Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 23 of 141
Found at i:7467785 original size:23 final size:23
Alignment explanation
Indices: 7467755--7467800 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7467745 TTTGCAACAG
7467755 TGTGTTGAGTGGTCCTTGGTTAA
1 TGTGTTGAGTGGTCCTTGGTTAA
7467778 TGTGTTGAGTGGTCCTTGGTTAA
1 TGTGTTGAGTGGTCCTTGGTTAA
7467801 CTCTTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.09, G:0.35, T:0.43
Consensus pattern (23 bp):
TGTGTTGAGTGGTCCTTGGTTAA
Found at i:7468016 original size:43 final size:42
Alignment explanation
Indices: 7467955--7468105 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 42
7467945 TGCCAAAGGT
* * * *
7467955 CATGACTTTTAGCGGCGCTTTTCCCACAAATGTCACTAAAGAC
1 CATGACCTTTAGCGGCGCTTTT-CCACAAACGACGCTAAAGAC
* * *
7467998 CATGACCTTTAACGGCGCTTTTCTAAAAGACGACGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCCACAA-ACGACGCTAAAGAC
* * * * *
7468041 CGTGACCTTTAGCGGCGTTTTTTCCACAAACGCCGCAAAATAC
1 CATGACCTTTAGCGGCG-CTTTTCCACAAACGACGCTAAAGAC
**
7468084 CATGACCTTTAGCAACGCTTTT
1 CATGACCTTTAGCGGCGCTTTT
7468106 TTGAAAAAAC
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 8 0.09
43 71 0.82
44 8 0.09
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (42 bp):
CATGACCTTTAGCGGCGCTTTTCCACAAACGACGCTAAAGAC
Found at i:7473801 original size:9 final size:9
Alignment explanation
Indices: 7473784--7474315 Score: 258
Period size: 9 Copynumber: 59.8 Consensus size: 9
7473774 TATGTATTAA
*
7473784 GTAAATTAT
1 GTAAGTTAT
7473793 GTAAGTTAT
1 GTAAGTTAT
*
7473802 GTACGTGTA-
1 GTAAGT-TAT
7473811 -TAAGTTAT
1 GTAAGTTAT
7473819 GTAAGTTAT
1 GTAAGTTAT
*
7473828 GT-A-TTAA
1 GTAAGTTAT
*
7473835 GTAAGCTAT
1 GTAAGTTAT
7473844 GTAAGTTAT
1 GTAAGTTAT
7473853 GT-A-TTAT
1 GTAAGTTAT
7473860 GTAAGTTAT
1 GTAAGTTAT
7473869 GTAAGTTAT
1 GTAAGTTAT
**
7473878 CAAAG-TATT
1 GTAAGTTA-T
*
7473887 GTATGTTAT
1 GTAAGTTAT
7473896 GTAAG-T-T
1 GTAAGTTAT
7473903 GTAAGTTAT
1 GTAAGTTAT
*
7473912 -TATGTATTAT
1 GTAAG--TTAT
**
7473922 GTTGGTTAT
1 GTAAGTTAT
*
7473931 GTAAGTTGT
1 GTAAGTTAT
*
7473940 GTAAGATAT
1 GTAAGTTAT
*
7473949 TTAAGTTAT
1 GTAAGTTAT
*
7473958 GTAAGGTAT
1 GTAAGTTAT
*
7473967 TTAA-TTAAT
1 GTAAGTT-AT
7473976 GTAAGTTAT
1 GTAAGTTAT
7473985 GTAAGTTAT
1 GTAAGTTAT
* * *
7473994 ATAATTTTT
1 GTAAGTTAT
**
7474003 GTAAGCAAT
1 GTAAGTTAT
* * *
7474012 -TTAG-AAA
1 GTAAGTTAT
** *
7474019 AAAATTTAT
1 GTAAGTTAT
7474028 GTAAGTTAT
1 GTAAGTTAT
7474037 GTACTAAGTTAT
1 G---TAAGTTAT
7474049 GT-A-TTAT
1 GTAAGTTAT
**
7474056 GTAAACTAT
1 GTAAGTTAT
7474065 GTACTAAGTTAT
1 G---TAAGTTAT
7474077 GT-A-TTAT
1 GTAAGTTAT
*
7474084 GTAA-ATATT
1 GTAAGTTA-T
* *
7474093 TTAAGTAAT
1 GTAAGTTAT
*
7474102 GTATGTTAT
1 GTAAGTTAT
*
7474111 GTAAG-TAA
1 GTAAGTTAT
*
7474119 GT-TGTTAT
1 GTAAGTTAT
*
7474127 GTAAGTTTT
1 GTAAGTTAT
*
7474136 G-CA-TTAT
1 GTAAGTTAT
7474143 GTAAGTTAT
1 GTAAGTTAT
7474152 GTAAGTTAT
1 GTAAGTTAT
** *
7474161 CAAAGTAAT
1 GTAAGTTAT
*
7474170 GTATGTTAT
1 GTAAGTTAT
7474179 GTAAGTTGTTAT
1 GTAA---GTTAT
7474191 GTAAGTTGTTAT
1 GTAA---GTTAT
*
7474203 GTAAGTTTT
1 GTAAGTTAT
*
7474212 G-CA-TTAT
1 GTAAGTTAT
7474219 GTAAGTTAT
1 GTAAGTTAT
*
7474228 GTCAGTTAT
1 GTAAGTTAT
7474237 GTAAGTTAT
1 GTAAGTTAT
7474246 GTAAGTTAAAT
1 GTAAGTT--AT
7474257 GT-A-TTAT
1 GTAAGTTAT
7474264 G-AAGGTTAT
1 GTAA-GTTAT
*
7474273 GTAAGTTGT
1 GTAAGTTAT
7474282 GTAAGTTAT
1 GTAAGTTAT
7474291 GTAAGTTAAAT
1 GTAAGTT--AT
7474302 GT-A-TTAT
1 GTAAGTTAT
7474309 GTAAGTT
1 GTAAGTT
7474316 TATATAAAAA
Statistics
Matches: 394, Mismatches: 81, Indels: 96
0.69 0.14 0.17
Matches are distributed among these distances:
7 50 0.13
8 39 0.10
9 243 0.62
10 15 0.04
11 10 0.03
12 37 0.09
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:7473804 original size:25 final size:25
Alignment explanation
Indices: 7473773--7473877 Score: 142
Period size: 25 Copynumber: 4.2 Consensus size: 25
7473763 TGATATATAT
*
7473773 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
7473798 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
7473824 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
7473849 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
7473874 TTAT
1 TTAT
7473878 CAAAGTATTG
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 46 0.65
26 19 0.27
27 2 0.03
28 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:7474065 original size:28 final size:28
Alignment explanation
Indices: 7474024--7474088 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
7474014 AGAAAAAAAT
**
7474024 TTATGTAAGTTATGTACTAAGTTATGTA
1 TTATGTAAACTATGTACTAAGTTATGTA
7474052 TTATGTAAACTATGTACTAAGTTATGTA
1 TTATGTAAACTATGTACTAAGTTATGTA
7474080 TTATGTAAA
1 TTATGTAAA
7474089 TATTTTAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (28 bp):
TTATGTAAACTATGTACTAAGTTATGTA
Found at i:7474132 original size:12 final size:12
Alignment explanation
Indices: 7474115--7474209 Score: 79
Period size: 12 Copynumber: 7.6 Consensus size: 12
7474105 TGTTATGTAA
7474115 GTAAGTTGTTAT
1 GTAAGTTGTTAT
7474127 GTAAGTTTTGCATTAT
1 GTAAG--TTG--TTAT
7474143 GTAA---GTTAT
1 GTAAGTTGTTAT
* * *
7474152 GTAAGTTATCAAA
1 GTAAGTTGT-TAT
7474165 GTAATGTATGTTAT
1 GTAA-GT-TGTTAT
7474179 GTAAGTTGTTAT
1 GTAAGTTGTTAT
7474191 GTAAGTTGTTAT
1 GTAAGTTGTTAT
7474203 GTAAGTT
1 GTAAGTT
7474210 TTGCATTATG
Statistics
Matches: 67, Mismatches: 6, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
9 8 0.12
11 1 0.01
12 31 0.46
13 7 0.10
14 10 0.15
15 2 0.03
16 8 0.12
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.46
Consensus pattern (12 bp):
GTAAGTTGTTAT
Found at i:7474349 original size:38 final size:39
Alignment explanation
Indices: 7474300--7474392 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 39
7474290 TGTAAGTTAA
*
7474300 ATGTATTATGTAAGTTTATATAAAAAAA-TATATAAGTT
1 ATGTATTATGTAAGTTTATATAAAAAAATTATAAAAGTT
* *
7474338 ATGTATCATGTAAGTTTATATAAAAAAATTTTAAAAGTT
1 ATGTATTATGTAAGTTTATATAAAAAAATTATAAAAGTT
7474377 ATGTATTATGTAAGTT
1 ATGTATTATGTAAGTT
7474393 AAAAGTAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 27 0.54
39 23 0.46
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (39 bp):
ATGTATTATGTAAGTTTATATAAAAAAATTATAAAAGTT
Found at i:7474394 original size:23 final size:23
Alignment explanation
Indices: 7474368--7474415 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
7474358 TAAAAAAATT
*
7474368 TTAAAAGTTATGTATTATGTAAG
1 TTAAAAGTAATGTATTATGTAAG
7474391 TTAAAAGTAATGTATTATGTAAG
1 TTAAAAGTAATGTATTATGTAAG
7474414 TT
1 TT
7474416 TACATATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.44
Consensus pattern (23 bp):
TTAAAAGTAATGTATTATGTAAG
Found at i:7474464 original size:13 final size:13
Alignment explanation
Indices: 7474446--7474497 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
7474436 TAAATTTTAG
*
7474446 TAAGTAATGTATT
1 TAAGTAATATATT
*
7474459 TAAGTAACATATT
1 TAAGTAATATATT
* *
7474472 CAAGTAATAAATT
1 TAAGTAATATATT
7474485 TAA-TATATATATT
1 TAAGTA-ATATATT
7474498 AGTAATAAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
12 2 0.06
13 29 0.94
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:7475899 original size:21 final size:21
Alignment explanation
Indices: 7475875--7475915 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7475865 TAACAAATGC
7475875 AAAGGCAAACAACAGTCTACT
1 AAAGGCAAACAACAGTCTACT
7475896 AAAGGCAAACAACAGTCTAC
1 AAAGGCAAACAACAGTCTAC
7475916 CAGTTCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.12
Consensus pattern (21 bp):
AAAGGCAAACAACAGTCTACT
Found at i:7476815 original size:146 final size:147
Alignment explanation
Indices: 7476570--7476913 Score: 372
Period size: 146 Copynumber: 2.3 Consensus size: 147
7476560 AATTTAACCA
* * * *
7476570 TTTGCGGCATTTGAA-TATAAGCGCCACTAACTATAAGTCAAAACGCAGTCGTTTCATCAAGAAA
1 TTTGCGGCATTTTAAGCA-AAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACAAA
* * * * * * * *
7476634 TAGCTCAAACCTGTGGCGTTTTTGAATAAACGCCACTAA-AA-ATACAACCAAACGGCATCGCAT
65 TACCTCAAACCCGCGGCATTTTCGAAAAAACGCCACTAATAACAT-CAACAAAACGGCAGCGCAT
* *
7476697 CAATCAATGTTAAAACATT
129 CAATAAATGTTAAAACAAT
* **
7476716 TTTGCGGCGTTTTAAGCAAAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACACTT
1 TTTGCGGCATTTTAAGCAAAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACAAAT
* ** * ** *
7476781 ACCTCAAACCCGCGGCATTTTCGAAAAAATGCCACTAATAACATTTACAAAATGGCAGCGTTTCT
66 ACCTCAAACCCGCGGCATTTTCGAAAAAACGCCACTAATAACATCAACAAAACGGCAGCGCATCA
* *
7476846 GTAAATGTTAGAACAAT
131 ATAAATGTTAAAACAAT
* * *
7476863 TTTGCGGCATTTTAAGTAAAGTGCCACTAACTATAAGTTC-AAACGAAGTCG
1 TTTGCGGCATTTTAAGCAAAGCGCCACTAACTATAAG-TCAAAACGCAGTCG
7476914 TTTCCCCAAC
Statistics
Matches: 164, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
146 87 0.53
147 73 0.45
148 4 0.02
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (147 bp):
TTTGCGGCATTTTAAGCAAAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACAAAT
ACCTCAAACCCGCGGCATTTTCGAAAAAACGCCACTAATAACATCAACAAAACGGCAGCGCATCA
ATAAATGTTAAAACAAT
Found at i:7476978 original size:147 final size:147
Alignment explanation
Indices: 7476570--7476979 Score: 337
Period size: 147 Copynumber: 2.8 Consensus size: 147
7476560 AATTTAACCA
* * * * * * **
7476570 TTTGCGGCATTTGAA-TATAAGCGCCACTAACTATAAGTCAAAACGCAGTCGTTTCATCAAGAAA
1 TTTGCGGCATTTTAAGCA-AAGCGCCACTAACTATAAGTCAAAACGAAGTCGCTTCACCAACACT
* * * * ** * * * * * **
7476634 TAGCTCAAACCTGTGGCGTTTTTGAATAAACGCCACTAA-AA-ATACAACCAAACGGCATCGCAT
65 TAACTCAAACCCGCGGCATTTCCGAAAAAACGCCACTAATAACATA-GACAAAATGGCAGCGTTT
** * *
7476697 CAATCAATGTTAAAACATT
129 CTGTAAATGTTAAAACAAT
* * *
7476716 TTTGCGGCGTTTTAAGCAAAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACACTT
1 TTTGCGGCATTTTAAGCAAAGCGCCACTAACTATAAGTCAAAACGAAGTCGCTTCACCAACACTT
* * * **
7476781 ACCTCAAACCCGCGGCATTTTCGAAAAAATGCCACTAATAACATTTACAAAATGGCAGCGTTTCT
66 AACTCAAACCCGCGGCATTTCCGAAAAAACGCCACTAATAACATAGACAAAATGGCAGCGTTTCT
*
7476846 GTAAATGTTAGAACAAT
131 GTAAATGTTAAAACAAT
* * * *
7476863 TTTGCGGCATTTTAAGTAAAGTGCCACTAACTATAAGTTC-AAACGAAGTCGTTTCCCCAACAGC
1 TTTGCGGCATTTTAAGCAAAGCGCCACTAACTATAAG-TCAAAACGAAGTCGCTTCACCAACA-C
* ** * * *
7476927 -TAACTCAAGCTTGTGGCGTTTCC-AGAAAAACGCCACTAATACCATAGACAAAA
64 TTAACTCAAACCCGCGGCATTTCCGA-AAAAACGCCACTAATAACATAGACAAAA
7476980 CGACAACATT
Statistics
Matches: 214, Mismatches: 44, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
146 88 0.41
147 121 0.57
148 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (147 bp):
TTTGCGGCATTTTAAGCAAAGCGCCACTAACTATAAGTCAAAACGAAGTCGCTTCACCAACACTT
AACTCAAACCCGCGGCATTTCCGAAAAAACGCCACTAATAACATAGACAAAATGGCAGCGTTTCT
GTAAATGTTAAAACAAT
Found at i:7478437 original size:68 final size:70
Alignment explanation
Indices: 7478314--7478442 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 70
7478304 CCCCTAACTA
* *
7478314 CTAATCCCTAAACCTTATTTAATATATAAATTAAAAAATATTAATTAATCAAAACCCTAAACCCG
1 CTAATCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCAAAACCCTAAACCCG
7478379 AATCC
66 AATCC
* * *
7478384 CTAA-CCCTTAAACCTTATTTCATA-A-AAATTAAAACACACTAATTAATCTAAACCCTAAA
1 CTAATCCC-TAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCAAAACCCTAAA
7478443 GCCTAACCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
68 30 0.57
69 4 0.08
70 19 0.36
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.29
Consensus pattern (70 bp):
CTAATCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCAAAACCCTAAACCCG
AATCC
Found at i:7479715 original size:38 final size:38
Alignment explanation
Indices: 7479671--7479747 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
7479661 ATCCAACCCA
*
7479671 ACCCAATTACAAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACAAACCCAATAAAAATAAAACTAAAGTCT
*
7479709 ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACAAACCCAATAAAAATAAAACTAAAGTCT
7479747 A
1 A
7479748 ACTCTAAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (38 bp):
ACCCAATTACAAACCCAATAAAAATAAAACTAAAGTCT
Found at i:7479900 original size:17 final size:17
Alignment explanation
Indices: 7479880--7479942 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
7479870 TAATTTCAAG
7479880 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
7479897 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
7479915 AGACTTATGTAATGTTTTT
1 A-A-TTATGTAATGTTTTT
7479934 AATTATGTA
1 AATTATGTA
7479943 GTGATTTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 18 0.51
18 4 0.11
19 4 0.11
20 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:7479901 original size:37 final size:37
Alignment explanation
Indices: 7479860--7479944 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
7479850 CTTACATTTC
7479860 AATTATGT-GTTAATTTC-AAGAATTATGTAATGTTTTT
1 AATTATGTAG-TAA-TTCAAAGAATTATGTAATGTTTTT
* *
7479897 AATTATGTAGTGATTCAAAGACTTATGTAATGTTTTT
1 AATTATGTAGTAATTCAAAGAATTATGTAATGTTTTT
7479934 AATTATGTAGT
1 AATTATGTAGT
7479945 GATTTAATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 3 0.07
37 40 0.91
38 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
AATTATGTAGTAATTCAAAGAATTATGTAATGTTTTT
Found at i:7479945 original size:37 final size:37
Alignment explanation
Indices: 7479877--7479948 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
7479867 TGTTAATTTC
7479877 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
*
7479914 AAGACTTATGTAATGTTTTTAATTATGTAGTGATT
1 AAGAATTATGTAATGTTTTTAATTATGTAGTGATT
7479949 TAATTCGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (37 bp):
AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:7484948 original size:21 final size:21
Alignment explanation
Indices: 7484922--7484974 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
7484912 AGCGGTGACG
* * *
7484922 GTGAGATTAGTTATTGTAGTA
1 GTGAGATTAGATACTGTAGCA
* *
7484943 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
7484964 GTGAGATTAGA
1 GTGAGATTAGA
7484975 AACATATGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:7485122 original size:28 final size:28
Alignment explanation
Indices: 7485090--7485175 Score: 111
Period size: 34 Copynumber: 2.9 Consensus size: 28
7485080 GTTTTTTAAA
7485090 TTAATTTAGGTTAGATTAGGGTTTTTAG
1 TTAATTTAGGTTAGATTAGGGTTTTTAG
7485118 TTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAG
1 TTAATTTAGGTTA--G--A--TTAGGGTTTTTAG
7485152 TTAATTTAGGTTAGATTA-GGTTTT
1 TTAATTTAGGTTAGATTAGGGTTTT
7485176 ATTTATTATA
Statistics
Matches: 52, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
27 6 0.12
28 16 0.31
30 2 0.04
32 2 0.04
34 26 0.50
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (28 bp):
TTAATTTAGGTTAGATTAGGGTTTTTAG
Found at i:7485137 original size:34 final size:34
Alignment explanation
Indices: 7485098--7485165 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
7485088 AATTAATTTA
7485098 GGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAG
1 GGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAG
*
7485132 GGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTAG
1 GGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAG
7485166 ATTAGGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (34 bp):
GGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAG
Found at i:7486733 original size:3 final size:3
Alignment explanation
Indices: 7486727--7486764 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7486717 GTCTTGTGTT
7486727 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
7486765 GGGCCAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7486902 original size:3 final size:3
Alignment explanation
Indices: 7486896--7486936 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7486886 TTCATCATTA
7486896 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
7486937 CTGCATGTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:7493777 original size:33 final size:32
Alignment explanation
Indices: 7493715--7493777 Score: 74
Period size: 33 Copynumber: 1.9 Consensus size: 32
7493705 ATATAATATC
* * *
7493715 TAAAATTATTTATAATTTTTTTAATTCATAAA
1 TAAAATTATTTATAATTATTTAAACTCATAAA
7493747 TAAAATATATTT-TAATATATTTAAACTCATA
1 TAAAAT-TATTTATAAT-TATTTAAACTCATA
7493778 TCCTCTCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 10 0.38
33 16 0.62
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
TAAAATTATTTATAATTATTTAAACTCATAAA
Found at i:7502089 original size:42 final size:42
Alignment explanation
Indices: 7501992--7502120 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 42
7501982 AGCTCGTACA
* * * *
7501992 ATGCCAACGTCCCTGGCATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAA-CACATATCG
* *
7502035 ATGTC-ACTGTCCCAGACAGGGTATTACACGTAACACA-AGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAACACATA-TCG
*
7502077 ATGCCAACGTCCCAGAC-GTGGTCTTACACGATAACATATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACG-TAACACATATCG
7502120 A
1 A
7502121 AAATCCTATA
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.03
42 32 0.45
43 36 0.51
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAACACATATCG
Found at i:7505291 original size:29 final size:30
Alignment explanation
Indices: 7505230--7505292 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
7505220 TTTCTTTTCC
*
7505230 TTTTCTTTTCATTTTTAGATTAGATTATGT
1 TTTTCTTTTCATTTTTAGATTAGATTATAT
* *
7505260 TTTTTTTTTC-TTTTTCA-ATTAGATTTTAT
1 TTTTCTTTTCATTTTT-AGATTAGATTATAT
7505289 TTTT
1 TTTT
7505293 GTTGTTTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.70
Consensus pattern (30 bp):
TTTTCTTTTCATTTTTAGATTAGATTATAT
Found at i:7513065 original size:6 final size:6
Alignment explanation
Indices: 7513056--7513106 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
7513046 TATCTGTTCT
* * * *
7513056 TCACCA TCACCA TCACCG TCACCA TCACCA TCACCA TGAGCA TCATCA
1 TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA
7513104 TCA
1 TCA
7513107 AGTAATGGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.31, C:0.43, G:0.06, T:0.20
Consensus pattern (6 bp):
TCACCA
Found at i:7514822 original size:16 final size:16
Alignment explanation
Indices: 7514784--7514830 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
7514774 ATTTAATCAC
*
7514784 ATAAAAAT-TGAAATT
1 ATAAAAATATAAAATT
*
7514799 -TTAAAATATAAAATT
1 ATAAAAATATAAAATT
7514814 ATAAAAATATAAAATT
1 ATAAAAATATAAAATT
7514830 A
1 A
7514831 CCCTAGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
ATAAAAATATAAAATT
Found at i:7518018 original size:24 final size:24
Alignment explanation
Indices: 7517972--7518019 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7517962 GTTAACTGTA
* *
7517972 GAGAATCTTTGACTATTTTATATT
1 GAGAATCTTTAACTATTTGATATT
* *
7517996 GAGAATCTTTAATTCTTTGATATT
1 GAGAATCTTTAACTATTTGATATT
7518020 ATTAAATAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.50
Consensus pattern (24 bp):
GAGAATCTTTAACTATTTGATATT
Found at i:7528253 original size:18 final size:17
Alignment explanation
Indices: 7528226--7528261 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
7528216 AGTTAAAAAC
7528226 TAACACTGATATAATTA
1 TAACACTGATATAATTA
7528243 TAACGACTGATATAATTA
1 TAAC-ACTGATATAATTA
7528261 T
1 T
7528262 TGGTGGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (17 bp):
TAACACTGATATAATTA
Found at i:7531490 original size:2 final size:2
Alignment explanation
Indices: 7531485--7531526 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
7531475 TTGTCGGTAG
* *
7531485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7531527 CCTTGAATCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7531850 original size:4 final size:4
Alignment explanation
Indices: 7531841--7531871 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
7531831 CTGTCCAAAA
7531841 AATT AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AAT
7531872 CAAAACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7532639 original size:2 final size:2
Alignment explanation
Indices: 7532632--7532662 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7532622 AATTATAATT
*
7532632 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7532663 TCAAAGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7533034 original size:86 final size:86
Alignment explanation
Indices: 7532889--7533060 Score: 283
Period size: 86 Copynumber: 2.0 Consensus size: 86
7532879 TGGAAAAATC
7532889 GAGCAACAGAGTAAGCAAGATCTTCAGCTGTTCTAAATGGGTCTGCACCACCCCAACTCTTAAAC
1 GAGCAACAGAGTAAGCAAGATCTTCAGCTGTTCTAAATGGGTCTGCACCACCCCAACTCTTAAAC
* *
7532954 CTAAAGTTAAATAAAATAAAA
66 CTAAAATCAAATAAAATAAAA
* *
7532975 GAGCAACAGAGTAAGCAAGATCTTCTGGTGTTCTAAGA-GGGTCTGCACCACCCCAACTCTTAAA
1 GAGCAACAGAGTAAGCAAGATCTTCAGCTGTTCTAA-ATGGGTCTGCACCACCCCAACTCTTAAA
*
7533039 CCTAAAATCAATTAAAATAAAA
65 CCTAAAATCAAATAAAATAAAA
7533061 TATAATATAA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 79 0.99
87 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (86 bp):
GAGCAACAGAGTAAGCAAGATCTTCAGCTGTTCTAAATGGGTCTGCACCACCCCAACTCTTAAAC
CTAAAATCAAATAAAATAAAA
Found at i:7533510 original size:6 final size:6
Alignment explanation
Indices: 7533499--7533527 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7533489 TTAAATATAT
7533499 AATAAA AATAAA AATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAA
7533528 TAAAACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:7537455 original size:42 final size:42
Alignment explanation
Indices: 7537396--7537478 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
7537386 ACCAAATTAA
* * *
7537396 GTGATGACTCAATGATGGAATTTGAAAAGATTGTAAAGGGCT
1 GTGATGACTCAAGGATGGAATTTCAAAAGATTATAAAGGGCT
7537438 GTGATGACTCAAGGATGGAATTTCAAAAGATTATAAAGGGC
1 GTGATGACTCAAGGATGGAATTTCAAAAGATTATAAAGGGC
7537479 AAAATGGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (42 bp):
GTGATGACTCAAGGATGGAATTTCAAAAGATTATAAAGGGCT
Found at i:7540059 original size:25 final size:25
Alignment explanation
Indices: 7540006--7540117 Score: 79
Period size: 25 Copynumber: 4.5 Consensus size: 25
7539996 GACTCACCGT
* * *
7540006 AGCTCGTATGAGCTTACCAAT-TTGT
1 AGCTCGTATGAGCTTACCGATACT-C
*
7540031 AGCTCGTGA-GAGCTTATCGATACTC
1 AGCTCGT-ATGAGCTTACCGATACTC
* *
7540056 AGCTTGTATGAGCTTACCGATATTC
1 AGCTCGTATGAGCTTACCGATACTC
* * *
7540081 AGCTCGGAGGAGTTTACCGATTA-TC
1 AGCTCGTATGAGCTTACCGA-TACTC
*
7540106 -GCTCGTAGGAGC
1 AGCTCGTATGAGC
7540118 ATACATGTGA
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
24 11 0.16
25 55 0.79
26 4 0.06
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATACTC
Found at i:7547986 original size:23 final size:22
Alignment explanation
Indices: 7547960--7548004 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7547950 AATATTAAAA
7547960 TCTAAAATTACAAAATCATATCT
1 TCTAAAATTAC-AAATCATATCT
* * *
7547983 TCTAAGATTGCATATCATATCT
1 TCTAAAATTACAAATCATATCT
7548005 AAGATTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
TCTAAAATTACAAATCATATCT
Found at i:7560154 original size:16 final size:16
Alignment explanation
Indices: 7560133--7560164 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7560123 GCACATTCAC
7560133 CAGTTGAATTTTAATT
1 CAGTTGAATTTTAATT
7560149 CAGTTGAATTTTAATT
1 CAGTTGAATTTTAATT
7560165 TACTTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
CAGTTGAATTTTAATT
Found at i:7566162 original size:21 final size:21
Alignment explanation
Indices: 7566132--7566172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7566122 AAGTTTACAG
7566132 ATCATATATCAGACATATCAT
1 ATCATATATCAGACATATCAT
* **
7566153 ATCATTTATCATTCATATCA
1 ATCATATATCAGACATATCA
7566173 GAAATTAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (21 bp):
ATCATATATCAGACATATCAT
Found at i:7568057 original size:13 final size:13
Alignment explanation
Indices: 7568039--7568064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7568029 TGTATTTGAA
7568039 ATGTATAATTATC
1 ATGTATAATTATC
7568052 ATGTATAATTATC
1 ATGTATAATTATC
7568065 GATCACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGTATAATTATC
Found at i:7568246 original size:25 final size:24
Alignment explanation
Indices: 7568189--7568247 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
7568179 CAGCTCAAAA
* *
7568189 GAGCGTCCCGATATTAGCTCTCAT
1 GAGCATCCCGATATTAGCTCTCAC
* *
7568213 GAGAATCCCGATATTTGGCTCTCAC
1 GAGCATCCCGATA-TTAGCTCTCAC
*
7568238 GAGCTTCCCG
1 GAGCATCCCG
7568248 TTATATGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (24 bp):
GAGCATCCCGATATTAGCTCTCAC
Found at i:7568396 original size:25 final size:24
Alignment explanation
Indices: 7568368--7568430 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
7568358 TGGCTCTCTG
* *
7568368 GAGCTTCCCGATAATAGGTTCTTAT
1 GAGCTTCCCGATAAT-GGTTCTCAA
* *
7568393 GAGCTTCCTGTTTAATGGTTCTCAA
1 GAGCTTCCCG-ATAATGGTTCTCAA
7568418 GAGCTTCCCGATA
1 GAGCTTCCCGATA
7568431 TTGGCTCGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.81
26 4 0.13
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGTTCTCAA
Found at i:7568481 original size:25 final size:26
Alignment explanation
Indices: 7568453--7568502 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
7568443 AACTTCTCGA
*
7568453 TTATGGCCTCTTATGAGC-TTCCCAT
1 TTATGGCCTCGTATGAGCATTCCCAT
**
7568478 TTATGTTCTCGTATGAGCATTCCCA
1 TTATGGCCTCGTATGAGCATTCCCA
7568503 AATATGAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (26 bp):
TTATGGCCTCGTATGAGCATTCCCAT
Found at i:7570144 original size:25 final size:25
Alignment explanation
Indices: 7570075--7570133 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
7570065 AGCATGTAAT
* *
7570075 CGGGAAGCTCTTTTGAGCCATATAA
1 CGGGAAGCTCATGTGAGCCATATAA
*
7570100 CGGGAAGCTCATGTGAGCCATGTAA
1 CGGGAAGCTCATGTGAGCCATATAA
*
7570125 TGGGAAGCT
1 CGGGAAGCT
7570134 ATTGCATGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (25 bp):
CGGGAAGCTCATGTGAGCCATATAA
Found at i:7570216 original size:25 final size:25
Alignment explanation
Indices: 7570160--7570218 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
7570150 CGGGACAGTT
*
7570160 CGGAGAACCTTTAATCGAGAAGCTC
1 CGGAGAGCCTTTAATCGAGAAGCTC
***
7570185 ATAAGAGCCTATT-ATCGAGAAGCTC
1 CGGAGAGCCT-TTAATCGAGAAGCTC
7570210 CGGAGAGCC
1 CGGAGAGCC
7570219 AAATAATGGG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (25 bp):
CGGAGAGCCTTTAATCGAGAAGCTC
Found at i:7570254 original size:25 final size:25
Alignment explanation
Indices: 7570173--7570251 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
7570163 AGAACCTTTA
* * * *
7570173 ATCGAGAAGCTCATAAGAGCCTATT
1 ATCGAGAAGCTCGTGAGAGCCAAAT
7570198 ATCGAGAAGCTCCG-GAGAGCCAAAT
1 ATCGAGAAGCT-CGTGAGAGCCAAAT
* *
7570223 AAT-GGGAAGCTCGTGAGAGCCAAGT
1 -ATCGAGAAGCTCGTGAGAGCCAAAT
7570248 ATCG
1 ATCG
7570252 GGATACTCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 4 0.09
25 37 0.84
26 3 0.07
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (25 bp):
ATCGAGAAGCTCGTGAGAGCCAAAT
Found at i:7575180 original size:19 final size:19
Alignment explanation
Indices: 7575150--7575186 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
7575140 GAACCAAGTT
7575150 TTTTTTATTTAAATTTTTTA
1 TTTTTTATTT-AATTTTTTA
7575170 TTTTTTA-TTAATTTTTT
1 TTTTTTATTTAATTTTTT
7575187 GATTGGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTATTTAATTTTTTA
Found at i:7596389 original size:2 final size:2
Alignment explanation
Indices: 7596384--7596442 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
7596374 TATATAACAG
7596384 AT AT AT AT AT 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 AT AT AT AT AT
7596426 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
7596443 CACTTTAAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7597875 original size:21 final size:21
Alignment explanation
Indices: 7597846--7597903 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
7597836 TTGGAGTTTG
*
7597846 AGTTCAAGGTTTAGGGTTTCA
1 AGTTCAAGGTTCAGGGTTTCA
* * *
7597867 AGTTTAAGGTTCGGGGTTTGA
1 AGTTCAAGGTTCAGGGTTTCA
7597888 AGTTCAAGGTTCAGGG
1 AGTTCAAGGTTCAGGG
7597904 CAAAAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.34, T:0.34
Consensus pattern (21 bp):
AGTTCAAGGTTCAGGGTTTCA
Found at i:7602097 original size:14 final size:14
Alignment explanation
Indices: 7602070--7602103 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7602060 TAAAATTTTA
7602070 AAAAGTACAGTTACT
1 AAAA-TACAGTTACT
*
7602085 AAAATACATTTACT
1 AAAATACAGTTACT
7602099 AAAAT
1 AAAAT
7602104 TATATTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAATACAGTTACT
Found at i:7604044 original size:68 final size:68
Alignment explanation
Indices: 7603964--7604096 Score: 248
Period size: 68 Copynumber: 2.0 Consensus size: 68
7603954 CTCTTCATGA
*
7603964 AGTGAGCTTATATCTTTTTGTGATTTCATATCTCATACATAAGATATGTAGATCATATAAGGATC
1 AGTGAGCTTATATCTTTTTGTGATTTCATATCTCATACATAAGATATGTAAATCATATAAGGATC
7604029 CGT
66 CGT
*
7604032 AGTGAGCTTATATCTTTTTGTGATTTCATATCTCATATATAAGATATGTAAATCATATAAGGATC
1 AGTGAGCTTATATCTTTTTGTGATTTCATATCTCATACATAAGATATGTAAATCATATAAGGATC
7604097 TGTGAAAAGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (68 bp):
AGTGAGCTTATATCTTTTTGTGATTTCATATCTCATACATAAGATATGTAAATCATATAAGGATC
CGT
Found at i:7604615 original size:15 final size:15
Alignment explanation
Indices: 7604591--7604624 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7604581 TCGATATTGT
7604591 ATTTAGTTTTATA-A
1 ATTTAGTTTTATAGA
7604605 ATTTGAGTTTTATAGA
1 ATTT-AGTTTTATAGA
7604621 ATTT
1 ATTT
7604625 TAAGATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 9 0.50
16 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (15 bp):
ATTTAGTTTTATAGA
Found at i:7606086 original size:15 final size:15
Alignment explanation
Indices: 7606066--7606095 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7606056 CAAATTTGTT
*
7606066 ATATTATTTTAAATA
1 ATATTAATTTAAATA
7606081 ATATTAATTTAAATA
1 ATATTAATTTAAATA
7606096 TATAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAATTTAAATA
Found at i:7613215 original size:2 final size:2
Alignment explanation
Indices: 7613208--7613232 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7613198 AGCCTATAGT
7613208 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7613233 CCCGAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7613624 original size:4 final size:4
Alignment explanation
Indices: 7613615--7613645 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
7613605 GAAAAGACAA
*
7613615 AAAT AAAT AAAT AAAT AAAC AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
7613646 AACAAAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:7616005 original size:22 final size:21
Alignment explanation
Indices: 7615967--7616007 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7615957 TAGATCTGAC
**
7615967 ATTTTTTTATGTTATTTAATG
1 ATTTTTTTATGACATTTAATG
7615988 ATTTTTTTATAGACATTTAA
1 ATTTTTTTAT-GACATTTAA
7616008 AAGATTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
ATTTTTTTATGACATTTAATG
Found at i:7622628 original size:3 final size:3
Alignment explanation
Indices: 7622620--7622703 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
7622610 GCTCCTTCCA
7622620 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
7622668 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
7622704 CTATTTCTCT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:7624711 original size:20 final size:20
Alignment explanation
Indices: 7624686--7624725 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7624676 TTATCAGCCC
7624686 AACCAATAACTGTCGTGGGT
1 AACCAATAACTGTCGTGGGT
7624706 AACCAATAACTGTCGTGGGT
1 AACCAATAACTGTCGTGGGT
7624726 TTACACTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (20 bp):
AACCAATAACTGTCGTGGGT
Found at i:7624880 original size:15 final size:15
Alignment explanation
Indices: 7624856--7624885 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7624846 CTCTGACTCT
7624856 TTGGTATTAAGAATG
1 TTGGTATTAAGAATG
*
7624871 TTGGTTTTAAGAATG
1 TTGGTATTAAGAATG
7624886 AGTGATTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (15 bp):
TTGGTATTAAGAATG
Found at i:7627214 original size:59 final size:58
Alignment explanation
Indices: 7627106--7627262 Score: 251
Period size: 59 Copynumber: 2.7 Consensus size: 58
7627096 AGGGGTTGGA
*
7627106 CTGGTACTTGTGGCTTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATG
1 CTGGTACTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATG
* * * *
7627164 CTGGTTCTTGTGGCTTGTGGTTTACTTTTAGTGCCAAAACAAATTTAATCCTTGACATG
1 CTGGTACTTGTGGCTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATG
*
7627223 CTGGTAGTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTGGTACTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
7627263 TAGCAACTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 37 0.42
59 52 0.58
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (58 bp):
CTGGTACTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATG
Found at i:7636408 original size:9 final size:9
Alignment explanation
Indices: 7636343--7636427 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
7636333 ATATAAAAAA
*
7636343 TATATTTTT
1 TATAATTTT
7636352 TAT-ATTATT
1 TATAATT-TT
7636361 TAATAATTTT
1 T-ATAATTTT
* *
7636371 AACAATTTT
1 TATAATTTT
7636380 TA-AATTTT
1 TATAATTTT
* *
7636388 AAAAATGGTTT
1 TATAAT--TTT
7636399 TATAATTTT
1 TATAATTTT
7636408 T-TGAATTTT
1 TAT-AATTTT
*
7636417 TAAAATTTT
1 TATAATTTT
7636426 TA
1 TA
7636428 AAAATTAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
8 10 0.17
9 36 0.60
10 4 0.07
11 10 0.17
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:7636428 original size:9 final size:9
Alignment explanation
Indices: 7636367--7636430 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
7636357 TATTTAATAA
7636367 TTTTAACAAT
1 TTTTAA-AAT
7636377 TTTT-AAAT
1 TTTTAAAAT
*
7636385 TTTAAAAAT
1 TTTTAAAAT
*
7636394 GGTTTTATAAT
1 --TTTTAAAAT
**
7636405 TTTTTGAAT
1 TTTTAAAAT
7636414 TTTTAAAAT
1 TTTTAAAAT
7636423 TTTTAAAA
1 TTTTAAAA
7636431 ATTAATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.14
9 27 0.61
10 4 0.09
11 7 0.16
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:7640627 original size:31 final size:30
Alignment explanation
Indices: 7640553--7640627 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
7640543 TACGGTTTTT
*
7640553 AAAATAAAATACTATTTTTTTACTAAAAAA
1 AAAATAAAATACAATTTTTTTACTAAAAAA
* *
7640583 AAAAGAAAATACAATTTTTTT-TTAAAAAA
1 AAAATAAAATACAATTTTTTTACTAAAAAA
*
7640612 ATCAATAAAATTACAA
1 A-AAATAAAA-TACAA
7640628 CCCTTTAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 8 0.21
30 25 0.66
31 5 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (30 bp):
AAAATAAAATACAATTTTTTTACTAAAAAA
Found at i:7641937 original size:9 final size:9
Alignment explanation
Indices: 7641923--7641951 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
7641913 CATGTAGCGG
7641923 GATGAGAAT
1 GATGAGAAT
7641932 GATGAGAAT
1 GATGAGAAT
7641941 GATGAGAAT
1 GATGAGAAT
7641950 GA
1 GA
7641952 CCAATATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (9 bp):
GATGAGAAT
Found at i:7653445 original size:18 final size:17
Alignment explanation
Indices: 7653405--7653446 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
7653395 TTTTTTTACA
*
7653405 AATTTTTAATAATTTTT
1 AATTTTCAATAATTTTT
7653422 ATATTTTCAATAATTTTAT
1 A-ATTTTCAATAATTTT-T
7653441 AATTTT
1 AATTTT
7653447 TTTATCATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTCAATAATTTTT
Found at i:7666664 original size:9 final size:9
Alignment explanation
Indices: 7666650--7666674 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7666640 AATAGTATAG
7666650 ATAATTAAT
1 ATAATTAAT
7666659 ATAATTAAT
1 ATAATTAAT
7666668 ATAATTA
1 ATAATTA
7666675 TTTTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATAATTAAT
Found at i:7667884 original size:29 final size:30
Alignment explanation
Indices: 7667812--7667898 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 30
7667802 AATAAATACC
*
7667812 AAAAATTTATTTTAAAAATTAAAACAAAAATTA
1 AAAAAGTTATTTTAAAAA-TAAAA-AAAAA-TA
7667845 AAAAAGTTATTTTAAAAATAAAAAAATAA-A
1 AAAAAGTTATTTTAAAAATAAAAAAA-AATA
*
7667875 AAAAAG-TATTTTAAAATTAAAAAA
1 AAAAAGTTATTTTAAAAATAAAAAA
7667899 TTTTTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
29 17 0.33
30 7 0.14
31 3 0.06
32 7 0.14
33 17 0.33
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAAAGTTATTTTAAAAATAAAAAAAAATA
Found at i:7667899 original size:28 final size:31
Alignment explanation
Indices: 7667812--7667899 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 31
7667802 AATAAATACC
* *
7667812 AAAAATTTATTTTAAAAATTAAAACAAAAATTA
1 AAAAAGTTATTTTAAAAATTAAAA-AATAA-TA
*
7667845 AAAAAGTTATTTTAAAAATAAAAAAATAA-A
1 AAAAAGTTATTTTAAAAATTAAAAAATAATA
7667875 AAAAAG-TATTTT-AAAATTAAAAAAT
1 AAAAAGTTATTTTAAAAATTAAAAAAT
7667900 TTTTAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
28 12 0.24
29 6 0.12
30 7 0.14
32 4 0.08
33 22 0.43
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (31 bp):
AAAAAGTTATTTTAAAAATTAAAAAATAATA
Found at i:7667908 original size:30 final size:29
Alignment explanation
Indices: 7667819--7667917 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 29
7667809 ACCAAAAATT
*
7667819 TATTTTAAAAATTAAAACAAAAATTAAAAAAG
1 TATTTT-AAAATT-AAA-AAAATTTAAAAAAG
* **
7667851 TTATTTTAAAAATAAAAAAATAAAAAAAAG
1 -TATTTTAAAATTAAAAAAATTTAAAAAAG
*
7667881 TATTTTAAAATTAAAAAATTTTTAAAAAA-
1 TATTTTAAAATTAAAAAA-ATTTAAAAAAG
7667910 TATATTTA
1 TAT-TTTA
7667918 TTATATATTC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 20 0.36
30 22 0.39
31 3 0.05
32 5 0.09
33 6 0.11
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAG
Found at i:7675560 original size:15 final size:15
Alignment explanation
Indices: 7675540--7675580 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7675530 TGGCTGAAGT
7675540 TCTTCTTCCTCCTCA
1 TCTTCTTCCTCCTCA
* *
7675555 TCTTCTTCCTCTTCT
1 TCTTCTTCCTCCTCA
*
7675570 TCCTCTTCCTC
1 TCTTCTTCCTC
7675581 ACCCTCATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.51
Consensus pattern (15 bp):
TCTTCTTCCTCCTCA
Found at i:7675602 original size:9 final size:9
Alignment explanation
Indices: 7675588--7675625 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
7675578 CTCACCCTCA
7675588 TCATCGTCG
1 TCATCGTCG
7675597 TCATCGTCG
1 TCATCGTCG
*
7675606 TCATCATCG
1 TCATCGTCG
*
7675615 TCATCCTCG
1 TCATCGTCG
7675624 TC
1 TC
7675626 TCCAGTGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.13, C:0.37, G:0.16, T:0.34
Consensus pattern (9 bp):
TCATCGTCG
Found at i:7675615 original size:18 final size:18
Alignment explanation
Indices: 7675583--7675625 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7675573 TCTTCCTCAC
* *
7675583 CCTCATCATCGTCGTCAT
1 CCTCGTCATCATCGTCAT
*
7675601 CGTCGTCATCATCGTCAT
1 CCTCGTCATCATCGTCAT
7675619 CCTCGTC
1 CCTCGTC
7675626 TCCAGTGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.14, C:0.40, G:0.14, T:0.33
Consensus pattern (18 bp):
CCTCGTCATCATCGTCAT
Found at i:7685688 original size:36 final size:38
Alignment explanation
Indices: 7685632--7685706 Score: 109
Period size: 36 Copynumber: 2.0 Consensus size: 38
7685622 CCGAATATAA
* *
7685632 TAAATATATTTTTTTATTTTTTAATTTTAAAATACTTT
1 TAAATATATTTTTATATTTTTTAATTTTAAAATAATTT
*
7685670 TAAA-ATATTTTTAT-TTTTTTATTTTTAAAATAATTT
1 TAAATATATTTTTATATTTTTTAATTTTAAAATAATTT
7685706 T
1 T
7685707 TTAATGTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 21 0.62
37 9 0.26
38 4 0.12
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (38 bp):
TAAATATATTTTTATATTTTTTAATTTTAAAATAATTT
Found at i:7686335 original size:16 final size:16
Alignment explanation
Indices: 7686314--7686362 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
7686304 TTCGCTGTAT
*
7686314 TGGAATATAGGCGTAA
1 TGGAATAGAGGCGTAA
7686330 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
7686346 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
7686362 T
1 T
7686363 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:7686446 original size:39 final size:43
Alignment explanation
Indices: 7686342--7686450 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
7686332 GAATAGAGGC
7686342 GTAATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTT--AT
* * *
7686387 GTAATGGAATAGAGGCGTAATAG-TAATC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTAT
7686427 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
7686451 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 2 0.04
44 11 0.19
45 22 0.39
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTAT
Found at i:7686613 original size:16 final size:16
Alignment explanation
Indices: 7686576--7686617 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7686566 TTAATCATAT
*
7686576 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
7686592 TT-AAATATATTATAA
1 TTAAAATATATTATAA
7686607 TTAAAATATAT
1 TTAAAATATAT
7686618 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:7686624 original size:14 final size:15
Alignment explanation
Indices: 7686585--7686626 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7686575 TTTAAACATA
*
7686585 ATTATTATTAAATAT
1 ATTATAATTAAATAT
7686600 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
7686614 A-TATAATTTAATA
1 ATTATAATTAAATA
7686627 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:7686838 original size:24 final size:25
Alignment explanation
Indices: 7686792--7686839 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
7686782 TATGAATTTG
7686792 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
7686818 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
7686840 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:7686843 original size:92 final size:92
Alignment explanation
Indices: 7686747--7686975 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
7686737 TGATTTAATA
* * *
7686747 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
7686809 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
7686839 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
7686904 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
7686929 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
7686976 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:7690033 original size:28 final size:28
Alignment explanation
Indices: 7690002--7690059 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
7689992 GAAGCAAATT
7690002 GGCAGAAAAGAAAAGAAAATAAACAGAG
1 GGCAGAAAAGAAAAGAAAATAAACAGAG
*
7690030 GGCAGAAAAGAAAAGAAAATAAACGGAG
1 GGCAGAAAAGAAAAGAAAATAAACAGAG
7690058 GG
1 GG
7690060 AGCAAATCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.07, G:0.29, T:0.03
Consensus pattern (28 bp):
GGCAGAAAAGAAAAGAAAATAAACAGAG
Found at i:7690037 original size:66 final size:66
Alignment explanation
Indices: 7689967--7690113 Score: 240
Period size: 66 Copynumber: 2.2 Consensus size: 66
7689957 GTAAATGTGT
* *
7689967 AGAAAAGAAAAGAAAAGAAACAAAGGAAGCAAATTGGCAGAAAAGAAAAGAAAATAAACAGAGGG
1 AGAAAAGAAAAGAAAAGAAACAAAGGAAGCAAATCGGAAGAAAAGAAAAGAAAATAAACAGAGGG
7690032 C
66 C
* ** *
7690033 AGAAAAGAAAAGAAAATAAACGGAGGGAGCAAATCGGAAGAAAAGAAAAGAAAATAAACAGAGGG
1 AGAAAAGAAAAGAAAAGAAACAAAGGAAGCAAATCGGAAGAAAAGAAAAGAAAATAAACAGAGGG
7690098 C
66 C
7690099 AGAAAAGAAAAGAAA
1 AGAAAAGAAAAGAAA
7690114 CAGAGGGAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.64, C:0.07, G:0.25, T:0.04
Consensus pattern (66 bp):
AGAAAAGAAAAGAAAAGAAACAAAGGAAGCAAATCGGAAGAAAAGAAAAGAAAATAAACAGAGGG
C
Found at i:7690044 original size:61 final size:61
Alignment explanation
Indices: 7689972--7690134 Score: 236
Period size: 66 Copynumber: 2.6 Consensus size: 61
7689962 TGTGTAGAAA
*
7689972 AGAAAAGAAAAGAAACAAAGGAAGCAAATTGGCAGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAACAAAGGAAGCAAATCGGCAGAAAAGAAAAGAAAATAAACAGAGGGC
* *
7690033 AGAAAAGAAAAGAAAATAAACGGAGGGAGCAAATCGGAAGAAAAGAAAAGAAAATAAACAGAGGG
1 AGAAAAGAAAAG-AAACAAA-GGA---AGCAAATCGGCAGAAAAGAAAAGAAAATAAACAGAGGG
7690098 C
61 C
* *
7690099 AGAAAAGAAAAGAAACAGAGGGAGCAAATCGGCAGA
1 AGAAAAGAAAAGAAACAAAGGAAGCAAATCGGCAGA
7690135 GGCTAGAAGG
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
61 25 0.28
62 6 0.07
63 3 0.03
64 2 0.02
65 5 0.06
66 49 0.54
ACGTcount: A:0.60, C:0.09, G:0.27, T:0.04
Consensus pattern (61 bp):
AGAAAAGAAAAGAAACAAAGGAAGCAAATCGGCAGAAAAGAAAAGAAAATAAACAGAGGGC
Found at i:7690047 original size:38 final size:38
Alignment explanation
Indices: 7689967--7690113 Score: 111
Period size: 38 Copynumber: 4.1 Consensus size: 38
7689957 GTAAATGTGT
* * * * **
7689967 AGAAAAGAAAAGAAAAGAAACAAAGGAAGCAAATTGGC
1 AGAAAAGAAAAGAAAATAAACAGAGGGAGCAAATAGAA
7690005 AGAAAAGAAAAGAAAATAAACAGA-GG-GC--------
1 AGAAAAGAAAAGAAAATAAACAGAGGGAGCAAATAGAA
* * *
7690033 AGAAAAGAAAAGAAAATAAACGGAGGGAGCAAATCGGA
1 AGAAAAGAAAAGAAAATAAACAGAGGGAGCAAATAGAA
7690071 AGAAAAGAAAAGAAAATAAACAGAGGGCAG-AAA-AGAAA
1 AGAAAAGAAAAGAAAATAAACAGAGGG-AGCAAATAG-AA
7690109 AGAAA
1 AGAAA
7690114 CAGAGGGAGC
Statistics
Matches: 90, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
28 23 0.26
29 2 0.02
30 2 0.02
36 2 0.02
37 2 0.02
38 57 0.63
39 2 0.02
ACGTcount: A:0.64, C:0.07, G:0.25, T:0.04
Consensus pattern (38 bp):
AGAAAAGAAAAGAAAATAAACAGAGGGAGCAAATAGAA
Found at i:7690102 original size:23 final size:23
Alignment explanation
Indices: 7690076--7690120 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
7690066 TCGGAAGAAA
*
7690076 AGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAACAGAGGGC
7690099 AGAAAAGAAAAGAAACAGAGGG
1 AGAAAAGAAAAGAAACAGAGGG
7690121 AGCAAATCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.07, G:0.29, T:0.02
Consensus pattern (23 bp):
AGAAAAGAAAAGAAACAGAGGGC
Found at i:7693335 original size:26 final size:26
Alignment explanation
Indices: 7693300--7693363 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
7693290 GCAGCTCTTA
* *
7693300 TGAGCATCCC-ATTATATGGCTCTTCG
1 TGAGCTTCCCGATTA-AAGGCTCTTCG
*
7693326 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTTCG
7693352 TGAGCTTCCCGA
1 TGAGCTTCCCGA
7693364 AATGGCTCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTTCG
Found at i:7695145 original size:29 final size:29
Alignment explanation
Indices: 7695087--7695146 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
7695077 TTTATATTTG
* * *
7695087 TTTCTTTTCTTTAAGTAAAGAGATCTAAT
1 TTTCTTTTCCTTAAATAAAGAGATCCAAT
7695116 TTTCTTTTCCTTAAATAAAGTA-ATCCAAT
1 TTTCTTTTCCTTAAATAAAG-AGATCCAAT
7695145 TT
1 TT
7695147 CCAGAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (29 bp):
TTTCTTTTCCTTAAATAAAGAGATCCAAT
Found at i:7699328 original size:12 final size:12
Alignment explanation
Indices: 7699311--7699337 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7699301 TTAAATTACC
7699311 TGTTTGAGTTCA
1 TGTTTGAGTTCA
7699323 TGTTTGAGTTCA
1 TGTTTGAGTTCA
7699335 TGT
1 TGT
7699338 CTCACACGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.26, T:0.52
Consensus pattern (12 bp):
TGTTTGAGTTCA
Found at i:7708746 original size:13 final size:13
Alignment explanation
Indices: 7708728--7708758 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
7708718 GCAGATTCGT
7708728 TATTCAAATAATG
1 TATTCAAATAATG
7708741 TATTCAAATAATG
1 TATTCAAATAATG
7708754 TATTC
1 TATTC
7708759 GTGTGAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (13 bp):
TATTCAAATAATG
Found at i:7711378 original size:18 final size:17
Alignment explanation
Indices: 7711355--7711389 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
7711345 ACTGATATAC
7711355 GAAAAAGGAGAAAAAAAA
1 GAAAAAGGA-AAAAAAAA
7711373 GAAAAAGGAAAAAAAAA
1 GAAAAAGGAAAAAAAAA
7711390 TTTTACAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
GAAAAAGGAAAAAAAAA
Found at i:7712471 original size:110 final size:109
Alignment explanation
Indices: 7712210--7712452 Score: 304
Period size: 110 Copynumber: 2.3 Consensus size: 109
7712200 CATTACAAGG
* ** *
7712210 TGGTGCCGGCCATTGACAGGCCAGCA--CAAAA-AAAATATTTTTTACTTTTTTCGTATACTGAT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTATTTTTTTTTTACTTTTTTCGTATACTGAT
* * *
7712272 ATCTGATTCTGATACGAAAAAAAAGAATTTTTTTTAAATTGTACT
66 ATCTGATTCTAATAAGAAAAAAAAGAAATTTTTTT-AATTGTACT
7712317 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTATTTTTTTTTTACTTTTTTCGTATACTGAT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTATTTTTTTTTTACTTTTTTCGTATACTGAT
* *
7712382 A-CTTGATTTTAATAAG-AAAAAAAGTAAATTTTTTT-ATTAGT-GT
66 ATC-TGATTCTAATAAGAAAAAAAAG-AAATTTTTTTAATT-GTACT
7712425 TGGGTGCCGGCCATTG-CAGGCCAGCACC
1 T-GGTGCCGGCCATTGACAGGCCAGCACC
7712453 AATTTTTTTT
Statistics
Matches: 120, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
107 26 0.22
108 17 0.14
109 30 0.25
110 47 0.39
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (109 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTATTTTTTTTTTACTTTTTTCGTATACTGAT
ATCTGATTCTAATAAGAAAAAAAAGAAATTTTTTTAATTGTACT
Found at i:7712478 original size:16 final size:16
Alignment explanation
Indices: 7712457--7712488 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7712447 AGCACCAATT
*
7712457 TTTTTTTTCCTTTTTC
1 TTTTTTCTCCTTTTTC
7712473 TTTTTTCTCCTTTTTC
1 TTTTTTCTCCTTTTTC
7712489 GTATATCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTCTCCTTTTTC
Found at i:7713728 original size:16 final size:16
Alignment explanation
Indices: 7713697--7713728 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7713687 ACTGATATAC
*
7713697 GAAAAAGGAGAAAAAA
1 GAAAAAGGAAAAAAAA
7713713 GAAAAAGGAAAAAAAA
1 GAAAAAGGAAAAAAAA
7713729 AATTTTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
GAAAAAGGAAAAAAAA
Found at i:7713874 original size:89 final size:82
Alignment explanation
Indices: 7713781--7713950 Score: 189
Period size: 82 Copynumber: 2.0 Consensus size: 82
7713771 TTTTTACTTT
* *
7713781 TTTTCGTGTTAAAAGCAGGTATCAGTATACAAAAAAAGTAAAAAAAACAATTTTTTTTGGGTGCT
1 TTTTCGTGTCAAAAGCAGATATCAGTATACAAAAAAA-T-AAAAAAA-AA----TTTTGGGTGCT
7713846 GGCCTGTCAATGGC-TGACACCCAG
59 GGCCTGTCAATGGCTTG-CACCCAG
* * * * * *
7713870 TTTTCGTGTCAGAATCATATATTAGTATACGAAAAAATTAAAAAAAATTTTGGGTGCTGGCCTGT
1 TTTTCGTGTCAAAAGCAGATATCAGTATACAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGT
7713935 CAATGGCTTGCACCCA
66 CAATGGCTTGCACCCA
7713951 ACAGTAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
82 31 0.43
83 2 0.03
86 2 0.03
87 6 0.08
88 1 0.01
89 30 0.42
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (82 bp):
TTTTCGTGTCAAAAGCAGATATCAGTATACAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGT
CAATGGCTTGCACCCAG
Found at i:7714715 original size:12 final size:13
Alignment explanation
Indices: 7714692--7714716 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7714682 GGCCAGCACC
7714692 TAAAATTTTTTTT
1 TAAAATTTTTTTT
7714705 TAAAATTTTTTT
1 TAAAATTTTTTT
7714717 GTATACTGAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TAAAATTTTTTTT
Found at i:7714786 original size:83 final size:85
Alignment explanation
Indices: 7714698--7714862 Score: 271
Period size: 83 Copynumber: 2.0 Consensus size: 85
7714688 CACCTAAAAT
* * * *
7714698 TTTTTTTTAAAATTTTTTTGTATACTGATATCTGATTCTGACACG-AAAATAAGAATTTTTTTT-
1 TTTTTTTTAAAAATTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAGAATTTTTTTTA
7714761 AAATTGTACTGGGTGCTGCA
66 AAATTGTACTGGGTGCTGCA
7714781 TTTTTTTTAAAAATTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAGAATTTTTTTTA
1 TTTTTTTTAAAAATTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAGAATTTTTTTT-
7714846 AAAATTGTACTGGGTGC
65 AAAATTGTACTGGGTGC
7714863 AGGCCATTGA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
83 42 0.56
84 17 0.23
86 16 0.21
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (85 bp):
TTTTTTTTAAAAATTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAGAATTTTTTTTA
AAATTGTACTGGGTGCTGCA
Found at i:7715000 original size:111 final size:110
Alignment explanation
Indices: 7714794--7715004 Score: 264
Period size: 112 Copynumber: 1.9 Consensus size: 110
7714784 TTTTTAAAAA
* * * * *
7714794 TTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAGAATTTTTTTTAAAAATTGTACTGG
1 TTTTTCGTATACTGATACCTAATTCTAACACGAAAAAAAAGAAATTTTTTTAAAAACTGTA-TGA
7714859 GTGCAGGCCATTGACAGGCCAGCACCCAAAAATTTTTTGTTTTTACT
65 GTGCAGGCCATTGACAGGCCAGCACCC-AAAATTTTTTGTTTTTACT
* * **
7714906 TTTTTCGTATACTGATACCTGATTTTAACACGAAAAAAAAGTATAATTTTTTT-ATTACTGT-TG
1 TTTTTCGTATACTGATACCTAATTCTAACACGAAAAAAAAG-A-AATTTTTTTAAAAACTGTATG
* * *
7714969 AGTGCCGGCCATTGACAGGCCTGCACTCAAAATTTT
64 AGTGCAGGCCATTGACAGGCCAGCACCCAAAATTTT
7715005 CTTTTTCCTT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
110 8 0.09
111 26 0.31
112 37 0.44
113 6 0.07
114 8 0.09
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (110 bp):
TTTTTCGTATACTGATACCTAATTCTAACACGAAAAAAAAGAAATTTTTTTAAAAACTGTATGAG
TGCAGGCCATTGACAGGCCAGCACCCAAAATTTTTTGTTTTTACT
Found at i:7718452 original size:23 final size:22
Alignment explanation
Indices: 7718405--7718455 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7718395 TTTAGCTCAC
*
7718405 AATTTTATCATTTTTAAAATGT
1 AATTTTATCATTTTTAAAATAT
**
7718427 AATTTTATCATTTATTAATTTAT
1 AATTTTATCATTT-TTAAAATAT
7718450 AATTTT
1 AATTTT
7718456 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
AATTTTATCATTTTTAAAATAT
Found at i:7728728 original size:19 final size:20
Alignment explanation
Indices: 7728691--7728730 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7728681 TCTTTTCGCA
* *
7728691 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
7728711 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
7728730 T
1 T
7728731 AAACACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:7730653 original size:19 final size:19
Alignment explanation
Indices: 7730629--7730666 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7730619 AATGTTCTTT
7730629 CATTCTTT-ACGATTTTTTC
1 CATTCTTTCA-GATTTTTTC
7730648 CATTCTTTCAGATTTTTTC
1 CATTCTTTCAGATTTTTTC
7730667 TGCCAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (19 bp):
CATTCTTTCAGATTTTTTC
Found at i:7742757 original size:19 final size:19
Alignment explanation
Indices: 7742733--7742770 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7742723 AATATTCTTT
*
7742733 CATTCTTTAAGATTTTTTC
1 CATTCTTTAAGATGTTTTC
*
7742752 CATTCTTTTAGATGTTTTC
1 CATTCTTTAAGATGTTTTC
7742771 TGCCAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (19 bp):
CATTCTTTAAGATGTTTTC
Found at i:7743746 original size:14 final size:14
Alignment explanation
Indices: 7743714--7743745 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7743704 AAGTGATGTG
7743714 GAAAATGAAAAGAT
1 GAAAATGAAAAGAT
7743728 GAAAATGAAAA-AT
1 GAAAATGAAAAGAT
7743741 GAAAA
1 GAAAA
7743746 AGTAAAACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (14 bp):
GAAAATGAAAAGAT
Found at i:7744136 original size:13 final size:13
Alignment explanation
Indices: 7744118--7744142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7744108 TAAATCAATT
7744118 TCTTTGTTATCCA
1 TCTTTGTTATCCA
7744131 TCTTTGTTATCC
1 TCTTTGTTATCC
7744143 TCGACAATTT
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:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:7745127 original size:132 final size:132
Alignment explanation
Indices: 7744890--7745483 Score: 976
Period size: 132 Copynumber: 4.5 Consensus size: 132
7744880 TTGAAAGCGA
*
7744890 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
7744955 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTATT
66 TCTACTTTCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
7745020 GG
131 GG
*
7745022 AGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
7745087 TCTACTTTCCTAGACAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTTCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
7745152 GG
131 GG
*
7745154 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
7745219 TCTAC-CTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
66 TCTACTTTCC-TGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
7745283 TGG
130 TGG
** *
7745286 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAAGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
7745351 TCTA-TTTACCCGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCGCTAAGCAGTAG
66 TCTACTTT-CCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
7745415 TGG
130 TGG
* * *
7745418 AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
7745483 T
66 T
7745484 GAGCAAATCT
Statistics
Matches: 431, Mismatches: 28, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 3 0.01
132 426 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTTCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:7745185 original size:44 final size:44
Alignment explanation
Indices: 7745136--7745317 Score: 109
Period size: 44 Copynumber: 4.1 Consensus size: 44
7745126 CAGATCTTAT
7745136 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
* * * * *** ** *
7745180 CTCCCTGAG--GTTACAGTGGAGTACATTGAAGCCAG-TAATTCTAC
1 CTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGATGGCGGATTTTAC
* ** ** ** * ** * * *
7745224 CTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTAT
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
7745268 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
7745312 CTCCCT
1 CTCCCT
7745318 GAAGTTATAG
Statistics
Matches: 94, Mismatches: 38, Indels: 12
0.65 0.26 0.08
Matches are distributed among these distances:
42 1 0.01
43 16 0.17
44 62 0.66
45 15 0.16
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
Found at i:7745586 original size:44 final size:43
Alignment explanation
Indices: 7745538--7745714 Score: 137
Period size: 44 Copynumber: 4.1 Consensus size: 43
7745528 CCAATAATCC
7745538 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-CAGATCT
* * *** *
7745582 TATCTCTCTGAAGTTGCAGAGG-GCGGA-TCGCATCCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCAGATCT
* * ** * *
7745622 TATCTCCCTGAAGTTGCAGTGAAGCAGACAGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AACCCAGATCT
* * * *
7745666 TATCTCCTTGAAGTTGCAATGGAGTGGATTAGAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-CAGATCT
*
7745710 CATCT
1 TATCT
7745715 ATCGGAGGTT
Statistics
Matches: 99, Mismatches: 27, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
40 22 0.22
41 7 0.07
42 6 0.06
43 8 0.08
44 56 0.57
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCAGATCT
Found at i:7747267 original size:27 final size:27
Alignment explanation
Indices: 7747228--7747290 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
7747218 TCATGCTTTA
* *
7747228 TATTTTTT-TACATACT-TACACATTTT
1 TATTTTTTAAACATA-TATACACAATTT
*
7747254 TATTTTTTAAACATATATACATAATTT
1 TATTTTTTAAACATATATACACAATTT
7747281 TATATTTTTA
1 TAT-TTTTTA
7747291 TTTTATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 9 0.29
27 16 0.52
28 6 0.19
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTTTTTAAACATATATACACAATTT
Found at i:7750549 original size:28 final size:27
Alignment explanation
Indices: 7750516--7750587 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
7750506 AAAAATAAAA
*
7750516 AATTACCAAAATGT-TATAACTTTTTTTT
1 AATTACCAAAATATATATAA--TTTTTTT
* *
7750544 ATTTACCAAAAAATATATAATTTTTTT
1 AATTACCAAAATATATATAATTTTTTT
7750571 AATTACCAAAATATATA
1 AATTACCAAAATATATA
7750588 AAAAAACAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 22 0.58
28 11 0.29
29 5 0.13
ACGTcount: A:0.44, C:0.10, G:0.01, T:0.44
Consensus pattern (27 bp):
AATTACCAAAATATATATAATTTTTTT
Found at i:7750682 original size:27 final size:27
Alignment explanation
Indices: 7750652--7750718 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
7750642 AGGGAAGCAG
*
7750652 GTTGGCGACACCAAACAAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGGATCCCT
* ****
7750679 GTTGGAGGCACCAGTGGAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGGATCCCT
7750706 GTTGGCGGCACCA
1 GTTGGCGGCACCA
7750719 CCCTTGAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.27, G:0.34, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGATCCCT
Found at i:7750788 original size:18 final size:17
Alignment explanation
Indices: 7750765--7750880 Score: 76
Period size: 18 Copynumber: 6.5 Consensus size: 17
7750755 GAAGGAGAGG
7750765 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
7750783 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
7750800 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
7750816 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
7750834 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
7750854 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
7750872 GGAAAGAAA
1 GG-AAGAAA
7750881 AGGAAAGGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
15 9 0.11
16 4 0.05
17 4 0.05
18 31 0.39
19 20 0.25
20 12 0.15
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:7750798 original size:10 final size:10
Alignment explanation
Indices: 7750767--7750838 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
7750757 AGGAGAGGGG
*
7750767 AAGAAGAAGA
1 AAGAAAAAGA
7750777 AAGAAAGGAAGA
1 AAGAAA--AAGA
7750789 AAGAAAAAGA
1 AAGAAAAAGA
* *
7750799 AGGAAAAGGA
1 AAGAAAAAGA
7750809 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
7750823 AAGAAAAAGA
1 AAGAAAAAGA
*
7750833 AGGAAA
1 AAGAAA
7750839 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:7750798 original size:22 final size:23
Alignment explanation
Indices: 7750767--7750868 Score: 73
Period size: 24 Copynumber: 4.3 Consensus size: 23
7750757 AGGAGAGGGG
*
7750767 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
7750789 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
7750811 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* ***
7750837 AAGAAAAGGAAAGGGGAGGAAAGA
1 AAGAAAAAGAAAGAAAAGG-AAGA
7750861 AAGAAAAA
1 AAGAAAAA
7750869 TAAGGAAAGA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
22 12 0.20
23 10 0.17
24 32 0.53
25 5 0.08
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:7750804 original size:14 final size:13
Alignment explanation
Indices: 7750770--7750843 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
7750760 AGAGGGGAAG
7750770 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
7750782 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
7750795 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
7750811 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
7750829 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
7750843 A
1 A
7750844 GGAAAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:7750825 original size:28 final size:28
Alignment explanation
Indices: 7750770--7750849 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
7750760 AGAGGGGAAG
7750770 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
7750795 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
7750829 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGGAAAGAAAAGGAAAG
7750850 GGGAGGAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 3 0.07
28 8 0.17
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.13
34 17 0.37
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:7750843 original size:38 final size:38
Alignment explanation
Indices: 7750785--7750891 Score: 168
Period size: 38 Copynumber: 2.9 Consensus size: 38
7750775 GAAAGAAAGG
7750785 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
7750819 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
7750857 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGA
7750892 AGAGAAAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
34 15 0.23
35 1 0.02
38 50 0.76
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:7750845 original size:10 final size:10
Alignment explanation
Indices: 7750787--7750887 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
7750777 AAGAAAGGAA
*
7750787 GAAAGAAAAA
1 GAAAGAAAAG
*
7750797 GAAGGAAAAG
1 GAAAGAAAAG
* *
7750807 GAAAGGAGAG
1 GAAAGAAAAG
7750817 GAAAG-AAA-
1 GAAAGAAAAG
7750825 GAAA-AAGAAG
1 GAAAGAA-AAG
7750835 GAAAGAAAAG
1 GAAAGAAAAG
***
7750845 GAAAGGGGAG
1 GAAAGAAAAG
7750855 GAAAG-AAA-
1 GAAAGAAAAG
7750863 GAAA-AATAAG
1 GAAAGAA-AAG
7750873 GAAAGAAAAG
1 GAAAGAAAAG
7750883 GAAAG
1 GAAAG
7750888 GAGAAGAGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 51 0.71
11 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:7751761 original size:13 final size:13
Alignment explanation
Indices: 7751743--7751768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7751733 ATAAAATGTT
7751743 AACACATATATAA
1 AACACATATATAA
7751756 AACACATATATAA
1 AACACATATATAA
7751769 GTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AACACATATATAA
Found at i:7753169 original size:18 final size:19
Alignment explanation
Indices: 7753146--7753182 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7753136 CGCTGGAGGC
7753146 GAGGGC-TGTTGCGACGCT
1 GAGGGCTTGTTGCGACGCT
*
7753164 GAGGGCTTGTTGCGGCGCT
1 GAGGGCTTGTTGCGACGCT
7753183 CCCTATTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.08, C:0.22, G:0.46, T:0.24
Consensus pattern (19 bp):
GAGGGCTTGTTGCGACGCT
Found at i:7756999 original size:3 final size:3
Alignment explanation
Indices: 7756991--7757039 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
7756981 NNNNNNNNNN
7756991 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7757039 A
1 A
7757040 CTATAAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7757403 original size:27 final size:27
Alignment explanation
Indices: 7757353--7757435 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
7757343 GGTTGGTAGG
** **
7757353 ACTGGTGCCGCCAACAGGGATCCCTCC
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
**
7757380 ACTGGTGCCGCCAACCTGCTTCCCTTG
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
** *
7757407 TTTGGTGCCACCAACCTGCTTCCCTCC
1 ACTGGTGCCGCCAACCTGCTTCCCTCC
7757434 AC
1 AC
7757436 CCAGGGAGTT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.14, C:0.42, G:0.20, T:0.23
Consensus pattern (27 bp):
ACTGGTGCCGCCAACCTGCTTCCCTCC
Found at i:7757518 original size:26 final size:26
Alignment explanation
Indices: 7757488--7757555 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
7757478 TATTTTTTTG
7757488 ATATATTTTGA-TAAATAAAAAAAATT
1 ATATATTTTGAGTAAAT-AAAAAAATT
*
7757514 ATATATATTTTAGTAAATAAAAAAATT
1 ATATAT-TTTGAGTAAATAAAAAAATT
7757541 ATAATATTTTG-GTAA
1 AT-ATATTTTGAGTAA
7757556 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 10 0.27
27 18 0.49
28 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
ATATATTTTGAGTAAATAAAAAAATT
Done.