492--7364617 Score: 128
Period size: 38 Copynumber: 3.3 Consensus size: 38
7364482 ATCGGCCTAG
*
7364492 CCGAAGTAAAGTGGTACCCAATACCTCATCAAATCTAT
1 CCGAAGTAAAGTGGTACCCAGTACCTCATCAAATCTAT
* ** * *** *
7364530 CCGAAGTAAAATAATGACACCCAGTATCTCATC-GGCCTAG
1 CCGAAGT--AA-AGTGGTACCCAGTACCTCATCAAATCTAT
*
7364570 CCGAAGTAAAGTGGTACCCAGTACCACATCAAATCTAT
1 CCGAAGTAAAGTGGTACCCAGTACCTCATCAAATCTAT
7364608 CCGAAGTAAA
1 CCGAAGTAAA
7364618 ATAATGACAC
Statistics
Matches: 66, Mismatches: 18, Indels: 8
0.72 0.20 0.09
Matches are distributed among these distances:
37 16 0.24
38 22 0.33
40 12 0.18
41 16 0.24
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (38 bp):
CCGAAGTAAAGTGGTACCCAGTACCTCATCAAATCTAT
Found at i:7365515 original size:14 final size:14
Alignment explanation
Indices: 7365492--7365526 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7365482 ATATATTAGT
7365492 TAATAATAATAAAA
1 TAATAATAATAAAA
* *
7365506 TAATACTAATTAAA
1 TAATAATAATAAAA
7365520 TAATAAT
1 TAATAAT
7365527 TTATATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:7365549 original size:13 final size:12
Alignment explanation
Indices: 7365505--7365560 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
7365495 TAATAATAAA
*
7365505 ATAATACTAATT
1 ATAATATTAATT
*
7365517 A-AATAATAATTT
1 ATAATATTAA-TT
*
7365529 ATATTATTATATT
1 ATAATATTA-ATT
7365542 ATAATATTAATT
1 ATAATATTAATT
7365554 AATAATA
1 -ATAATA
7365561 AATTAAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 7 0.19
12 7 0.19
13 21 0.58
14 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATATTAATT
Found at i:7369991 original size:22 final size:22
Alignment explanation
Indices: 7369966--7370009 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7369956 CTCTGATCAG
7369966 CAGCACTATGTGTGCTTATGTT
1 CAGCACTATGTGTGCTTATGTT
* *
7369988 CAGCACTGTGTGTGCTTCTGTT
1 CAGCACTATGTGTGCTTATGTT
7370010 ACCCAGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (22 bp):
CAGCACTATGTGTGCTTATGTT
Found at i:7370016 original size:25 final size:24
Alignment explanation
Indices: 7369941--7370044 Score: 113
Period size: 25 Copynumber: 4.2 Consensus size: 24
7369931 CTCTCTGATT
* *
7369941 AGCACTGTGTGTGCTCTCTGATCAGC
1 AGCACTGTGTGTGCT-TCTGTTC-CC
* *
7369967 AGCACTATGTGTGCTTATGTT--C
1 AGCACTGTGTGTGCTTCTGTTCCC
7369989 AGCACTGTGTGTGCTTCTGTTACCC
1 AGCACTGTGTGTGCTTCTGTT-CCC
*
7370014 AGCATTGTGTGTGCTTCTGTTTCCC
1 AGCACTGTGTGTGCTTCTG-TTCCC
7370039 AGCACT
1 AGCACT
7370045 TATGTACCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
22 20 0.30
25 31 0.46
26 16 0.24
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (24 bp):
AGCACTGTGTGTGCTTCTGTTCCC
Found at i:7375080 original size:14 final size:14
Alignment explanation
Indices: 7375061--7375097 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7375051 TATATTAGTT
7375061 AATAATAATAATAA
1 AATAATAATAATAA
* *
7375075 AATAATACTAATTA
1 AATAATAATAATAA
7375089 AATAATAAT
1 AATAATAAT
7375098 TTATATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:7375441 original size:2 final size:2
Alignment explanation
Indices: 7375436--7375462 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7375426 TAAATCAATT
7375436 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 T
7375463 GAGATGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7377322 original size:45 final size:44
Alignment explanation
Indices: 7377273--7377367 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 44
7377263 CCCTCAACAT
7377273 CTTCACTAACAACA-CCTTTACCTGAACCCTCAT-CACCTCCCTCAC
1 CTTCAC-AACAACATCC-TTACCTGAACCCTC-TCCACCTCCCTCAC
* ** *
7377318 CTTCAACACCCTCATCCTTACCTGAACCCTCTCCACTTCCCTCAC
1 CTTC-ACAACAACATCCTTACCTGAACCCTCTCCACCTCCCTCAC
7377363 CTTCA
1 CTTCA
7377368 ACACCCTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
44 2 0.05
45 37 0.86
46 4 0.09
ACGTcount: A:0.23, C:0.48, G:0.02, T:0.26
Consensus pattern (44 bp):
CTTCACAACAACATCCTTACCTGAACCCTCTCCACCTCCCTCAC
Found at i:7377368 original size:45 final size:45
Alignment explanation
Indices: 7377290--7377376 Score: 149
Period size: 45 Copynumber: 1.9 Consensus size: 45
7377280 AACAACACCT
7377290 TTACCTGAACCCTCATCACCTCCCTCACCTTCAACACCCTCATCC
1 TTACCTGAACCCTCATCACCTCCCTCACCTTCAACACCCTCATCC
*
7377335 TTACCTGAACCCTC-TCCACTTCCCTCACCTTCAACACCCTCA
1 TTACCTGAACCCTCAT-CACCTCCCTCACCTTCAACACCCTCA
7377377 ACACCCTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.22, C:0.51, G:0.02, T:0.25
Consensus pattern (45 bp):
TTACCTGAACCCTCATCACCTCCCTCACCTTCAACACCCTCATCC
Found at i:7377419 original size:54 final size:54
Alignment explanation
Indices: 7377315--7377421 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
7377305 TCACCTCCCT
* *
7377315 CACCTTCAACACCCTCATCCTTACCTGAACCCTCTCCACTTCCCTCACCTTCAA
1 CACCCTCAACACCCTCATCCTTACCTGAACCCTCACCACTTCCCTCACCTTCAA
7377369 CACCCTCAACACCCTCATCCTTA-CTCGAACCCTCACCAAC-TCCCTCACCTTCA
1 CACCCTCAACACCCTCATCCTTACCT-GAACCCTCACC-ACTTCCCTCACCTTCA
7377422 CCCTCACCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
53 2 0.04
54 45 0.92
55 2 0.04
ACGTcount: A:0.23, C:0.51, G:0.02, T:0.23
Consensus pattern (54 bp):
CACCCTCAACACCCTCATCCTTACCTGAACCCTCACCACTTCCCTCACCTTCAA
Found at i:7383593 original size:22 final size:22
Alignment explanation
Indices: 7383568--7383610 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7383558 AAAAGTTAAT
7383568 AATATATATTTAAAATTTTTTA
1 AATATATATTTAAAATTTTTTA
* *
7383590 AATATTTATTTAAGATTTTTT
1 AATATATATTTAAAATTTTTT
7383611 TCATGGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
AATATATATTTAAAATTTTTTA
Found at i:7385779 original size:25 final size:25
Alignment explanation
Indices: 7385745--7385796 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
7385735 GTAATTTGAG
*
7385745 TTTCGAGCTTAAATTTAGTTAAATT
1 TTTCGAGCTTAAATTGAGTTAAATT
*
7385770 TTTCGAGCTTAAATTGAGTTGAATT
1 TTTCGAGCTTAAATTGAGTTAAATT
7385795 TT
1 TT
7385797 ACAATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (25 bp):
TTTCGAGCTTAAATTGAGTTAAATT
Found at i:7389188 original size:87 final size:89
Alignment explanation
Indices: 7389019--7389194 Score: 329
Period size: 87 Copynumber: 2.0 Consensus size: 89
7389009 TGCATAGTAG
*
7389019 TTTCCTTTCATGTCTGCATTAATTGAATTTCAATATATATATATATATATATGATGTAGATGTAG
1 TTTCCTTTCATGGCTGCATTAATTGAATTTCAATATATATATATATATATATGATGTAGATGTAG
7389084 TACAGTAGTTGCCTAGTTTTGATA
66 TACAGTAGTTGCCTAGTTTTGATA
7389108 TTTCCTTTCATGGCTGCATTAATTGAATTTC-A-ATATATATATATATATATGATGTAGATGTAG
1 TTTCCTTTCATGGCTGCATTAATTGAATTTCAATATATATATATATATATATGATGTAGATGTAG
7389171 TACAGTAGTTGCCTAGTTTTGATA
66 TACAGTAGTTGCCTAGTTTTGATA
7389195 GCTGACTCGG
Statistics
Matches: 86, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
87 55 0.64
88 1 0.01
89 30 0.35
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.44
Consensus pattern (89 bp):
TTTCCTTTCATGGCTGCATTAATTGAATTTCAATATATATATATATATATATGATGTAGATGTAG
TACAGTAGTTGCCTAGTTTTGATA
Found at i:7395175 original size:8 final size:8
Alignment explanation
Indices: 7395162--7395186 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7395152 GAAAGACAAG
7395162 ACACAGAC
1 ACACAGAC
7395170 ACACAGAC
1 ACACAGAC
7395178 ACACAGAC
1 ACACAGAC
7395186 A
1 A
7395187 TATATACACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.36, G:0.12, T:0.00
Consensus pattern (8 bp):
ACACAGAC
Found at i:7405234 original size:21 final size:19
Alignment explanation
Indices: 7405198--7405237 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
7405188 AGAAAAATTG
*
7405198 AAAAGAAAAAAAAAGGAAA
1 AAAAAAAAAAAAAAGGAAA
7405217 AAAAAAAAAGAAAGAAGGAAA
1 AAAAAAAAA-AAA-AAGGAAA
7405238 GGAAGACGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAGGAAA
Found at i:7422638 original size:22 final size:20
Alignment explanation
Indices: 7422596--7422653 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 20
7422586 CAAGATCAAG
*
7422596 TTTTTTTAAAAAAAGTAATT
1 TTTTTTTAAAAAAAATAATT
*
7422616 TTTTTATTCAAAAAAAATCATT
1 TTTTT-TT-AAAAAAAATAATT
*
7422638 TAATTTTCTAAAAAAA
1 T--TTTTTTAAAAAAA
7422654 TTAAATTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.16
21 2 0.06
22 19 0.61
23 1 0.03
24 4 0.13
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTTTTTAAAAAAAATAATT
Found at i:7423666 original size:26 final size:26
Alignment explanation
Indices: 7423635--7423690 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
7423625 AACCCTAAAG
7423635 TAAATTTATTTTTC-CATTTTAATACC
1 TAAATTT-TTTTTCTCATTTTAATACC
7423661 TAAATTTTTTTTCTCATTTTAATACC
1 TAAATTTTTTTTCTCATTTTAATACC
7423687 TAAA
1 TAAA
7423691 GTATTATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAATTTTTTTTCTCATTTTAATACC
Found at i:7423700 original size:26 final size:26
Alignment explanation
Indices: 7423641--7423700 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
7423631 AAAGTAAATT
*
7423641 TATTTTTC-CATTTTAATACCTAAAT
1 TATTTTTCTCATTTTAATACCTAAAG
*
7423666 TTTTTTTCTCATTTTAATACCTAAAG
1 TATTTTTCTCATTTTAATACCTAAAG
*
7423692 TATTATTCT
1 TATTTTTCT
7423701 ATTATAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.55
Consensus pattern (26 bp):
TATTTTTCTCATTTTAATACCTAAAG
Found at i:7424086 original size:13 final size:13
Alignment explanation
Indices: 7424068--7424099 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7424058 TACATAAATG
7424068 TATTTTAGTTTTT
1 TATTTTAGTTTTT
*
7424081 TATTTTATTTTTT
1 TATTTTAGTTTTT
7424094 TATTTT
1 TATTTT
7424100 TTTAATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (13 bp):
TATTTTAGTTTTT
Found at i:7427162 original size:28 final size:28
Alignment explanation
Indices: 7427126--7427208 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 28
7427116 GAACTATCCC
*
7427126 AATATAACACACATTAAGCGTTGAATCA
1 AATATAACACGCATTAAGCGTTGAATCA
* * *
7427154 AATCTAACACGCATTAAGTGCTGAATCA
1 AATATAACACGCATTAAGCGTTGAATCA
* *
7427182 AATATAACATGCATTAAGCATTGAATC
1 AATATAACACGCATTAAGCGTTGAATC
7427209 TCCCATCTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (28 bp):
AATATAACACGCATTAAGCGTTGAATCA
Found at i:7427487 original size:17 final size:17
Alignment explanation
Indices: 7427462--7427502 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
7427452 CCAGCAAAGC
7427462 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
* *
7427479 TTAAGTTTATTTTAAAT
1 TTAAATTTATTTTAAAA
7427496 TTAAATT
1 TTAAATT
7427503 GAAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:7429445 original size:30 final size:30
Alignment explanation
Indices: 7429411--7429579 Score: 157
Period size: 30 Copynumber: 5.7 Consensus size: 30
7429401 TGACCCCCCG
*
7429411 AACTTCTAAAAATTACATTTTTGACCTTAA
1 AACTTCTAAAAATTACATTTTTGACCCTAA
* * * *
7429441 AACTTTTGAAAATTACATTTTTTACCCTTA
1 AACTTCTAAAAATTACATTTTTGACCCTAA
* * *
7429471 AACTTC-CAAAATTTCATTTTTAACCCTAA
1 AACTTCTAAAAATTACATTTTTGACCCTAA
* * *
7429500 AACTTCCAAAAATTACATCTTT-ACCCCCAA
1 AACTTCTAAAAATTACATTTTTGA-CCCTAA
* * *
7429530 AA-TTTTAAAAATTCCA-TTTTGACCCCAA
1 AACTTCTAAAAATTACATTTTTGACCCTAA
*
7429558 AACTTGTAAAAATTACCATTTT
1 AACTTCTAAAAATTA-CATTTT
7429580 ACCCCTGAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
28 11 0.10
29 48 0.42
30 51 0.45
31 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (30 bp):
AACTTCTAAAAATTACATTTTTGACCCTAA
Found at i:7429482 original size:29 final size:29
Alignment explanation
Indices: 7429419--7429525 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
7429409 CGAACTTCTA
* **
7429419 AAAATTACATTTTTGA-CCTTAAAACTTTTG
1 AAAATTACATTTTTTACCCTT-AAAC-TTCC
7429449 AAAATTACATTTTTTACCCTTAAACTTCC
1 AAAATTACATTTTTTACCCTTAAACTTCC
* * *
7429478 AAAATTTCATTTTTAACCCTAAAACTTCC
1 AAAATTACATTTTTTACCCTTAAACTTCC
*
7429507 AAAAATTACA-TCTTTACCC
1 -AAAATTACATTTTTTACCC
7429526 CCAAAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
29 35 0.53
30 27 0.41
31 4 0.06
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTTTACCCTTAAACTTCC
Found at i:7429556 original size:28 final size:28
Alignment explanation
Indices: 7429478--7429584 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 28
7429468 TTAAACTTCC
* * **
7429478 AAAATTTCATTTTTAACCCTAAAACTTCCA
1 AAAATTCCA-TTTT-ACCCCAAAACTTGTA
* *
7429508 AAAATTACATCTTTACCCCCAAAA-TTTTA
1 AAAATTCCAT-TTTA-CCCCAAAACTTGTA
7429537 AAAATTCCATTTTGACCCCAAAACTTGTA
1 AAAATTCCATTTT-ACCCCAAAACTTGTA
7429566 AAAATTACCATTTTACCCC
1 AAAATT-CCATTTTACCCC
7429585 TGAATGTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
28 11 0.17
29 30 0.45
30 25 0.38
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCAAAACTTGTA
Found at i:7430053 original size:96 final size:96
Alignment explanation
Indices: 7429948--7430139 Score: 221
Period size: 96 Copynumber: 2.0 Consensus size: 96
7429938 AAAACTTTAA
* * * *
7429948 AATCGAGGCAATA-TTCTTTTAT-TTCGAGTT-TCGAAATTTTGCGCCTTAACTTACTAGGTACG
1 AATCGAGGCAATATTTC-CTTATCTTCGA-TTAT-GAAAATTTGCGCCTTAACTCACTAGGTACA
* *
7430010 A-TTTTTCTTCAAATCGAAATAATCGAATACCCTT
63 ACATTTT-TTCAAATCGAAATAATCAAATACCCTT
* * *
7430044 AATCGAGGCAATGTTTCCTTATCTTCGATTATGAAAATTTGCTCCTTAACTCACTAGGTGCAACA
1 AATCGAGGCAATATTTCCTTATCTTCGATTATGAAAATTTGCGCCTTAACTCACTAGGTACAACA
* *
7430109 TTTTTTCAAATCGAGATAATCAAATATCCTT
66 TTTTTTCAAATCGAAATAATCAAATACCCTT
7430140 CTTCAAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
96 68 0.84
97 13 0.16
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (96 bp):
AATCGAGGCAATATTTCCTTATCTTCGATTATGAAAATTTGCGCCTTAACTCACTAGGTACAACA
TTTTTTCAAATCGAAATAATCAAATACCCTT
Found at i:7440970 original size:30 final size:30
Alignment explanation
Indices: 7440936--7441181 Score: 270
Period size: 30 Copynumber: 8.4 Consensus size: 30
7440926 TGACCCCCCG
* *
7440936 AACTTCCAAAAATTACATTTTTAACCTTGA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
* * * * **
7440966 AACTTCTAAAAATTATATTTTGACCCCCCA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
* * *
7440996 AACTTCTAAAAAATACATTATTAACCCTAA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
*
7441026 AACTTCCAAAAATTACATTTTT-ACCC-CA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
*
7441054 AACTTTCAAAAATTACA-TTTTAACCCTAA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
* *
7441083 AACTTCCAAAAATTATATTTTTACCCCTAA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
* * *
7441113 AA-TTTCAAAAATTCCATTTTTAACCTTAA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
**
7441142 AACTTCCAAAAATTACA-TTTT-ACCCCCA
1 AACTTCCAAAAATTACATTTTTAACCCTAA
7441170 AACTTCCAAAAA
1 AACTTCCAAAAA
7441182 GTCTATTTTC
Statistics
Matches: 179, Mismatches: 33, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
27 4 0.02
28 37 0.21
29 48 0.27
30 90 0.50
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.33
Consensus pattern (30 bp):
AACTTCCAAAAATTACATTTTTAACCCTAA
Found at i:7441198 original size:29 final size:28
Alignment explanation
Indices: 7440930--7441240 Score: 162
Period size: 30 Copynumber: 10.6 Consensus size: 28
7440920 ATATTTTGAC
* *
7440930 CCCCCGAACTTCCAAAAATTACATTTTTAA
1 CCCCCAAACTTCCAAAAAGTACA-TTTT-A
*** * * *
7440960 CCTTGAAACTTCTAAAAATTATATTTTGA
1 CCCCCAAACTTCCAAAAAGTACATTTT-A
* *
7440989 CCCCCCAAACTTCTAAAAAATACATTATTAA
1 -CCCCCAAACTTCCAAAAAGTACATT-TT-A
** *
7441020 CCCTAAAACTTCCAAAAATTACATTTTTA
1 CCCCCAAACTTCCAAAAAGTACA-TTTTA
* *
7441049 -CCCCAAACTTTCAAAAATTACATTTTAA
1 CCCCCAAACTTCCAAAAAGTACATTTT-A
** * *
7441077 CCCTAAAACTTCCAAAAATTATATTTTTA
1 CCCCCAAACTTCCAAAAAGTACA-TTTTA
* * * * *
7441106 CCCCTAAAATTTCAAAAATTCCATTTTTAA
1 CCCCCAAACTTCCAAAAAGTACA-TTTT-A
*** *
7441136 CCTTAAAACTTCCAAAAATTACATTTTA
1 CCCCCAAACTTCCAAAAAGTACATTTTA
7441164 CCCCCAAACTTCCAAAAAGT-CTATTTTCGA
1 CCCCCAAACTTCCAAAAAGTAC-ATTTT--A
* *
7441194 CCCCAAAACTTGCTAAAAA-TACCATTTTA
1 CCCCCAAACTT-CCAAAAAGTA-CATTTTA
*
7441223 CCCCCGAA-TGTCCAAAAA
1 CCCCCAAACT-TCCAAAAA
7441241 CTCCGTTTTT
Statistics
Matches: 222, Mismatches: 45, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
27 5 0.02
28 49 0.22
29 59 0.27
30 92 0.41
31 16 0.07
32 1 0.00
ACGTcount: A:0.40, C:0.26, G:0.03, T:0.32
Consensus pattern (28 bp):
CCCCCAAACTTCCAAAAAGTACATTTTA
Found at i:7441202 original size:58 final size:57
Alignment explanation
Indices: 7440930--7441240 Score: 315
Period size: 58 Copynumber: 5.3 Consensus size: 57
7440920 ATATTTTGAC
* * * * *
7440930 CCCCCGAACTTCCAAAAATTACATTTTTAACCTTGAAACTTCTAAAAATTATATTTTGA
1 CCCCCAAACTTCCAAAAATTACA-TTTTAACCCTAAAACTTCCAAAAATTACATTTT-A
* *
7440989 CCCCCCAAACTTCTAAAAAATACATTATTAACCCTAAAACTTCCAAAAATTACATTTTTA
1 -CCCCCAAACTTCCAAAAATTACATT-TTAACCCTAAAACTTCCAAAAATTACA-TTTTA
* *
7441049 -CCCCAAACTTTCAAAAATTACATTTTAACCCTAAAACTTCCAAAAATTATATTTTTA
1 CCCCCAAACTTCCAAAAATTACATTTTAACCCTAAAACTTCCAAAAATTACA-TTTTA
* * * * *
7441106 CCCCTAAAATTTCAAAAATTCCATTTTTAACCTTAAAACTTCCAAAAATTACATTTTA
1 CCCCCAAACTTCCAAAAATTACA-TTTTAACCCTAAAACTTCCAAAAATTACATTTTA
* * * *
7441164 CCCCCAAACTTCCAAAAAGT-CTATTTTCGACCCCAAAACTTGCTAAAAA-TACCATTTTA
1 CCCCCAAACTTCCAAAAATTAC-ATTTT-AACCCTAAAACTT-CCAAAAATTA-CATTTTA
*
7441223 CCCCCGAA-TGTCCAAAAA
1 CCCCCAAACT-TCCAAAAA
7441241 CTCCGTTTTT
Statistics
Matches: 217, Mismatches: 25, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
57 37 0.17
58 75 0.35
59 57 0.26
60 44 0.20
61 4 0.02
ACGTcount: A:0.40, C:0.26, G:0.03, T:0.32
Consensus pattern (57 bp):
CCCCCAAACTTCCAAAAATTACATTTTAACCCTAAAACTTCCAAAAATTACATTTTA
Found at i:7441309 original size:29 final size:31
Alignment explanation
Indices: 7441277--7441368 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 31
7441267 AAGATTACCA
* *
7441277 TTTTACCCCTGGATGTT-CAAAA-TATCATT
1 TTTTACCCCCGAATGTTCCAAAATTATCATT
*
7441306 TTTTACCCCCGAATTTTCCCAAAATTATCATT
1 TTTTACCCCCGAATGTT-CCAAAATTATCATT
* *
7441338 TTTT-CCCACGAGA-G-TCCAAAATTACCATT
1 TTTTACCCCCGA-ATGTTCCAAAATTATCATT
7441367 TT
1 TT
7441369 GCCCCTCGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 29 0.55
30 1 0.02
31 11 0.21
32 12 0.23
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (31 bp):
TTTTACCCCCGAATGTTCCAAAATTATCATT
Found at i:7443242 original size:32 final size:31
Alignment explanation
Indices: 7443205--7443264 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
7443195 GCATAACCAG
*
7443205 TTTAAACAATGTTGTCAAATCCATATAAATAA
1 TTTAAACAATGTTATCAAATCCA-ATAAATAA
* *
7443237 TTTAAATAATGTTATCCAATCCAATAAA
1 TTTAAACAATGTTATCAAATCCAATAAA
7443265 CAAACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (31 bp):
TTTAAACAATGTTATCAAATCCAATAAATAA
Found at i:7447474 original size:16 final size:17
Alignment explanation
Indices: 7447455--7447495 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7447445 AAAAACTATT
7447455 TTTAAT-TTAATAATTA
1 TTTAATGTTAATAATTA
* *
7447471 TTT-ATGTTTATTATTA
1 TTTAATGTTAATAATTA
7447487 TTTAATGTT
1 TTTAATGTT
7447496 TTTTTACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.67
17 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTAATGTTAATAATTA
Found at i:7452942 original size:22 final size:22
Alignment explanation
Indices: 7452917--7453028 Score: 125
Period size: 22 Copynumber: 4.9 Consensus size: 22
7452907 TACGCGCCTA
* *
7452917 CTGTTTAGCACTATGTGTGCTT
1 CTGTTCAGCACTGTGTGTGCTT
*
7452939 CTGTTCAGCACTGTATGTGCTT
1 CTGTTCAGCACTGTGTGTGCTT
7452961 CTGTTTCCCCAGCACTGTGTGTGCTT
1 CTG-TT---CAGCACTGTGTGTGCTT
* *
7452987 CTATTCAACACTGTGTGTGCTT
1 CTGTTCAGCACTGTGTGTGCTT
* *
7453009 CTGTTCAGCATTGTTTGTGC
1 CTGTTCAGCACTGTGTGTGC
7453029 CTACTGTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
22 54 0.71
23 2 0.03
25 2 0.03
26 18 0.24
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.42
Consensus pattern (22 bp):
CTGTTCAGCACTGTGTGTGCTT
Found at i:7453045 original size:70 final size:69
Alignment explanation
Indices: 7452925--7453060 Score: 184
Period size: 70 Copynumber: 2.0 Consensus size: 69
7452915 TACTGTTTAG
* **
7452925 CACTATGTGTGCTTCTGTTCAGCACTGTATGTGCTTCTGTTTCCCCAGCACTGTGTGTGCTTCTA
1 CACTATGTGTGCTTCTGTTCAGCACTGTATGTGCTACTGTTTCCCCAGCACT-TACGTGCTTCTA
7452990 TTCAA
65 TTCAA
* * * *
7452995 CACTGTGTGTGCTTCTGTTCAGCATTGTTTGTGCCTACTGTTT-CCTAGCACTTACGTGCTTCTA
1 CACTATGTGTGCTTCTGTTCAGCACTGTATGTG-CTACTGTTTCCCCAGCACTTACGTGCTTCTA
7453059 TT
65 TT
7453061 TCCCAGCACT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
69 12 0.21
70 38 0.66
71 8 0.14
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (69 bp):
CACTATGTGTGCTTCTGTTCAGCACTGTATGTGCTACTGTTTCCCCAGCACTTACGTGCTTCTAT
TCAA
Found at i:7453062 original size:24 final size:24
Alignment explanation
Indices: 7453035--7453081 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7453025 GTGCCTACTG
* *
7453035 TTTCCTAGCACTTACGTGCTTCTA
1 TTTCCCAGCACTTACGCGCTTCTA
*
7453059 TTTCCCAGCACTTATGCGCTTCT
1 TTTCCCAGCACTTACGCGCTTCT
7453082 GTTAAGTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.32, G:0.13, T:0.40
Consensus pattern (24 bp):
TTTCCCAGCACTTACGCGCTTCTA
Found at i:7455613 original size:22 final size:22
Alignment explanation
Indices: 7455588--7455632 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7455578 CCCACTGTCT
*
7455588 TAGGGGTTACGACACTAAAGCC
1 TAGGGGTCACGACACTAAAGCC
* * *
7455610 TAGGTGTCGCGACACTAGAGCC
1 TAGGGGTCACGACACTAAAGCC
7455632 T
1 T
7455633 GATGAGTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (22 bp):
TAGGGGTCACGACACTAAAGCC
Found at i:7465507 original size:72 final size:72
Alignment explanation
Indices: 7465369--7465509 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 72
7465359 CTTTTAGTCG
* * * * ** **
7465369 AGAGTTGTCACTATTTATAGTGATAGTAATGTCTCTTGAATATTAAAAGTTATGTTACTTGGTTA
1 AGAGTTGTCACTATTTATAGTGAGAGTAATGTATCTTGAATACTAAAAATTATGCCACTTAATTA
7465434 TTAATCT
66 TTAATCT
* * *
7465441 AGAGTTGTCACTATTTATAGTGACGAGTTATGTATCTTG-TTACTAAAAATTATGCCATTTAATT
1 AGAGTTGTCACTATTTATAGTGA-GAGTAATGTATCTTGAATACTAAAAATTATGCCACTTAATT
7465505 ATTAA
65 ATTAA
7465510 CAAAGTGTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 45 0.79
73 12 0.21
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (72 bp):
AGAGTTGTCACTATTTATAGTGAGAGTAATGTATCTTGAATACTAAAAATTATGCCACTTAATTA
TTAATCT
Found at i:7466493 original size:41 final size:41
Alignment explanation
Indices: 7466436--7466520 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
7466426 TGGGTGGAAC
7466436 TTTTGCTGATAATAGACAGACATATAATCACCAAACACAAA
1 TTTTGCTGATAATAGACAGACATATAATCACCAAACACAAA
7466477 TTTTGCTGATAATAGACAGACATATAATCACCAAACACAAA
1 TTTTGCTGATAATAGACAGACATATAATCACCAAACACAAA
7466518 TTT
1 TTT
7466521 GGGATAAGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (41 bp):
TTTTGCTGATAATAGACAGACATATAATCACCAAACACAAA
Found at i:7468728 original size:29 final size:29
Alignment explanation
Indices: 7468674--7468729 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7468664 ACATATCATT
* * *
7468674 TTTTTTATAATTAAGTTACTATTTTATAA
1 TTTTTAATAATTAAGTAACTAATTTATAA
*
7468703 TTTTTAATAATTAAGTAATTAATTTAT
1 TTTTTAATAATTAAGTAACTAATTTAT
7468730 CGCATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTTAATAATTAAGTAACTAATTTATAA
Found at i:7471668 original size:31 final size:30
Alignment explanation
Indices: 7471561--7471701 Score: 89
Period size: 30 Copynumber: 4.7 Consensus size: 30
7471551 ATTCGACATT
* *
7471561 TTTTTCTTAATTTGATA-TCTAAATTTGAC-
1 TTTTTCTTAATTTGGTACT-TAAACTTGACA
* *
7471590 TTTTTTTCTAATTTGGTACATAAACTT----
1 TTTTTCT-TAATTTGGTACTTAAACTTGACA
* * *
7471617 TTTTTGATCAAATTTAGTACTTGAAA-TTGACA
1 TTTTT-CT-TAATTTGGTACTT-AAACTTGACA
7471649 CTTTTTCTTAATTTGGTACTTAAACTTGACA
1 -TTTTTCTTAATTTGGTACTTAAACTTGACA
* * *
7471680 TTTTTTTTAAGTTGATACTTAA
1 TTTTTCTTAATTTGGTACTTAA
7471702 CCATTTTGGG
Statistics
Matches: 88, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
27 5 0.06
28 14 0.16
29 9 0.10
30 37 0.42
31 17 0.19
32 1 0.01
33 5 0.06
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (30 bp):
TTTTTCTTAATTTGGTACTTAAACTTGACA
Found at i:7472016 original size:60 final size:60
Alignment explanation
Indices: 7471943--7472093 Score: 232
Period size: 60 Copynumber: 2.5 Consensus size: 60
7471933 AAATCTTGGA
* * * *
7471943 TACCAAATTAGGAAAAAATGTCAAGTTCATGTACCAAATTGGTTCCAAAAAAAGTTTAGG
1 TACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTGGGTCAAAAAAAAGTTTAAG
* * *
7472003 TATCAAATTAGGAAAAAGTGTCAAGTTCAAGTATCAAATTGGGTCAAAAAAAAGTTTAAG
1 TACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTGGGTCAAAAAAAAGTTTAAG
7472063 TACCAAATTAGG-AAAAATGTCAAGTTCAAGT
1 TACCAAATTAGGAAAAAATGTCAAGTTCAAGT
7472094 TTAGGTACCA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 18 0.22
60 64 0.78
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.26
Consensus pattern (60 bp):
TACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTGGGTCAAAAAAAAGTTTAAG
Found at i:7472064 original size:29 final size:29
Alignment explanation
Indices: 7471977--7472071 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
7471967 GTTCATGTAC
* * *
7471977 CAAATTGGTTCCAAAAAAAGTTTAGGTAT
1 CAAATTGGGTCAAAAAAAAGTTTAAGTAT
* * *
7472006 CAAATTAGG--AAAAAGTGTCAAGTTCAAGTAT
1 CAAATTGGGTCAAAAA----AAAGTTTAAGTAT
*
7472037 CAAATTGGGTCAAAAAAAAGTTTAAGTAC
1 CAAATTGGGTCAAAAAAAAGTTTAAGTAT
7472066 CAAATT
1 CAAATT
7472072 AGGAAAAATG
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
27 4 0.08
29 23 0.46
31 18 0.36
33 5 0.10
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (29 bp):
CAAATTGGGTCAAAAAAAAGTTTAAGTAT
Found at i:7472085 original size:36 final size:37
Alignment explanation
Indices: 7472045--7472122 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
7472035 ATCAAATTGG
7472045 GTCAAAAAAAAGTTTAAGTACCAAATTAGG-AAAAAT
1 GTCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAT
**** *
7472081 GTCAAGTTCAAGTTTAGGTACCAAATTAGGAAAAAAT
1 GTCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAT
7472118 GTCAA
1 GTCAA
7472123 GTTCAGATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 25 0.69
37 11 0.31
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (37 bp):
GTCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAT
Found at i:7472125 original size:37 final size:36
Alignment explanation
Indices: 7472054--7472127 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 36
7472044 GGTCAAAAAA
7472054 AAGTTTAAGTACCAAATTAGGAAAAATGTCAAGTTC
1 AAGTTTAAGTACCAAATTAGGAAAAATGTCAAGTTC
*
7472090 AAGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTC
1 AAGTTTAAGTACCAAATTAGG-AAAAATGTCAAGTTC
7472127 A
1 A
7472128 GATACCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 20 0.56
37 16 0.44
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.27
Consensus pattern (36 bp):
AAGTTTAAGTACCAAATTAGGAAAAATGTCAAGTTC
Found at i:7473985 original size:17 final size:17
Alignment explanation
Indices: 7473954--7474011 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
7473944 TTAAATTGAT
7473954 TTTAAATTTAT-TTAAA
1 TTTAAATTTATCTTAAA
7473970 TTTAAATTTATCTTAAA
1 TTTAAATTTATCTTAAA
7473987 TTTAAATTTA-CTTTAAA
1 TTTAAATTTATC-TTAAA
7474004 TTTAAATT
1 TTTAAATT
7474012 AAAATACTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
16 12 0.30
17 28 0.70
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATCTTAAA
Found at i:7474001 original size:11 final size:11
Alignment explanation
Indices: 7473944--7474014 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
7473934 TAATTTGGAG
* *
7473944 TTAAATTGATT
1 TTAAATTTAAT
7473955 TTAAATTT-AT
1 TTAAATTTAAT
7473965 TTAAATTTAAAT
1 TTAAATTT-AAT
** *
7473977 TTATCTTAAAT
1 TTAAATTTAAT
*
7473988 TTAAATTTACT
1 TTAAATTTAAT
*
7473999 TTAAATTTAAA
1 TTAAATTTAAT
7474010 TTAAA
1 TTAAA
7474015 ATACTAAACA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
10 9 0.19
11 31 0.66
12 7 0.15
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:7474013 original size:5 final size:6
Alignment explanation
Indices: 7473954--7474016 Score: 64
Period size: 6 Copynumber: 11.2 Consensus size: 6
7473944 TTAAATTGAT
*
7473954 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
*
7473998 TTTAAA TTTAAA TTAAAA T
1 TTTAAA TTTAAA TTTAAA T
7474017 ACTAAACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
4 6 0.12
5 6 0.12
6 34 0.71
7 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:7474716 original size:19 final size:19
Alignment explanation
Indices: 7474678--7474728 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
7474668 ATAATAATAA
* **
7474678 TAAATAATAATGAATTTTT
1 TAAATAATAATAAAAGTTT
7474697 TAAATAATAATAAAAGTTT
1 TAAATAATAATAAAAGTTT
*
7474716 T-AATAAAAATAAA
1 TAAATAATAATAAA
7474729 TATTATTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
TAAATAATAATAAAAGTTT
Found at i:7475871 original size:29 final size:26
Alignment explanation
Indices: 7475838--7476291 Score: 118
Period size: 29 Copynumber: 15.5 Consensus size: 26
7475828 CGAAACTTCC
7475838 AAAATTACCATTTTACGCCCAAACCTTAT
1 AAAATT-CCATTTTAC-CCCAAA-CTTAT
*
7475867 AAAATTCCATTTTTAATCCCGAAACTTCCA-
1 AAAATTCCA-TTTT-A-CCCCAAACTT--AT
* * *
7475897 AAAATTATCATTTTAACCCCGAACCTTCT
1 AAAATT-CCATTTT-ACCCC-AAACTTAT
* * *
7475926 AAAATTCCATTTTTAACCCC-GATTTCACC
1 AAAATTCCA-TTTT-ACCCCAAACTT-A-T
*
7475955 AAAATTACCATTTTACCCCCAAACCTTTT
1 AAAATT-CCATTTTA-CCCCAAA-CTTAT
*
7475984 AAAATTCCATTTTTAACCCTGAAACTTCCA-
1 AAAATTCCA-TTTT-ACCC-CAAACTT--AT
*
7476014 AAAATTACCA-TTTACCCCCCAAACCTTTT
1 AAAATT-CCATTTTA--CCCCAAA-CTTAT
7476043 AAAATTCCATTTTTAACCCCGAAACTTCCA-
1 AAAATTCCA-TTTT-ACCCC-AAACTT--AT
*
7476073 AAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATT-CCATTTTA-CCCCAAA-CTTAT
**
7476102 AAAATTCCATTTTTAACCTTGAAACTTCCA-
1 AAAATTCCA-TTTT-ACC-CCAAACTT--AT
* *
7476132 AAAATTACCATTTTAACCCCGAACCTTCT
1 AAAATT-CCATTTT-ACCCC-AAACTTAT
* * *
7476161 AAAATTCCATTTTTAACCCC-GATTTCACCA
1 AAAATTCCA-TTTT-ACCCCAAACTT-A--T
*
7476191 AAAATTACCATTTTACCCTTAAACTT-T
1 AAAATT-CCATTTTACCC-CAAACTTAT
7476218 CAAAAATTCCATTTTTAACCCCAAAACTTCCA-
1 --AAAATTCCA-TTTT-ACCCC-AAACTT--AT
7476250 AAAATTACCATTTTACCCCCAAACTT-T
1 AAAATT-CCATTTTA-CCCCAAACTTAT
7476277 CCAAAATTCCATTTT
1 --AAAATTCCATTTT
7476292 TAACCTCGAT
Statistics
Matches: 324, Mismatches: 38, Indels: 127
0.66 0.08 0.26
Matches are distributed among these distances:
27 4 0.01
28 29 0.09
29 143 0.44
30 123 0.38
31 25 0.08
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.34
Consensus pattern (26 bp):
AAAATTCCATTTTACCCCAAACTTAT
Found at i:7475922 original size:59 final size:59
Alignment explanation
Indices: 7475825--7476438 Score: 645
Period size: 59 Copynumber: 10.5 Consensus size: 59
7475815 GTTTATAGGT
*
7475825 CCCCGAAACTTCC-AAAATTACCATTTT-ACGCCCAAACCTTATAAAATTCCATTTTTAA
1 CCCCGAAACTTCCAAAAATTACCATTTTAAC-CCCAAACCTTCTAAAATTCCATTTTTAA
* * *
7475883 TCCCGAAACTTCCAAAAATTATCATTTTAACCCCGAACCTTCTAAAATTCCATTTTTAA
1 CCCCGAAACTTCCAAAAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAA
* * * *
7475942 CCCCG--ATTTCACCAAAATTACCATTTTACCCCCAAACCTTTTAAAATTCCATTTTTAA
1 CCCCGAAACTTC-CAAAAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAA
* * *
7476000 CCCTGAAACTTCCAAAAATTACCA-TTTACCCCCCAAACCTTTTAAAATTCCATTTTTAA
1 CCCCGAAACTTCCAAAAATTACCATTTTA-ACCCCAAACCTTCTAAAATTCCATTTTTAA
* * *
7476059 CCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAATCTTTTAAAATTCCATTTTTAA
1 CCCCGAAACTTCCAAAAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAA
** *
7476118 CCTTGAAACTTCCAAAAATTACCATTTTAACCCCGAACCTTCTAAAATTCCATTTTTAA
1 CCCCGAAACTTCCAAAAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAA
* * * *
7476177 CCCCG--ATTTCACCAAAAATTACCATTTT-ACCCTTAAACTTTCAAAAATTCCATTTTTAA
1 CCCCGAAACTT--CCAAAAATTACCATTTTAACCC-CAAACCTTCTAAAATTCCATTTTTAA
* * * *
7476236 CCCCAAAACTTCCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAA
1 CCCCGAAACTTCCAAAAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAA
* * * * *
7476295 CCTCG--ATTTCACCAAAAATTACCATTTT-ACCCCTGAACTTTCAAAAATTCCATTTTTAA
1 CCCCGAAACTT--CCAAAAATTACCATTTTAACCCC-AAACCTTCTAAAATTCCATTTTTAA
* * *
7476354 CCCCG--ATTTCACCAAAACA-TACCATTTT-ACCCTCGAAGCC-TCAAAAATTCCA-TTTTAA
1 CCCCGAAACTT--CCAAAA-ATTACCATTTTAACCC-C-AAACCTTCTAAAATTCCATTTTTAA
* *
7476412 CCCCG--ATTTCACCAAAATTACCATTTT
1 CCCCGAAACTTC-CAAAAATTACCATTTT
7476439 GCACCCGGGT
Statistics
Matches: 490, Mismatches: 46, Indels: 41
0.85 0.08 0.07
Matches are distributed among these distances:
56 2 0.00
57 23 0.05
58 85 0.17
59 360 0.73
60 17 0.03
61 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (59 bp):
CCCCGAAACTTCCAAAAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAA
Found at i:7476131 original size:118 final size:115
Alignment explanation
Indices: 7475834--7476438 Score: 731
Period size: 118 Copynumber: 5.2 Consensus size: 115
7475824 TCCCCGAAAC
* * *
7475834 TTCC-AAAATTACCATTTTACGCCCAAACCTTATAAAATTCCATTTTTAATCCCGAAACTTCCAA
1 TTCCAAAAATTACCATTTTACCCCCAAA-CTTTTAAAATTCCATTTTTAACCCCGAAACTTCCAA
* *
7475898 AAATTATCATTTTAACCCCGAACCTTCTAAAATTCCATTTTTAACCCCGAT
65 AAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAACCCCGAT
* *
7475949 TTCACCAAAATTACCATTTTACCCCCAAACCTTTTAAAATTCCATTTTTAACCCTGAAACTTCCA
1 TTC-CAAAAATTACCATTTTACCCCCAAA-CTTTTAAAATTCCATTTTTAACCCCGAAACTTCCA
* * *
7476014 AAAATTACCA-TTTACCCCCCAAACCTTTTAAAATTCCATTTTTAACCCCGAAAC
64 AAAATTACCATTTTA-ACCCCAAACCTTCTAAAATTCCATTTTTAACCCCG--AT
**
7476068 TTCCAAAAATTACCATTTTACCCCCAAATCTTTTAAAATTCCATTTTTAACCTTGAAACTTCCAA
1 TTCCAAAAATTACCATTTTACCCCCAAA-CTTTTAAAATTCCATTTTTAACCCCGAAACTTCCAA
*
7476133 AAATTACCATTTTAACCCCGAACCTTCTAAAATTCCATTTTTAACCCCGAT
65 AAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAACCCCGAT
** * *
7476184 TTCACCAAAAATTACCATTTTACCCTTAAACTTTCAAAAATTCCATTTTTAACCCCAAAACTTCC
1 TT--CCAAAAATTACCATTTTACCCCCAAACTTT-TAAAATTCCATTTTTAACCCCGAAACTTCC
* * * *
7476249 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGAT
63 AAAAATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAACCCCGAT
** * *
7476302 TTCACCAAAAATTACCATTTTACCCCTGAACTTTCAAAAATTCCATTTTTAACCCCG--ATTTCA
1 TT--CCAAAAATTACCATTTTACCCCCAAACTTT-TAAAATTCCATTTTTAACCCCGAAACTT--
* *
7476365 CCAAAACA-TACCATTTT-ACCCTCGAAGCC-TCAAAAATTCCA-TTTTAACCCCGAT
61 CCAAAA-ATTACCATTTTAACCC-C-AAACCTTCTAAAATTCCATTTTTAACCCCGAT
*
7476419 TTCACCAAAATTACCATTTT
1 TTC-CAAAAATTACCATTTT
7476439 GCACCCGGGT
Statistics
Matches: 438, Mismatches: 37, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
115 4 0.01
116 26 0.06
117 117 0.27
118 279 0.64
119 12 0.03
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.33
Consensus pattern (115 bp):
TTCCAAAAATTACCATTTTACCCCCAAACTTTTAAAATTCCATTTTTAACCCCGAAACTTCCAAA
AATTACCATTTTAACCCCAAACCTTCTAAAATTCCATTTTTAACCCCGAT
Found at i:7476231 original size:177 final size:173
Alignment explanation
Indices: 7475838--7476438 Score: 725
Period size: 177 Copynumber: 3.4 Consensus size: 173
7475828 CGAAACTTCC
* *
7475838 AAAATTACCATTTTACGCC-CAAACCTTATAAAATTCCATTTTTAATCCCGAAACTTCCAAAAAT
1 AAAATTACCATTTTAC-CCTCAAACTTTA-AAAATTCCATTTTTAACCCCGAAACTTCCAAAAAT
* * * * * *
7475902 TATCATTTTAACCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATT
64 TACCATTTT-ACCCCCAAACTTTTAAAATTCCATTTTTAACCTCGATTTC-CAAAAATTACCATT
* * * * *
7475967 TTACCCCCAAACCTTTTAAAATTCCATTTTTAACCCTGAAACTT--CCA
127 TTAACCCCGAACCTTCTAAAATTCCATTTTTAACCCCG--ATTTCACCA
* *
7476014 AAAATTACCA-TTTACCCCCCAAACCTTTTAAAATTCCATTTTTAACCCCGAAACTTCCAAAAAT
1 AAAATTACCATTTTA-CCCTCAAA-CTTTAAAAATTCCATTTTTAACCCCGAAACTTCCAAAAAT
* *
7476078 TACCATTTTACCCCCAAATCTTTTAAAATTCCATTTTTAACCTTGAAACTTCCAAAAATTACCAT
64 TACCATTTTACCCCCAAA-CTTTTAAAATTCCATTTTTAACCTCG--ATTTCCAAAAATTACCAT
7476143 TTTAACCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
126 TTTAACCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* *
7476191 AAAATTACCATTTTACCCTTAAACTTTCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATT
1 AAAATTACCATTTTACCCTCAAACTTT-AAAAATTCCATTTTTAACCCCGAAACTTCCAAAAATT
*
7476256 ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATT
65 ACCATTTTACCCCCAAACTTT-TAAAATTCCATTTTTAACCTCGATTT--CCAAAAATTACCATT
* *
7476321 TT-ACCCCTGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
127 TTAACCCC-GAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * *
7476368 AAACA-TACCATTTTACCCTCGAAGCCTCAAAAATTCCA-TTTTAACCCCG--ATTTCACCAAAA
1 AAA-ATTACCATTTTACCCTC-AAACTTTAAAAATTCCATTTTTAACCCCGAAACTTC-CAAAAA
7476429 TTACCATTTT
63 TTACCATTTT
7476439 GCACCCGGGT
Statistics
Matches: 376, Mismatches: 32, Indels: 35
0.85 0.07 0.08
Matches are distributed among these distances:
174 4 0.01
175 34 0.09
176 103 0.27
177 222 0.59
178 13 0.03
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.33
Consensus pattern (173 bp):
AAAATTACCATTTTACCCTCAAACTTTAAAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTA
CCATTTTACCCCCAAACTTTTAAAATTCCATTTTTAACCTCGATTTCCAAAAATTACCATTTTAA
CCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:7476370 original size:29 final size:28
Alignment explanation
Indices: 7476161--7476438 Score: 153
Period size: 29 Copynumber: 9.5 Consensus size: 28
7476151 CGAACCTTCT
7476161 AAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTTCACC
**
7476190 AAAAATTACCATTTT-ACCCTTAAACTTTCA--
1 -AAAATT-CCATTTTAACCC--CGA-TTTCACC
* * *
7476220 AAAATTCCATTTTTAACCCCAAAACTTC-CA
1 AAAATTCCA-TTTTAACCCC--GATTTCACC
* *
7476250 AAAATTACCATTTTACCCCCAAACTTT--CC
1 AAAATT-CCATTTTAACCCC-GA-TTTCACC
*
7476279 AAAATTCCATTTTTAACCTCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTTCACC
7476308 AAAAATTACCATTTT-ACCCCTGAACTTTCA--
1 -AAAATT-CCATTTTAACCCC-G-A-TTTCACC
7476338 AAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTTCACC
* *** * *
7476367 AAAACATACCATTTT-ACCCTCGAAGCCTCA
1 -AAA-ATTCCATTTTAACCC-CGATTTCACC
7476397 AAAATTCCATTTTAACCCCGATTTCACC
1 AAAATTCCATTTTAACCCCGATTTCACC
7476425 AAAATTACCATTTT
1 AAAATT-CCATTTT
7476439 GCACCCGGGT
Statistics
Matches: 196, Mismatches: 23, Indels: 59
0.71 0.08 0.21
Matches are distributed among these distances:
27 8 0.04
28 31 0.16
29 70 0.36
30 61 0.31
31 16 0.08
32 10 0.05
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATTCCATTTTAACCCCGATTTCACC
Found at i:7478022 original size:51 final size:51
Alignment explanation
Indices: 7477903--7478082 Score: 245
Period size: 51 Copynumber: 3.5 Consensus size: 51
7477893 TTTCATTTAA
* ** * * *
7477903 TACTCACGATGATA-TATAGTCATCGGACCTCTTGTTCCATATAGGAATCCATA
1 TACTCACGATGACACT-TAGTCATCGGACCT-TTAATCCATAAAGG-ATTCATT
*
7477956 AACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
*
7478007 TACTCACAATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
*
7478058 TGCTCACGATGACACTTAGTCATCG
1 TACTCACGATGACACTTAGTCATCG
7478083 AACCCTTTCA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
51 77 0.67
52 11 0.10
53 26 0.23
54 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
Found at i:7489694 original size:52 final size:52
Alignment explanation
Indices: 7489621--7489800 Score: 243
Period size: 52 Copynumber: 3.5 Consensus size: 52
7489611 CAAAGGTCTG
*
7489621 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCC
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCA
*
7489673 ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCCA
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCA
* * * ** ** *
7489725 ATGATTATGTGTCATCGTGAGTGTATGATTCCTTTATAGAACAGGAGGTCCA
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCA
* * *
7489777 ATGATTATCTGTCATTGTGAGTAT
1 ATGACTATGTGTCATCGTGAGTAT
7489801 TAAATGAAAT
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 114 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (52 bp):
ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCA
Found at i:7490243 original size:42 final size:42
Alignment explanation
Indices: 7490181--7490267 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
7490171 TGAAATGTTG
*
7490181 AAAGTAGAAATGTATGGTTGTGCAAAGTAGAATATAAACTCA
1 AAAGTAGAAATGTATAGTTGTGCAAAGTAGAATATAAACTCA
7490223 AAAGTAGAAATGTATAGTTGTGCAAAGTAGAATATAAACTCA
1 AAAGTAGAAATGTATAGTTGTGCAAAGTAGAATATAAACTCA
7490265 AAA
1 AAA
7490268 ATACCTTGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (42 bp):
AAAGTAGAAATGTATAGTTGTGCAAAGTAGAATATAAACTCA
Found at i:7490249 original size:23 final size:23
Alignment explanation
Indices: 7490181--7490254 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
7490171 TGAAATGTTG
*
7490181 AAAGTAGAAATGTATGGTTGTGC
1 AAAGTAGAAATGTATAGTTGTGC
***
7490204 AAAGTAG-AA--TATA-AACT-C
1 AAAGTAGAAATGTATAGTTGTGC
7490222 AAAAGTAGAAATGTATAGTTGTGC
1 -AAAGTAGAAATGTATAGTTGTGC
7490246 AAAGTAGAA
1 AAAGTAGAA
7490255 TATAAACTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
18 1 0.03
19 8 0.21
20 5 0.13
22 6 0.16
23 17 0.45
24 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAGTAGAAATGTATAGTTGTGC
Found at i:7496413 original size:52 final size:52
Alignment explanation
Indices: 7496335--7496521 Score: 250
Period size: 52 Copynumber: 3.6 Consensus size: 52
7496325 TAAATGACAA
**
7496335 AGGTCCGATGACTATACGTCATCGTGAGTATATGAATTCTTTACGGATCATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATCATG
* * * *
7496387 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATCATG
* * * *
7496439 AGGTCCGATGACTATGTGTCATCGTGAGTGTATG-ATTCCTTTACAGAACAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATT-CTTTACGGATCATG
* *
7496491 AGGCCCGATGACTATGTGTCATCATGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
7496522 TAAATGAAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
51 2 0.02
52 115 0.98
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATCATG
Found at i:7505257 original size:17 final size:17
Alignment explanation
Indices: 7505219--7505257 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7505209 AGGTGAAAAA
* *
7505219 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
7505236 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
*
7505253 TTTGT
1 CTTGT
7505258 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:7506010 original size:62 final size:59
Alignment explanation
Indices: 7505906--7506023 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 59
7505896 AATAATTTAA
* * *
7505906 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAAAATACTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
* *
7505965 TATTAAATTAATAAAATATTTATATACAAGATAAACATTAAATTAAATTTAGTATTAAA
1 TATTAAATTAATAAAATA-CT-TAT-CAAGATAAACATTAAATTAAATTTAATATTAAA
7506024 ACAATCACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 17 0.33
60 1 0.02
61 3 0.06
62 30 0.59
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATAAAATACTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:7507096 original size:18 final size:18
Alignment explanation
Indices: 7507072--7507114 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7507062 AAATAGGTTT
7507072 TTAATTAAATAAATTTAAA
1 TTAATTAAA-AAATTTAAA
*
7507091 -TAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
7507108 TTAATTA
1 TTAATTA
7507115 TACCTTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:7512759 original size:116 final size:116
Alignment explanation
Indices: 7512555--7512785 Score: 462
Period size: 116 Copynumber: 2.0 Consensus size: 116
7512545 GTTTGAGACT
7512555 TATATAACATGATTTAGCATGATAATATCTTTTTCCCTTGGTTATTTCTGTTCATTGGAATTTCC
1 TATATAACATGATTTAGCATGATAATATCTTTTTCCCTTGGTTATTTCTGTTCATTGGAATTTCC
7512620 AGGAAGCATTTGGGATGAGAACTGGCTGGGGAGCTGGTGAGTATACCTAGA
66 AGGAAGCATTTGGGATGAGAACTGGCTGGGGAGCTGGTGAGTATACCTAGA
7512671 TATATAACATGATTTAGCATGATAATATCTTTTTCCCTTGGTTATTTCTGTTCATTGGAATTTCC
1 TATATAACATGATTTAGCATGATAATATCTTTTTCCCTTGGTTATTTCTGTTCATTGGAATTTCC
7512736 AGGAAGCATTTGGGATGAGAACTGGCTGGGGAGCTGGTGAGTATACCTAG
66 AGGAAGCATTTGGGATGAGAACTGGCTGGGGAGCTGGTGAGTATACCTAG
7512786 CTACTTTCCT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (116 bp):
TATATAACATGATTTAGCATGATAATATCTTTTTCCCTTGGTTATTTCTGTTCATTGGAATTTCC
AGGAAGCATTTGGGATGAGAACTGGCTGGGGAGCTGGTGAGTATACCTAGA
Found at i:7515925 original size:21 final size:21
Alignment explanation
Indices: 7515899--7515940 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7515889 ACTATCAGTG
7515899 CAAAAGCAACCAA-AACACCAA
1 CAAAAGCAACCAAGAA-ACCAA
*
7515920 CAAAAGCACCCAAGAAACCAA
1 CAAAAGCAACCAAGAAACCAA
7515941 ATACCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.33, G:0.07, T:0.00
Consensus pattern (21 bp):
CAAAAGCAACCAAGAAACCAA
Found at i:7517077 original size:29 final size:30
Alignment explanation
Indices: 7517013--7517086 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
7517003 ATTGTAAAAA
*
7517013 TAGTCACTTTTGTTTGACTCAAGTTACATTT
1 TAGTCACTTATGTTTGA-TCAAGTTACATTT
*
7517044 TAGTCACTTATGTTTG-T-AATGTTACGTTT
1 TAGTCACTTATGTTTGATCAA-GTTACATTT
7517073 TAGTCACTTATGTT
1 TAGTCACTTATGTT
7517087 ATTATTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
31 15 0.38
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.50
Consensus pattern (30 bp):
TAGTCACTTATGTTTGATCAAGTTACATTT
Found at i:7525360 original size:52 final size:51
Alignment explanation
Indices: 7525298--7525401 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
7525288 TTATGAATAG
* * *
7525298 TTTGAAGTAGGTGCTTGTCGATGAAGCATTCATAAATTATATATATTTGTTA
1 TTTGAAGTAGGTGCTTGTCGACGAAGCATTAAGAAATTATATATATTT-TTA
* * *
7525350 TTTGGAGTAGGTGCTTTTGGACGAAGCATTAAGAAATTATATATATTTTTA
1 TTTGAAGTAGGTGCTTGTCGACGAAGCATTAAGAAATTATATATATTTTTA
7525401 T
1 T
7525402 ATTATTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 4 0.09
52 42 0.91
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (51 bp):
TTTGAAGTAGGTGCTTGTCGACGAAGCATTAAGAAATTATATATATTTTTA
Found at i:7538998 original size:7 final size:7
Alignment explanation
Indices: 7538986--7539027 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
7538976 AGAAAGAGAA
7538986 AGGGAAT
1 AGGGAAT
7538993 AGGGAAT
1 AGGGAAT
7539000 AGGGAAT
1 AGGGAAT
7539007 AGGGAAT
1 AGGGAAT
7539014 AGGGAAT
1 AGGGAAT
*
7539021 AAGGAAT
1 AGGGAAT
7539028 TTTCTTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.14
Consensus pattern (7 bp):
AGGGAAT
Found at i:7539047 original size:15 final size:15
Alignment explanation
Indices: 7539027--7539073 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
7539017 GAATAAGGAA
*
7539027 TTTTCTTTTCTTTTC
1 TTTTCTTTTCTCTTC
7539042 TTTTCTTTTCTCTTC
1 TTTTCTTTTCTCTTC
**
7539057 TCCTC-TTTCTCTTC
1 TTTTCTTTTCTCTTC
7539071 TTT
1 TTT
7539074 GTTTTGGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCTTTTCTCTTC
Found at i:7539071 original size:5 final size:5
Alignment explanation
Indices: 7539027--7539057 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
7539017 GAATAAGGAA
*
7539027 TTTTC TTTTC TTTTC TTTTC TTTTC TCTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
7539058 CCTCTTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:7540028 original size:51 final size:53
Alignment explanation
Indices: 7539943--7540069 Score: 117
Period size: 51 Copynumber: 2.5 Consensus size: 53
7539933 TAGTTTAAGT
7539943 TAATTAATAGATAAATATTAAAAAGTTATATTATCACTAATTAA-AAATAAAA
1 TAATTAATAGATAAATATTAAAAAGTTATATTATCACTAATTAATAAATAAAA
* * ** *
7539995 TAATTAAGT-GAT-AATATT-AAATGATTATTTTATCTTTAATTAATTAATAAAA
1 TAATTAA-TAGATAAATATTAAAAAG-TTATATTATCACTAATTAATAAATAAAA
* *
7540047 GAA-AAATA-ATAAATA--AAAAAGTT
1 TAATTAATAGATAAATATTAAAAAGTT
7540070 TAATTTCTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
49 2 0.03
50 11 0.18
51 28 0.46
52 19 0.31
53 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (53 bp):
TAATTAATAGATAAATATTAAAAAGTTATATTATCACTAATTAATAAATAAAA
Found at i:7548542 original size:19 final size:19
Alignment explanation
Indices: 7548508--7548588 Score: 81
Period size: 19 Copynumber: 4.3 Consensus size: 19
7548498 AAGAAACATA
*
7548508 CAATACTGACTCGTAAGAG
1 CAATACTGGCTCGTAAGAG
* * *
7548527 CAATATTGGCTTGTAAAAG
1 CAATACTGGCTCGTAAGAG
* * *
7548546 CATTACTAGCCCGTAAGAG
1 CAATACTGGCTCGTAAGAG
* *
7548565 CAATACTGGCTCATGAGAG
1 CAATACTGGCTCGTAAGAG
7548584 CAATA
1 CAATA
7548589 TGCTGTATTG
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (19 bp):
CAATACTGGCTCGTAAGAG
Found at i:7554996 original size:61 final size:60
Alignment explanation
Indices: 7554810--7555388 Score: 550
Period size: 59 Copynumber: 9.4 Consensus size: 60
7554800 AAAAATTTGG
* * * * * **
7554810 GGTGTTGGTCATGC-AATGGCCGACACCCTCTTTTTGTC-AGGAAAAAAATTTCAAAATTTTGG
1 GGTGTTGGCCAT-CAAATGGCCGACACCC-CCTGTTCTCGA-GAAAAAAA-TTCAAATTTTTTT
* * * ** * * ** *
7554872 GGTGTTGACAATCAAATGGCCGATACCCCCTACT-TCAAAAAAAAAATT-GTATTTTTTG
1 GGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAATTCAAATTTTTTT
*** * *
7554930 GGTGTTGGCCATTGCATGACCGACACCCCCTATTTCTCGAGAAAAAAATTCAAATTTTTTT
1 GGTGTTGGCCATCAAATGGCCGACACCCCCT-GTTCTCGAGAAAAAAATTCAAATTTTTTT
* *
7554991 AGTGTTGGCCATGC-AATGGCCGACACCCCCTGTTCTCGAGAAAAAAAATTTAAATTTTTTT
1 GGTGTTGGCCAT-CAAATGGCCGACACCCCCTGTTCTCGAG-AAAAAAATTCAAATTTTTTT
*
7555052 GGTGTTAGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAATTCAAA-TTTTTT
1 GGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAATTCAAATTTTTTT
* *
7555111 GGTGTTGGTCATCAAAAGGCCGACACCCCCCT-TTCTCGAGAAAAAAATTCAAA-TTTTTT
1 GGTGTTGGCCATCAAATGGCCGACA-CCCCCTGTTCTCGAGAAAAAAATTCAAATTTTTTT
*
7555170 GGTGTTGGCCATCAAATGACCGACACCCCCTGTTCTCGAGAAAAAAATTC-AATTTTTTT
1 GGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAATTCAAATTTTTTT
* * * *
7555229 TGTGTTGGCCATCAAATGGTCGACACCCCCCGTTCTTGAGAAAAAAATTCGAGAAAAAAATTTCA
1 GGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAATTC-------AAA--T--
7555294 AATTTTTT
55 --TTTTTT
** * *
7555302 TATGTTGGCCATCAAATCGCCGACA-CCCCTTTTCTCGA-ATAAAAAATTTCAAATTTTTTT
1 GGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGA-AAAAAA-TTCAAATTTTTTT
7555362 GGTGTTGGCCATCAAATGGCCGACACC
1 GGTGTTGGCCATCAAATGGCCGACACC
7555389 AACTTCTCCT
Statistics
Matches: 434, Mismatches: 55, Indels: 57
0.79 0.10 0.10
Matches are distributed among these distances:
58 38 0.09
59 149 0.34
60 76 0.18
61 94 0.22
62 22 0.05
64 1 0.00
66 3 0.01
67 2 0.00
69 1 0.00
71 1 0.00
72 16 0.04
73 31 0.07
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (60 bp):
GGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAATTCAAATTTTTTT
Found at i:7555284 original size:13 final size:13
Alignment explanation
Indices: 7555266--7555290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7555256 CCCCGTTCTT
7555266 GAGAAAAAAATTC
1 GAGAAAAAAATTC
7555279 GAGAAAAAAATT
1 GAGAAAAAAATT
7555291 TCAAATTTTT
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
GAGAAAAAAATTC
Found at i:7559057 original size:12 final size:12
Alignment explanation
Indices: 7559040--7559066 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7559030 TATATTTGTG
7559040 TAAAAATTAATT
1 TAAAAATTAATT
7559052 TAAAAATTAATT
1 TAAAAATTAATT
7559064 TAA
1 TAA
7559067 GTTGAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAAATTAATT
Found at i:7559418 original size:83 final size:83
Alignment explanation
Indices: 7559221--7560491 Score: 2113
Period size: 83 Copynumber: 15.3 Consensus size: 83
7559211 AAAAAGATAG
* * * * * * *
7559221 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTAT-TAATTTT-
*
7559286 ATA--TTTAAAGT-ACAAATT
64 ATATCTTTAAA-TAAAAAATT
* *
7559304 ATTATTATATTATAATTTTTATCATATAATGTATTGATTTGACAATACAATATTTATTAATTTTA
1 -TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTA
7559369 TATCTTTAAATAAAAAATT
65 TATCTTTAAATAAAAAATT
*
7559388 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
7559453 ATCTTTAAAT-AAAATTT
66 ATCTTTAAATAAAAAATT
* * **
7559470 TTATTATATTACAATTTTTATAATCTAATGTGTTGATTTGGTAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
7559535 ATCTTTAAAT-AAAAATT
66 ATCTTTAAATAAAAAATT
7559552 TTAATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTA
1 TT-ATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTA
*
7559617 TATCTTTAAATAAAAATTT
65 TATCTTTAAATAAAAAATT
7559636 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
7559701 ATCTTTAAATAAAAAATT
66 ATCTTTAAATAAAAAATT
* *
7559719 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACAATATTTATTAATTTTAC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
**
7559784 ATCTTTAAATAAAATTTT
66 ATCTTTAAATAAAAAATT
* *
7559802 TTATTATTTTACAATTTTTATCATATAATGTATTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
7559867 ATCTTTAAATAAAAAATT
66 ATCTTTAAATAAAAAATT
*
7559885 TTATTATTTTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
7559950 ATCTTTAAAT-AAAAATT
66 ATCTTTAAATAAAAAATT
7559967 TTAATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTA
1 TT-ATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTA
7560032 TATCTTTAAATAAAAAATT
65 TATCTTTAAATAAAAAATT
7560051 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
7560116 ATCTTTAAATAAAAAATT
66 ATCTTTAAATAAAAAATT
* *
7560134 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACAATATTTATTAATTTTAC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
**
7560199 ATCTTTAAATAAAATTTT
66 ATCTTTAAATAAAAAATT
* *
7560217 TTATTATTTTACAATTTTTATCATATAATGTATTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
7560282 ATCTTTAAATAAAAAATT
66 ATCTTTAAATAAAAAATT
*
7560300 TTATTATTTTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
7560365 ATCTTTAAATAAAAAATT
66 ATCTTTAAATAAAAAATT
* * *
7560383 TTATTATTTTACAATTTTTATCATATAATATGTTGATTTGACAATATAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
***
7560448 ATCTTTAAATAAATTTTT
66 ATCTTTAAATAAAAAATT
7560466 TTATTATATTACAATTTTTATCATAT
1 TTATTATATTACAATTTTTATCATAT
7560492 TTTATATTTA
Statistics
Matches: 1129, Mismatches: 51, Indels: 15
0.94 0.04 0.01
Matches are distributed among these distances:
82 98 0.09
83 952 0.84
84 79 0.07
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (83 bp):
TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
ATCTTTAAATAAAAAATT
Found at i:7562928 original size:30 final size:30
Alignment explanation
Indices: 7562894--7562959 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
7562884 TCCCTTTACT
*
7562894 TTTTAAATTTAATTT-GTAATTTCGTT-TTTA
1 TTTTAAATTTAATTTCG-AATTTC-TTGTATA
7562924 TTTTAAATTTAATTTCGAATTTCTTGTATA
1 TTTTAAATTTAATTTCGAATTTCTTGTATA
7562954 TTTTAA
1 TTTTAA
7562960 TTTTTCTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 2 0.06
30 30 0.91
31 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.61
Consensus pattern (30 bp):
TTTTAAATTTAATTTCGAATTTCTTGTATA
Found at i:7562975 original size:30 final size:30
Alignment explanation
Indices: 7562894--7562991 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
7562884 TCCCTTTACT
* * * *
7562894 TTTTAAATTTAATTT-GTAATTTCGTTTTTA
1 TTTTAATTTTAATTTCG-AATTTCATATATA
* * *
7562924 TTTTAAATTTAATTTCGAATTTCTTGTATA
1 TTTTAATTTTAATTTCGAATTTCATATATA
** *
7562954 TTTTAATTTTTCTTTCTAATTTCATATATA
1 TTTTAATTTTAATTTCGAATTTCATATATA
*
7562984 TTCTAATT
1 TTTTAATT
7562992 ATTATTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 56 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (30 bp):
TTTTAATTTTAATTTCGAATTTCATATATA
Found at i:7563973 original size:61 final size:60
Alignment explanation
Indices: 7563873--7564027 Score: 231
Period size: 61 Copynumber: 2.5 Consensus size: 60
7563863 AGGAAAGTGA
* * *
7563873 CCAACACCAAAAAAATTTGAATTTTTTTTCTCGATAACAGGGGGTGTCGGCCATTTGATGG
1 CCAACACCAAAAAAATTTGAA-TTTTTTTCTCGAGAACAGGAGGTGTCAGCCATTTGATGG
* *
7563934 CCAACACCCAAAAAAAATTGAATTTTTTTCTTGAGAACAGGAGGTGTCAGCCATTTGATGG
1 CCAACA-CCAAAAAAATTTGAATTTTTTTCTCGAGAACAGGAGGTGTCAGCCATTTGATGG
7563995 CCAACA-CAAAAAAATTTTGAATTTTTTTCTCGA
1 CCAACACCAAAAAAA-TTTGAATTTTTTTCTCGA
7564028 AAATGGCCGA
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
59 8 0.09
60 16 0.19
61 47 0.55
62 14 0.16
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (60 bp):
CCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAACAGGAGGTGTCAGCCATTTGATGG
Found at i:7564044 original size:99 final size:101
Alignment explanation
Indices: 7563930--7564133 Score: 310
Period size: 99 Copynumber: 2.0 Consensus size: 101
7563920 CGGCCATTTG
*
7563930 ATGGCCAACACCCAAAAAAAATTGAATTTTTTTCTTGAGAAC-AGGAGGTGTCAGCCATTTG-AT
1 ATGGCCAACACCCAAAAAAAATTGAATTTTTTTCTCGAGAACAAGG-GGTGTCAGCCA-TTGCAT
7563993 GGCCAACA-CAAAAAAATTTTGAATTTTTTTCTCGA-AA
64 GGCCAACAGCAAAAAAA-TTTGAATTTTTTTCTCGAGAA
* * *
7564030 ATGGCCGACA-CCAAAAAAATTTGAATTTTTTTCTCGGGAACAAGGGGTGTCAGCCATTGCATGG
1 ATGGCCAACACCCAAAAAAAATTGAATTTTTTTCTCGAGAACAAGGGGTGTCAGCCATTGCATGG
7564094 CCAACAGCAAAAAAATTTGAATTTTTTTCTCGAGAA
66 CCAACAGCAAAAAAATTTGAATTTTTTTCTCGAGAA
7564130 ATGG
1 ATGG
7564134 GGGGTGTCGG
Statistics
Matches: 96, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
98 3 0.03
99 67 0.70
100 26 0.27
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (101 bp):
ATGGCCAACACCCAAAAAAAATTGAATTTTTTTCTCGAGAACAAGGGGTGTCAGCCATTGCATGG
CCAACAGCAAAAAAATTTGAATTTTTTTCTCGAGAA
Found at i:7564046 original size:39 final size:39
Alignment explanation
Indices: 7563991--7564065 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7563981 CAGCCATTTG
*
7563991 ATGGCCAACACAAAAAAATTTTGAATTTTTTTCTCGAAA
1 ATGGCCAACACAAAAAAAATTTGAATTTTTTTCTCGAAA
* *
7564030 ATGGCCGACACCAAAAAAATTTGAATTTTTTTCTCG
1 ATGGCCAACACAAAAAAAATTTGAATTTTTTTCTCG
7564066 GGAACAAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (39 bp):
ATGGCCAACACAAAAAAAATTTGAATTTTTTTCTCGAAA
Found at i:7564141 original size:61 final size:60
Alignment explanation
Indices: 7564029--7564168 Score: 176
Period size: 60 Copynumber: 2.3 Consensus size: 60
7564019 TTTTCTCGAA
* *
7564029 AATGGCCGACACCAAAAAAATTTGAATTTTTTTCTCGGGAACAAGGGGTGTCAGCCATTGC
1 AATGGCCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAACAAGGGGTGTCAGCCA-TGC
* * *
7564090 -ATGGCCAACAGCAAAAAAATTTGAATTTTTTTCTCGAGAA-ATGGGGGGTGTCGGCCATGC
1 AATGGCCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAACA--AGGGGTGTCAGCCATGC
*
7564150 AATGACCAACACTCAAAAA
1 AATGGCCAACAC-CAAAAA
7564169 TGCAAATTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 1 0.01
60 40 0.59
61 21 0.31
62 6 0.09
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (60 bp):
AATGGCCAACACCAAAAAAATTTGAATTTTTTTCTCGAGAACAAGGGGTGTCAGCCATGC
Found at i:7564182 original size:160 final size:161
Alignment explanation
Indices: 7563876--7564181 Score: 388
Period size: 160 Copynumber: 1.9 Consensus size: 161
7563866 AAAGTGACCA
* * *
7563876 ACACCAAAAAAATTTGAATTTTTTTTCTCGATAACAGGGGGTGTCGGCCATTTGATGGCCAACAC
1 ACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAAGGGGTGTCAGCCATTTGATGGCCAACAC
* *** *
7563941 CCAAAAAAAATTGAATTTTTTTCTTGAGAACAGGAGGTGTCAGCCATTTGATGGCCAACACAAAA
66 CCAAAAAAAATTGAATTTTTTTCTCGAGAACAGGAGGTGTCAGCCATGCAATGACCAACACAAAA
***
7564006 AAATTTTGAATTTTTTTCTCGAAAATGGCCG
131 AAATTGCAAATTTTTTTCTCGAAAATGGCCG
*
7564037 ACACCAAAAAAATTTGAA-TTTTTTTCTCGGGAACAAGGGGTGTCAGCCA-TTGCATGGCCAACA
1 ACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAAGGGGTGTCAGCCATTTG-ATGGCCAACA
* * * * *
7564100 -GCAAAAAAATTTGAATTTTTTTCTCGAGAA-ATGGGGGGTGTCGGCCATGCAATGACCAACACT
65 CCCAAAAAAAATTGAATTTTTTTCTCGAGAACA--GGAGGTGTCAGCCATGCAATGACCAACACA
*
7564163 CAAAAA-TGCAAATTTTTTT
128 AAAAAATTGCAAATTTTTTT
7564182 TGAAATAGGA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
158 1 0.01
159 40 0.32
160 65 0.52
161 18 0.15
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (161 bp):
ACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAAGGGGTGTCAGCCATTTGATGGCCAACAC
CCAAAAAAAATTGAATTTTTTTCTCGAGAACAGGAGGTGTCAGCCATGCAATGACCAACACAAAA
AAATTGCAAATTTTTTTCTCGAAAATGGCCG
Found at i:7565141 original size:16 final size:18
Alignment explanation
Indices: 7565102--7565135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7565092 TAAGTTTATA
7565102 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
7565119 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
7565136 AATTTAGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:7567381 original size:20 final size:18
Alignment explanation
Indices: 7567354--7567398 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
7567344 TATTATTTAT
7567354 TATTTAATATTTAAATATA
1 TATTTAA-ATTTAAATATA
7567373 TAGTTT-AATTTAAATATA
1 TA-TTTAAATTTAAATATA
7567391 TATTTAAA
1 TATTTAAA
7567399 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 15 0.62
19 3 0.12
20 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTTAAATTTAAATATA
Found at i:7571708 original size:31 final size:31
Alignment explanation
Indices: 7571668--7571740 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
7571658 TGTTTGAATA
* * * *
7571668 AAAAGTTAAAAAGCTCATTTAGGTGCCAATT
1 AAAATTTAAAAAGCTCATTCAAGTACCAATT
*
7571699 AAAATTT-AAAAGCTTATTCAAGTACCAATT
1 AAAATTTAAAAAGCTCATTCAAGTACCAATT
* *
7571729 ATAGTTTAAAAA
1 AAAATTTAAAAA
7571741 CTTGTTTAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (31 bp):
AAAATTTAAAAAGCTCATTCAAGTACCAATT
Found at i:7575421 original size:23 final size:23
Alignment explanation
Indices: 7575390--7575433 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7575380 GTGAGTATTC
*
7575390 TTTTCTAAATTCATTTTGTTTTTG
1 TTTTCTAAATTAATTTT-TTTTTG
7575414 TTTT-TAAATTAATTTTTTTT
1 TTTTCTAAATTAATTTTTTTT
7575434 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTCTAAATTAATTTTTTTTTG
Found at i:7579399 original size:3 final size:3
Alignment explanation
Indices: 7579391--7579424 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7579381 GGAAAAACCA
7579391 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7579425 AAAGAGTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7583470 original size:23 final size:23
Alignment explanation
Indices: 7583444--7583488 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7583434 TCTTAATATT
*
7583444 TAGT-ATAAATAATTTTATTTTAA
1 TAGTAATAAA-AATTTAATTTTAA
*
7583467 TAGTAATACAAATTTAATTTTA
1 TAGTAATAAAAATTTAATTTTA
7583489 TTTTGATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TAGTAATAAAAATTTAATTTTAA
Found at i:7583486 original size:28 final size:28
Alignment explanation
Indices: 7583453--7583509 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
7583443 TTAGTATAAA
*
7583453 TAATTTTATTTTAATAGTAATACAAATT
1 TAATTTTATTTTAATAATAATACAAATT
*
7583481 TAATTTTATTTTGATAATAATACAAATT
1 TAATTTTATTTTAATAATAATACAAATT
7583509 T
1 T
7583510 TCTCCGACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (28 bp):
TAATTTTATTTTAATAATAATACAAATT
Found at i:7583548 original size:26 final size:25
Alignment explanation
Indices: 7583519--7583581 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
7583509 TTCTCCGACC
*
7583519 TATAAATA-ATTATGTTAATAATTTTA
1 TATAAATATAATATGTT-A-AATTTTA
7583545 TATAAATTATTAATATGTTAAATTTTA
1 TATAAA-TA-TAATATGTTAAATTTTA
7583572 TATAAATATA
1 TATAAATATA
7583582 TAACACATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 2 0.06
26 8 0.24
27 15 0.45
28 1 0.03
29 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TATAAATATAATATGTTAAATTTTA
Found at i:7583592 original size:27 final size:27
Alignment explanation
Indices: 7583538--7583595 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7583528 TTATGTTAAT
* **
7583538 AATTTTATATAAATTATTAATATGTTA
1 AATTTTATATAAATTATTAACACATTA
7583565 AATTTTATATAAA-TATATAACACATTA
1 AATTTTATATAAATTAT-TAACACATTA
7583592 AATT
1 AATT
7583596 CAATCATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTTTATATAAATTATTAACACATTA
Found at i:7584815 original size:67 final size:67
Alignment explanation
Indices: 7584707--7584832 Score: 180
Period size: 67 Copynumber: 1.9 Consensus size: 67
7584697 TTTTTCAATC
*
7584707 AACATCCCGCCACAACACCAACACACTATTCATCTAACATCCCGTCACAACACCGATACATTCGT
1 AACATCCCGCCACAACACCAACACACTATTCATCTAACATCCCGCCACAACACCGATACATTCGT
7584772 TT
66 TT
* * ** * * *
7584774 AACATCCCGCCACAACACCGATACTTTATTCGTTTAACATCCCGCCACAACATCGATAC
1 AACATCCCGCCACAACACCAACACACTATTCATCTAACATCCCGCCACAACACCGATAC
7584833 TTTATTCATA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 51 1.00
ACGTcount: A:0.33, C:0.38, G:0.07, T:0.21
Consensus pattern (67 bp):
AACATCCCGCCACAACACCAACACACTATTCATCTAACATCCCGCCACAACACCGATACATTCGT
TT
Found at i:7584831 original size:35 final size:35
Alignment explanation
Indices: 7584707--7584839 Score: 173
Period size: 35 Copynumber: 3.9 Consensus size: 35
7584697 TTTTTCAATC
* * ** * *
7584707 AACATCCCGCCACAACACCAACACACTATTCATCT
1 AACATCCCGCCACAACACCGATACTTTATTCGTTT
*
7584742 AACATCCCGTCACAACACCGATAC---ATTCGTTT
1 AACATCCCGCCACAACACCGATACTTTATTCGTTT
7584774 AACATCCCGCCACAACACCGATACTTTATTCGTTT
1 AACATCCCGCCACAACACCGATACTTTATTCGTTT
*
7584809 AACATCCCGCCACAACATCGATACTTTATTC
1 AACATCCCGCCACAACACCGATACTTTATTC
7584840 ATAATATATC
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
32 29 0.33
35 59 0.67
ACGTcount: A:0.32, C:0.37, G:0.07, T:0.24
Consensus pattern (35 bp):
AACATCCCGCCACAACACCGATACTTTATTCGTTT
Found at i:7599775 original size:25 final size:25
Alignment explanation
Indices: 7599741--7599788 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7599731 ACTCAGCATC
7599741 TGAGAGAGGTGTTATGGATTTTGTT
1 TGAGAGAGGTGTTATGGATTTTGTT
7599766 TGAGAGAGGTGTTATGGATTTTG
1 TGAGAGAGGTGTTATGGATTTTG
7599789 CGAGAAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (25 bp):
TGAGAGAGGTGTTATGGATTTTGTT
Found at i:7602962 original size:17 final size:18
Alignment explanation
Indices: 7602928--7602963 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7602918 TGAATTTCTA
7602928 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
7602946 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
7602963 T
1 T
7602964 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:7603363 original size:14 final size:14
Alignment explanation
Indices: 7603341--7603372 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7603331 GTTTCCCCTT
*
7603341 TTTTTTTCCTTCCC
1 TTTTCTTCCTTCCC
7603355 TTTTCTTCCTTCCC
1 TTTTCTTCCTTCCC
7603369 TTTT
1 TTTT
7603373 TCGTTTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTCCTTCCC
Done.