Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 104 of 410
Found at i:30678146 original size:43 final size:43
Alignment explanation
Indices: 30678080--30678266 Score: 236
Period size: 43 Copynumber: 4.3 Consensus size: 43
30678070 CGAGATGCGA
*
30678080 TTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGTGT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGT
* *
30678123 TTACATTTAAGACCATGTCTGGGACATTGGCATTGTATTGTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGT
* *
30678166 TTACATGTAAGACGATGTCTGGGACATTGGCATTGTTATATG-AT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT-TGTGT
* * * *
30678210 TT-CGTGTAAGACCATGTCTAGGACATTGGCATCG-ATATGTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTGT
*
30678252 TAACATGTAAGACCA
1 TTACATGTAAGACCA
30678267 ATTTAGGATA
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
41 5 0.04
42 1 0.01
43 112 0.90
44 5 0.04
45 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGT
Found at i:30681042 original size:29 final size:29
Alignment explanation
Indices: 30681003--30681081 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
30680993 CTTAATAATC
*
30681003 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
30681033 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
30681062 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30681082 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:30687191 original size:17 final size:18
Alignment explanation
Indices: 30687154--30687191 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30687144 ACTTTTTTTT
30687154 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
30687173 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
30687190 TT
1 TT
30687192 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:30717580 original size:39 final size:40
Alignment explanation
Indices: 30717481--30717663 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
30717471 GAATGATGTT
* *
30717481 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TC
* *
30717521 CGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTC
* *
30717561 CAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
30717600 CGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
30717640 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
30717664 AACGCGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:30717616 original size:79 final size:81
Alignment explanation
Indices: 30717483--30717663 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
30717473 ATGATGTTCG
*
30717483 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCGTG
*
30717547 CGAGTTACTA-ATTCCA
66 CGAGTTACTATA-ACCA
* * ** *
30717563 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATC-CGAAGGCATTCGT
*
30717625 GCGAGTTACTATAACCG
65 GCGAGTTACTATAACCA
*
30717642 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
30717664 AACGCGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.02
79 57 0.65
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCGTG
CGAGTTACTATAACCA
Found at i:30717685 original size:79 final size:78
Alignment explanation
Indices: 30717513--30717696 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 78
30717503 GTGCTAAGTG
* *
30717513 ACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTCGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGG
**
30717578 CATTTGTGCGAGTT
65 CATTTGAACGAGTT
* * * *
30717592 ACTAAATCCGGGTTAAG-TCTCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGA
1 ACTATATCC-GGTTAAGATC-CGAAGGCATTCGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGA
*
30717655 AGGCATTTGAACGCG-T
62 AGGCATTTGAACGAGTT
30717671 AGCTATATCCGGTTAA-ACTCCGAAGG
1 A-CTATATCCGGTTAAGA-TCCGAAGG
30717697 TACGTGATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
78 4 0.05
79 56 0.64
80 28 0.32
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTCGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGC
ATTTGAACGAGTT
Found at i:30726763 original size:26 final size:26
Alignment explanation
Indices: 30726734--30726786 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
30726724 ATTGCGAGTA
30726734 AAAGATTCAGACATTCCAAAAACTGC
1 AAAGATTCAGACATTCCAAAAACTGC
30726760 AAAGATTCAGACATTCCAAAAACTGC
1 AAAGATTCAGACATTCCAAAAACTGC
30726786 A
1 A
30726787 TTCAAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (26 bp):
AAAGATTCAGACATTCCAAAAACTGC
Found at i:30730104 original size:43 final size:43
Alignment explanation
Indices: 30729960--30730107 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 43
30729950 TGCGATTTCG
* * *
30729960 TGTAAGACAACATCTGGGAC-GTTGGCATCGAT-TTGAGATTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATATTG-GA-TTACA
* * *
30730004 TGTAAGACCATGT-TCGGGACA-TCGGCATC-ATATCT-AATTTCA
1 TGTAAGACCACGTCT-GGGACAGT-GGCATCGATAT-TGGATTACA
30730046 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTGGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTGGATTACA
30730089 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
30730108 TGCTGGAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
42 27 0.32
43 33 0.39
44 23 0.27
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTGGATTACA
Found at i:30733566 original size:29 final size:28
Alignment explanation
Indices: 30733524--30733589 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
30733514 TTTCCATTTA
* * *
30733524 TTTCACAATTTAATCTCTCAATTTACACT
1 TTTCTCAATTTAATCCCT-AATATACACT
*
30733553 TTTCTCAATTTAATCCCTAATATGCACT
1 TTTCTCAATTTAATCCCTAATATACACT
30733581 TTTACTCAA
1 TTT-CTCAA
30733590 AATCACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTCTCAATTTAATCCCTAATATACACT
Found at i:30734568 original size:19 final size:19
Alignment explanation
Indices: 30734544--30734629 Score: 154
Period size: 19 Copynumber: 4.5 Consensus size: 19
30734534 GGACACGGGA
30734544 ACACGCCCGTATGCCTTCG
1 ACACGCCCGTATGCCTTCG
30734563 ACACGCCCGTATGCCTTCG
1 ACACGCCCGTATGCCTTCG
*
30734582 ACACGCCTGTATGCCTTCG
1 ACACGCCCGTATGCCTTCG
*
30734601 ACACGCCTGTATGCCTTCG
1 ACACGCCCGTATGCCTTCG
30734620 ACACGCCCGT
1 ACACGCCCGT
30734630 GTCCTTAGGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.16, C:0.41, G:0.21, T:0.22
Consensus pattern (19 bp):
ACACGCCCGTATGCCTTCG
Found at i:30736298 original size:48 final size:48
Alignment explanation
Indices: 30736241--30736464 Score: 297
Period size: 48 Copynumber: 4.7 Consensus size: 48
30736231 CATGTCTGCC
* * * *
30736241 GATGCCATGTCCCAGACATGGTCTTACTCTAGCACACATATCAAAACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCT
* * * *
30736289 AATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATATCAATG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCT
* * *
30736336 CGATGCCATGTCCCAGACATGGTCTTACACTGCCTTACATATCAACGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCT
* * *
30736385 GATGCCATGTACCAGACATGGTCTTACACTGGCTCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCT
*
30736433 GATGCCATGTCCCAAACATGGTCTTACACTGG
1 GATGCCATGTCCCAGACATGGTCTTACACTGG
30736465 ATCTCATTAA
Statistics
Matches: 153, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
47 1 0.01
48 151 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCT
Found at i:30736404 original size:96 final size:95
Alignment explanation
Indices: 30736237--30736463 Score: 341
Period size: 96 Copynumber: 2.4 Consensus size: 95
30736227 GTCTCATGTC
*
30736237 TGCCGATGCCATGTCCCAGACATGGTCTTACTCTAGCACACATATCAAAACTAATGCCATGTCCT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCACACATATCAAAACTAATGCCATGTCCT
30736302 AAACATGGTCTTACACTGGCTCACATATCAA
65 AAACATGGTCTTACACTGGCTCACATATCAA
* ** *
30736333 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGC-CTTACATATCAACGCTGATGCCATGTAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGCAC--ACATATCAAAACTAATGCCATGT-C
*
30736397 C-AGACATGGTCTTACACTGGCTCACATATCAA
63 CTAAACATGGTCTTACACTGGCTCACATATCAA
*
30736429 TGCCGATGCCATGTCCCAAACATGGTCTTACACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
30736464 GATCTCATTA
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
94 1 0.01
95 2 0.02
96 115 0.96
97 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGCACACATATCAAAACTAATGCCATGTCCTA
AACATGGTCTTACACTGGCTCACATATCAA
Found at i:30740860 original size:47 final size:44
Alignment explanation
Indices: 30740800--30740919 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 44
30740790 GATATATCAG
*
30740800 CTCGTAAGAGCTTACTATTTTCAGCTCATTGGAGCTTACCGTTTCAA
1 CTCGT-AGAGCTTACTATTTTCAGCTCA-TAGAGCTTA-CGTTTCAA
*
30740847 CTCGTATGAGCTTAC--TGTTCAGCTCGATAGAGCTTACGTTTCAA
1 CTCGTA-GAGCTTACTATTTTCAGCTC-ATAGAGCTTACGTTTCAA
* *
30740891 CTCAGTAGAGCTTATTATTCATCAGCTCA
1 CTC-GTAGAGCTTACTATT-TTCAGCTCA
30740920 AAAGGAACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
44 18 0.29
45 20 0.32
46 4 0.06
47 20 0.32
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (44 bp):
CTCGTAGAGCTTACTATTTTCAGCTCATAGAGCTTACGTTTCAA
Found at i:30740872 original size:22 final size:23
Alignment explanation
Indices: 30740771--30740904 Score: 107
Period size: 22 Copynumber: 5.7 Consensus size: 23
30740761 AGACTCACCA
*
30740771 CAGCTGGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACTG-T-T-T
* *
30740797 CAGCTCGTAAGAGCTTACTATTTT
1 CAGCTCGTATGAGCTTACT-GTTT
* *
30740821 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
*
30740844 CAACTCGTATGAGCTTACTG-TT
1 CAGCTCGTATGAGCTTACTGTTT
30740866 CAGCTCG-ATAGAGCTTAC-GTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
*
30740888 CAACTCAGTA-GAGCTTA
1 CAGCTC-GTATGAGCTTA
30740905 TTATTCATCA
Statistics
Matches: 89, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
21 3 0.03
22 30 0.34
23 19 0.21
24 18 0.20
25 1 0.01
26 18 0.20
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:30741968 original size:111 final size:109
Alignment explanation
Indices: 30741763--30741989 Score: 341
Period size: 111 Copynumber: 2.1 Consensus size: 109
30741753 TGTCCCATAC
* *
30741763 CCATGTGGAATTACTAAAATTTATTTTTCATTTCGAACCTACTAGGGTTTTTACACGGCCAAACA
1 CCATGTGAAATTACTAAAATTTATTTTTCATTTCGAACCTACTAGGGTTTTCACACGGCCAAACA
* *
30741828 CACACCCGTGTCCCTAGCCTATGTCCCTCACATGGCCTAGACACA
66 CACACCCGTGTCCCTAGCCTA-GTACCTCACACGGCCTAGACACA
30741873 CTCATGTGAAATTACTAAAATTTATTTTTCATTTCGAACCTAC-AGGGGTTTTCACACGGCCAAA
1 C-CATGTGAAATTACTAAAATTTATTTTTCATTTCGAACCTACTA-GGGTTTTCACACGGCCAAA
* *
30741937 CACACGCCCGTGTCCCTGGCTCGTA-TACCTCACACGGCCTAGACACA
64 CACACACCCGTGTCCCTAGC-C-TAGTACCTCACACGGCCTAGACACA
30741984 CCATGT
1 CCATGT
30741990 CATCGCCCGT
Statistics
Matches: 107, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
110 7 0.07
111 97 0.91
112 1 0.01
113 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (109 bp):
CCATGTGAAATTACTAAAATTTATTTTTCATTTCGAACCTACTAGGGTTTTCACACGGCCAAACA
CACACCCGTGTCCCTAGCCTAGTACCTCACACGGCCTAGACACA
Found at i:30749278 original size:22 final size:23
Alignment explanation
Indices: 30749220--30749278 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
30749210 TGTCCCAAAG
* *
30749220 CACATGGGCGTATGCAATGTCTC
1 CACACGGGCGTGTGCAATGTCTC
* * * *
30749243 GACACGAGCATGTGCCATG-CTC
1 CACACGGGCGTGTGCAATGTCTC
30749265 CACACGGGCGTGTG
1 CACACGGGCGTGTG
30749279 AGACATTAAC
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.20, C:0.29, G:0.31, T:0.20
Consensus pattern (23 bp):
CACACGGGCGTGTGCAATGTCTC
Found at i:30752746 original size:2 final size:2
Alignment explanation
Indices: 30752739--30752766 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30752729 TATTTCAGCC
30752739 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
30752767 CACACATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30753112 original size:66 final size:69
Alignment explanation
Indices: 30752983--30753112 Score: 158
Period size: 66 Copynumber: 1.9 Consensus size: 69
30752973 GAGATGTATC
* * *
30752983 CCATATAGACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATATAGACAAGAGAGCTAC--GAGAGACAAATGTAGCTAGGTCGCATGAGTGATACCAAGTGA
30753048 AGAACA
64 AGAACA
* * * *
30753054 CCATGTAGACAAGAGAGCTAC-A-AGACAAAT-TGGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATATAGACAAGAGAGCTACGAGAGACAAATGTAGCTAGGTCGCATGAGTGATACCAAGTG
30753113 TTCACCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 24 0.46
67 7 0.13
68 1 0.02
71 20 0.38
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.19
Consensus pattern (69 bp):
CCATATAGACAAGAGAGCTACGAGAGACAAATGTAGCTAGGTCGCATGAGTGATACCAAGTGAAG
AACA
Found at i:30759021 original size:15 final size:15
Alignment explanation
Indices: 30759001--30759036 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
30758991 ACGTCAAAAT
30759001 GATTAAGGCACTTAG
1 GATTAAGGCACTTAG
30759016 GATTAAGGCACTTAG
1 GATTAAGGCACTTAG
30759031 GATTAA
1 GATTAA
30759037 CCCACTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (15 bp):
GATTAAGGCACTTAG
Found at i:30759042 original size:15 final size:15
Alignment explanation
Indices: 30759009--30759042 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30758999 ATGATTAAGG
**
30759009 CACTTAGGATTAAGG
1 CACTTAGGATTAACC
30759024 CACTTAGGATTAACC
1 CACTTAGGATTAACC
30759039 CACT
1 CACT
30759043 CATGCCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (15 bp):
CACTTAGGATTAACC
Found at i:30770032 original size:59 final size:59
Alignment explanation
Indices: 30769965--30770088 Score: 239
Period size: 59 Copynumber: 2.1 Consensus size: 59
30769955 ATCATACGGA
30769965 CATAAATCGATCTTTATTAAAGCATTACTCATAAGTTTAGCATACATACCTGTACTCAT
1 CATAAATCGATCTTTATTAAAGCATTACTCATAAGTTTAGCATACATACCTGTACTCAT
30770024 CATAAATCGATCTTTATTAAAGCATTACTCATAAGTTTAGCATACATACCTGTACTCAT
1 CATAAATCGATCTTTATTAAAGCATTACTCATAAGTTTAGCATACATACCTGTACTCAT
*
30770083 CGTAAA
1 CATAAA
30770089 GTATCCATAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (59 bp):
CATAAATCGATCTTTATTAAAGCATTACTCATAAGTTTAGCATACATACCTGTACTCAT
Found at i:30770292 original size:50 final size:51
Alignment explanation
Indices: 30770238--30770336 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 51
30770228 CTACCACATA
30770238 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACGA-CTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
* * * *
30770288 ACATGAATCTCATCTATTATGAACTTGGACCTCTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
30770337 CTCGCATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
49 2 0.05
50 33 0.77
51 8 0.19
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
Found at i:30772934 original size:48 final size:47
Alignment explanation
Indices: 30772863--30773183 Score: 362
Period size: 48 Copynumber: 6.7 Consensus size: 47
30772853 GTAAATTGCA
*
30772863 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTCAA-T-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AAGTGGCC
* *
30772911 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA-GTGGCC
** * * ***
30772959 GATTTCATGTCCCAGACATGGTCTTACACTAGCACACATATCA-ACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA--AGTGGCC
30773007 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA-GTGGCC
* * * ** *
30773055 GATGCCATGTCCCGGACATGGTCTTACACTAGCACACATATCA-ACGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA--AGTGGCC
*
30773103 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA-GTGGCC
*
30773151 AATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
30773184 ACACATTATA
Statistics
Matches: 230, Mismatches: 32, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.01
46 3 0.01
47 1 0.00
48 222 0.97
50 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAGTGGCC
Found at i:30773032 original size:96 final size:96
Alignment explanation
Indices: 30772863--30773198 Score: 521
Period size: 96 Copynumber: 3.5 Consensus size: 96
30772853 GTAAATTGCA
* * * * **
30772863 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
* *
30772928 ATGGTCTTACATTGGCTCTCATAATGTGGCC
66 ATGGTCTTACACTAGCTCTCATAATGTGGCC
**
30772959 GATTTCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
30773024 ATGGTCTTACACTAGCTCTCATAATGTGGCC
66 ATGGTCTTACACTAGCTCTCATAATGTGGCC
* * **
30773055 GATGCCATGTCCCGGACATGGTCTTACACTAGCACACATATCAACGCTAATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
30773120 ATGGTCTTACACTAGCTCTCATAATGTGGCC
66 ATGGTCTTACACTAGCTCTCATAATGTGGCC
*
30773151 AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATTAT-AACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACA-TATCAACACC
30773199 CCTAACCCGT
Statistics
Matches: 219, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
96 216 0.99
97 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATAATGTGGCC
Found at i:30775296 original size:43 final size:43
Alignment explanation
Indices: 30775172--30775301 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
30775162 ATATCGTACA
* * * *
30775172 ATGCCAACGTCCTAGATGTGGTCTAACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAAGTAATCACATATCG
* ** * ** *
30775215 AAGCCATTGTCCCAGACAG-GGTTTTACTCGTAAACACATATCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACAAGTAATCACATATCG
*
30775258 ATGCCAACGTCCCAGACGTCGTCTTACAAGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAAGTAATCACATATCG
30775301 A
1 A
30775302 AAATCCTATG
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
42 1 0.01
43 65 0.97
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACAAGTAATCACATATCG
Found at i:30783870 original size:40 final size:38
Alignment explanation
Indices: 30783826--30784004 Score: 137
Period size: 40 Copynumber: 4.5 Consensus size: 38
30783816 GCTCGATTAT
* *
30783826 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAA-TGC
*
30783866 CTTCGGGA-ATTAGCCCGGATTTAATAACTCGCACGAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCAC-AATGC
* * *
30783906 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCAC-AATGC
* * * * *
30783946 CTTCGGGA-GTTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCAC-AATGC
*
30783987 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
30784005 ACACCATTCG
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 82 0.73
41 27 0.24
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (38 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAATGC
Found at i:30783938 original size:80 final size:81
Alignment explanation
Indices: 30783826--30784004 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 81
30783816 GCTCGATTAT
* * * *
30783826 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAA
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAA
* * *
30783890 TAAC-TCGCACGAATGC
65 TAACTTAGCACAAAAGC
* * * * *
30783906 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAAT
*
30783971 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
30783987 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
30784005 ACACCATTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 56 0.67
81 27 0.33
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAAT
AACTTAGCACAAAAGC
Found at i:30783993 original size:41 final size:39
Alignment explanation
Indices: 30783854--30784005 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
30783844 TTATAGTGAT
* *
30783854 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
30783894 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
30783934 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
30783974 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
30784006 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:30786167 original size:70 final size:71
Alignment explanation
Indices: 30786082--30786244 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
30786072 CGATTTGTCT
30786082 CGTAGCTCTCTTGTCTACATGGTGTCCTTCAC-TGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30786146 CTTTCA
66 CTTTCA
30786152 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30786217 CTTTCA
66 CTTTCA
*
30786223 TGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30786245 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 32 0.35
71 59 0.65
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:30786282 original size:71 final size:70
Alignment explanation
Indices: 30786082--30786278 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
30786072 CGATTTGTCT
* * * *
30786082 CGTAGCTCTCTTGTCTACATGGTGTCCTTCAC-TGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30786146 CTTTCA
65 CTTTCA
* * * *
30786152 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30786217 CTTTCA
65 CTTTCA
* * *
30786223 TGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30786279 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 33 0.28
71 62 0.53
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:30792141 original size:13 final size:13
Alignment explanation
Indices: 30792125--30792152 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30792115 AGCTTTTCTC
30792125 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
30792138 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
30792151 TT
1 TT
30792153 GGTGTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:30792141 original size:18 final size:16
Alignment explanation
Indices: 30792118--30792152 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30792108 CTGTAACAGC
* *
30792118 TTTTCTCTTCTTTTTT
1 TTTTTTCTTTTTTTTT
30792134 TTTTTTCTTTTTTTTT
1 TTTTTTCTTTTTTTTT
30792150 TTT
1 TTT
30792153 GGTGTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTT
Found at i:30792142 original size:16 final size:15
Alignment explanation
Indices: 30792118--30792152 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
30792108 CTGTAACAGC
30792118 TTTTCTCTTCTTTTTT
1 TTTTCTCTT-TTTTTT
*
30792134 TTTTTTCTTTTTTTT
1 TTTTCTCTTTTTTTT
30792149 TTTT
1 TTTT
30792153 GGTGTTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTCTCTTTTTTTT
Found at i:30798245 original size:4 final size:4
Alignment explanation
Indices: 30798236--30798260 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
30798226 GGTTTCAAGG
30798236 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
30798261 CAATTTACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:30802139 original size:25 final size:25
Alignment explanation
Indices: 30802111--30802159 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
30802101 AAGGTAAAGG
30802111 TGAGTCTATGGTGAGTCTCTAAAAT
1 TGAGTCTATGGTGAGTCTCTAAAAT
*
30802136 TGAGTCTATGGTGAGTCTTTAAAA
1 TGAGTCTATGGTGAGTCTCTAAAA
30802160 CTAACTCGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (25 bp):
TGAGTCTATGGTGAGTCTCTAAAAT
Found at i:30806141 original size:40 final size:40
Alignment explanation
Indices: 30806086--30806295 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
30806076 AACATTGGAA
30806086 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
30806126 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
30806166 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
30806206 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
30806245 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
30806286 CTATATCCGG
1 ATATATCCGG
30806296 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:30814278 original size:40 final size:40
Alignment explanation
Indices: 30814223--30814432 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
30814213 AACATTGGAA
30814223 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
30814263 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
30814303 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
30814343 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
30814382 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
30814423 CTATATCCGG
1 ATATATCCGG
30814433 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:30819414 original size:57 final size:58
Alignment explanation
Indices: 30819353--30819461 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
30819343 TCCTGTTTCC
* *
30819353 AACATATGCTCATA-AGAGTTTA-ATCAGGATTACCCGTCCATGCCAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGTTTATATCAGGATTACCAGTCCAGGCCAAATCCTATCTAT
*
30819410 AACATATGCTCAAGAGAGTTTATATCAGGATTACCAGTCCAGGCTAAATCCT
1 AACATATGCTCAAGAGAGTTTATATCAGGATTACCAGTCCAGGCCAAATCCT
30819462 TTCTGTAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
56 1 0.02
57 20 0.43
58 26 0.55
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGTTTATATCAGGATTACCAGTCCAGGCCAAATCCTATCTAT
Found at i:30830661 original size:20 final size:20
Alignment explanation
Indices: 30830625--30830663 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30830615 CTCAATATAC
*
30830625 AAAAATAGATATTGGAGAGT
1 AAAAATAGATATGGGAGAGT
30830645 AAAAATAAGATA-GGGAGAG
1 AAAAAT-AGATATGGGAGAG
30830664 AAGTGAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (20 bp):
AAAAATAGATATGGGAGAGT
Found at i:30835796 original size:20 final size:20
Alignment explanation
Indices: 30835767--30835806 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
30835757 TACATAGTAC
30835767 GTGGAACAGGATTTTGATTA
1 GTGGAACAGGATTTTGATTA
*
30835787 GTGGAGCAGGATTTTGATTA
1 GTGGAACAGGATTTTGATTA
30835807 ACCGCAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (20 bp):
GTGGAACAGGATTTTGATTA
Found at i:30837203 original size:13 final size:13
Alignment explanation
Indices: 30837185--30837209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30837175 CTCGGCAGAG
30837185 ACACGCCCGTGTA
1 ACACGCCCGTGTA
30837198 ACACGCCCGTGT
1 ACACGCCCGTGT
30837210 TCGATTACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:30845287 original size:22 final size:22
Alignment explanation
Indices: 30845262--30845310 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
30845252 TGTTTTCTTT
*
30845262 TTATTTTGTTACCATTTTATTA
1 TTATTTTATTACCATTTTATTA
* * * *
30845284 TTATGTTATTACTATTTTGTTG
1 TTATTTTATTACCATTTTATTA
30845306 TTATT
1 TTATT
30845311 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.65
Consensus pattern (22 bp):
TTATTTTATTACCATTTTATTA
Found at i:30845401 original size:30 final size:30
Alignment explanation
Indices: 30845339--30845401 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
30845329 ATTTATTTTA
*
30845339 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
* *
30845369 TTGTTAATTTTGTTATTATTTTAGATGAAT
1 TTGTTAATTTTGTTATTATTTTAAAGGAAT
30845399 TTG
1 TTG
30845402 CTTGTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGAAT
Found at i:30848017 original size:46 final size:44
Alignment explanation
Indices: 30847958--30848072 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
30847948 ACAGGACAGA
* *
30847958 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
30848004 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
30848048 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
30848073 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:30848053 original size:44 final size:45
Alignment explanation
Indices: 30847958--30848091 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
30847948 ACAGGACAGA
* *
30847958 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
30848004 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
30848048 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
30848092 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:30854159 original size:46 final size:44
Alignment explanation
Indices: 30854100--30854214 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
30854090 ACAGGACAGA
* *
30854100 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
30854146 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
30854190 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
30854215 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:30854195 original size:44 final size:45
Alignment explanation
Indices: 30854100--30854233 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
30854090 ACAGGACAGA
* *
30854100 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
30854146 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
30854190 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
30854234 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:30855598 original size:46 final size:47
Alignment explanation
Indices: 30855470--30855728 Score: 189
Period size: 46 Copynumber: 5.5 Consensus size: 47
30855460 GGCGTTACAC
* *
30855470 CATGTCCCAGACATGGTCTTACACTGACTCT-CAT-ATATCTGTGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACATCATA--T-AGCCGATG
*
30855519 CCATGTCCCAGACATGGTCTTACACTGAC--ACATCATATAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCATATAGCCGATG
** *
30855565 CATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TCGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCATATA-GCCGATG
* ** * * *
30855611 CATGTCCTAGACAT-GTCTTACACCAGC-TATCGTCTTA-ATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCATATA-GCCGATG
* * * * * *
30855657 CCATGTCCTAGACATGGTCTTACGCTAGCTCT-CATAATGTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACATCATATAGCCGATG
30855705 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
30855729 AGCACACAAA
Statistics
Matches: 174, Mismatches: 23, Indels: 28
0.77 0.10 0.12
Matches are distributed among these distances:
44 12 0.07
45 18 0.10
46 60 0.34
47 29 0.17
48 23 0.13
49 3 0.02
50 29 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCATATAGCCGATG
Found at i:30858399 original size:79 final size:80
Alignment explanation
Indices: 30858223--30858419 Score: 294
Period size: 79 Copynumber: 2.5 Consensus size: 80
30858213 TTGAATGATG
* * *
30858223 TCCGGGCTAAGTCCCGAAGG-ATCTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCAAT
30858287 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
*
30858303 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACT-AGATCCGAAGGCAT
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAA
30858365 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACTAAA
*
30858382 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA
30858420 TAACCGGGCT
Statistics
Matches: 107, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
78 1 0.01
79 63 0.59
80 35 0.33
81 8 0.07
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (80 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGTTACTAAA
Found at i:30858447 original size:40 final size:40
Alignment explanation
Indices: 30858223--30858419 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
30858213 TTGAATGATG
* * *
30858223 TCCGGGCTAAG-TCCCGAAGG-ATCTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
30858263 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
30858303 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
30858343 TCCGGACT-AGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
30858382 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
30858420 TAACCGGGCT
Statistics
Matches: 146, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
39 36 0.25
40 103 0.71
41 7 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30858461 original size:40 final size:40
Alignment explanation
Indices: 30858355--30858466 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
30858345 CGGACTAGAT
** *
30858355 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
30858395 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
30858435 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
30858467 TTAAACTCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 59 0.94
41 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:30858466 original size:119 final size:119
Alignment explanation
Indices: 30858236--30858454 Score: 277
Period size: 119 Copynumber: 1.8 Consensus size: 119
30858226 GGGCTAAGTC
*
30858236 CCGAAGGATCTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGATCTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGAGCTACTA
**
30858301 AATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAGAT
66 AATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAGAT
* * *
30858355 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTA
1 CCGAAGG-ATCTGTGCTAAGTTACTAAATCC-GGACTAAGAT-CCGAAGGCAATTGTGCGAGCTA
* * *
30858417 CTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
63 CTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
30858455 AGCTATATCC
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
118 2 0.02
119 72 0.84
120 12 0.14
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (119 bp):
CCGAAGGATCTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGAGCTACTA
AATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAATCCGGACTAGAT
Found at i:30861408 original size:2 final size:2
Alignment explanation
Indices: 30861358--30861389 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30861348 TTAGCACGAC
30861358 AT AT AT 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
30861390 TAACTGCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30861684 original size:30 final size:30
Alignment explanation
Indices: 30861628--30861685 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30861618 TAATACATTT
* **
30861628 AATATAACAGCTAAACTATGTTTCAAAAAA
1 AATATAACAACTAAACTATGAATCAAAAAA
*
30861658 AATATAACAACTAAATTATGAATCAAAA
1 AATATAACAACTAAACTATGAATCAAAA
30861686 TTGTGGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (30 bp):
AATATAACAACTAAACTATGAATCAAAAAA
Found at i:30864370 original size:29 final size:28
Alignment explanation
Indices: 30864320--30864376 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
30864310 AATCTTTATA
30864320 AAAATATTTAAATAAATATTAAATATTTT
1 AAAATATTTAAATAAATATT-AATATTTT
*
30864349 AAAATATTTAAATAAGA-GTTAATATTTT
1 AAAATATTTAAATAA-ATATTAATATTTT
30864377 TGAAAGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.31
29 17 0.65
30 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
AAAATATTTAAATAAATATTAATATTTT
Found at i:30865365 original size:19 final size:17
Alignment explanation
Indices: 30865337--30865397 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 17
30865327 AAAACTCTTT
*
30865337 AAAATTTTTAAAAAATA
1 AAAATATTTAAAAAATA
* *
30865354 AAAATAACTTTAAATGATTA
1 AAAAT-A-TTTAAA-AAATA
30865374 AAAATATTTGAAAAATATA
1 AAAATATTT-AAAAA-ATA
30865393 AAAAT
1 AAAAT
30865398 TCGAAGAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 5 0.15
18 4 0.12
19 17 0.50
20 8 0.24
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATATTTAAAAAATA
Found at i:30867923 original size:19 final size:15
Alignment explanation
Indices: 30867886--30867915 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30867876 GTCACTATGG
30867886 ATTTTTTTAATATAA
1 ATTTTTTTAATATAA
30867901 ATTTATTTTAATATA
1 ATTT-TTTTAATATA
30867916 GTATATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTTTTAATATAA
Found at i:30874409 original size:3 final size:3
Alignment explanation
Indices: 30874401--30874444 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
30874391 TCTAGAAATT
30874401 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30874445 AAAAATAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30875868 original size:18 final size:17
Alignment explanation
Indices: 30875829--30875880 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
30875819 TGATTGAATT
30875829 GTTGAATTGAAAGAGAA
1 GTTGAATTGAAAGAGAA
* * *
30875846 TTTGAGATTTAAAGTGAA
1 GTTGA-ATTGAAAGAGAA
*
30875864 GTTGAATTGAATGAGAA
1 GTTGAATTGAAAGAGAA
30875881 ATATGTGTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (17 bp):
GTTGAATTGAAAGAGAA
Found at i:30878811 original size:6 final size:6
Alignment explanation
Indices: 30878797--30878844 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
30878787 TGATGGCCGA
* * * * *
30878797 ATATGT ATATCT ATATAT CTATCT ATCTAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
30878845 CAACTATACT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:30878815 original size:8 final size:8
Alignment explanation
Indices: 30878802--30878844 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
30878792 GCCGAATATG
30878802 TATATCTA
1 TATATCTA
30878810 TATATCTA
1 TATATCTA
*
30878818 TCTATCTA
1 TATATCTA
*
30878826 TATATATA
1 TATATCTA
*
30878834 TATATATA
1 TATATCTA
30878842 TAT
1 TAT
30878845 CAACTATACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATCTA
Found at i:30878831 original size:4 final size:4
Alignment explanation
Indices: 30878797--30878844 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
30878787 TGATGGCCGA
* * * * *
30878797 ATAT GTAT ATCT ATAT ATCT ATCT ATCT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
30878845 CAACTATACT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:30892930 original size:22 final size:23
Alignment explanation
Indices: 30892902--30892944 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
30892892 TATCCCCACA
*
30892902 TGGAGTGTAG-GGCTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
30892924 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
30892945 GTAGGACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.02, G:0.53, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:30894362 original size:28 final size:28
Alignment explanation
Indices: 30894316--30894384 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
30894306 TTTAAAACCC
*
30894316 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30894343 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30894371 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
30894385 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:30895089 original size:54 final size:54
Alignment explanation
Indices: 30895022--30895172 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
30895012 TACCCTACAA
* *
30895022 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
30895076 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
30895130 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
30895173 CTGTAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:30895110 original size:81 final size:81
Alignment explanation
Indices: 30895019--30895179 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
30895009 TTCTACCCTA
* * *
30895019 CAAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
*
30895084 TGGTAATTTTGTAAAC
66 TGGTAATTCTGTAAAC
* * * * * *
30895100 CAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
30895165 TGGTAATTCTGTAAA
66 TGGTAATTCTGTAAA
30895180 TTGAAGGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
TGGTAATTCTGTAAAC
Found at i:30895179 original size:27 final size:27
Alignment explanation
Indices: 30895019--30895172 Score: 209
Period size: 27 Copynumber: 5.7 Consensus size: 27
30895009 TTCTACCCTA
*
30895019 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
30895046 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
30895073 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
30895100 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
30895127 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
30895154 CAAGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
30895173 CTGTAAATTG
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:30895198 original size:81 final size:81
Alignment explanation
Indices: 30895030--30895199 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
30895020 AAGGGTATTT
* * *
30895030 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
***
30895095 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
30895111 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
30895176 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
30895192 CGGTAATT
1 CGGTAATT
30895200 CTGTAAACTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 69 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:30895293 original size:27 final size:27
Alignment explanation
Indices: 30895167--30895307 Score: 169
Period size: 27 Copynumber: 5.2 Consensus size: 27
30895157 GGGTATTTTG
* * *
30895167 GTAATTCTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
30895194 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
30895221 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
30895248 GTAATTCTGTAAA-CTGAGGGGAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
30895275 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
30895302 GTAATT
1 GTAATT
30895308 TTACAAGTCG
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.01
27 96 0.97
28 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:30895306 original size:81 final size:81
Alignment explanation
Indices: 30895167--30895321 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
30895157 GGGTATTTTG
* * * * * *
30895167 GTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAACTGAAGGGAAAACAGTAATTCTGTAAACTGAGGATAAAACAGTAATTCTACA
30895232 AATCGAGGGTAAAATA
66 AATCGAGGGTAAAATA
* * *
30895248 GTAATTCTGTAAACTGAGGGGAAAACAGTAATTCTGTAAA-TCGAGGATAAAATAGTAATTTTAC
1 GTAATTCTGTAAACTGAAGGGAAAACAGTAATTCTGTAAACT-GAGGATAAAACAGTAATTCTAC
*
30895312 AAGTCGAGGG
65 AAATCGAGGG
30895322 CATTTCAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.02
81 62 0.98
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAACTGAAGGGAAAACAGTAATTCTGTAAACTGAGGATAAAACAGTAATTCTACA
AATCGAGGGTAAAATA
Found at i:30895321 original size:54 final size:53
Alignment explanation
Indices: 30895167--30895307 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
30895157 GGGTATTTTG
* ** * *
30895167 GTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACG
1 GTAATTCTGTAAATCG-AGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAACA
*
30895221 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAACA
1 GTAATTCTGTAAATCGA-GGTAAAATAGTAATTCTGTAAACTGAGGGGAAAACA
30895275 GTAATTCTGTAAATCGAGGATAAAATAGTAATT
1 GTAATTCTGTAAATCGAGG-TAAAATAGTAATT
30895308 TTACAAGTCG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 3 0.04
54 75 0.96
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (53 bp):
GTAATTCTGTAAATCGAGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAACA
Found at i:30897105 original size:13 final size:13
Alignment explanation
Indices: 30897087--30897119 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
30897077 TATGAGAAAG
30897087 TGAAATTATGAAT
1 TGAAATTATGAAT
30897100 TGAAA-TATGAAT
1 TGAAATTATGAAT
30897112 TGAAATTA
1 TGAAATTA
30897120 AGATATCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (13 bp):
TGAAATTATGAAT
Found at i:30897141 original size:26 final size:25
Alignment explanation
Indices: 30897084--30897142 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
30897074 AAGTATGAGA
* * *
30897084 AAGTGAAATTATGAATTGAAATATG
1 AAGTGAAATTAAGAATCGAAATAAG
*
30897109 AATTGAAATTAAGATATCGAAATAAG
1 AAGTGAAATTAAGA-ATCGAAATAAG
30897135 AAGTGAAA
1 AAGTGAAA
30897143 ATAGGATGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.27
Consensus pattern (25 bp):
AAGTGAAATTAAGAATCGAAATAAG
Found at i:30898838 original size:11 final size:11
Alignment explanation
Indices: 30898822--30898847 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30898812 TATTTATAGT
30898822 TAACCATTTTA
1 TAACCATTTTA
30898833 TAACCATTTTA
1 TAACCATTTTA
30898844 TAAC
1 TAAC
30898848 ACAAGTAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (11 bp):
TAACCATTTTA
Found at i:30911812 original size:25 final size:25
Alignment explanation
Indices: 30911759--30911848 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
30911749 GACACACCAC
* *
30911759 AGCTCTTATGAGCTTCCCGA-TACTC
1 AGCTCGTATGAGCTTCCC-ATTACTT
*
30911784 AGCTCGTATGAGCTTCCCATTATTT
1 AGCTCGTATGAGCTTCCCATTACTT
* * *
30911809 AGCTCGCATGAGCTTTCCATTAGTT
1 AGCTCGTATGAGCTTCCCATTACTT
* * *
30911834 ATCTCGGAAGAGCTT
1 AGCTCGTATGAGCTT
30911849 ACTATTTACA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 54 0.98
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
AGCTCGTATGAGCTTCCCATTACTT
Found at i:30913684 original size:50 final size:50
Alignment explanation
Indices: 30913604--30913705 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
30913594 GTTAATTAGG
* *
30913604 TATGATTTCTTGTCCTGTTTTTAGTAATTTTTATATTTTTGAGATTGGGA
1 TATGATTTCTTGTCCCGTTTTTAGTAATTTTTATATTTTTGAGATCGGGA
*
30913654 TATGTTTTCTTGTCCCGTTTTTAGTAATTTTTATATTTTTGAGATCGGGA
1 TATGATTTCTTGTCCCGTTTTTAGTAATTTTTATATTTTTGAGATCGGGA
30913704 TA
1 TA
30913706 GTTAAATCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.20, C:0.08, G:0.18, T:0.55
Consensus pattern (50 bp):
TATGATTTCTTGTCCCGTTTTTAGTAATTTTTATATTTTTGAGATCGGGA
Found at i:30914650 original size:24 final size:24
Alignment explanation
Indices: 30914623--30914674 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
30914613 CTATCCGGAG
* *
30914623 CTTCTCGATATGGTTTTTTGTGAA
1 CTTCTCGATAAGGTTATTTGTGAA
30914647 CTTCTCGATAAGGTTATTTGTGAA
1 CTTCTCGATAAGGTTATTTGTGAA
30914671 CTTC
1 CTTC
30914675 CTGATTATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (24 bp):
CTTCTCGATAAGGTTATTTGTGAA
Found at i:30914744 original size:23 final size:24
Alignment explanation
Indices: 30914718--30914773 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
30914708 AGCCTGGATA
* *
30914718 AGCTTCCCGATA-GGCTCTTTATG
1 AGCTTCCCGAAATGGCTCTATATG
*
30914741 AGCTTCCCGAAATGGCTCTATGTG
1 AGCTTCCCGAAATGGCTCTATATG
30914765 AGCTTCCCG
1 AGCTTCCCG
30914774 TTTTATGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCTTCCCGAAATGGCTCTATATG
Found at i:30916941 original size:27 final size:27
Alignment explanation
Indices: 30916911--30916968 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
30916901 ATTACCAAAG
*
30916911 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACTATTT
** *
30916938 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTATTT
30916965 TACC
1 TACC
30916969 TTCGATTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACTATTT
Found at i:30916975 original size:27 final size:26
Alignment explanation
Indices: 30916919--30917001 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 26
30916909 AGTACCCTCA
* *
30916919 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTGTTTTA-CCTTG
30916946 ATTTACAGAATTACTGTTTTACCTTCG
1 ATTTACAGAATTACTGTTTTACCTT-G
*
30916973 ATTGT-GA-AATTACTGTTTTACCCTTG
1 ATT-TACAGAATTACTGTTTTA-CCTTG
30916999 ATT
1 ATT
30917002 GTGAAATTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
26 21 0.42
27 28 0.56
28 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.47
Consensus pattern (26 bp):
ATTTACAGAATTACTGTTTTACCTTG
Found at i:30916983 original size:26 final size:26
Alignment explanation
Indices: 30916927--30917013 Score: 115
Period size: 26 Copynumber: 3.3 Consensus size: 26
30916917 CAATTTATAG
* *
30916927 AATTACTATTTTACCCTTGATT-TACA
1 AATTACTGTTTTACCCTTGATTGT-GA
30916953 GAATTACTGTTTTA-CCTTCGATTGTGA
1 -AATTACTGTTTTACCCTT-GATTGTGA
30916980 AATTACTGTTTTACCCTTGATTGTGA
1 AATTACTGTTTTACCCTTGATTGTGA
30917006 AATTACTG
1 AATTACTG
30917014 AAATACCCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
26 33 0.60
27 21 0.38
28 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (26 bp):
AATTACTGTTTTACCCTTGATTGTGA
Found at i:30917020 original size:26 final size:26
Alignment explanation
Indices: 30916967--30917160 Score: 104
Period size: 27 Copynumber: 7.2 Consensus size: 26
30916957 TACTGTTTTA
* ***
30916967 CCTTCGATTGTGAAATTACTGTTTTAC
1 CCTT-GATTGTGAAATTACCGAAATAC
*
30916994 CCTTGATTGTGAAATTACTGAAATAC
1 CCTTGATTGTGAAATTACCGAAATAC
* * *
30917020 CCTT-ATAGGGTAGAATTACCAAAATACC
1 CCTTGATTGTG-A-AATTACCGAAATA-C
* * * *
30917048 CCTAGTTTGTAAAATTACCAAAATAC
1 CCTTGATTGTGAAATTACCGAAATAC
* *
30917074 CACTGGTTTGTGAAATTACCGAAATAC
1 C-CTTGATTGTGAAATTACCGAAATAC
** * *
30917101 CCTCAATTTGTAAAATTACCAAAATAC
1 CCTTGA-TTGTGAAATTACCGAAATAC
* * * *
30917128 CCCTAATT-TACAAAATTACAGAAATAC
1 CCTTGATTGT--GAAATTACCGAAATAC
30917155 CCTTGA
1 CCTTGA
30917161 CTTTCTAAAA
Statistics
Matches: 133, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
25 5 0.04
26 30 0.23
27 91 0.68
28 5 0.04
29 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
CCTTGATTGTGAAATTACCGAAATAC
Found at i:30917072 original size:54 final size:52
Alignment explanation
Indices: 30917000--30917129 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 52
30916990 TTACCCTTGA
* ** *
30917000 TTGTGAAATTACTGAAATACCCT-TATAGGGTAGAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCTGT-TAGGG-A-AATTACCAAAATACCCTC-AAT
* * *
30917054 TTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACC-CT-GTTAGGGAAATTACCAAAATACCCTCAAT
30917108 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
30917130 CTAATTTACA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
53 1 0.02
54 56 0.86
55 4 0.06
56 3 0.05
57 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (52 bp):
TTGTAAAATTACCAAAATACCCTGTTAGGGAAATTACCAAAATACCCTCAAT
Found at i:30917098 original size:81 final size:81
Alignment explanation
Indices: 30917000--30917155 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
30916990 TTACCCTTGA
* * * * **
30917000 TTGTGAAATTACTGAAATACCCT-TATAGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAATT
1 TTGTGAAATTACCGAAATACCCTCAAT-GGGTAAAATTACCAAAATACCCCTAATTTACAAAATT
30917064 ACCA-AAATACCACTGGT
65 A-CAGAAATACCACTGGT
**
30917081 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
1 TTGTGAAATTACCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
30917146 CAGAAATACC
66 CAGAAATACC
30917156 CTTGACTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.94
82 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
CAGAAATACCACTGGT
Found at i:30917135 original size:27 final size:27
Alignment explanation
Indices: 30917033--30917156 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
30917023 TATAGGGTAG
*
30917033 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* ** *
30917060 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
30917087 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
30917114 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
30917141 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
30917157 TTGACTTTCT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.06
27 74 0.89
28 4 0.05
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:30917144 original size:54 final size:55
Alignment explanation
Indices: 30917033--30917213 Score: 163
Period size: 54 Copynumber: 3.3 Consensus size: 55
30917023 TATAGGGTAG
* * ** ***
30917033 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAATTTACAA
*
30917087 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAATTTACAA
* * * * * **
30917141 AATTACAGAAATACCCT-TGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTCT-AATTTGT-AAAATTACCA-AAATACCACTAATTTACAA
*
30917197 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
30917214 TGGTTTGTAG
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
54 60 0.57
55 7 0.07
56 38 0.36
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAATTTACAA
Found at i:30917207 original size:27 final size:27
Alignment explanation
Indices: 30917134--30917219 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
30917124 ATACCCCTAA
* *
30917134 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
30917162 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
30917190 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
30917217 TTT
1 TTT
30917220 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:30918223 original size:24 final size:25
Alignment explanation
Indices: 30918147--30918216 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
30918137 AGGAAGTGCT
* *
30918147 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
30918172 AAAAGGGCTTGGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
30918197 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
30918217 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:30918517 original size:30 final size:31
Alignment explanation
Indices: 30918435--30918517 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
30918425 CGCTTATAGT
*
30918435 AAAGGCTTCGG-CCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
30918465 AAAAGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
30918496 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
30918518 TTGAGACTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 14 0.30
31 33 0.70
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:30923725 original size:56 final size:56
Alignment explanation
Indices: 30923661--30923963 Score: 444
Period size: 56 Copynumber: 5.4 Consensus size: 56
30923651 TCCCAAACAG
* * *
30923661 GGTCTTACTCGTAAACACATATCAAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
* * * *
30923717 GGTTTTACTCGCACACACATATCAGAATCACATATTGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
* ** * *
30923773 GGTCTTACTCTCACACACATATCTGAATCACATATTGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
* *
30923829 TGTCTTACTTGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
* ** *
30923885 GGTCTTACTCACACACACATATTGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
30923941 GGTCTTACTCGCACACACATATC
1 GGTCTTACTCGCACACACATATC
30923964 GATGCCAACG
Statistics
Matches: 220, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 220 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:30923837 original size:112 final size:111
Alignment explanation
Indices: 30923661--30924084 Score: 543
Period size: 112 Copynumber: 3.9 Consensus size: 111
30923651 TCCCAAACAG
* * * *
30923661 GGTCTTACTCGT-AAACACATATCAAAATCACATATCGATGCCAACGTATTAAATGTGGTTTTAC
1 GGTCTTACTC-TCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
*
30923725 TCGCACACACATATCAGAATCACATATTGATGCCAACATATTAAACGT
65 TCGCACACACATATCA-AATCACATATTGATGCCAACGTATTAAACGT
* * * *
30923773 GGTCTTACTCTCACACACATATCTGAATCACATATTGATGCCAATGTATTAAACGTTGTCTTACT
1 GGTCTTACTCTCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACT
* *
30923838 TGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAACGT
66 CGCACACACATATC-AAATCACATATTGATGCCAACGTATTAAACGT
* * *
30923885 GGTCTTACTCACACACACATAT-TGAAATCACATATCGATGCCAACGTATTAAATGTGGTCTTAC
1 GGTCTTACTCTCACACACATATCAG-AATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
*
30923949 TCGCACACAC--AT---AT--C-----GATGCCAACGTATTAAATGT
65 TCGCACACACATATCAAATCACATATTGATGCCAACGTATTAAACGT
* *
30923984 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAATGTATTAAACGTGGTCTTACT
1 GGTCTTACTCTCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACT
*
30924049 CACACACACATATCTAAATCACATATTGATGCCAAC
66 CGCACACACATATC-AAATCACATATTGATGCCAAC
30924085 TAAAAAATGT
Statistics
Matches: 272, Mismatches: 23, Indels: 34
0.83 0.07 0.10
Matches are distributed among these distances:
99 86 0.32
100 1 0.00
101 2 0.01
104 1 0.00
105 2 0.01
106 2 0.01
107 1 0.00
110 2 0.01
111 3 0.01
112 171 0.63
113 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (111 bp):
GGTCTTACTCTCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACT
CGCACACACATATCAAATCACATATTGATGCCAACGTATTAAACGT
Found at i:30923961 original size:43 final size:43
Alignment explanation
Indices: 30923913--30924006 Score: 188
Period size: 43 Copynumber: 2.2 Consensus size: 43
30923903 ATATTGAAAT
30923913 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACA
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACA
30923956 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACA
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACA
30923999 CACATATC
1 CACATATC
30924007 AGAATCACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACA
Found at i:30923973 original size:99 final size:99
Alignment explanation
Indices: 30923857--30924062 Score: 342
Period size: 99 Copynumber: 2.1 Consensus size: 99
30923847 ATATCAAAAT
*
30923857 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATAT-TGAAATCACATATC
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCAG-AATCACATATC
* *
30923921 GATGCCAACGTATTAAATGTGGTCTTACTCGCACA
65 GATGCCAACGTATTAAACGTGGTCTTACTCACACA
* *
30923956 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACACATATCAGAATCACATATCG
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCAGAATCACATATCG
*
30924021 ATGCCAATGTATTAAACGTGGTCTTACTCACACA
66 ATGCCAACGTATTAAACGTGGTCTTACTCACACA
30924055 CACATATC
1 CACATATC
30924063 TAAATCACAT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
99 99 0.99
100 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (99 bp):
CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCAGAATCACATATCG
ATGCCAACGTATTAAACGTGGTCTTACTCACACA
Found at i:30923998 original size:155 final size:155
Alignment explanation
Indices: 30923801--30924084 Score: 480
Period size: 155 Copynumber: 1.8 Consensus size: 155
30923791 ATATCTGAAT
* * * *
30923801 CACATATTGATGCCAATGTATTAAACGTTGTCTTACTTGCACACACATATCAAAATCACATATCG
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAAAATCACATATCG
30923866 ATGCCAACGTATTAAACGTGGTCTTACTCACACACACATAT-TGAAATCACATATCGATGCCAAC
66 ATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCT-AAATCACATATCGATGCCAAC
30923930 GTATTAAATGTGGTCTTACTCGCACA
130 GTATTAAATGTGGTCTTACTCGCACA
* *
30923956 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACACATATCAGAATCACATATCG
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAAAATCACATATCG
* *
30924021 ATGCCAATGTATTAAACGTGGTCTTACTCACACACACATATCTAAATCACATATTGATGCCAAC
66 ATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCTAAATCACATATCGATGCCAAC
30924085 TAAAAAATGT
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
155 119 0.99
156 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (155 bp):
CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAAAATCACATATCG
ATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCTAAATCACATATCGATGCCAACG
TATTAAATGTGGTCTTACTCGCACA
Found at i:30924016 original size:56 final size:56
Alignment explanation
Indices: 30923956--30924084 Score: 206
Period size: 56 Copynumber: 2.3 Consensus size: 56
30923946 TACTCGCACA
* *
30923956 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACACATATC-AGAAT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCTA-AAT
*
30924012 CACATATCGATGCCAATGTATTAAACGTGGTCTTACTCACACACACATATCTAAAT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCTAAAT
*
30924068 CACATATTGATGCCAAC
1 CACATATCGATGCCAAC
30924085 TAAAAAATGT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
56 66 0.99
57 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (56 bp):
CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCTAAAT
Found at i:30926012 original size:40 final size:40
Alignment explanation
Indices: 30925955--30926175 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
30925945 TCGAATGATG
* * *
30925955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
30925995 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
30926033 TCCGGGCTAAG--CCGAAGGCATTTGTGC-AGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30926070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30926110 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30926151 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30926176 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 8, Indels: 16
0.87 0.04 0.08
Matches are distributed among these distances:
36 16 0.10
37 18 0.11
38 11 0.07
39 22 0.13
40 95 0.58
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30926207 original size:79 final size:79
Alignment explanation
Indices: 30925955--30926208 Score: 242
Period size: 80 Copynumber: 3.3 Consensus size: 79
30925945 TCGAATGATG
* * * * *
30925955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAACTCCCGAAGGCATTTGTGC--AGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
30926018 TGTG--CGAGTTACT-AA
63 T-TGAACGAGTTACTAAA
* * *
30926033 TCCGGGCTAA--GCCGAAGGCATTTGTGCAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGTTAACTCCCGAAGGCATTTGTGCAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
**
30926096 TGCGAGTTACTAAA
66 AACGAGTTACTAAA
* *
30926110 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAACTCCCGAAGGCATTTGTGC-AGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
30926174 TGAACGAG-TAGCTATA
64 TGAACGAGTTA-CTAAA
30926190 TCC-GGTTAAACT-CCGAAGG
1 TCCGGGTT-AACTCCCGAAGG
30926209 TACGTGATTC
Statistics
Matches: 152, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
74 3 0.02
75 28 0.18
76 17 0.11
77 18 0.12
78 10 0.07
79 29 0.19
80 45 0.30
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAACTCCCGAAGGCATTTGTGCAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
AACGAGTTACTAAA
Found at i:30934180 original size:40 final size:39
Alignment explanation
Indices: 30934123--30934306 Score: 232
Period size: 40 Copynumber: 4.7 Consensus size: 39
30934113 TCGAATGATG
* *
30934123 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
30934163 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
30934201 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
30934241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
30934281 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30934307 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
38 10 0.08
39 42 0.33
40 75 0.59
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:30934271 original size:79 final size:80
Alignment explanation
Indices: 30934123--30934306 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 80
30934113 TCGAATGATG
*
30934123 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
30934187 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
30934201 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
30934263 TTTGTGCGAGTTACTATA
64 -TTGTGCGAGTTACTATA
* *
30934281 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30934307 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
77 1 0.01
78 35 0.38
79 42 0.45
80 15 0.16
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGTTACTATA
Found at i:30934328 original size:79 final size:78
Alignment explanation
Indices: 30934124--30934339 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 78
30934114 CGAATGATGT
* *
30934124 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
30934187 GTGCGAGTTACTAATT
63 GTGCGAGTTACTAATA
*
30934203 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCA-T
30934265 TGTGCGAGTTACT-ATAA
62 TGTGCGAGTTACTAAT-A
* **
30934282 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA-ACTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGA-TCCGAAGG
30934340 TACGTGATTC
Statistics
Matches: 118, Mismatches: 8, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
77 1 0.01
78 33 0.28
79 58 0.49
80 26 0.22
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTGTG
CGAGTTACTAATA
Found at i:30939583 original size:28 final size:29
Alignment explanation
Indices: 30939552--30939872 Score: 356
Period size: 28 Copynumber: 11.3 Consensus size: 29
30939542 GTGAGCATGA
*
30939552 ATAT-AATGT-AATTTGGGCCGGATGGGCC
1 ATATAAATGTGAA-TTGGGCCTGATGGGCC
* *
30939580 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* *
30939608 ATATGAATGTGAATTGGGCCTGACGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* * *
30939637 ATATGAACGTGAAATGGG-CTGGATGGGCC
1 ATATAAATGTGAATTGGGCCT-GATGGGCC
*
30939666 ATATAAATGAG-ATTGGGCCTGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
*
30939694 ATATAAATGAG-ATTGGGCCTGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
30939722 ATA-AAATGTGAATTGGGCCTGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* * *
30939750 ATATGAACGTGAATTGGGCCGGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* * *
30939779 ATATAAATGAG-TTTGGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* *
30939807 GTATGAATGTGAATTGGGCCTGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* *
30939836 ATAT-GACGTGAATTGGGCC-GAATGGGCC
1 ATATAAATGTGAATTGGGCCTG-ATGGGCC
*
30939864 ATATTAATG
1 ATATAAATG
30939873 AGATTGTGCG
Statistics
Matches: 249, Mismatches: 34, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
27 7 0.03
28 139 0.56
29 103 0.41
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
ATATAAATGTGAATTGGGCCTGATGGGCC
Found at i:30939681 original size:57 final size:58
Alignment explanation
Indices: 30939564--30939867 Score: 349
Period size: 57 Copynumber: 5.3 Consensus size: 58
30939554 ATAATGTAAT
* * * * *
30939564 TTGGGCCGGATGGGCCATAT-AA-ATGAGATTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATATGAACGTGA-ATTGGGCCTGATGGGCCATATAAATGAGAA
* *
30939621 TTGGGCCTGACGGGCCATATGAACGTGAAATGGG-CTGGATGGGCCATATAAATGAG-A
1 TTGGGCCTGATGGGCCATATGAACGTGAATTGGGCCT-GATGGGCCATATAAATGAGAA
* *
30939678 TTGGGCCTGATGGGCCATAT-AA-ATGAGATTGGGCCTGATGGGCCATA-AAATGTGAA
1 TTGGGCCTGATGGGCCATATGAACGTGA-ATTGGGCCTGATGGGCCATATAAATGAGAA
* *
30939734 TTGGGCCTGATGGGCCATATGAACGTGAATTGGGCCGGATGGGCCATATAAATGAG-T
1 TTGGGCCTGATGGGCCATATGAACGTGAATTGGGCCTGATGGGCCATATAAATGAGAA
* * * * * *
30939791 TTGGGCCTAATGGGCCGTATGAATGTGAATTGGGCCTGATGGGCCATAT-GACGTGAA
1 TTGGGCCTGATGGGCCATATGAACGTGAATTGGGCCTGATGGGCCATATAAATGAGAA
30939848 TTGGGCC-GAATGGGCCATAT
1 TTGGGCCTG-ATGGGCCATAT
30939868 TAATGAGATT
Statistics
Matches: 211, Mismatches: 25, Indels: 22
0.82 0.10 0.09
Matches are distributed among these distances:
55 9 0.04
56 42 0.20
57 125 0.59
58 32 0.15
59 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.24
Consensus pattern (58 bp):
TTGGGCCTGATGGGCCATATGAACGTGAATTGGGCCTGATGGGCCATATAAATGAGAA
Found at i:30939747 original size:142 final size:141
Alignment explanation
Indices: 30939564--30939896 Score: 397
Period size: 142 Copynumber: 2.3 Consensus size: 141
30939554 ATAATGTAAT
* *
30939564 TTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCT
1 TTGGGCC-GATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAACGTGAATTGGGCCG
* *
30939629 GACGGGCCATATGAACGTGA-AATGGG-CTGGATGGGCCATATAAATGAG-ATTGGGCCTGATGG
65 GACGGGCCATAT-AA-ATGAGAATGGGCCT-AATGGGCCATATAAATGAGAATTGGGCCTGATGG
30939691 GCCATAT-AAATGAGA
127 GCCATATGAAATGA-A
* *
30939706 TTGGGCCTGATGGGCCATA-AAATGTGAATTGGGCCTGATGGGCCATATGAACGTGAATTGGGCC
1 TTGGGCC-GATGGGCCATATAAATGAG-ATTGGGCCTAATGGGCCATATGAACGTGAATTGGGCC
* ** * * *
30939770 GGATGGGCCATATAAATGAGTTTGGGCCTAATGGGCCGTATGAATGTGAATTGGGCCTGATGGGC
64 GGACGGGCCATATAAATGAGAATGGGCCTAATGGGCCATATAAATGAGAATTGGGCCTGATGGGC
**
30939835 CATATGACGTGAA
129 CATATGAAATGAA
* * * *
30939848 TTGGGCCGAATGGGCCATATTAATGAGATTGTGCGTAGTGGGCCATATG
1 TTGGGCCG-ATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATG
30939897 TATGTATGTA
Statistics
Matches: 163, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
140 3 0.02
141 28 0.17
142 123 0.75
143 9 0.06
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (141 bp):
TTGGGCCGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAACGTGAATTGGGCCGG
ACGGGCCATATAAATGAGAATGGGCCTAATGGGCCATATAAATGAGAATTGGGCCTGATGGGCCA
TATGAAATGAA
Found at i:30948809 original size:99 final size:99
Alignment explanation
Indices: 30948638--30948822 Score: 257
Period size: 99 Copynumber: 1.9 Consensus size: 99
30948628 ATGATCTATT
* ** *
30948638 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACTTGATCACGTGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCAAAACTTGATCACATGTGT
30948703 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
66 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* * * * *
30948737 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC-AGACTGTTGGTCGCATGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCAAAAC--TTGATCACATGT
30948800 GTAGTACTAAGTGCAGGCTACTA
64 GTAGTACTAAGTGCAGGCTACTA
30948823 TGCGTACCAG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
97 3 0.04
98 2 0.03
99 70 0.93
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (99 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCAAAACTTGATCACATGTGT
AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:30948832 original size:49 final size:49
Alignment explanation
Indices: 30948642--30948833 Score: 201
Period size: 49 Copynumber: 3.9 Consensus size: 49
30948632 TCTATTGTGA
* * *
30948642 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAC--TT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC-AGACTGTT
* * * ** *
30948691 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* **
30948741 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
30948790 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
30948834 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
49 74 0.62
50 42 0.35
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:30950319 original size:8 final size:8
Alignment explanation
Indices: 30950302--30950344 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
30950292 GTAGATCGGC
30950302 AAAAGCCG
1 AAAAGCCG
*
30950310 AAATGCCG
1 AAAAGCCG
*
30950318 AAAAGCTG
1 AAAAGCCG
*
30950326 AAATGCCG
1 AAAAGCCG
30950334 AAAAGCCG
1 AAAAGCCG
30950342 AAA
1 AAA
30950345 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.49, C:0.21, G:0.23, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:30950323 original size:16 final size:16
Alignment explanation
Indices: 30950302--30950344 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
30950292 GTAGATCGGC
30950302 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
30950318 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
30950334 AAAAGCCGAAA
1 AAAAGCCGAAA
30950345 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.21, G:0.23, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:30950646 original size:29 final size:29
Alignment explanation
Indices: 30950555--30950679 Score: 155
Period size: 29 Copynumber: 4.4 Consensus size: 29
30950545 GCATGATTAT
* * *
30950555 AATGTGATTTGGGCCGGATGGGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATG
* *
30950584 AATG-GGATTGGGCCTAAT-GGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
* **
30950611 AATGTGAATTGGGCCTGATGTGTGATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
*
30950640 AACGTGAATTGGGCCTGATGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
30950669 AATGTGAATTG
1 AATGTGAATTG
30950680 CATTGCATGT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 12 0.15
28 22 0.28
29 45 0.57
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.29
Consensus pattern (29 bp):
AATGTGAATTGGGCCTGATGGGCCATATG
Found at i:30952608 original size:26 final size:25
Alignment explanation
Indices: 30952579--30952653 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 25
30952569 CTTTCGAGCC
* *
30952579 ATGATCGGTAAACTCATCTTGAGCTG
1 ATGAACGGTAAACTC-TATTGAGCTG
*
30952605 ATGAACGGTAAGCTCTATTGAGCTG
1 ATGAACGGTAAACTCTATTGAGCTG
* * *
30952630 A--AATGGTAAGCTCTATCGAGCTG
1 ATGAACGGTAAACTCTATTGAGCTG
30952653 A
1 A
30952654 ACAGTAAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
23 21 0.48
25 10 0.23
26 13 0.30
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (25 bp):
ATGAACGGTAAACTCTATTGAGCTG
Found at i:30952641 original size:23 final size:23
Alignment explanation
Indices: 30952597--30952664 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 23
30952587 TAAACTCATC
30952597 TTGAGCTGATGAACGGTAAGCTCTA
1 TTGAGCTGA--AACGGTAAGCTCTA
*
30952622 TTGAGCTGAAATGGTAAGCTCTA
1 TTGAGCTGAAACGGTAAGCTCTA
* *
30952645 TCGAGCTG-AACAGTAAGCTC
1 TTGAGCTGAAACGGTAAGCTC
30952665 ATATGAGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
22 10 0.26
23 20 0.51
25 9 0.23
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (23 bp):
TTGAGCTGAAACGGTAAGCTCTA
Found at i:30952721 original size:24 final size:24
Alignment explanation
Indices: 30952656--30952722 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
30952646 CGAGCTGAAC
*
30952656 AGTAAGCTCATATGAG-TTAAAAT
1 AGTAAGCTCATATGAGCTAAAAAT
* *
30952679 AGCAAGCTCCA-ATGTGCTAAAAAT
1 AGTAAGCT-CATATGAGCTAAAAAT
*
30952703 AGTAAGCTCTTATGAGCTAA
1 AGTAAGCTCATATGAGCTAA
30952723 TATATTGGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 12 0.34
24 23 0.66
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (24 bp):
AGTAAGCTCATATGAGCTAAAAAT
Found at i:30962895 original size:44 final size:44
Alignment explanation
Indices: 30962847--30962933 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
30962837 AAGAAAAATA
*
30962847 AATGGCTAAAGTAATAAAAATTGAGCGTTGCTAATATTTCAGTC
1 AATGGCTAAAGTAATAAAAATTGAGCGTTCCTAATATTTCAGTC
30962891 AATGGCTAAAGTAATAAAAATTGAGCGTTCCTAATATTTCAGT
1 AATGGCTAAAGTAATAAAAATTGAGCGTTCCTAATATTTCAGT
30962934 TCCCCAGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.32
Consensus pattern (44 bp):
AATGGCTAAAGTAATAAAAATTGAGCGTTCCTAATATTTCAGTC
Found at i:30965993 original size:25 final size:25
Alignment explanation
Indices: 30965928--30965986 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
30965918 ACTGCTCTTT
*
30965928 TGAGCTTCCCGATACTCAGCTCACA
1 TGAGCTTCCCGATATTCAGCTCACA
* * *
30965953 TAAGCTTCCCGTTATTCAGCTCGCA
1 TGAGCTTCCCGATATTCAGCTCACA
30965978 TGAGCTTCC
1 TGAGCTTCC
30965987 TGCTATTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.29
Consensus pattern (25 bp):
TGAGCTTCCCGATATTCAGCTCACA
Found at i:30965998 original size:25 final size:25
Alignment explanation
Indices: 30965930--30965998 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
30965920 TGCTCTTTTG
* *
30965930 AGCTTCCCGATACTCAGCTCACATA
1 AGCTTCCCGCTATTCAGCTCACATA
* * *
30965955 AGCTTCCCGTTATTCAGCTCGCATG
1 AGCTTCCCGCTATTCAGCTCACATA
* *
30965980 AGCTTCCTGCTATTTAGCT
1 AGCTTCCCGCTATTCAGCT
30965999 TGGAAGAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGCTATTCAGCTCACATA
Found at i:30974121 original size:16 final size:16
Alignment explanation
Indices: 30974096--30974143 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
30974086 TGAGCAATTT
*
30974096 AATAGATAAAATAAAA
1 AATATATAAAATAAAA
* **
30974112 AATATTTAAAATTCAA
1 AATATATAAAATAAAA
*
30974128 AATATATAAACTAAAA
1 AATATATAAAATAAAA
30974144 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
AATATATAAAATAAAA
Found at i:30981879 original size:74 final size:74
Alignment explanation
Indices: 30981758--30981907 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 74
30981748 ACAATGGCTT
* * *
30981758 CCAACTCTAGGTCATGTGTCGGATAGTTCTTTTCATGAGGCTTTAACTGTCTCGAGGAATAAGCT
1 CCAACTCTAGGTCATGTGGCAGATAGTTCTTTTCATGAGGCTTTAACTGTCTCAAGGAATAAGCT
30981823 ATCACTTTG
66 ATCACTTTG
* *
30981832 CCAACTCTAGGTCGTGTGGCAGATAGTTCTTTTCATGAGGCTTTAACTGTCTCAAGGACTAAGCT
1 CCAACTCTAGGTCATGTGGCAGATAGTTCTTTTCATGAGGCTTTAACTGTCTCAAGGAATAAGCT
30981897 ATCACTTTG
66 ATCACTTTG
30981906 CC
1 CC
30981908 TTCTTGCATC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (74 bp):
CCAACTCTAGGTCATGTGGCAGATAGTTCTTTTCATGAGGCTTTAACTGTCTCAAGGAATAAGCT
ATCACTTTG
Found at i:30992949 original size:21 final size:21
Alignment explanation
Indices: 30992925--30992977 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
30992915 GATAATTACT
30992925 TTATTTTCTTTAAATT-AAGAA
1 TTATTTT-TTTAAATTCAAGAA
* *
30992946 TTATTTTTTTAACTTCATGAA
1 TTATTTTTTTAAATTCAAGAA
*
30992967 TTATTTATTTA
1 TTATTTTTTTA
30992978 TTTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (21 bp):
TTATTTTTTTAAATTCAAGAA
Found at i:30994074 original size:49 final size:49
Alignment explanation
Indices: 30994002--30994099 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
30993992 TTTGTGTGGG
30994002 TAACTTGATCCTTAAATAGCTCAGTGTAAAATTAAAATGGTTTTACATA
1 TAACTTGATCCTTAAATAGCTCAGTGTAAAATTAAAATGGTTTTACATA
30994051 TAACTTGATCCTTAAATAGCTCAGTGTAAAATTAAAATGGTTTTACATA
1 TAACTTGATCCTTAAATAGCTCAGTGTAAAATTAAAATGGTTTTACATA
30994100 CTTGCATAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (49 bp):
TAACTTGATCCTTAAATAGCTCAGTGTAAAATTAAAATGGTTTTACATA
Found at i:30998064 original size:2 final size:2
Alignment explanation
Indices: 30998057--30998088 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30998047 TGAGTTTGGC
30998057 AT AT AT 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
30998089 GTCATTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31004716 original size:40 final size:39
Alignment explanation
Indices: 31004650--31004800 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
31004640 AAATTGAATG
* * *
31004650 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
31004689 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
31004729 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
31004769 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
31004801 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Done.