Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 165 of 335
Found at i:48573884 original size:32 final size:32
Alignment explanation
Indices: 48573844--48574002 Score: 203
Period size: 32 Copynumber: 4.9 Consensus size: 32
48573834 ATGGTACAAT
48573844 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
48573876 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
*
48573908 TTAAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
* * * * *
48573940 TTGGAAAGGTTAGGAATACTTTGTGTATAC-C
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
** * *
48573971 ATATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 -T-TGAAAAGGTTATGTACACTTTGTGTGTAC
48574003 CACTCAGAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
31 1 0.01
32 88 0.78
33 24 0.21
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.36
Consensus pattern (32 bp):
TTGAAAAGGTTATGTACACTTTGTGTGTACAC
Found at i:48579985 original size:48 final size:48
Alignment explanation
Indices: 48579925--48580248 Score: 384
Period size: 48 Copynumber: 6.8 Consensus size: 48
48579915 ACCGTACTAA
* *
48579925 ATGTGCCTA-TGTAAGACAATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * **
48579973 ATGTGCCAATGTAAGACCATGTCTAGGACATGGCATCAACGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
48580021 ATCTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
48580069 ATGTGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCAATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * ** *
48580117 ATGTGCCAGTGTAAGACTATTTCTGGGACATGGCATCAACGATGGTAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * * *
48580165 GTGTGCCAGTGTAAGACCATGTCCGGGACATGACATCGGTGATGAGAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
48580213 GTG-GATTCA-TGTAAGACCATGTCGGGGACATGGCAT
1 ATGTG--CCAGTGTAAGACCATGTCTGGGACATGGCAT
48580249 TAGTACTTAT
Statistics
Matches: 240, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 2 0.01
48 236 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:48580226 original size:144 final size:143
Alignment explanation
Indices: 48579925--48580248 Score: 425
Period size: 144 Copynumber: 2.2 Consensus size: 143
48579915 ACCGTACTAA
* * *
48579925 ATGTGCCTATGTAAGACAATGTCTAGGACATGGCATCGGCGATGATATATGTGCCAATGTAAGAC
1 ATGTGCC-ATGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAATGTAAGAC
* * *
48579990 CATGTCTAGGACATGGCATCAACGATGATATATCTGCTAGTGTAAGACCATGTCTGGGACATGGC
65 CATGTCTAGGACATGGCATCAACGATGATATATCTGCCAGTGTAAGACCATGTCCGGGACATGAC
*
48580055 ATCGGCAATGATAT
130 ATCGGCAATGAGAT
* *
48580069 ATGTGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCAATGATATATGTGCCAGTGTAAGAC
1 ATGTGCCA-TGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAATGTAAGAC
* * * * * *
48580134 TATTTCTGGGACATGGCATCAACGATGGTATGTGTGCCAGTGTAAGACCATGTCCGGGACATGAC
65 CATGTCTAGGACATGGCATCAACGATGATATATCTGCCAGTGTAAGACCATGTCCGGGACATGAC
**
48580199 ATCGGTGATGAGAT
130 ATCGGCAATGAGAT
* * *
48580213 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTG--CCATGTAAGACCATGTCTGGGACATGGCAT
48580249 TAGTACTTAT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
143 2 0.01
144 152 0.97
145 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (143 bp):
ATGTGCCATGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATGTGCCAATGTAAGACC
ATGTCTAGGACATGGCATCAACGATGATATATCTGCCAGTGTAAGACCATGTCCGGGACATGACA
TCGGCAATGAGAT
Found at i:48581584 original size:22 final size:22
Alignment explanation
Indices: 48581538--48581584 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
48581528 CGCACGGGTT
* *
48581538 TGTCATTGTGTCCACGCGAGTG
1 TGTCATTGTGTCCACACGAGCG
*
48581560 TGTCATTGTGTCCACACGGGCG
1 TGTCATTGTGTCCACACGAGCG
48581582 TGT
1 TGT
48581585 GACCCTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (22 bp):
TGTCATTGTGTCCACACGAGCG
Found at i:48581898 original size:14 final size:15
Alignment explanation
Indices: 48581865--48581900 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
48581855 AAACTAAGGT
48581865 TTTTTAAAACATCTA
1 TTTTTAAAACATCTA
* *
48581880 TTTTTAAAATATTTA
1 TTTTTAAAACATCTA
48581895 TTTTTA
1 TTTTTA
48581901 TTTAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTAAAACATCTA
Found at i:48583941 original size:18 final size:18
Alignment explanation
Indices: 48583918--48583968 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
48583908 TGAATGAGTT
* *
48583918 AATTTTTTAAAATTTTAA
1 AATTTTTTAAAAATATAA
*
48583936 AATTTTTAAAAAATATAA
1 AATTTTTTAAAAATATAA
*
48583954 ATTATTTTTAAAAAT
1 AAT-TTTTTAAAAAT
48583969 TAACATATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTTTAAAAATATAA
Found at i:48587718 original size:44 final size:45
Alignment explanation
Indices: 48587635--48587744 Score: 186
Period size: 44 Copynumber: 2.5 Consensus size: 45
48587625 TCTATTTTTT
*
48587635 TATTTTAAGAATTTTTTACACACTAGATATTTTTGGGAAATTACA
1 TATTTTAAGAATTTTTTACACACTAGATATTTTTAGGAAATTACA
*
48587680 TATTTTAAGAATTTTTTACACACTAGAT-TTTTTAGGAAATTACC
1 TATTTTAAGAATTTTTTACACACTAGATATTTTTAGGAAATTACA
*
48587724 TGTTTTAAGAATTTTTTACAC
1 TATTTTAAGAATTTTTTACAC
48587745 TATTATTTGT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
44 34 0.55
45 28 0.45
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (45 bp):
TATTTTAAGAATTTTTTACACACTAGATATTTTTAGGAAATTACA
Found at i:48588531 original size:58 final size:59
Alignment explanation
Indices: 48588403--48588531 Score: 181
Period size: 58 Copynumber: 2.2 Consensus size: 59
48588393 TTTTAATAAG
* * * *
48588403 ATTATTACTAAATATAATTTAATAAAAATAATGATATAATTTAATAATATTTTAACATA
1 ATTATTATTAAATACAATTTAATAAAAATAATGATAGAATTTAATAACATTTTAACATA
*
48588462 ATTATTATTAAATACAATTTAAT-AAAATAAT-ATAGAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAAATAATGATAGAATTTAATAACATT-TTAACATA
*
48588520 ATTATTTTTAAA
1 ATTATTATTAAA
48588532 ATATGAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
57 16 0.25
58 26 0.41
59 21 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATACAATTTAATAAAAATAATGATAGAATTTAATAACATTTTAACATA
Found at i:48588543 original size:59 final size:58
Alignment explanation
Indices: 48588403--48588545 Score: 182
Period size: 59 Copynumber: 2.4 Consensus size: 58
48588393 TTTTAATAAG
* * *
48588403 ATTATTACTAAATATAATTTAATAAAAATAATGATATAATTTAATAATATTTTAACATA
1 ATTATTATTAAATATAATTTAAT-AAAATAATGATAGAATTTAATAACATTTTAACATA
* *
48588462 ATTATTATTAAATACAATTTAATAAAATAAT-ATAGAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATGATAGAATTTAATAACATT-TTAACATA
*
48588520 ATTATTTTTAAAATATGAA-TTAATAA
1 ATTATTATT-AAATAT-AATTTAATAA
48588546 GAATCATAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
57 16 0.22
58 23 0.31
59 33 0.45
60 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATGATAGAATTTAATAACATTTTAACATA
Found at i:48590777 original size:24 final size:24
Alignment explanation
Indices: 48590745--48590793 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48590735 ACAGTGTCTG
48590745 AAGGTGTTATTTTGATGAGAAATA
1 AAGGTGTTATTTTGATGAGAAATA
48590769 AAGGTGTTATTTTGATGAGAAATA
1 AAGGTGTTATTTTGATGAGAAATA
48590793 A
1 A
48590794 TACTTCGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (24 bp):
AAGGTGTTATTTTGATGAGAAATA
Found at i:48599462 original size:19 final size:19
Alignment explanation
Indices: 48599425--48599463 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
48599415 AAAGCCGAAT
**
48599425 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
48599444 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
48599463 T
1 T
48599464 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:48600523 original size:2 final size:2
Alignment explanation
Indices: 48600516--48600540 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48600506 CCTTGTTAAT
48600516 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
48600541 TCTGTATACA
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:48602069 original size:2 final size:2
Alignment explanation
Indices: 48602062--48602092 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48602052 AGTTATTTTA
48602062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48602093 AACATACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48603583 original size:22 final size:22
Alignment explanation
Indices: 48603558--48603599 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
48603548 CATAAAATTA
48603558 AAAAAGAA-AAATGAATCAATCC
1 AAAAAGAATAAA-GAATCAATCC
*
48603580 AAAAATAATAAAGAATCAAT
1 AAAAAGAATAAAGAATCAAT
48603600 TCATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAAGAATAAAGAATCAATCC
Found at i:48604296 original size:21 final size:21
Alignment explanation
Indices: 48604270--48604310 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48604260 TCATTTAGGC
* *
48604270 ACAATTTGTTTTGCTGGTTTT
1 ACAATTTGCTTTGCTAGTTTT
48604291 ACAATTTGCTTTGCTAGTTT
1 ACAATTTGCTTTGCTAGTTT
48604311 ATATCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.54
Consensus pattern (21 bp):
ACAATTTGCTTTGCTAGTTTT
Found at i:48604617 original size:32 final size:32
Alignment explanation
Indices: 48604576--48604644 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
48604566 AGGCTATTTT
48604576 GGTTTAAAAAAGGAAAAATGTTATTACGAGTG
1 GGTTTAAAAAAGGAAAAATGTTATTACGAGTG
48604608 GGTTTAAAAAAGGAAAAATGTTATTACGAGTG
1 GGTTTAAAAAAGGAAAAATGTTATTACGAGTG
48604640 GGTTT
1 GGTTT
48604645 GAATAGTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.30
Consensus pattern (32 bp):
GGTTTAAAAAAGGAAAAATGTTATTACGAGTG
Found at i:48608033 original size:20 final size:20
Alignment explanation
Indices: 48608008--48608047 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48607998 AAAGAATGGT
48608008 TAAAGTAATGGTTTTTCGAA
1 TAAAGTAATGGTTTTTCGAA
48608028 TAAAGTAATGGTTTTTCGAA
1 TAAAGTAATGGTTTTTCGAA
48608048 GAGGCAATAT
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:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (20 bp):
TAAAGTAATGGTTTTTCGAA
Found at i:48608312 original size:21 final size:21
Alignment explanation
Indices: 48608288--48608342 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
48608278 TTTGCTATTA
* * *
48608288 TTTGTTACTATTTTGTTGTTG
1 TTTGCTACCATTTTGATGTTG
*
48608309 TTTGCTACCATTTTGATGTTAT
1 TTTGCTACCATTTTGATGTT-G
*
48608331 TTTGCTGCCATT
1 TTTGCTACCATT
48608343 CTGCTATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (21 bp):
TTTGCTACCATTTTGATGTTG
Found at i:48608352 original size:22 final size:22
Alignment explanation
Indices: 48608309--48608352 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
48608299 TTTGTTGTTG
* *
48608309 TTTGCTACCATTTTGATGTTAT
1 TTTGCTACCATTCTGATATTAT
* *
48608331 TTTGCTGCCATTCTGCTATTAT
1 TTTGCTACCATTCTGATATTAT
48608353 ATTACTACAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.52
Consensus pattern (22 bp):
TTTGCTACCATTCTGATATTAT
Found at i:48608574 original size:17 final size:18
Alignment explanation
Indices: 48608552--48608585 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48608542 TGATGTATTA
*
48608552 TATTTTTTTA-AAAAATT
1 TATTTTTATATAAAAATT
48608569 TATTTTTATATAAAAAT
1 TATTTTTATATAAAAAT
48608586 AATATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTTATATAAAAATT
Found at i:48612151 original size:13 final size:13
Alignment explanation
Indices: 48612133--48612167 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
48612123 TAAGTTATTA
48612133 TATATTAATATAT
1 TATATTAATATAT
* *
48612146 TATATTCATATTT
1 TATATTAATATAT
48612159 TATATTAAT
1 TATATTAAT
48612168 CTGTGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATTAATATAT
Found at i:48614405 original size:41 final size:42
Alignment explanation
Indices: 48614348--48614435 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 42
48614338 TTTATCTGAA
* *
48614348 TTTTTGTAAATATTTTGTAGTGTTAATTATAAGTTTTAT-AT
1 TTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTATAAT
* * * *
48614389 TTTTTGTGAATCTTTTGTATTATTAATTATAGGTCTTATAAT
1 TTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTATAAT
48614431 TTTTT
1 TTTTT
48614436 TTCCATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 33 0.82
42 7 0.17
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.60
Consensus pattern (42 bp):
TTTTTGTAAATATTTTGTAGTATTAATTATAAGTCTTATAAT
Found at i:48614498 original size:18 final size:19
Alignment explanation
Indices: 48614446--48614499 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
48614436 TTCCATTTTT
48614446 TAGTTTTAAGTCTTATTAG
1 TAGTTTTAAGTCTTATTAG
**
48614465 TAGTGTTTCTG-C-TATTAG
1 TAGT-TTTAAGTCTTATTAG
48614483 -AGTTTTAAGTCTTATTA
1 TAGTTTTAAGTCTTATTA
48614500 TTTTTGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 11 0.39
19 5 0.18
20 4 0.14
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (19 bp):
TAGTTTTAAGTCTTATTAG
Found at i:48619941 original size:23 final size:23
Alignment explanation
Indices: 48619915--48619958 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
48619905 TATTATATTA
48619915 TATTATTATTAAATTTTAATAAT
1 TATTATTATTAAATTTTAATAAT
* *
48619938 TATTATTATTTACTTTTAATA
1 TATTATTATTAAATTTTAATA
48619959 TAAGTAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTATTATTAAATTTTAATAAT
Found at i:48627347 original size:20 final size:18
Alignment explanation
Indices: 48627305--48627348 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
48627295 CCATGTTATC
48627305 TAAAAAATAAACAAAAAA
1 TAAAAAATAAACAAAAAA
* *
48627323 CAAAAAATTATAACATAAAA
1 TAAAAAA-TA-AACAAAAAA
48627343 TAAAAA
1 TAAAAA
48627349 CGAGACAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
20 13 0.62
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (18 bp):
TAAAAAATAAACAAAAAA
Found at i:48631735 original size:39 final size:39
Alignment explanation
Indices: 48631691--48631966 Score: 426
Period size: 39 Copynumber: 7.1 Consensus size: 39
48631681 ATGCAAGACA
* *
48631691 CTGGAAATGTATCCGGGCTAAATTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
48631730 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
48631769 CTGGAAATATATCCGAGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
48631808 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
48631847 CTGGAAATATATCTGGGCCAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
48631886 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
48631925 CTAGAAATGTATCCGGGTTAAAGTCCAGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
48631964 CTG
1 CTG
48631967 ATAATATAAT
Statistics
Matches: 216, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 216 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:48634228 original size:24 final size:24
Alignment explanation
Indices: 48634182--48634237 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
48634172 GGCATTTTGC
* *
48634182 TGGCTTTTATGGCGTACTTTGATT
1 TGGCCTTTATGGCGTACTTTGATA
*
48634206 TGGCCTTTATGGTGTA-TTCTGATA
1 TGGCCTTTATGGCGTACTT-TGATA
48634230 TGGCCTTT
1 TGGCCTTT
48634238 GTGAAATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.12, C:0.14, G:0.25, T:0.48
Consensus pattern (24 bp):
TGGCCTTTATGGCGTACTTTGATA
Found at i:48634792 original size:28 final size:28
Alignment explanation
Indices: 48634760--48634821 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
48634750 TTATCAAGAT
48634760 CAGTAAGGGTATTTGCCAAAAGCATGAC
1 CAGTAAGGGTATTTGCCAAAAGCATGAC
* * *
48634788 CAGTAAGGGTTTTTGCCAAAAGTATGAT
1 CAGTAAGGGTATTTGCCAAAAGCATGAC
48634816 CAGTAA
1 CAGTAA
48634822 ATGATATCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (28 bp):
CAGTAAGGGTATTTGCCAAAAGCATGAC
Found at i:48642720 original size:13 final size:13
Alignment explanation
Indices: 48642702--48642726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48642692 TTATATAAAG
48642702 TGAAATTTTTATA
1 TGAAATTTTTATA
48642715 TGAAATTTTTAT
1 TGAAATTTTTAT
48642727 TATTTTCATT
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TGAAATTTTTATA
Found at i:48642797 original size:70 final size:71
Alignment explanation
Indices: 48642680--48642819 Score: 246
Period size: 70 Copynumber: 2.0 Consensus size: 71
48642670 AATATTCCTG
* * *
48642680 AATATTGTAATATTATATAAAGTGAAATTTTTATATGAAATTTTTATTATTTTCATTATTATTTA
1 AATATTGTAATACTAGATAAAGTGAAATTTTTATATGAAATTATTATTATTTTCATTATTATTTA
48642745 TATGAA
66 TATGAA
48642751 AATATTGTAATACTAGATAAAGTG-AATTTTTATATGAAATTATTATTATTTTCATTATTATTTA
1 AATATTGTAATACTAGATAAAGTGAAATTTTTATATGAAATTATTATTATTTTCATTATTATTTA
48642815 TATGA
66 TATGA
48642820 TTTTTTTATT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 44 0.67
71 22 0.33
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (71 bp):
AATATTGTAATACTAGATAAAGTGAAATTTTTATATGAAATTATTATTATTTTCATTATTATTTA
TATGAA
Found at i:48642817 original size:32 final size:32
Alignment explanation
Indices: 48642709--48642819 Score: 89
Period size: 32 Copynumber: 3.3 Consensus size: 32
48642699 AAGTGAAATT
*
48642709 TTTATATGAAATTTTTATTATTTTCATTATTA
1 TTTATATGAAATTATTATTATTTTCATTATTA
* ** ** *
48642741 TTTATATGAAAATATTGTAATACTAGATAAAGTGAATT-
1 TTTATATGAAATTA-T-T-AT--TATTTTCA-T-TATTA
48642779 TTTATATGAAATTATTATTATTTTCATTATTA
1 TTTATATGAAATTATTATTATTTTCATTATTA
48642811 TTTATATGA
1 TTTATATGA
48642820 TTTTTTTATT
Statistics
Matches: 58, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
31 3 0.05
32 22 0.38
33 5 0.09
34 1 0.02
35 4 0.07
36 1 0.02
37 5 0.09
38 14 0.24
39 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (32 bp):
TTTATATGAAATTATTATTATTTTCATTATTA
Found at i:48642837 original size:87 final size:89
Alignment explanation
Indices: 48642738--48642902 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
48642728 ATTTTCATTA
* * *
48642738 TTATTTATATGAAAATATTGTAATACTAGATAAAG-T-GAATTTTTATATGAAATTATTAT-TAT
1 TTATTTATATGAAAATAATGTAAAACTAGATAAAGTTAAAATTTTTATATGAAATTATTATGT-T
48642800 TTTCATTATTATTTATATGATTTTT
65 TTTCATTATTATTTATATGATTTTT
* * * *
48642825 TTATTTTTATGAAAATAATGTAAAATTTGATAAAGTTAAAATTTTTATATGAAATTTTTATGTTT
1 TTATTTATATGAAAATAATGTAAAACTAGATAAAGTTAAAATTTTTATATGAAATTATTATGTTT
48642890 TTCATTATTATTT
66 TTCATTATTATTT
48642903 TTTATATAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 30 0.44
88 1 0.01
89 36 0.53
90 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (89 bp):
TTATTTATATGAAAATAATGTAAAACTAGATAAAGTTAAAATTTTTATATGAAATTATTATGTTT
TTCATTATTATTTATATGATTTTT
Found at i:48645547 original size:15 final size:14
Alignment explanation
Indices: 48645527--48645558 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
48645517 GGTAGTTGGA
48645527 TTTTCTTTTTCTTTT
1 TTTTCTTTTT-TTTT
48645542 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
48645556 TTT
1 TTT
48645559 GTATTAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:48646902 original size:13 final size:13
Alignment explanation
Indices: 48646884--48646925 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
48646874 TATTTTTTCT
48646884 AATTTTAAATTTA
1 AATTTTAAATTTA
48646897 AATTTTAAATTT-
1 AATTTTAAATTTA
* *
48646909 AATGTTAAATTAA
1 AATTTTAAATTTA
48646922 AATT
1 AATT
48646926 AAATCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
AATTTTAAATTTA
Found at i:48647614 original size:22 final size:22
Alignment explanation
Indices: 48647566--48647624 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48647556 AGACTTGGCA
* *
48647566 AATGTCTCGTGACATACAGACT
1 AATGTCTCGAGACATACAGACC
* * *
48647588 TATGTCTCGAGACATATAGGCC
1 AATGTCTCGAGACATACAGACC
*
48647610 AATGTCTCTAGACAT
1 AATGTCTCGAGACAT
48647625 GCAACCCTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (22 bp):
AATGTCTCGAGACATACAGACC
Found at i:48648328 original size:19 final size:19
Alignment explanation
Indices: 48648295--48648334 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
48648285 TTTAAAATAT
48648295 AAATTTTGAAATTTTTACAA
1 AAATTTTGAAATTTTTA-AA
48648315 AAATTTTG-AATTTTTAAA
1 AAATTTTGAAATTTTTAAA
48648333 AA
1 AA
48648335 TTATTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
AAATTTTGAAATTTTTAAA
Found at i:48648356 original size:20 final size:20
Alignment explanation
Indices: 48648283--48648354 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
48648273 CTTTATAATT
*
48648283 TTTTTAAAATATAAATTTTGAAA
1 TTTTTAAAA-AT-TATTTTG-AA
48648306 TTTTTACAAAA--ATTTTGAA
1 TTTTTA-AAAATTATTTTGAA
*
48648325 TTTTTAAAAATTATTTTGAT
1 TTTTTAAAAATTATTTTGAA
48648345 TATTTTAAAA
1 T-TTTTAAAA
48648355 TTTTTGTTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
18 4 0.09
19 8 0.18
20 14 0.32
21 8 0.18
23 7 0.16
24 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:48649990 original size:42 final size:42
Alignment explanation
Indices: 48649939--48650023 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
48649929 AAAATTAAAG
*
48649939 ACATAATTAGATCATGAGGAAAATTATATCAAATAAATTTTT
1 ACATAATTAGATCATGAGGAAAATTATATCAAATAAAATTTT
*
48649981 ACATAATTAGATCGTGAGGAAAATTATATCAAATAAAATTTT
1 ACATAATTAGATCATGAGGAAAATTATATCAAATAAAATTTT
48650023 A
1 A
48650024 TTTTTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (42 bp):
ACATAATTAGATCATGAGGAAAATTATATCAAATAAAATTTT
Found at i:48660548 original size:21 final size:20
Alignment explanation
Indices: 48660515--48660553 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
48660505 AACAATTTAA
*
48660515 TTTTTCTTCTTTTATATTAT
1 TTTTTCTTATTTTATATTAT
*
48660535 TTTTTCTTTATTTTTTATT
1 TTTTTC-TTATTTTATATT
48660554 CACTTCTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTTATTTTATATTAT
Found at i:48674530 original size:18 final size:18
Alignment explanation
Indices: 48674503--48674549 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
48674493 TCAAAGCACA
48674503 ACATATAATATAC-ATTTC
1 ACATA-AATATACAATTTC
* *
48674521 TCATACAATATTCAATTTC
1 ACATA-AATATACAATTTC
48674540 ACATAAATAT
1 ACATAAATAT
48674550 CAAACTAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (18 bp):
ACATAAATATACAATTTC
Found at i:48676154 original size:43 final size:43
Alignment explanation
Indices: 48675993--48676158 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
48675983 AACTTGTACA
* * * * * *
48675993 ATGCC-ATATCCTAGATATAGTCATACATGTTATCAC-ATATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAATA-CG
* * *
48676035 ATGCCACTGTCCTAGACAGGGTCTTACACGAAATCA-AATAACG
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAAT-ACG
* * *
48676078 ATGCCTATGTCCCAGACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAATACG
* * *
48676121 ATGCCAATGTCCTATACATGCTCTTACATGTAATCACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA
48676159 TCTCAATAAC
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
42 5 0.05
43 91 0.91
44 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAATACG
Found at i:48678922 original size:40 final size:40
Alignment explanation
Indices: 48678797--48678948 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
48678787 TCGAATGATG
* * *
48678797 TCCGGGCAAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
48678837 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
48678877 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
48678918 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
48678949 TCGCTATATC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:48680855 original size:27 final size:27
Alignment explanation
Indices: 48680824--48680877 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
48680814 TTTGGTTGGA
*
48680824 CAACACTATCTGGGTACTCGATGAGCT
1 CAACACTATCCGGGTACTCGATGAGCT
48680851 CAACACTATCCGGGTACTCGATGAGCT
1 CAACACTATCCGGGTACTCGATGAGCT
48680878 ATCTTGTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (27 bp):
CAACACTATCCGGGTACTCGATGAGCT
Found at i:48686976 original size:40 final size:40
Alignment explanation
Indices: 48686867--48687019 Score: 159
Period size: 40 Copynumber: 3.8 Consensus size: 40
48686857 TCGAATGATG
* * *
48686867 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAA
*
48686907 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACCAAA
* * **
48686947 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AA
* * *
48686988 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
48687020 CGCTATATCC
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 84 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
Found at i:48688409 original size:13 final size:14
Alignment explanation
Indices: 48688381--48688409 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48688371 CTCCGGTAAC
48688381 GGACTACGGGTACG
1 GGACTACGGGTACG
48688395 GGACT-CGGGTACG
1 GGACTACGGGTACG
48688408 GG
1 GG
48688410 GTGTTACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.17, C:0.21, G:0.48, T:0.14
Consensus pattern (14 bp):
GGACTACGGGTACG
Found at i:48693460 original size:13 final size:13
Alignment explanation
Indices: 48693442--48693466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48693432 GGGCGTGTGG
48693442 GTCCACATGGGTA
1 GTCCACATGGGTA
48693455 GTCCACATGGGT
1 GTCCACATGGGT
48693467 GTGTGGGGTT
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:0.24, G:0.32, T:0.24
Consensus pattern (13 bp):
GTCCACATGGGTA
Found at i:48696073 original size:8 final size:8
Alignment explanation
Indices: 48696056--48696104 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
48696046 AATTAAGAAT
48696056 ATAATATA
1 ATAATATA
*
48696064 ATAATTTA
1 ATAATATA
48696072 ATAATATA
1 ATAATATA
*
48696080 ATAATTTA
1 ATAATATA
*
48696088 ATAAAATA
1 ATAATATA
*
48696096 ATAAAATA
1 ATAATATA
48696104 A
1 A
48696105 ATAAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:48696077 original size:16 final size:16
Alignment explanation
Indices: 48696056--48696099 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
48696046 AATTAAGAAT
48696056 ATAATATAATAATTTA
1 ATAATATAATAATTTA
48696072 ATAATATAATAATTTA
1 ATAATATAATAATTTA
*
48696088 ATAAAATAATAA
1 ATAATATAATAA
48696100 AATAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATATAATAATTTA
Found at i:48696089 original size:21 final size:22
Alignment explanation
Indices: 48696042--48696084 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
48696032 TATTTATACT
*
48696042 TAATAA-TTAAGAATATAAT-A
1 TAATAATTTAATAATATAATAA
48696062 TAATAATTTAATAATATAATAA
1 TAATAATTTAATAATATAATAA
48696084 T
1 T
48696085 TTAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 12 0.60
22 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATAATTTAATAATATAATAA
Found at i:48696109 original size:17 final size:17
Alignment explanation
Indices: 48696087--48696122 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
48696077 ATAATAATTT
48696087 AATAAAAT-AATAAAATA
1 AATAAAATAAAT-AAATA
48696104 AATAAAATAAATAAATA
1 AATAAAATAAATAAATA
48696121 AA
1 AA
48696123 GAAACAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAATAAATAAATA
Found at i:48700641 original size:39 final size:39
Alignment explanation
Indices: 48700597--48700829 Score: 385
Period size: 39 Copynumber: 6.0 Consensus size: 39
48700587 ATTATATTAT
* *
48700597 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48700636 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48700675 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48700714 CAGCACGAAGACTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48700753 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48700792 CAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
48700830 TCAGTGTCTT
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 181 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:48706843 original size:27 final size:28
Alignment explanation
Indices: 48706789--48706856 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 28
48706779 ATTTGTACAA
48706789 CACTAAGTGTGCGAGTTTGATCATATAG
1 CACTAAGTGTGCGAGTTTGATCATATAG
*
48706817 CACTAAGTGTGCGAG-TTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATCATATAG
48706844 CACTAAGTGTGCG
1 CACTAAGTGTGCG
48706857 GACTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATCATATAG
Found at i:48706867 original size:27 final size:27
Alignment explanation
Indices: 48706789--48706868 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
48706779 ATTTGTACAA
* *
48706789 CACTAAGTGTGCGAGTTTGA-TCATATAG
1 CACTAAGTGTGCGAG-CTCACT-ATATAG
* * *
48706817 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGAGCTCACTATATAG
48706844 CACTAAGTGTGCG-GACTCACTATAT
1 CACTAAGTGTGCGAG-CTCACTATAT
48706869 GCTTTGAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.64
28 16 0.34
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (27 bp):
CACTAAGTGTGCGAGCTCACTATATAG
Found at i:48714718 original size:27 final size:28
Alignment explanation
Indices: 48714662--48714731 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
48714652 AAATTTGTAC
48714662 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48714690 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
48714717 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48714732 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48714742 original size:27 final size:27
Alignment explanation
Indices: 48714662--48714743 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
48714652 AAATTTGTAC
* *
48714662 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
48714690 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
48714717 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
48714744 GCTTTGAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:48718089 original size:48 final size:48
Alignment explanation
Indices: 48718023--48718252 Score: 147
Period size: 46 Copynumber: 4.9 Consensus size: 48
48718013 AGGCCGCATT
*
48718023 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAG
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAG
* * * ***** *
48718071 ATGAGTGCGAGTGTAAGA-CGTGTCTAGGACAT-GCATTAACCTTGGG
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAG
* * * * * *
48718117 ACGTA-AGCCGGTATAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAG
1 ATG-AGTGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGTATTGAG
* ** *
48718163 AT--GTGTCAGTGTAAGACCATGT-TGGGACATGGCATCGGCCTCTAAG
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAT-TGAG
* * *
48718209 AT-AATAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGTAT
1 ATGAGT-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAT
48718253 CTTACCCATG
Statistics
Matches: 132, Mismatches: 40, Indels: 19
0.69 0.21 0.10
Matches are distributed among these distances:
44 18 0.14
45 10 0.08
46 42 0.32
47 14 0.11
48 33 0.25
49 15 0.11
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAG
Found at i:48718189 original size:44 final size:48
Alignment explanation
Indices: 48718130--48718249 Score: 135
Period size: 48 Copynumber: 2.6 Consensus size: 48
48718120 TAAGCCGGTA
* * *
48718130 TAAGA-CATGTCTGGGACATGCATCAG-CTAC-GAGAT-GT-GTCAGTG
1 TAAGACCATGTCTGGGACATGCATCAGCCT-CTAAGATAATAGCCAGTG
*
48718174 TAAGACCATGT-TGGGACATGGCATCGGCCTCTAAGATAATAGCCAGTG
1 TAAGACCATGTCTGGGACAT-GCATCAGCCTCTAAGATAATAGCCAGTG
48718222 TAAGACCATGTCTGGGACATGACATCAG
1 TAAGACCATGTCTGGGACATG-CATCAG
48718250 TATCTTACCC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
44 13 0.21
45 12 0.19
46 6 0.10
47 1 0.02
48 18 0.29
49 13 0.21
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGCATCAGCCTCTAAGATAATAGCCAGTG
Found at i:48720948 original size:8 final size:8
Alignment explanation
Indices: 48720935--48720976 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
48720925 ATTAAGCATG
48720935 TAATATAA
1 TAATATAA
*
48720943 TAATATAT
1 TAATATAA
48720951 TAATATAA
1 TAATATAA
*
48720959 TAATTTAA
1 TAATATAA
*
48720967 TAATAGAA
1 TAATATAA
48720975 TA
1 TA
48720977 GAAGAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:48721013 original size:22 final size:23
Alignment explanation
Indices: 48720968--48721014 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
48720958 ATAATTTAAT
* *
48720968 AATAGAATAGAAGAAATAAAAGA
1 AATAAAATAGAAGAAACAAAAGA
*
48720991 AATAAAATA-AAGAAACAATAGA
1 AATAAAATAGAAGAAACAAAAGA
48721013 AA
1 AA
48721015 AGAGAACAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.72, C:0.02, G:0.13, T:0.13
Consensus pattern (23 bp):
AATAAAATAGAAGAAACAAAAGA
Found at i:48732943 original size:40 final size:40
Alignment explanation
Indices: 48732886--48733135 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
48732876 AACATTGGAA
48732886 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48732926 ACATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48732966 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48733006 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
48733046 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
48733085 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48733126 CTATATCCGG
1 ATATATCCGG
48733136 TTAAATCCCG
Statistics
Matches: 189, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 187 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:48739923 original size:79 final size:80
Alignment explanation
Indices: 48739840--48739987 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
48739830 TATGGTAACC
* * * *
48739840 CGCACCAAGGCCTAC-GGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
48739903 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
48739919 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
48739984 CCGG
66 CCGG
48739988 TTATAATTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
79 13 0.23
80 43 0.77
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:48739929 original size:40 final size:38
Alignment explanation
Indices: 48739880--48739987 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
48739870 ATCACGATTT
*
48739880 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
48739920 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
48739960 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
48739988 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:48747890 original size:40 final size:39
Alignment explanation
Indices: 48747845--48747974 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
48747835 CGGAATATAA
48747845 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
48747885 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48747925 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
48747965 CCGGATATAA
1 CCGGATATAA
48747975 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48747989 original size:40 final size:40
Alignment explanation
Indices: 48747861--48748012 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
48747851 ATAACCATGT
* * *
48747861 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
48747901 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48747941 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
48747981 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48748013 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 87 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:48747995 original size:80 final size:80
Alignment explanation
Indices: 48747861--48748010 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
48747851 ATAACCATGT
* *
48747861 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
48747926 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
48747941 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
48748004 CCCGGAT
64 CCCGGAT
48748011 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:48752040 original size:43 final size:42
Alignment explanation
Indices: 48751979--48752108 Score: 140
Period size: 43 Copynumber: 3.1 Consensus size: 42
48751969 ATAGGATTTT
*
48751979 GATATGTGTTCTCGTGTAAGACCACATCTGGGACGTTGGCATC
1 GATATGTGAT-TCGTGTAAGACCACATCTGGGACGTTGGCATC
** * * *
48752022 GATATGTGATTACGTGTAAGACCATGTCTGGGACATCGACATC
1 GATATGTGATT-CGTGTAAGACCACATCTGGGACGTTGGCATC
*
48752065 G-TATTTGATTCGTGTAAGACC-CTATCTGGGACAG-TGGCATC
1 GATATGTGATTCGTGTAAGACCAC-ATCTGGGAC-GTTGGCATC
48752106 GAT
1 GAT
48752109 TTATCGATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
41 25 0.35
42 10 0.14
43 36 0.51
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGTGATTCGTGTAAGACCACATCTGGGACGTTGGCATC
Found at i:48752106 original size:41 final size:41
Alignment explanation
Indices: 48751990--48752110 Score: 133
Period size: 41 Copynumber: 2.9 Consensus size: 41
48751980 ATATGTGTTC
*
48751990 TCGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATGTGAT
1 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCG-TATTTGAT
* * *
48752032 TACGTGTAAGACCATGTCTGGGACA-TCGACATCGTATTTGAT
1 T-CGTGTAAGACCCTATCTGGGACAGT-GGCATCGTATTTGAT
48752074 TCGTGTAAGACCCTATCTGGGACAGTGGCATCG-ATTT
1 TCGTGTAAGACCCTATCTGGGACAGTGGCATCGTATTT
48752111 ATCGATATGT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
40 4 0.06
41 27 0.40
42 11 0.16
43 25 0.37
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCCTATCTGGGACAGTGGCATCGTATTTGAT
Found at i:48754273 original size:29 final size:25
Alignment explanation
Indices: 48754199--48754256 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
48754189 GTCATCATGT
*
48754199 TTCATTACATTACAACATCAGATGA
1 TTCATTCCATTACAACATCAGATGA
48754224 TTCATTCCATTACAACATCAGATGA
1 TTCATTCCATTACAACATCAGATGA
48754249 TTCATTCC
1 TTCATTCC
48754257 TTAACTTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (25 bp):
TTCATTCCATTACAACATCAGATGA
Found at i:48759436 original size:13 final size:13
Alignment explanation
Indices: 48759418--48759445 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48759408 CAAGTTACAC
48759418 GCCCATGTGTGAG
1 GCCCATGTGTGAG
48759431 GCCCATGTGTGAG
1 GCCCATGTGTGAG
48759444 GC
1 GC
48759446 GTGTAGTGCA
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:0.14, C:0.25, G:0.39, T:0.21
Consensus pattern (13 bp):
GCCCATGTGTGAG
Found at i:48760354 original size:12 final size:12
Alignment explanation
Indices: 48760339--48760368 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
48760329 GCTTCAACTG
48760339 TTTCTTCTTCCC
1 TTTCTTCTTCCC
48760351 TTTCTTCTTCCC
1 TTTCTTCTTCCC
48760363 TTTCTT
1 TTTCTT
48760369 TTAGACACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCTTCTTCCC
Found at i:48763915 original size:21 final size:20
Alignment explanation
Indices: 48763886--48763924 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
48763876 CAAAACTTGT
48763886 ATAATTATCATCAAACATTC
1 ATAATTATCATCAAACATTC
*
48763906 ATAATCTATCATTAAACAT
1 ATAAT-TATCATCAAACAT
48763925 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATTATCATCAAACATTC
Found at i:48764946 original size:68 final size:68
Alignment explanation
Indices: 48764833--48765033 Score: 276
Period size: 68 Copynumber: 3.0 Consensus size: 68
48764823 CGACTTAATT
** * *
48764833 TGTTGCCATAATCGAGCTATGGTTTTACATAATGTAACCCAATGTTTATTGTCCTAGCGGACTCC
1 TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
48764898 ATA
66 ATA
* * * * * *
48764901 TGTTGCCATAGCCGACCTATGGTCTTATACAATGTAACCCCATGTTTATTGTCTTGGCAGACTCC
1 TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
48764966 ATA
66 ATA
* * * *
48764969 TGTTACCATAGCAGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTTTCCTAGCGAACTCC
1 TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
48765034 CGATTCTGAA
Statistics
Matches: 113, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 113 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (68 bp):
TGTTGCCATAGCCGAGCTATGGTTTTACACAATGTAACCCCATGTTTATTGTCCTAGCGGACTCC
ATA
Found at i:48769335 original size:31 final size:31
Alignment explanation
Indices: 48769277--48769337 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
48769267 TCAAAATTGA
* * * *
48769277 AAGTCGAATCTAATCGAGTGAAATGAAATTC
1 AAGTCGAATCGAATCAAATCAAATGAAATTC
*
48769308 AAGTCGAATCGAATCAAATCAAGTGAAATT
1 AAGTCGAATCGAATCAAATCAAATGAAATT
48769338 GTTCTAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (31 bp):
AAGTCGAATCGAATCAAATCAAATGAAATTC
Found at i:48769580 original size:19 final size:19
Alignment explanation
Indices: 48769558--48769645 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 19
48769548 TTTTTTAGAT
48769558 TTTTTTGAAATTTTTATAA
1 TTTTTTGAAATTTTTATAA
***
48769577 TTTTTT-AAA-AAATATAA
1 TTTTTTGAAATTTTTATAA
*
48769594 -ATTTTGAAATTTTTATAAA
1 TTTTTTGAAATTTTTAT-AA
* * *
48769613 TATTTT-AAATTTTAAAAA
1 TTTTTTGAAATTTTTATAA
48769631 TTATTTTG-AATTTTT
1 TT-TTTTGAAATTTTT
48769646 GTTCAGAGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
16 4 0.08
17 8 0.15
18 9 0.17
19 26 0.50
20 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTTTGAAATTTTTATAA
Found at i:48773389 original size:351 final size:351
Alignment explanation
Indices: 48772736--48773451 Score: 1135
Period size: 351 Copynumber: 2.0 Consensus size: 351
48772726 CGCGGGCAGA
* * * *
48772736 CACACGAGCATGTGTCTAGACCGTGTGTGACACACAGCTAAGTACATAGGGGTGTAGTTAAGCTG
1 CACACGGGCATGTGTCTAGACCGTGTGTGACACACAGCCAAGTACATAGGAGTGTAGTTAAGCCG
*
48772801 TGTGTCCCCTGCACCCTAAATTTTGAGAAACAAAATGCTCAGAATTGAGCATACGGGCAGAGACA
66 TGTGTCCCCTACACCCTAAATTTTGAGAAACAAAATGCTCAGAATTGAGCATACGGGCAGAGACA
* *
48772866 CAAGCGTGTGTCTCAACCATATGTCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCGTGTG
131 CAAGCGTGTGTCTCAACCATATATCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCATGTG
* * *
48772931 AAACCTGCACCTAATTTCGAATTGAATTGATTAACCACATGGCCTAGCACACAGGCGTGTGGCAT
196 AAACCTGCACCTAATTTCGAATTGAATTGATTAACCACACGACCTAACACACAGGCGTGTGGCAT
* * * * *
48772996 GGCTGTGTGCACAAGTCAGAGAGTTACATGGGGTCGAACACGGCTTCTAACACGGGCTTGTCCCA
261 GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTAGAACACGGCCTCTAACACGGGCTTCTCCCA
48773061 AGGTCACACGAGCGTGTCCCTTGGAC
326 AGGTCACACGAGCGTGTCCCTTGGAC
* * * * *
48773087 CACACGGGCGTGTGTCTAGATCGTTTGTGACACACTGCCAAGTACATAGGAGTGTAGTTAGGCCG
1 CACACGGGCATGTGTCTAGACCGTGTGTGACACACAGCCAAGTACATAGGAGTGTAGTTAAGCCG
* *
48773152 TGTGTCCCCTACACCCTAAATTTTGAGAAACAGAATGCTCAGAATTGAGCATACGTGCAGAGACA
66 TGTGTCCCCTACACCCTAAATTTTGAGAAACAAAATGCTCAGAATTGAGCATACGGGCAGAGACA
* * * * **
48773217 CAAGTGTGTGTCTCAGCCATGTATGCTACACGGCCTAGAACACGGGCGTGTGTCTTAGCCATGTG
131 CAAGCGTGTGTCTCAACCATATATCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCATGTG
* * *
48773282 AAACCTGTACCTAATTTCGAATTGCATTGATTAACCACACGACCTAACACACGGGCGTGTGGCAT
196 AAACCTGCACCTAATTTCGAATTGAATTGATTAACCACACGACCTAACACACAGGCGTGTGGCAT
*
48773347 GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTAGAACACGGCCTCTAACACGGGCTTCTCCTA
261 GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTAGAACACGGCCTCTAACACGGGCTTCTCCCA
*
48773412 GGGTCACACGAGCGTGTCCCTTGGAC
326 AGGTCACACGAGCGTGTCCCTTGGAC
48773438 CACACGGGCATGTG
1 CACACGGGCATGTG
48773452 AGCCCTGCAC
Statistics
Matches: 331, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
351 331 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (351 bp):
CACACGGGCATGTGTCTAGACCGTGTGTGACACACAGCCAAGTACATAGGAGTGTAGTTAAGCCG
TGTGTCCCCTACACCCTAAATTTTGAGAAACAAAATGCTCAGAATTGAGCATACGGGCAGAGACA
CAAGCGTGTGTCTCAACCATATATCCTACACGGCCTAGAACAAAGGCGTGTGTCTTAGCCATGTG
AAACCTGCACCTAATTTCGAATTGAATTGATTAACCACACGACCTAACACACAGGCGTGTGGCAT
GGCCGTGTGCACAAGTCAGAGAGTTACACGGGGTAGAACACGGCCTCTAACACGGGCTTCTCCCA
AGGTCACACGAGCGTGTCCCTTGGAC
Found at i:48777654 original size:11 final size:11
Alignment explanation
Indices: 48777638--48777674 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
48777628 TTTCTCAGTG
48777638 AAAAAATTATA
1 AAAAAATTATA
48777649 AAAAAATTATA
1 AAAAAATTATA
*
48777660 TAAAAATT-TA
1 AAAAAATTATA
48777670 AAAAA
1 AAAAA
48777675 CTCAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:48778483 original size:18 final size:19
Alignment explanation
Indices: 48778451--48778487 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
48778441 TATATTTTAT
48778451 AATTTTTTTCATAGTTTTTG
1 AATTTTTTT-ATAGTTTTTG
48778471 AATTTTTTT-TAGTTTTT
1 AATTTTTTTATAGTTTTT
48778488 CACTCATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.70
Consensus pattern (19 bp):
AATTTTTTTATAGTTTTTG
Found at i:48778821 original size:29 final size:29
Alignment explanation
Indices: 48778754--48778845 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 29
48778744 GGCCAATTGA
*
48778754 TTTTTTTTTATCAGTGAA-AGCTTAATTGGG
1 TTTTTTTTTTTCA-T-AAGAGCTTAATTGGG
****
48778784 TGCGCTTTTTTCATAAGAGCTTAATTGGG
1 TTTTTTTTTTTCATAAGAGCTTAATTGGG
*
48778813 --TTTTTTTTTCATAATG-GCTCAATT-GG
1 TTTTTTTTTTTCATAA-GAGCTTAATTGGG
48778839 TTTTTTT
1 TTTTTTT
48778846 AATTAAGGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.04
27 18 0.37
28 8 0.16
29 13 0.27
30 8 0.16
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (29 bp):
TTTTTTTTTTTCATAAGAGCTTAATTGGG
Found at i:48778840 original size:26 final size:27
Alignment explanation
Indices: 48778789--48778845 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
48778779 TTGGGTGCGC
*
48778789 TTTTTTCATAAGAGCTTAATTGGGTTT
1 TTTTTTCATAAGAGCTCAATTGGGTTT
48778816 TTTTTTCATAATG-GCTCAATT-GGTTT
1 TTTTTTCATAA-GAGCTCAATTGGGTTT
48778842 TTTT
1 TTTT
48778846 AATTAAGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.32
27 18 0.64
28 1 0.04
ACGTcount: A:0.19, C:0.09, G:0.16, T:0.56
Consensus pattern (27 bp):
TTTTTTCATAAGAGCTCAATTGGGTTT
Found at i:48781354 original size:20 final size:21
Alignment explanation
Indices: 48781320--48781373 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
48781310 TGATGATATT
*
48781320 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
48781341 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
48781361 TTTTATTATTTTA
1 TTATATTATTTTA
48781374 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:48781377 original size:3 final size:3
Alignment explanation
Indices: 48781359--48781407 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
48781349 TTTAATGAGA
*
48781359 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
48781404 TAT T
1 TAT T
48781408 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:48781379 original size:11 final size:11
Alignment explanation
Indices: 48781363--48781401 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
48781353 ATGAGATATT
48781363 TTATTATTTTA
1 TTATTATTTTA
*
48781374 TTATTATTTCA
1 TTATTATTTTA
48781385 TTATTATTTTA
1 TTATTATTTTA
48781396 TTATTA
1 TTATTA
48781402 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:48781387 original size:19 final size:19
Alignment explanation
Indices: 48781359--48781400 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
48781349 TTTAATGAGA
*
48781359 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
48781378 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
48781397 TATT
1 TATT
48781401 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:48783563 original size:23 final size:23
Alignment explanation
Indices: 48783454--48783570 Score: 103
Period size: 23 Copynumber: 5.0 Consensus size: 23
48783444 CCCGATATAT
48783454 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* *
48783477 GGCTTTTTGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * *
48783500 GTGCTC-GCTTGAACTTCCCGATATA
1 G-GCTCTTCGTGAGCTTCCCG--ATA
* * *
48783525 TGGCTATCCG-GAGCTTTCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
*
48783548 GGCTCTTCGTGAGCTTTCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
48783571 TGGTTCTTTG
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
22 7 0.09
23 48 0.65
24 3 0.04
25 14 0.19
26 2 0.03
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.33
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:48786222 original size:50 final size:53
Alignment explanation
Indices: 48786130--48786245 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 53
48786120 CACTTACATG
* * * *
48786130 ATATGGTCTTCTTCCCATATGATTCCATAGCCCACTAGTTATGGTCTTACACA
1 ATATGGTCTTCTTCCCATATGATGCCATAACCCACCAATTATGGTCTTACACA
* *
48786183 ATATGGTCTTCTT-CC-TAT-ATGCTATAACCCACCAATTATGGTCTTACACG
1 ATATGGTCTTCTTCCCATATGATGCCATAACCCACCAATTATGGTCTTACACA
48786233 ATATGGTCTTCTT
1 ATATGGTCTTCTT
48786246 TCAGTGCCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 39 0.68
51 3 0.05
52 2 0.04
53 13 0.23
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (53 bp):
ATATGGTCTTCTTCCCATATGATGCCATAACCCACCAATTATGGTCTTACACA
Found at i:48788180 original size:20 final size:19
Alignment explanation
Indices: 48788157--48788231 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 19
48788147 TTTAAAGTCT
48788157 TTAAAAATGATAAAAAAATA
1 TTAAAAAT-ATAAAAAAATA
*
48788177 TTAATAAAT-TCCAAAAAATATT
1 TTAA-AAATAT--AAAAAA-ATA
* *
48788199 TTAAAAAT-TTAAAAATTA
1 TTAAAAATATAAAAAAATA
48788217 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
48788232 TTTTAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
18 9 0.20
19 11 0.24
20 4 0.09
21 15 0.33
22 6 0.13
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
TTAAAAATATAAAAAAATA
Found at i:48788211 original size:8 final size:8
Alignment explanation
Indices: 48788198--48788240 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
48788188 CAAAAAATAT
48788198 TTTAAAAA
1 TTTAAAAA
48788206 TTTAAAAA
1 TTTAAAAA
48788214 TTATTAAAAA
1 -T-TTAAAAA
*
48788224 TATAAAAA
1 TTTAAAAA
*
48788232 TTTTAAAA
1 TTTAAAAA
48788240 T
1 T
48788241 AAAAAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 21 0.70
9 2 0.07
10 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTTAAAAA
Found at i:48788220 original size:18 final size:17
Alignment explanation
Indices: 48788191--48788247 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 17
48788181 TAAATTCCAA
*
48788191 AAAATATTTTAAAAATTT
1 AAAA-ATTTTAAAAATAT
48788209 AAAAATTATTAAAAATAT
1 AAAAATT-TTAAAAATAT
48788227 AAAAATTTT-AAAATA-
1 AAAAATTTTAAAAATAT
48788242 AAAAAT
1 AAAAAT
48788248 AACAGTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
15 6 0.16
16 6 0.16
17 5 0.14
18 20 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATTTTAAAAATAT
Found at i:48792421 original size:20 final size:19
Alignment explanation
Indices: 48792377--48792436 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
48792367 TTATACAGGT
* *
48792377 TTGCACTTCGGTGCCTCTGA
1 TTGCAATTCAGTGCCTCT-A
48792397 TTGCATATTCA-TGCCTCTA
1 TTGCA-ATTCAGTGCCTCTA
*
48792416 TCTGCAGTTCAGTGCCTCTA
1 T-TGCAATTCAGTGCCTCTA
48792436 T
1 T
48792437 AATGCATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.18
20 25 0.74
21 3 0.09
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGCAATTCAGTGCCTCTA
Found at i:48799784 original size:46 final size:46
Alignment explanation
Indices: 48799717--48799889 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
48799707 AACCCGCCCC
* *
48799717 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
48799763 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCATCCA
* * *
48799811 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
48799856 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48799890 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 1 0.01
46 60 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:48799828 original size:93 final size:93
Alignment explanation
Indices: 48799722--48799892 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
48799712 GCCCCTAAGT
* *
48799722 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48799787 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
48799815 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48799880 CGAGTTCGGATGC
66 CGAGTTCAGATGC
48799893 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:48800346 original size:30 final size:30
Alignment explanation
Indices: 48800312--48800371 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48800302 ATTTAATACG
*
48800312 AACTTTGGAAAAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
48800342 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
48800372 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:48809653 original size:3 final size:3
Alignment explanation
Indices: 48809645--48809690 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
48809635 TTCGATCTTA
*
48809645 ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
48809691 GACTGTTGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:48810264 original size:14 final size:14
Alignment explanation
Indices: 48810245--48810274 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48810235 TATTTTCAAA
48810245 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
48810259 ATAGATTCACGCAT
1 ATAGATTAACGCAT
48810273 AT
1 AT
48810275 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:48814034 original size:33 final size:33
Alignment explanation
Indices: 48813992--48814059 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
48813982 CGAGTCACAC
48813992 ATACATAGTTTATCATCCACTCAAGATTAAGGT
1 ATACATAGTTTATCATCCACTCAAGATTAAGGT
* *
48814025 ATACATAGTTTATCATCCACTCGAGATTAATGT
1 ATACATAGTTTATCATCCACTCAAGATTAAGGT
48814058 AT
1 AT
48814060 GTCCCACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (33 bp):
ATACATAGTTTATCATCCACTCAAGATTAAGGT
Found at i:48816227 original size:19 final size:20
Alignment explanation
Indices: 48816197--48816242 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
48816187 CGGAAAATGA
48816197 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
48816217 TTTCT-GAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
48816236 TTTCTAG
1 TTTCTAG
48816243 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:48817075 original size:15 final size:15
Alignment explanation
Indices: 48817055--48817087 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48817045 TTCCATCAGT
48817055 AAGTTGCCAAGCATA
1 AAGTTGCCAAGCATA
*
48817070 AAGTTGCCAGGCATA
1 AAGTTGCCAAGCATA
48817085 AAG
1 AAG
48817088 ATACAAGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (15 bp):
AAGTTGCCAAGCATA
Found at i:48823159 original size:25 final size:25
Alignment explanation
Indices: 48823131--48823180 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
48823121 GGAAGAGAAC
48823131 ATGAAGAAC-GAAAGAAGGAAAAGGA
1 ATGAAGAACAG-AAGAAGGAAAAGGA
*
48823156 ATGAAGAACAGAAGAAGGAGAAGGA
1 ATGAAGAACAGAAGAAGGAAAAGGA
48823181 GAATGAGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.34, T:0.04
Consensus pattern (25 bp):
ATGAAGAACAGAAGAAGGAAAAGGA
Found at i:48825324 original size:12 final size:12
Alignment explanation
Indices: 48825307--48825336 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
48825297 ACTTCCCTTC
48825307 TTTTTTTTTTCT
1 TTTTTTTTTTCT
48825319 TTTTTTTTTTCT
1 TTTTTTTTTTCT
48825331 TTTTTT
1 TTTTTT
48825337 GGCTCATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:48828984 original size:19 final size:19
Alignment explanation
Indices: 48828960--48828997 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48828950 TAAAATAAAG
48828960 TCAGTCTCCATCTCAATTA
1 TCAGTCTCCATCTCAATTA
48828979 TCAGTCTCCATCTCAATTA
1 TCAGTCTCCATCTCAATTA
48828998 CAAAAGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
TCAGTCTCCATCTCAATTA
Found at i:48829128 original size:25 final size:25
Alignment explanation
Indices: 48829092--48829139 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
48829082 AGTTAGTACT
*
48829092 GAAGAAGGAAAAAAAAAAAGATACC
1 GAAGAAGAAAAAAAAAAAAGATACC
48829117 GAAGAAGAAAAAAAAAAAAGATA
1 GAAGAAGAAAAAAAAAAAAGATA
48829140 AACTAAAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (25 bp):
GAAGAAGAAAAAAAAAAAAGATACC
Found at i:48838486 original size:21 final size:20
Alignment explanation
Indices: 48838462--48838518 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
48838452 TTTTATAAAT
*
48838462 TTTAGAAATATTTTAAAATCA
1 TTTA-AAATACTTTAAAATCA
*
48838483 TTTATAGAT-CTTTAAAATCGA
1 TTTA-AAATACTTTAAAATC-A
48838504 TTTAAAATACTTTAA
1 TTTAAAATACTTTAA
48838519 GTTTGGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTAAAATACTTTAAAATCA
Found at i:48858241 original size:42 final size:43
Alignment explanation
Indices: 48858133--48858291 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
48858123 AACAAGTACA
* * * *
48858133 ATGCCAATGTCTCAGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAATATCG
** * * *
48858176 ATGCCTCTGTCGCAGATAGGGTCTTACACG-AAATCAGATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-ATATCG
*
48858218 ATGCCAATATCCCAGACATGGTCTTACACGTAAATCTTAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC--AATATCG
* ** *
48858262 AAGCCTGTGTCCCAGACACGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
48858292 ATATTTCAGA
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
42 30 0.33
43 34 0.37
44 27 0.29
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAATATCG
Found at i:48859797 original size:40 final size:40
Alignment explanation
Indices: 48859751--48859918 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
48859741 CGGAATATAA
48859751 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *** * *
48859791 TCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48859831 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
48859871 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
48859911 CCGGATAT
1 CCGGATAT
48859919 CATTCAATTT
Statistics
Matches: 100, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
39 1 0.01
40 99 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48859901 original size:80 final size:80
Alignment explanation
Indices: 48859767--48859916 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
48859757 ATAACCACGT
* * *
48859767 GCACAAATGCCTTCGGGTCTTAGCTCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
48859832 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
48859847 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
48859910 CCCGGAT
64 CCCGGAT
48859917 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:48883660 original size:18 final size:18
Alignment explanation
Indices: 48883633--48883681 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
48883623 ATTGCTTTTC
48883633 AGAAGCACTTTTGGGACA
1 AGAAGCACTTTTGGGACA
*
48883651 AGAAGTACTTTTGGGACA
1 AGAAGCACTTTTGGGACA
*
48883669 AAAAGCACTTTTG
1 AGAAGCACTTTTG
48883682 AGATAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (18 bp):
AGAAGCACTTTTGGGACA
Found at i:48885911 original size:23 final size:23
Alignment explanation
Indices: 48885869--48885913 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48885859 TCATGACTTA
*
48885869 TAAAATTTATGATTTGAAATTTT
1 TAAAATTTATGATTTAAAATTTT
48885892 TAAAATTT-TGATTTTAAAATTT
1 TAAAATTTATGA-TTTAAAATTT
48885914 AGGATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
TAAAATTTATGATTTAAAATTTT
Found at i:48886829 original size:2 final size:2
Alignment explanation
Indices: 48886822--48886846 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48886812 GAAGAGCTTT
48886822 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
48886847 TTAGGGGCAA
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:48897104 original size:40 final size:40
Alignment explanation
Indices: 48897067--48897252 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
48897057 GCTACTCGTT
* *
48897067 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
48897107 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * **
48897147 CAAATGCCTTC-GAATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * * *
48897187 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
48897228 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
48897253 CATCATTCGA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 115 0.89
41 12 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:48897246 original size:80 final size:81
Alignment explanation
Indices: 48897067--48897252 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 81
48897057 GCTACTCGTT
* *
48897067 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
48897131 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* * * **
48897147 CAAATGCCTTC-GAATCTTAGTCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
*
48897209 CGGATATAGTCACTTAGCA
64 CGGATATAGTAAC-TAGCA
48897228 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48897253 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
79 5 0.06
80 72 0.81
81 12 0.13
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTAGCA
Found at i:48903923 original size:40 final size:40
Alignment explanation
Indices: 48903886--48904070 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
48903876 GCTACTCGTT
*
48903886 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
48903926 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
48903966 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
48904006 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
48904047 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48904071 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 13 0.10
40 111 0.83
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:48906114 original size:55 final size:55
Alignment explanation
Indices: 48906054--48906204 Score: 198
Period size: 55 Copynumber: 2.7 Consensus size: 55
48906044 AATCGATTAG
* * *
48906054 ACATATAAACAATCGATTCAAAATAAGCAATATTCCAACATA-A-AACTTTATTTGA
1 ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACA-AGACAA-TCTATTTAA
* * *
48906109 ACATATAAAAAATTGATTCAAAAGAAGCAGTATTCCAACAAGACAATCTATTTAA
1 ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACAAGACAATCTATTTAA
* *
48906164 ACATATAAACAATCGATTCAATAGAAGCAATATCCCAACAA
1 ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACAA
48906205 TTAAGAAGAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
54 1 0.01
55 80 0.96
56 2 0.02
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (55 bp):
ACATATAAACAATCGATTCAAAAGAAGCAATATTCCAACAAGACAATCTATTTAA
Found at i:48917302 original size:40 final size:39
Alignment explanation
Indices: 48917137--48917320 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
48917127 AAATTGAATG
* * *
48917137 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
48917177 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
48917217 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
48917257 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
48917296 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48917321 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:48917345 original size:80 final size:81
Alignment explanation
Indices: 48917177--48917365 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
48917167 GCTGGAAATT
* * * *
48917177 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
48917242 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
48917258 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
48917321 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
48917337 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
48917366 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:48925420 original size:40 final size:39
Alignment explanation
Indices: 48925255--48925438 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
48925245 AAATTGAATG
* * *
48925255 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
48925295 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
48925335 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
48925375 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
48925414 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48925439 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:48925463 original size:80 final size:81
Alignment explanation
Indices: 48925295--48925483 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
48925285 GCTGGAAATT
* * * *
48925295 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
48925360 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
48925376 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
48925439 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
48925455 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
48925484 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:48930804 original size:19 final size:19
Alignment explanation
Indices: 48930762--48930805 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
48930752 GTGTCTGTCT
48930762 CTTTTAAAATATTTATTTA
1 CTTTTAAAATATTTATTTA
* *
48930781 TTTTTAATA-ATTTATTATA
1 CTTTTAAAATATTTATT-TA
48930800 CTTTTA
1 CTTTTA
48930806 TTGGATACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
CTTTTAAAATATTTATTTA
Found at i:48932089 original size:6 final size:6
Alignment explanation
Indices: 48932078--48932130 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
48932068 GTTAACGAAC
48932078 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
48932126 AAATA
1 AAATA
48932131 AATATTTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:48932201 original size:44 final size:45
Alignment explanation
Indices: 48932120--48932225 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 45
48932110 ATATAAATAT
**
48932120 AAATATAAATAAATATTTATATTTATGGAAAAATTAGATTTAAATAAAA
1 AAAT-TAAATAAATATTTATATTTA--GAAAAATTAGATACAAA-AAAA
* *
48932169 AAATTAAATAAATATTTATA-TTA-AAATATTAGATACAAAAAAT
1 AAATTAAATAAATATTTATATTTAGAAAAATTAGATACAAAAAAA
*
48932212 CAATTAAATAAATA
1 AAATTAAATAAATA
48932226 AATTATGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
43 16 0.31
44 13 0.25
47 3 0.06
48 16 0.31
49 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (45 bp):
AAATTAAATAAATATTTATATTTAGAAAAATTAGATACAAAAAAA
Found at i:48934630 original size:16 final size:17
Alignment explanation
Indices: 48934598--48934630 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48934588 ATTAAATAAA
*
48934598 ATTATTTTAATTAAAAT
1 ATTATTTCAATTAAAAT
48934615 ATTATTTCAA-TAAAAT
1 ATTATTTCAATTAAAAT
48934631 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTATTTCAATTAAAAT
Done.