Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 65 of 120
Found at i:19073365 original size:67 final size:67
Alignment explanation
Indices: 19073223--19073369 Score: 179
Period size: 67 Copynumber: 2.2 Consensus size: 67
19073213 ACGGCTTGGC
* * * * * * *
19073223 ACACGGACATGTGGCTTGGCCGTGAGACCTAAGTCAAAGAGTTACATGGGAACGAATGGGGGTTG
1 ACACGGCCGTGTGGCTTGGCCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTG
19073288 GG
66 GG
* * *
19073290 ACATGGCCGTGTGGCTTGGCCGTGTGACCCAAGTCAAAGAGTAACATGGGCAC-AGACGCGGGCT
1 ACACGGCCGTGTGGCTTGGCCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGA-ACGCGGGCT
19073354 GGG
65 GGG
*
19073357 GCACGGCCGTGTG
1 ACACGGCCGTGTG
19073370 TCCCTACTTC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 1 0.01
67 66 0.99
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.18
Consensus pattern (67 bp):
ACACGGCCGTGTGGCTTGGCCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTG
GG
Found at i:19089250 original size:14 final size:14
Alignment explanation
Indices: 19089231--19089257 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19089221 TGATTCGATA
19089231 TAACCTTTTATGAT
1 TAACCTTTTATGAT
19089245 TAACCTTTTATGA
1 TAACCTTTTATGA
19089258 AATAATCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
TAACCTTTTATGAT
Found at i:19094524 original size:77 final size:76
Alignment explanation
Indices: 19094397--19094609 Score: 293
Period size: 75 Copynumber: 2.8 Consensus size: 76
19094387 TATCCGTTAT
* * *
19094397 CGGTGGATTTAGCACTTAGCAACCATCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
1 CGGTGGAATTAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
19094462 CATTCAAAAATA
66 CATT-AAAAATA
* * *
19094474 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAACACTTAGCAACCCC-TTTCA
1 CGGTGGAATTAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
* *
19094538 CATTTAAGATA
66 CATTAAAAATA
* * * * *
19094549 TGATGGGATTAGCACTTAGCAACCACCAATGATTCAAGGAATCAGCACTTAGAAACCCCTT
1 CGGTGGAATTAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTT
19094610 GGGGGAATTA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
75 56 0.47
76 10 0.08
77 53 0.45
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (76 bp):
CGGTGGAATTAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
CATTAAAAATA
Found at i:19095261 original size:11 final size:13
Alignment explanation
Indices: 19095231--19095263 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
19095221 GCCCAAACGT
19095231 CGAAATTTTCGAA
1 CGAAATTTTCGAA
19095244 CGAAATTTTC-AA
1 CGAAATTTTCGAA
19095256 -GAAATTTT
1 CGAAATTTT
19095264 TTCGTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 2 0.10
13 10 0.50
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (13 bp):
CGAAATTTTCGAA
Found at i:19101679 original size:21 final size:21
Alignment explanation
Indices: 19101655--19101696 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19101645 GATCAAATCC
* *
19101655 AAAATGGAAACTGAGATAGAA
1 AAAATAGAAACTGAGAAAGAA
*
19101676 AAAATAGAATCTGAGAAAGAA
1 AAAATAGAAACTGAGAAAGAA
19101697 TCGAGCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.21, T:0.14
Consensus pattern (21 bp):
AAAATAGAAACTGAGAAAGAA
Found at i:19102137 original size:23 final size:22
Alignment explanation
Indices: 19102092--19102138 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19102082 TTGTCTTTGG
* **
19102092 TTTTTATTTCTTTTTAGGTTTT
1 TTTTTATTTCTTGTTAGAATTT
19102114 TTTTTATTTCTTAGTTAGAATTT
1 TTTTTATTTCTT-GTTAGAATTT
19102137 TT
1 TT
19102139 CTTCCGCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.15, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTTATTTCTTGTTAGAATTT
Found at i:19102404 original size:25 final size:25
Alignment explanation
Indices: 19102376--19102425 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
19102366 CAAAAGGGGG
* *
19102376 TAAGGCATTTTGCATGAATTTTTAA
1 TAAGACATTTCGCATGAATTTTTAA
19102401 TAAGACATTTCGCATGAATTTTTAA
1 TAAGACATTTCGCATGAATTTTTAA
19102426 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (25 bp):
TAAGACATTTCGCATGAATTTTTAA
Found at i:19106648 original size:42 final size:43
Alignment explanation
Indices: 19106501--19106736 Score: 205
Period size: 43 Copynumber: 5.6 Consensus size: 43
19106491 ATCCATTACT
* * * *
19106501 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACATTCAATAATA
* * * * *
19106543 CGG-GGAATCAACACATAGCAACC-CCTTTCACAGTAAAAAATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACATTCAATAATA
* * *
19106585 CGGTGGATTCAGCACTTAGCAACCACCTTTATATTCAGTAATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACATTCAATAATA
** * * *
19106628 C-AAGGAATCAGCACATAGCAACC-CCTTTCACAATCAATGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACATTCAATAATA
* * *
19106670 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACATTCAATAATA
* *
19106713 CGG-GAAAATCAGCACTTAGTAACC
1 CGGTG-GAATCAGCACTTAGCAACC
19106737 CTTTTTTATT
Statistics
Matches: 153, Mismatches: 33, Indels: 15
0.76 0.16 0.07
Matches are distributed among these distances:
40 2 0.01
41 24 0.16
42 42 0.27
43 75 0.49
44 10 0.07
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACATTCAATAATA
Found at i:19106653 original size:85 final size:85
Alignment explanation
Indices: 19106501--19106711 Score: 307
Period size: 85 Copynumber: 2.5 Consensus size: 85
19106491 ATCCATTACT
* **
19106501 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAAGGAATCAACACATAGCAAC
*
19106565 CCCTTTCACAGTAAAAAATA
66 CCCTTTCACAATAAAAAATA
* *
19106585 CGGTGGATTCAGCACTTAGCAACCACCTTTATATTCAGTAATACAAGGAATCAGCACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAAGGAATCAACACATAGCAAC
* **
19106650 CCCTTTCACAATCAATGATA
66 CCCTTTCACAATAAAAAATA
* * *
19106670 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAAT
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAAT
19106712 TCGGGAAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 27 0.24
85 86 0.76
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (85 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAAGGAATCAACACATAGCAAC
CCCTTTCACAATAAAAAATA
Found at i:19106740 original size:85 final size:84
Alignment explanation
Indices: 19106501--19106737 Score: 305
Period size: 85 Copynumber: 2.8 Consensus size: 84
19106491 ATCCATTACT
* *
19106501 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATAC-GGGAATCAGCACATAGCAAC
*
19106565 CCCTTTCACAGTAAAAAATA
65 CCCTTTCACAATAAAAAATA
* *
19106585 CGGTGGATTCAGCACTTAGCAACCACCTTTATATTCAGTAATACAAGGAATCAGCACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATAC-GGGAATCAGCACATAGCAAC
* **
19106650 CCCTTTCACAATCAATGATA
65 CCCTTTCACAATAAAAAATA
* * * * * *
19106670 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAATTCGGGAAAATCAGCACTTAGTAA
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGG--AATCAGCACATAGCAA
19106735 CCC
64 CCC
19106738 TTTTTTATTC
Statistics
Matches: 133, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
84 29 0.22
85 87 0.65
86 17 0.13
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (84 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGAATCAGCACATAGCAACC
CCTTTCACAATAAAAAATA
Found at i:19113781 original size:20 final size:20
Alignment explanation
Indices: 19113735--19113786 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
19113725 AAGCTTATGC
19113735 TAAGTAAATGGAATACAAAG
1 TAAGTAAATGGAATACAAAG
* * ** *
19113755 TAGGTAAATGGGATGGAAGG
1 TAAGTAAATGGAATACAAAG
19113775 TAAGTAAATGGA
1 TAAGTAAATGGA
19113787 GTTGTTCATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.31, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATACAAAG
Found at i:19124821 original size:21 final size:21
Alignment explanation
Indices: 19124791--19124830 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19124781 ATCCTAGACA
*
19124791 TGGATATATCTATTGCCATAC
1 TGGATATATCTATTACCATAC
*
19124812 TGGATGTATCTATTACCAT
1 TGGATATATCTATTACCAT
19124831 TTTAACCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGGATATATCTATTACCATAC
Found at i:19147897 original size:43 final size:42
Alignment explanation
Indices: 19147788--19147898 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
19147778 AACTTACGTC
* **
19147788 TAAGACCATGTCTGGGACATTGGCATCATATATGATTTCTTG
1 TAAGACCATGTCTGGGACATTGGCATCATATATGATTACAAG
* * * * *
19147830 TAACACCCTGTCTAGGATAGTGGCATCGATAT-TAGATTACAAG
1 TAAGACCATGTCTGGGACATTGGCATC-ATATAT-GATTACAAG
19147873 TAAGACCATGTCTGGGACATTGGCAT
1 TAAGACCATGTCTGGGACATTGGCAT
19147899 TGTATGAGCT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCATATATGATTACAAG
Found at i:19151719 original size:47 final size:47
Alignment explanation
Indices: 19151649--19151808 Score: 212
Period size: 47 Copynumber: 3.4 Consensus size: 47
19151639 GTCACAGTAA
* * * *
19151649 TGCAAATAATCTGCCACTGAATAATATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACCACTTT
* * *
19151696 TGTAGATAAATTGCCACTTAATAAAATTGTGGACAAGCCACCACATT
1 TGCAGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACCACTTT
* * * *
19151743 AGCAGATAAACTGTCACTTTATAAAATTATGGACAAGCCACCACTTT
1 TGCAGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACCACTTT
*
19151790 TGCAGATAAACTGTCACTT
1 TGCAGATAAACTGCCACTT
19151809 CTTCCTCGTT
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (47 bp):
TGCAGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACCACTTT
Found at i:19153743 original size:15 final size:15
Alignment explanation
Indices: 19153719--19153748 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19153709 TTCTCGGTTC
*
19153719 ACTAATCCAATTTTT
1 ACTAACCCAATTTTT
19153734 ACTAACCCAATTTTT
1 ACTAACCCAATTTTT
19153749 GGGATGTGAC
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTAACCCAATTTTT
Found at i:19156685 original size:20 final size:20
Alignment explanation
Indices: 19156660--19156699 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19156650 ATGTGGCCAA
19156660 AAAAAT-AACATTTTCACTTT
1 AAAAATCAA-ATTTTCACTTT
19156680 AAAAATCAAATTTTCACTTT
1 AAAAATCAAATTTTCACTTT
19156700 GTCATGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATCAAATTTTCACTTT
Found at i:19156803 original size:22 final size:23
Alignment explanation
Indices: 19156764--19156808 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
19156754 TGCTATTAAC
*
19156764 ATATTTACACAATATATATATCA
1 ATATTTACACAATATATAAATCA
* *
19156787 ATATTT-CACATTTTATAAATCA
1 ATATTTACACAATATATAAATCA
19156809 TGCGAAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATTTACACAATATATAAATCA
Found at i:19157817 original size:24 final size:24
Alignment explanation
Indices: 19157769--19157815 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19157759 ACTGGTCATA
*
19157769 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
19157793 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
19157816 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:19158524 original size:27 final size:26
Alignment explanation
Indices: 19158481--19158725 Score: 256
Period size: 27 Copynumber: 9.1 Consensus size: 26
19158471 CAATATCTGC
*
19158481 ACCGAAATACCCTCATAGAGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
* * *
19158508 ACCGAAATACCTCCATAGGTTACAATT
1 ACCGAAATACC-CCATAGGGTAAAATG
19158535 ACCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
**
19158562 ATTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
** * *
19158589 ATTGAAATACCCTTAAAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
*
19158616 ACTGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCC-ATAGGGTAAAATG
*
19158643 ACCGAAATCCCCCCATAGGGTAAAATG
1 ACCGAAAT-ACCCCATAGGGTAAAATG
* * *
19158670 ATCGAAATACCCCCACAGGGTAAAATA
1 ACCGAAATA-CCCCATAGGGTAAAATG
* *
19158697 ATCGAAATACCCCCATAAGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
19158724 AC
1 AC
19158726 TGTTATTGAT
Statistics
Matches: 187, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.02
27 175 0.94
28 8 0.04
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (26 bp):
ACCGAAATACCCCATAGGGTAAAATG
Found at i:19158569 original size:54 final size:54
Alignment explanation
Indices: 19158481--19158725 Score: 301
Period size: 54 Copynumber: 4.5 Consensus size: 54
19158471 CAATATCTGC
* * * * *
19158481 ACCGAAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGTTACAATT
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
**
19158535 ACCGAAATACCCTCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
** * * * *
19158589 ATTGAAATACCCTTAAAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
* * * * *
19158643 ACCGAAATCCCCCCATAGGGTAAAATGATCGAAATACCCCCACAGGGTAAAATA
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
* * *
19158697 ATCGAAATACCCCCATAAGGTAAAATGAC
1 ACCGAAATACCCTCATAGGGTAAAATGAC
19158726 TGTTATTGAT
Statistics
Matches: 163, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 163 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (54 bp):
ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
Found at i:19160432 original size:28 final size:29
Alignment explanation
Indices: 19160392--19160592 Score: 301
Period size: 28 Copynumber: 7.2 Consensus size: 29
19160382 TTATTACACT
*
19160392 ACACTG-TTACTGTATTTGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
19160420 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
19160448 ACACT-ATTACTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
19160476 ACACT-ATTACTGTATTAGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
19160504 ACACTAATT-CTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
19160532 ACACT-ATTACTGTATTGGGCTATGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
19160560 ACACTG-TTACTATATTGGG-TAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
19160587 ACACTG
1 ACACTG
19160593 TACTGTCACT
Statistics
Matches: 162, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
27 19 0.12
28 138 0.85
29 5 0.03
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (29 bp):
ACACTGATTACTGTATTGGGCTAAGGCCC
Found at i:19160490 original size:84 final size:84
Alignment explanation
Indices: 19160392--19160592 Score: 341
Period size: 84 Copynumber: 2.4 Consensus size: 84
19160382 TTATTACACT
19160392 ACACTGTTACTGTATTTGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACACTATTA
1 ACACTGTTACTGTATTTGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACACTATTA
19160457 CTGTATTGGGCTAAGGCCC
66 CTGTATTGGGCTAAGGCCC
* * *
19160476 ACACTATTACTGTATTAGGCTAAGGCCCACACTAATTCTGTATTGGGCTAAGGCCCACACTATTA
1 ACACTGTTACTGTATTTGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACACTATTA
*
19160541 CTGTATTGGGCTATGGCCC
66 CTGTATTGGGCTAAGGCCC
* *
19160560 ACACTGTTACTATA-TTGGGTAAGGCCCACACTG
1 ACACTGTTACTGTATTTGGCTAAGGCCCACACTG
19160593 TACTGTCACT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
83 16 0.15
84 92 0.85
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (84 bp):
ACACTGTTACTGTATTTGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACACTATTA
CTGTATTGGGCTAAGGCCC
Found at i:19178176 original size:17 final size:17
Alignment explanation
Indices: 19178154--19178186 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19178144 ATTCTTTGAG
19178154 AATTGCCAC-AGCATTTC
1 AATTGCC-CTAGCATTTC
19178171 AATTGCCCTAGCATTT
1 AATTGCCCTAGCATTT
19178187 TTTCATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCCTAGCATTTC
Found at i:19190514 original size:164 final size:164
Alignment explanation
Indices: 19190243--19190572 Score: 579
Period size: 164 Copynumber: 2.0 Consensus size: 164
19190233 ACTCCTTAAA
* **
19190243 AAGTGATACCACACCTTCCCGATTGGTTTTAATGCAGCTCTGTCAACCGTGAAACACTTTTGGCT
1 AAGTGATACCACACCTTCCCGATTGGTTTTAATGCAGCTCTGTAAACCGTGAAACACTCCTGGCT
19190308 TGAAATAATCCACTACGTTCCTTCAATGCATAAATCCTCTTATACTTTTGCCAACCCTTCCGGTG
66 TGAAATAATCCACTACGTTCCTTCAATGCATAAATCCTCTTATACTTTTGCCAACCCTTCCGGTG
19190373 TAATATTCTCGACAAATTCAACATACTTATCTCT
131 TAATATTCTCGACAAATTCAACATACTTATCTCT
* * ** *
19190407 AAGTGATACCACACCTTTCCGATTGGTTTTAATGCAGCTCTTTAAATTGTGTAACACTCCTGGCT
1 AAGTGATACCACACCTTCCCGATTGGTTTTAATGCAGCTCTGTAAACCGTGAAACACTCCTGGCT
19190472 TGAAATAATCCACTACGTTCCTTCAATGCATAAATCCTCTTATACTTTTGCCAACCCTTCCGGTG
66 TGAAATAATCCACTACGTTCCTTCAATGCATAAATCCTCTTATACTTTTGCCAACCCTTCCGGTG
*
19190537 TAATATTCTCGGCAAATTCAACATACTTATCTCT
131 TAATATTCTCGACAAATTCAACATACTTATCTCT
19190571 AA
1 AA
19190573 CCTCCTCAAT
Statistics
Matches: 157, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
164 157 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (164 bp):
AAGTGATACCACACCTTCCCGATTGGTTTTAATGCAGCTCTGTAAACCGTGAAACACTCCTGGCT
TGAAATAATCCACTACGTTCCTTCAATGCATAAATCCTCTTATACTTTTGCCAACCCTTCCGGTG
TAATATTCTCGACAAATTCAACATACTTATCTCT
Found at i:19191435 original size:3 final size:3
Alignment explanation
Indices: 19191427--19191458 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19191417 TGCACTAAAC
19191427 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
19191459 GGGAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:19200029 original size:24 final size:24
Alignment explanation
Indices: 19199997--19200046 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
19199987 GAGGAAGAAT
*
19199997 TGGTGGCTTCATCCACAACCTACA
1 TGGTAGCTTCATCCACAACCTACA
*
19200021 TGGTAGCTTCGTCCACAACCTACA
1 TGGTAGCTTCATCCACAACCTACA
19200045 TG
1 TG
19200047 ACAGCTTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (24 bp):
TGGTAGCTTCATCCACAACCTACA
Found at i:19200052 original size:24 final size:24
Alignment explanation
Indices: 19200002--19200053 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19199992 AGAATTGGTG
**
19200002 GCTTCATCCACAACCTACATGGTA
1 GCTTCATCCACAACCTACATGACA
*
19200026 GCTTCGTCCACAACCTACATGACA
1 GCTTCATCCACAACCTACATGACA
19200050 GCTT
1 GCTT
19200054 GTCTGCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.25
Consensus pattern (24 bp):
GCTTCATCCACAACCTACATGACA
Found at i:19207097 original size:42 final size:40
Alignment explanation
Indices: 19207050--19207132 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
19207040 ATTGGGTGGA
*
19207050 TCAGCTCTTACGAGCTTTTATTTAGTTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTTTATTCAG--CTTACGAGCTTCTGT
* * * *
19207092 TCAGCTCTTAGGAGGTTTTGTTCAGCTTTCGAGCTTCTGT
1 TCAGCTCTTACGAGCTTTTATTCAGCTTACGAGCTTCTGT
19207132 T
1 T
19207133 GGCATATTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 15 0.42
42 21 0.58
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (40 bp):
TCAGCTCTTACGAGCTTTTATTCAGCTTACGAGCTTCTGT
Found at i:19207100 original size:21 final size:21
Alignment explanation
Indices: 19207050--19207132 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
19207040 ATTGGGTGGA
* *
19207050 TCAGCTCTTACGAGCTTTTAT
1 TCAGCTCTTACGAGCTTCTGT
* *
19207071 TTAGTTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* * *
19207092 TCAGCTCTTAGGAGGTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
19207113 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
19207132 T
1 T
19207133 GGCATATTCG
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
19 9 0.18
20 2 0.04
21 39 0.78
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:19211001 original size:22 final size:22
Alignment explanation
Indices: 19210975--19211016 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
19210965 TGTATTTACT
* *
19210975 ATTTAACCATTAATTTAATTTA
1 ATTTAACAATTAATATAATTTA
*
19210997 ATTTAATAATTAATATAATT
1 ATTTAACAATTAATATAATT
19211017 CTCCTAACAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAACAATTAATATAATTTA
Found at i:19213620 original size:23 final size:22
Alignment explanation
Indices: 19213577--19213620 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
19213567 CTCTAAGTCG
19213577 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
19213600 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
19213621 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:19221003 original size:25 final size:25
Alignment explanation
Indices: 19220975--19221035 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
19220965 AGGTTTAAGG
* *
19220975 TTTATAGTTTATATATGTTTTATGA
1 TTTAGAGTTTATATATGTTCTATGA
*
19221000 TTTAGGGTTTATATATGTTCTATGA
1 TTTAGAGTTTATATATGTTCTATGA
* *
19221025 TTCAGGGTTTA
1 TTTAGAGTTTA
19221036 AGGAATATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.18, T:0.54
Consensus pattern (25 bp):
TTTAGAGTTTATATATGTTCTATGA
Found at i:19221240 original size:7 final size:7
Alignment explanation
Indices: 19221225--19221271 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
19221215 TTGAGGCTTA
19221225 GGGTGTAG
1 GGGT-TAG
*
19221233 GTGTTAG
1 GGGTTAG
19221240 GGGTTAG
1 GGGTTAG
19221247 GGGTTAG
1 GGGTTAG
*
19221254 GGGTTAA
1 GGGTTAG
*
19221261 GGGTTAA
1 GGGTTAG
19221268 GGGT
1 GGGT
19221272 CATGGTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
7 33 0.92
8 3 0.08
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:19221345 original size:7 final size:7
Alignment explanation
Indices: 19221333--19221408 Score: 55
Period size: 7 Copynumber: 10.6 Consensus size: 7
19221323 CCCAAGTCAA
19221333 TTTAGGG
1 TTTAGGG
19221340 TTTAGGG
1 TTTAGGG
**
19221347 TTTATACG
1 TTTA-GGG
**
19221355 -TTATTG
1 TTTAGGG
*
19221361 TTTGGGG
1 TTTAGGG
19221368 TTTATGGG
1 TTTA-GGG
*
19221376 TTTAAGG
1 TTTAGGG
19221383 TTTAAGGG
1 TTT-AGGG
*
19221391 TTAAGGG
1 TTTAGGG
19221398 TTTAGGG
1 TTTAGGG
19221405 TTTA
1 TTTA
19221409 AGGAATAGAG
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
6 1 0.02
7 39 0.74
8 13 0.25
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:19221384 original size:15 final size:14
Alignment explanation
Indices: 19221366--19221411 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
19221356 TATTGTTTGG
19221366 GGTTTATGGGTTTAA
1 GGTTTA-GGGTTTAA
19221381 GGTTTAAGGG-TTAA
1 GGTTT-AGGGTTTAA
19221395 GGGTTTAGGGTTTAA
1 -GGTTTAGGGTTTAA
19221410 GG
1 GG
19221412 AATAGAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 10 0.36
15 17 0.61
16 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:19223199 original size:51 final size:52
Alignment explanation
Indices: 19223144--19223249 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 52
19223134 AGTTGGTATT
* *
19223144 TGGTTAATGCTGCTGCAAGTTC-TTTTTGCTGGAAGTTTTGCTTAATGTTGC
1 TGGTTAATGCTGCTGCAAGTTCTTTTTTGCTGCAAGTTGTGCTTAATGTTGC
* * * *
19223195 TGGTTAATGTTGTTGCAAGTTCTTTTTTTGCTGCACGTTGTGGTTAATGTTGC
1 TGGTTAATGCTGCTGCAAGTTC-TTTTTTGCTGCAAGTTGTGCTTAATGTTGC
19223248 TG
1 TG
19223250 CTTGGTGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 20 0.43
53 27 0.57
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.47
Consensus pattern (52 bp):
TGGTTAATGCTGCTGCAAGTTCTTTTTTGCTGCAAGTTGTGCTTAATGTTGC
Found at i:19224007 original size:67 final size:67
Alignment explanation
Indices: 19223882--19224007 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
19223872 TATATTAATA
* * **
19223882 TGGATATATAACCTATATTCCAATTTTATTAATAATAAATTTTATAATTTATCGAATAAATGTAA
1 TGGATATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAATAAATGTAA
19223947 AT
66 AT
* *
19223949 TGGATATATAACCTATATTTCAAATTTATTAGTAA-ACAATTTTTAAAATTTA-AAAATAA
1 TGGATATATAACCTATATTCCAAATTTATTAATAATA-AA-TTTTAAAATTTATAAAATAA
19224008 TTATAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
66 1 0.02
67 39 0.76
68 11 0.22
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (67 bp):
TGGATATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAATAAATGTAA
AT
Found at i:19224015 original size:67 final size:67
Alignment explanation
Indices: 19223873--19224015 Score: 164
Period size: 67 Copynumber: 2.1 Consensus size: 67
19223863 TATATAACAT
* * * **
19223873 ATATTAATATGGATATATAACCTATATTCCAATTTTATTAATAATAAATTTTATAATTTATCGAA
1 ATATAAAT-TGGATATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAA
19223938 TAA
65 TAA
* * *
19223941 ATGTAAATTGGATATATAACCTATATTTCAAATTTATTAGTAA-ACAATTTTTAAAATTTA-AAA
1 ATATAAATTGGATATATAACCTATATTCCAAATTTATTAATAATA-AA-TTTTAAAATTTATAAA
19224004 ATAA
64 ATAA
*
19224008 TTATAAAT
1 ATATAAAT
19224016 AACAAGTATA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
66 1 0.02
67 45 0.71
68 17 0.27
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (67 bp):
ATATAAATTGGATATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAAT
AA
Found at i:19224140 original size:15 final size:15
Alignment explanation
Indices: 19224104--19224145 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
19224094 ATAAATATTT
* *
19224104 ATATACATTTTTAAT
1 ATATATATTTTTAAA
19224119 ATATATATTTTTAAA
1 ATATATATTTTTAAA
*
19224134 ATCTATATTTTT
1 ATATATATTTTT
19224146 TTCAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATATATTTTTAAA
Found at i:19224140 original size:17 final size:18
Alignment explanation
Indices: 19224120--19224153 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19224110 ATTTTTAATA
19224120 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
19224137 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
19224154 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:19224333 original size:9 final size:9
Alignment explanation
Indices: 19224299--19224367 Score: 79
Period size: 9 Copynumber: 7.9 Consensus size: 9
19224289 TAATAACATA
*
19224299 ATAACTAAC
1 ATAACTTAC
19224308 ATAA--TAC
1 ATAACTTAC
* *
19224315 ATAGCCTAC
1 ATAACTTAC
19224324 ATAACTTAC
1 ATAACTTAC
19224333 ATAACTTAC
1 ATAACTTAC
* *
19224342 ATAAATTAA
1 ATAACTTAC
19224351 ATAACTTAC
1 ATAACTTAC
19224360 ATAACTTA
1 ATAACTTA
19224368 TAAATATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
7 5 0.10
9 45 0.90
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:19224559 original size:267 final size:269
Alignment explanation
Indices: 19224078--19224634 Score: 983
Period size: 267 Copynumber: 2.1 Consensus size: 269
19224068 TTTTTAATAT
19224078 ATAACTTACATAACTTATAAATATTTATATACATTTTTAATATATATATTTTTAAAATCTATATT
1 ATAACTTACATAACTTATAAATATTTATATACATTTTTAATATATATA-TTTTAAAATCTATATT
*
19224143 TTTTTCAAAATTTATCAATCATATCATAACTTACATAACTCAAATTTATCAATCATATATATCAT
65 TTTTTCAAAATTTATCAATCATAGCATAACTTACATAACTCAAATTTATCAATC--A-ATATCAT
*
19224208 AACTTATATATAAACTTACATAATACATAACTTAAATAACATACAATATATAAACATATATAGAA
127 AACTTATATATAAACTTACATAATACATAACTTAAATAACATACAAAATATAAACATATATAGAA
19224273 ACTTGCATAACTTATATAATAACATAATAACTAACATAATACATAGCCTACATAACTTACATAAC
192 ACTTGCATAACTTATATAATAACATAATAACTAACATAATACATAGCCTACATAACTTACATAAC
19224338 TTACATAAATTAA
257 TTACATAAATTAA
19224351 ATAACTTACATAACTTATAAATATTTATATACATTTTTAATATATATA-TTTAAAATCTATATTT
1 ATAACTTACATAACTTATAAATATTTATATACATTTTTAATATATATATTTTAAAATCTATATTT
19224415 TTTTCAAAATTTATCAATCATAGCATAACTTACATAACTCAAATTTATCAATC-ATATCATAACT
66 TTTTCAAAATTTATCAATCATAGCATAACTTACATAACTCAAATTTATCAATCAATATCATAACT
* *
19224479 TATATATAAACTTACATAATACATAACTTAAATAACATACAAAATATAAACTTATATATAAACTT
131 TATATATAAACTTACATAATACATAACTTAAATAACATACAAAATATAAACATATATAGAAACTT
*
19224544 GCATAATTTATATAATAACATAATAACTAACATAATACATAGCCTACATAACTTACATAACTTAC
196 GCATAACTTATATAATAACATAATAACTAACATAATACATAGCCTACATAACTTACATAACTTAC
* *
19224609 ATAACTTAC
261 ATAAATTAA
* *
19224618 ATAAATTAAATAACTTA
1 ATAACTTACATAACTTA
19224635 CATAACTTAC
Statistics
Matches: 275, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
267 159 0.58
271 68 0.25
273 48 0.17
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (269 bp):
ATAACTTACATAACTTATAAATATTTATATACATTTTTAATATATATATTTTAAAATCTATATTT
TTTTCAAAATTTATCAATCATAGCATAACTTACATAACTCAAATTTATCAATCAATATCATAACT
TATATATAAACTTACATAATACATAACTTAAATAACATACAAAATATAAACATATATAGAAACTT
GCATAACTTATATAATAACATAATAACTAACATAATACATAGCCTACATAACTTACATAACTTAC
ATAAATTAA
Found at i:19224578 original size:9 final size:9
Alignment explanation
Indices: 19224566--19224763 Score: 177
Period size: 9 Copynumber: 23.1 Consensus size: 9
19224556 TAATAACATA
*
19224566 ATAACTAAC
1 ATAACTTAC
19224575 ATAA--TAC
1 ATAACTTAC
* *
19224582 ATAGCCTAC
1 ATAACTTAC
19224591 ATAACTTAC
1 ATAACTTAC
19224600 ATAACTTAC
1 ATAACTTAC
19224609 ATAACTTAC
1 ATAACTTAC
* *
19224618 ATAAATTAA
1 ATAACTTAC
19224627 ATAACTTAC
1 ATAACTTAC
19224636 ATAACTTAC
1 ATAACTTAC
*
19224645 ATAACTTAA
1 ATAACTTAC
19224654 ATAACTTAC
1 ATAACTTAC
19224663 ATAA--TAC
1 ATAACTTAC
19224670 ATAACCTT-C
1 ATAA-CTTAC
*
19224679 CTAACTTAC
1 ATAACTTAC
*
19224688 ATTA--TAC
1 ATAACTTAC
*
19224695 ACAACTTAC
1 ATAACTTAC
19224704 ATAA-TTA-
1 ATAACTTAC
*
19224711 AT-ATTATAC
1 ATAACT-TAC
*
19224720 ACAACTTAC
1 ATAACTTAC
19224729 ATAA--TAC
1 ATAACTTAC
*
19224736 ATTACTTAC
1 ATAACTTAC
19224745 ATAACTTAC
1 ATAACTTAC
*
19224754 ATTACTTAC
1 ATAACTTAC
19224763 A
1 A
19224764 GTATTTACTG
Statistics
Matches: 153, Mismatches: 22, Indels: 28
0.75 0.11 0.14
Matches are distributed among these distances:
6 1 0.01
7 26 0.17
8 8 0.05
9 115 0.75
10 3 0.02
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:19224683 original size:25 final size:25
Alignment explanation
Indices: 19224588--19224763 Score: 128
Period size: 25 Copynumber: 6.9 Consensus size: 25
19224578 ATACATAGCC
*
19224588 TACATAACTTACATAACTTACATAA
1 TACATAACTTAAATAACTTACATAA
*
19224613 CTTACATAAATTAAATAACTTACATAA
1 --TACATAACTTAAATAACTTACATAA
19224640 CTTACATAACTTAAATAACTTACATAA
1 --TACATAACTTAAATAACTTACATAA
** *
19224667 TACATAACCTT-CCTAACTTACATTA
1 TACATAA-CTTAAATAACTTACATAA
* *
19224692 TACACAACTTACATAA-TTA-ATATTA
1 TACATAACTTAAATAACTTACATA--A
* * *
19224717 TACACAACTTACATAA--TACATTACT
1 TACATAACTTAAATAACTTACA-TA-A
* *
19224742 TACATAACTTACATTACTTACA
1 TACATAACTTAAATAACTTACA
19224764 GTATTTACTG
Statistics
Matches: 128, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
23 2 0.02
24 8 0.06
25 60 0.47
26 5 0.04
27 53 0.41
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (25 bp):
TACATAACTTAAATAACTTACATAA
Found at i:19232540 original size:10 final size:10
Alignment explanation
Indices: 19232525--19232553 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
19232515 TTTGAATTCA
19232525 GAAGTGCATC
1 GAAGTGCATC
19232535 GAAGTGCATC
1 GAAGTGCATC
19232545 GAAGTGCAT
1 GAAGTGCAT
19232554 TGATGAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (10 bp):
GAAGTGCATC
Found at i:19239111 original size:44 final size:44
Alignment explanation
Indices: 19238627--19239225 Score: 267
Period size: 44 Copynumber: 13.8 Consensus size: 44
19238617 GATCATATCT
* * * * *
19238627 AGTCTTATTTCCCTGAAGTTGCAGTGGAGCGGAGTAAGTAAAAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
* * * * *
19238671 AGTCTTATC-CTCCTGAAATTGCGGT-GAGGAAGACT-GGAAATGACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAGCAA--ACA
* * * ** *
19238716 AATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAGCTGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAACA
* * * * *
19238761 A-TCCTATTTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAC--A
* * * * * *
19238804 A-TCTTATCTCTCTGAAGTTGCAG-AGAGCAG---AACCCATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
*
19238843 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
* * **
19238887 AGTATTATC-CTCCTGAAGTTGCAGT-GAGGAAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCA-AACA
* * * * ** *
19238932 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGCCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAACA
* * * * * *
19238977 A-TCCTATCTCTCTGAAGTTCCAGTGGAGCAGATTAA--AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAC-A
* * * * * * * *
19239019 GGATCTTATCTCTCTGGAGTTGCAG-AGAGTAGA-T-CGC-ATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
*
19239060 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
* **
19239104 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGGAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCA-AACA
* * * * *
19239149 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCAATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAACA
* * *
19239194 A-TCCTATCTCCCTGAAATTGTAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
19239226 TTAAAATCAC
Statistics
Matches: 415, Mismatches: 100, Indels: 80
0.70 0.17 0.13
Matches are distributed among these distances:
39 3 0.01
40 40 0.10
41 16 0.04
42 9 0.02
43 45 0.11
44 192 0.46
45 100 0.24
46 9 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
Found at i:19239121 original size:217 final size:217
Alignment explanation
Indices: 19238541--19239351 Score: 1108
Period size: 217 Copynumber: 3.7 Consensus size: 217
19238531 TCGATGGCCA
* *
19238541 ATAATCCTATCTCCCTGAAGTTGCTGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* * * * * *
19238606 TGCAGAAAGCAGATCATATCTAGTCTTATTTCCCTGAAGTTGCAGTGGAGCGGAGTAAGTAAAAA
66 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
* * *
19238671 AGTCTTATCCTCCTGAAATTGCGGTGAGGAAGACTGGAA-ATGACAAATCTTATCTCCCTGAAGC
131 AGTCTTATCCTCCTGAAATTGCAGTGAGGAAGACT-GAAGATGGCAAATCTTATCTCCCTGAAGT
*
19238735 TGCAGTGGAGCAGATTAAAGCTG
195 TGCAGTGGAGCAGATTAAAGCCG
* * *
19238758 ATAATCCTATTTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TGAATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* *
19238822 TGCAGAGAGCAGAACCCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
66 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
* * *
19238887 AGTATTATCCTCCTGAAGTTGCAGTGAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGAGGTT
131 AGTCTTATCCTCCTGAAATTGCAGTGAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
19238952 GCAGTGGAGTAGATTAAAGCCG
196 GCAGTGGAGCAGATTAAAGCCG
* * *
19238974 ATAATCCTATCTCTCTGAAGTTCCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGGAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* * * *
19239039 TGCAGAGAGTAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGCAAACA
66 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
* * *
19239104 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGGAGATGGCAAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAATTGCAGTGAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* *
19239169 GCAGTGGAGCATATTAAAGCCA
196 GCAGTGGAGCAGATTAAAGCCG
* * * *** * * *
19239191 ATAATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAATCACAGATCTTTTCTCTCTAAAAT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGT
* * ** * *
19239256 TCCAGTAGAGTAGATCACATCGGGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAG-AAA
66 TGCAG-AGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAA
*
19239320 GCAAGTCTCATCCCTCC-GAAATTGCAGTGAGG
129 -CAAGTCTTAT-CCTCCTGAAATTGCAGTGAGG
19239352 TTGACTAAAT
Statistics
Matches: 530, Mismatches: 58, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
215 3 0.01
216 191 0.36
217 257 0.48
218 48 0.09
219 26 0.05
220 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACA
AGTCTTATCCTCCTGAAATTGCAGTGAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCCG
Found at i:19239504 original size:433 final size:431
Alignment explanation
Indices: 19238588--19239521 Score: 915
Period size: 433 Copynumber: 2.2 Consensus size: 431
19238578 AAAACCTTGG
* * * * * * * *
19238588 ATCTTATCTCTCTGAAGTTGCAGAAAGCAGATC-ATATCTAGTCTTATTTCCCTGAAGTTGCAGT
1 ATCTCATCTCTCTGAAGTTGCAGAGAGTAAATCGA-ATATAATCCTATCTCCCTGAAGTTGCAGT
* * * *
19238652 GGAGCGGAGTAAGTAAAAAAGTCTTATCCTCCTGAAATTGCGGTGAGGAAGACTGGAAATGACAA
65 GGAGCAGACTAAGCAAAAAAGTCTTATCCTCCTGAAATTGCAGTGAGGAAGACTGGAAATGACAA
** * *
19238717 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAGCTGATAATCCTATTTCCCTGAAGTTGC
130 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTGC
* * * * * * *
19238782 AGTGGAGCGGATTAAAACCTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAGAACCCATCTAGTC
195 AGTGGAGCAGATTAAAACCAGAATCTTATCTCTCTAAAATTCCAGAGAGCAGAACACATCGAGTC
* * *
19238847 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTATTATCCTCCTGAAGTTGCAGT
260 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTATCATCCTCCTGAAATTGCAGT
* ** * * *
19238912 GAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTAAAGCCGATA
325 GAGGAAGACTAAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAA-CCGATA
* * * * ***
19238977 ATCCTATCTCTCTGAAGTTCCAGTGGAGCAGATTAAAACCTTGG
389 ATCCTAACTCACTGAAGTTCCAGTAGAGCAGATT-AAACATCAA
* * * * * * * *
19239021 ATCTTATCTCTCTGGAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTG
1 ATCTCATCTCTCTGAAGTTGCAGAGAGTAAATCGAATATAATCCTATCTCCCTGAAGTTGCAGTG
* * * * *
19239086 GAGCAGACTAAGCAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGGAGATGGCAAA
66 GAGCAGACTAAGCAAAAAAGTCTTATCCTCCTGAAATTGCAGTGAGGAAGACTGGAAATGACAAA
* * *
19239151 TCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCAATAATCCTATCTCCCTGAAATTGTA
131 TCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTGCA
* * * *
19239216 GTGGAGCAGATTAAAATCACAG-ATCTTTTCTCTCTAAAATTCCAGTAGAGTAGATCACATCGGG
196 GTGGAGCAGATTAAAA-C-CAGAATCTTATCTCTCTAAAATTCCAG-AGAGCAGAACACATCGAG
* *
19239280 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAG-AAAGCAAGTCTCATCCCTCC-GAAATT
258 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAGTAAA-CAAGTATCAT-CCTCCTGAAATT
** * * * * *
19239343 GCAGTGAGGTTGACTAAATAAAGCAAATCCTATCTCTCTAAAGTTGTAGTGGGGTGGATTAGAA-
320 GCAGTGAGGAAGACTAAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTA-AAC
* ** * * * * *
19239407 TGATGGGTCTTAACTCACTG-AGATTGCGGTAGAGTAGA-T-CACATCAA
384 CGAT-AATCCTAACTCACTGAAG-TTCCAGTAGAGCAGATTAAACATCAA
*
19239454 AT-TCATCT-T-T-AAGTTGCAGCAG-GTCAAATTGAAGCTATAAATCCTATCTCCCTGACA-TT
1 ATCTCATCTCTCTGAAGTTGCAG-AGAGT-AAATCGAA--TAT-AATCCTATCTCCCTGA-AGTT
19239513 GCAGTGGAG
60 GCAGTGGAG
19239522 TGGATCGAAG
Statistics
Matches: 410, Mismatches: 75, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
429 10 0.02
430 8 0.02
431 1 0.00
432 7 0.02
433 216 0.53
434 21 0.05
435 55 0.13
436 85 0.21
437 7 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (431 bp):
ATCTCATCTCTCTGAAGTTGCAGAGAGTAAATCGAATATAATCCTATCTCCCTGAAGTTGCAGTG
GAGCAGACTAAGCAAAAAAGTCTTATCCTCCTGAAATTGCAGTGAGGAAGACTGGAAATGACAAA
TCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTGCA
GTGGAGCAGATTAAAACCAGAATCTTATCTCTCTAAAATTCCAGAGAGCAGAACACATCGAGTCT
TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTATCATCCTCCTGAAATTGCAGTG
AGGAAGACTAAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAACCGATAAT
CCTAACTCACTGAAGTTCCAGTAGAGCAGATTAAACATCAA
Found at i:19244776 original size:44 final size:43
Alignment explanation
Indices: 19244728--19244821 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
19244718 TCATGTTCTA
* * *
19244728 TAGCGGCGTTTGTGGAAAAAAAAGCCGTTAAAGAACATTA-CTTT
1 TAGCGGCGCTTGTGG-AAAAAAAGCCGCTAAAGAACATGAGC-TT
* **
19244772 TAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGAGCTT
1 TAGCGGCGCTTGTGGAAAAAAAGCCGCTAAAGAACATGAGCTT
19244815 TAGCGGC
1 TAGCGGC
19244822 ATTTATTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
43 28 0.65
44 15 0.35
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (43 bp):
TAGCGGCGCTTGTGGAAAAAAAGCCGCTAAAGAACATGAGCTT
Found at i:19244817 original size:43 final size:43
Alignment explanation
Indices: 19244701--19244821 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 43
19244691 GCGTTTTTAT
** * * *
19244701 AAAAGCGCCGCTAAAGTTCATGTTCTATAGCGGCGTTTGTGGAA
1 AAAAGCGCCGCTAAAGAACATG-ACTTTAGCGGCGCTTGTGGAA
** * *
19244745 AAAAAAGCCGTTAAAGAACATTACTTTTAGCGGCGCTTGTGG-A
1 AAAAGCGCCGCTAAAGAACATGAC-TTTAGCGGCGCTTGTGGAA
*
19244788 GAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGC
1 AAAAGCGCCGCTAAAGAACATGA-CTTTAGCGGC
19244822 ATTTATTGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
43 29 0.48
44 32 0.52
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGACTTTAGCGGCGCTTGTGGAA
Found at i:19244901 original size:85 final size:84
Alignment explanation
Indices: 19244796--19244996 Score: 208
Period size: 85 Copynumber: 2.4 Consensus size: 84
19244786 GAGAAAGCGC
* * * ** *
19244796 CGCTAAAGAACATGAGCTTTAGCGGCATTTATTG-GTATGCACCACTAAAGGTCATGTTCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCATTTATTGAGGAAGCACCACTAAAGAACATGATCTTTAG
19244860 CAGCGTTTGTTGTAACAGCAA
66 CAGCGTTT-TTGTAA-AGCAA
* * * * *
19244881 CGCTAAAGAACATTACCTTTAACGGCGTTT-CTGAGGAAGCACCGCTAAAGAACATGATCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCATTTATTGAGGAAGCACCACTAAAGAACATGATCTTTAG
* * * * **
19244945 CGGTGTTTTTTTGAAGCGC
66 CAGCGTTTTTGTAAAGCAA
*
19244964 CGTTAAAGAACATGACCTTTAGCGGCATTTATT
1 CGCTAAAGAACATGACCTTTAGCGGCATTTATT
19244997 TTTGTAAACG
Statistics
Matches: 92, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
83 29 0.32
84 7 0.08
85 56 0.61
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (84 bp):
CGCTAAAGAACATGACCTTTAGCGGCATTTATTGAGGAAGCACCACTAAAGAACATGATCTTTAG
CAGCGTTTTTGTAAAGCAA
Found at i:19244933 original size:42 final size:41
Alignment explanation
Indices: 19244756--19244989 Score: 141
Period size: 42 Copynumber: 5.6 Consensus size: 41
19244746 AAAAAGCCGT
* * * * *
19244756 TAAAGAACATTACTTTTAGCGGCGCTTGTGGAGAAAGCGCCGC
1 TAAAGAACATGACCTTTAGCGGCG-TT-TTGAGGAAGCACCGC
* * * * *
19244799 TAAAGAACATGAGCTTTAGCGGCATTTATTG-GTATGCACCAC
1 TAAAGAACATGACCTTTAGCGGC-GTT-TTGAGGAAGCACCGC
** ** * *
19244841 TAAAGGTCATGTTCTTTAGCAGCGTTTGTTGTA--ACAGCAACGC
1 TAAAGAACATGACCTTTAGCGGCG-TT-TTG-AGGA-AGCACCGC
* *
19244884 TAAAGAACATTACCTTTAACGGCGTTTCTGAGGAAGCACCGC
1 TAAAGAACATGACCTTTAGCGGCGTTT-TGAGGAAGCACCGC
* * *** * *
19244926 TAAAGAACATGATCTTTAGCGGTGTTTTTTTGAAGCGCCGT
1 TAAAGAACATGACCTTTAGCGGCGTTTTGAGGAAGCACCGC
19244967 TAAAGAACATGACCTTTAGCGGC
1 TAAAGAACATGACCTTTAGCGGC
19244990 ATTTATTTTT
Statistics
Matches: 144, Mismatches: 39, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
41 32 0.22
42 65 0.45
43 47 0.33
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (41 bp):
TAAAGAACATGACCTTTAGCGGCGTTTTGAGGAAGCACCGC
Found at i:19247783 original size:38 final size:38
Alignment explanation
Indices: 19247702--19247816 Score: 115
Period size: 38 Copynumber: 3.0 Consensus size: 38
19247692 ATATTGGGGG
* **
19247702 CGGTTATCTATTGGTCATTCGGGGTGACACTGTGTTGA
1 CGGTTATCTATTGGTCCTTCGGGGTGACACCCTGTTGA
* * * *
19247740 TGGTTATTTATTGGTCCTTCGGGGTGATACCCTTTTGA
1 CGGTTATCTATTGGTCCTTCGGGGTGACACCCTGTTGA
* ** *
19247778 CGGTTATCTACTT-GTCCTTCGAGGCAAAACCCTGTTGA
1 CGGTTATCTA-TTGGTCCTTCGGGGTGACACCCTGTTGA
19247816 C
1 C
19247817 AATATATAGA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
38 60 0.97
39 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (38 bp):
CGGTTATCTATTGGTCCTTCGGGGTGACACCCTGTTGA
Found at i:19254106 original size:25 final size:24
Alignment explanation
Indices: 19254076--19254159 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
19254066 GAGTTTGACC
*
19254076 CAATCTAAAGTTTCTATCATTTTCA
1 CAATCTATAGTTTCTAT-ATTTTCA
*
19254101 CAATCTATAGTCTTCTATAGTTTCA
1 CAATCTATAGT-TTCTATATTTTCA
* *
19254126 TAATCTATAGTTTCTATTTTTTTCA
1 CAATCTATAGTTTCTA-TATTTTCA
19254151 C-ATCTATAG
1 CAATCTATAG
19254160 ATCACTTACG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.25
25 32 0.63
26 6 0.12
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.48
Consensus pattern (24 bp):
CAATCTATAGTTTCTATATTTTCA
Found at i:19258222 original size:100 final size:100
Alignment explanation
Indices: 19258101--19258297 Score: 313
Period size: 100 Copynumber: 2.0 Consensus size: 100
19258091 TATTATCAGT
* * * * *
19258101 TGCAAGTAAAAGAGGTGGATATTCTGAAAATAGCCTTTAGGACTCGGTATGGCCACTACAAATTT
1 TGCAAGTAAAAGAGGTAGATATTCTAAAAACAACCTTTAGGACTCGGTATGGCCACTACAAATTC
19258166 TTAATGATGCCCTTCGAACTTACAAATGCTCCTGC
66 TTAATGATGCCCTTCGAACTTACAAATGCTCCTGC
*
19258201 TGCAAGTAAAAGAGGTAGATATTCTAAAAACAACCTTTAGGACTCGGTATGGGCACTACAAATTC
1 TGCAAGTAAAAGAGGTAGATATTCTAAAAACAACCTTTAGGACTCGGTATGGCCACTACAAATTC
* * *
19258266 TTAGTGATGCCCTTCGAATTTACAAATTCTCC
66 TTAATGATGCCCTTCGAACTTACAAATGCTCC
19258298 CACTGCTTTC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (100 bp):
TGCAAGTAAAAGAGGTAGATATTCTAAAAACAACCTTTAGGACTCGGTATGGCCACTACAAATTC
TTAATGATGCCCTTCGAACTTACAAATGCTCCTGC
Found at i:19261225 original size:26 final size:26
Alignment explanation
Indices: 19261196--19261276 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 26
19261186 AACACACCAA
*
19261196 TATCGTGGCAAAGTTGCCCGTAATAG
1 TATCGTGGCAAAGTTGCCAGTAATAG
** * *
19261222 TATCGCAGCAAAGCTGCCAGT-ATCAA
1 TATCGTGGCAAAGTTGCCAGTAAT-AG
* *
19261248 TATCGTGACAAAGTTGCCAGTAACAG
1 TATCGTGGCAAAGTTGCCAGTAATAG
19261274 TAT
1 TAT
19261277 ACTTCCTCCA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
25 2 0.05
26 39 0.93
27 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (26 bp):
TATCGTGGCAAAGTTGCCAGTAATAG
Found at i:19268964 original size:26 final size:26
Alignment explanation
Indices: 19268928--19269004 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
19268918 CACCAATGTA
* * *
19268928 GCAGCAAAGCTACCTGTAATAGTATC
1 GCAGCAAAGCTGCCAGTAACAGTATC
19268954 GCAGCAAAGCTGCCAGTAACAGTATC
1 GCAGCAAAGCTGCCAGTAACAGTATC
19268980 GCAGCAAAGCTGCCAGTAACAGTAT
1 GCAGCAAAGCTGCCAGTAACAGTAT
19269005 ACTTCCTCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTATC
Found at i:19271082 original size:23 final size:23
Alignment explanation
Indices: 19271050--19271093 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
19271040 ACTAAGGGTG
*
19271050 TAATATCCCAAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
19271073 TAATACCCCAAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
19271094 AGTAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:19274416 original size:7 final size:7
Alignment explanation
Indices: 19274406--19274435 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
19274396 ATTTCTCACA
19274406 TCATCCC
1 TCATCCC
19274413 TCATCCC
1 TCATCCC
19274420 TCATCCC
1 TCATCCC
19274427 TCATCCC
1 TCATCCC
19274434 TC
1 TC
19274436 TCATCTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.57, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:19295748 original size:10 final size:10
Alignment explanation
Indices: 19295733--19295766 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
19295723 TTTACCTATA
*
19295733 CAAAACATGC
1 CAAAACATAC
*
19295743 CAAAACAAAC
1 CAAAACATAC
19295753 CAAAACATAC
1 CAAAACATAC
19295763 CAAA
1 CAAA
19295767 TAACTTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.62, C:0.29, G:0.03, T:0.06
Consensus pattern (10 bp):
CAAAACATAC
Found at i:19300425 original size:18 final size:18
Alignment explanation
Indices: 19300376--19300426 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
19300366 TCTTTATCAT
*
19300376 TTAATAACAACATTATAATA
1 TTAA-AACAACA-TATAAAA
*
19300396 TATAAATC-ACATATAAAA
1 T-TAAAACAACATATAAAA
19300414 TTAAAACAACATA
1 TTAAAACAACATA
19300427 AAGCTTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.19
18 12 0.46
19 3 0.12
20 3 0.12
21 3 0.12
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAACAACATATAAAA
Found at i:19305963 original size:17 final size:17
Alignment explanation
Indices: 19305938--19305971 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19305928 TAAGAATCAG
19305938 ATTGAGAAAATTATTTA
1 ATTGAGAAAATTATTTA
* *
19305955 ATTGGGAAATTTATTTA
1 ATTGAGAAAATTATTTA
19305972 TTTATTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
ATTGAGAAAATTATTTA
Found at i:19306988 original size:21 final size:21
Alignment explanation
Indices: 19306964--19307004 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19306954 GATACATGGT
19306964 AAAAGGTATCAATACTTTTTG
1 AAAAGGTATCAATACTTTTTG
* * *
19306985 AAAATGTATCGATATTTTTT
1 AAAAGGTATCAATACTTTTT
19307005 ATGATTGTTC
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:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
AAAAGGTATCAATACTTTTTG
Found at i:19307337 original size:20 final size:20
Alignment explanation
Indices: 19307309--19307348 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19307299 GAACTTTGTC
19307309 CAAAAATTTTCTAAC-TGTT
1 CAAAAATTTTCTAACATGTT
19307328 CAAAACATTTTCTAACATGTT
1 CAAAA-ATTTTCTAACATGTT
19307349 TGGAAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (20 bp):
CAAAAATTTTCTAACATGTT
Found at i:19309970 original size:45 final size:45
Alignment explanation
Indices: 19309921--19310040 Score: 163
Period size: 45 Copynumber: 2.7 Consensus size: 45
19309911 ATAGTACTCA
19309921 GTGAAATTAGCACATAGCAACCACCTTTAT-ACTCAATGGTA-CCTG
1 GTGAAATTAGCACATAGCAACCACCTTTATAAC-CAATGGTATCC-G
* * * *
19309966 GTGAAATCAGTACATAGCAACCACCTATATAACCATTGGTATCCG
1 GTGAAATTAGCACATAGCAACCACCTTTATAACCAATGGTATCCG
*
19310011 GTGAAATTAGCACATAGAAACCACCTTTAT
1 GTGAAATTAGCACATAGCAACCACCTTTAT
19310041 TTTCATTAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
45 61 0.94
46 4 0.06
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (45 bp):
GTGAAATTAGCACATAGCAACCACCTTTATAACCAATGGTATCCG
Found at i:19310064 original size:90 final size:90
Alignment explanation
Indices: 19309921--19310085 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 90
19309911 ATAGTACTCA
* ** *
19309921 GTGAAATTAGCACATAGCAACCACCTTTATACTCAATGGTACCTGGTGAAATCAGTACATAGCAA
1 GTGAAATTAGCACATAGAAACCACCTTTATACTCAATAATACCTGGTGAAATCAGCACATAGCAA
19309986 CCACCTATATAACCATTGGTATCCG
66 CCACCTATATAACCATTGGTATCCG
** * * *
19310011 GTGAAATTAGCACATAGAAACCACCTTTATTTTCATTAATATC-GAGTGGAATCAGCACATAGCA
1 GTGAAATTAGCACATAGAAACCACCTTTATACTCAATAATACCTG-GTGAAATCAGCACATAGCA
* *
19310075 TCTACCTATAT
65 ACCACCTATAT
19310086 TTCCAACGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
89 1 0.02
90 62 0.98
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (90 bp):
GTGAAATTAGCACATAGAAACCACCTTTATACTCAATAATACCTGGTGAAATCAGCACATAGCAA
CCACCTATATAACCATTGGTATCCG
Found at i:19312428 original size:51 final size:51
Alignment explanation
Indices: 19312298--19312481 Score: 176
Period size: 51 Copynumber: 3.6 Consensus size: 51
19312288 AAAGTGGTGG
* * ** * * *
19312298 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGTAAT-GA
* *
19312348 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGTAAT-GA
* * ** * * * *
19312399 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGTAATGA
19312450 TCACATGTGTAGTACTATGTGCAGGCTACTAT
1 TCACATGTGTAGTACTATGTGCAGGCTACTAT
19312482 ATGAACCGAA
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
50 36 0.33
51 72 0.65
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGTAATGA
Found at i:19312542 original size:45 final size:45
Alignment explanation
Indices: 19312491--19312622 Score: 228
Period size: 45 Copynumber: 2.9 Consensus size: 45
19312481 TATGAACCGA
*
19312491 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCCACCAG
* *
19312536 ACATCATTGATTAATAAGGTGGTTGCTATGTGCAGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCCACCAG
*
19312581 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCCAC
19312623 TGAGTATTTG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCCACCAG
Found at i:19315576 original size:50 final size:50
Alignment explanation
Indices: 19315512--19315653 Score: 173
Period size: 50 Copynumber: 2.8 Consensus size: 50
19315502 TATTATCATT
*
19315512 TGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACT-TT
1 TGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATAA-TATC
* * *
19315561 TGAGTTCACGTAGTAG-CTTGCACATAGTACTACACATGTGACCATTAATATC
1 TGA-TACACGTAGTAGCCTT-CACATAGTACTACACACGTGATCA-TAATATC
* *
19315613 TGATACACATAGTAGCCTGCACATAGTACTACACACGTGAT
1 TGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAT
19315654 TGAAGCTATC
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
49 6 0.08
50 33 0.42
51 31 0.40
52 8 0.10
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (50 bp):
TGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATAATATC
Found at i:19315652 original size:101 final size:100
Alignment explanation
Indices: 19315512--19315753 Score: 292
Period size: 101 Copynumber: 2.4 Consensus size: 100
19315502 TATTATCATT
* * **
19315512 TGATACACGTAGTAGCCTTCACATAGTACTACACACGTGA-TCAAACT-TTTGAGTTCACG-TAG
1 TGATACACATAGTAGCCTACACATAGTACTACACACGTGATTCAAACTATCCG-G-T-ACGATAG
* *
19315574 TAGCTTGCACATAGTACTACACATGTGACCATTAATATC
63 TAGCCTGCACATAGTACTACACATGCGACCATTAAT-TC
* * *
19315613 TGATACACATAGTAGCCTGCACATAGTACTACACACGTGATTGAAGCTATCCGGTACGTATAGTA
1 TGATACACATAGTAGCCTACACATAGTACTACACACGTGATTCAAACTATCCGGTACG-ATAGTA
* * *
19315678 GCCTGCGCATAGTACTACACATGCGACCTTTCATTC
65 GCCTGCACATAGTACTACACATGCGACCATTAATTC
* *
19315714 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGA
1 TGATACACATAGTAGCCTACACATAGTACTACACACGTGA
19315754 CCATCACTGA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
100 3 0.02
101 78 0.63
102 40 0.33
103 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (100 bp):
TGATACACATAGTAGCCTACACATAGTACTACACACGTGATTCAAACTATCCGGTACGATAGTAG
CCTGCACATAGTACTACACATGCGACCATTAATTC
Found at i:19320839 original size:18 final size:19
Alignment explanation
Indices: 19320816--19320864 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
19320806 GTTGTAAAGT
*
19320816 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
19320834 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
19320853 TTTAATTTTTAT
1 TTT-ATTTTTAT
19320865 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:19320844 original size:22 final size:22
Alignment explanation
Indices: 19320815--19320864 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
19320805 AGTTGTAAAG
* *
19320815 TTTTATTTTTATTTA-TTTATT
1 TTTTATTTTTACTTAGTTTAAT
19320836 TATTTATTTTTACTTAGTTTAAT
1 T-TTTATTTTTACTTAGTTTAAT
19320859 TTTTAT
1 TTTTAT
19320865 GTAAATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTACTTAGTTTAAT
Found at i:19334393 original size:101 final size:102
Alignment explanation
Indices: 19334277--19334459 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 102
19334267 AGTGATGGTC
*** *
19334277 ACGTGTGTAGTACTATGTGCGGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGTAC
1 ACGTGTGTAGTACTATGTAAAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGTAC
19334340 TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATT
65 TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATT
* *
19334378 ACGTGTGTAGTACTATGTAAAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTTTAGTACT
1 ACGTGTGTAGTACTATGTAAAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTACT
*
19334443 ATGTTCAGGCTACTATG
66 ATGTGCAGGCTACTATG
19334460 TGAACCGGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 36 0.49
102 33 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
ACGTGTGTAGTACTATGTAAAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTACT
ATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATT
Found at i:19334440 original size:51 final size:51
Alignment explanation
Indices: 19334267--19334457 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
19334257 TGAAAGTAAA
* *
19334267 AGTGATGGTCACGTGTGTAGTACTATGTGCGGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* * *
19334317 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* ** *
19334368 AGCTTCGAT--T-ACGTGTGTAGTACTATGTAAAGGCTACTACGTGTATCAGAT
1 AG--T-GATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* *
19334419 AGTGATGGTCACATGTTTAGTACTATGTTCAGGCTACTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
19334458 TGTGAACCGG
Statistics
Matches: 116, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
48 3 0.03
49 5 0.04
50 41 0.35
51 62 0.53
52 1 0.01
54 1 0.01
55 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
Found at i:19334544 original size:46 final size:43
Alignment explanation
Indices: 19334463--19334566 Score: 111
Period size: 46 Copynumber: 2.3 Consensus size: 43
19334453 TACTATGTGA
*
19334463 ACCGGTATCATTAATTATAAGGTGGTCGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTCGCTATGTGCTGAAT-CC
* * *
19334506 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTCGCTATGTGCTGAATCC
19334552 ACCGTGTATCTATTA
1 ACCG-GTATC-ATTA
19334567 TTATTCTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
43 5 0.10
44 11 0.22
45 2 0.04
46 26 0.52
47 6 0.12
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTCGCTATGTGCTGAATCC
Found at i:19334705 original size:16 final size:16
Alignment explanation
Indices: 19334684--19334715 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19334674 TGATTGAAAG
*
19334684 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
19334700 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
19334716 GCAACAAAAC
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:19337230 original size:15 final size:15
Alignment explanation
Indices: 19337210--19337240 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19337200 ACATCTACCG
*
19337210 AAATAGATGAATTAC
1 AAATAGACGAATTAC
19337225 AAATAGACGAATTAC
1 AAATAGACGAATTAC
19337240 A
1 A
19337241 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:19345667 original size:12 final size:12
Alignment explanation
Indices: 19345652--19345692 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
19345642 AAGAAAAAGC
19345652 AAAAAGCGCAAA
1 AAAAAGCGCAAA
*
19345664 AAAAAACGCAAA
1 AAAAAGCGCAAA
19345676 AAAAAGCGCAAA
1 AAAAAGCGCAAA
19345688 AAAAA
1 AAAAA
19345693 AGTTGCCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:19345750 original size:6 final size:6
Alignment explanation
Indices: 19345741--19345766 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19345731 ATTATTGTTA
19345741 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
19345767 CCCAAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:19352265 original size:17 final size:17
Alignment explanation
Indices: 19352243--19352275 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19352233 ATTCTTTGAG
19352243 AATTGCCAC-AGCATTTC
1 AATTGCC-CTAGCATTTC
19352260 AATTGCCCTAGCATTT
1 AATTGCCCTAGCATTT
19352276 TTTACTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCCTAGCATTTC
Found at i:19354010 original size:20 final size:20
Alignment explanation
Indices: 19353976--19354015 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19353966 GAACTTTGTC
*
19353976 CAAAAATTTTCTAAG-TGTT
1 CAAAAATTATCTAAGATGTT
19353995 CAAAACATTATCTAAGATGTT
1 CAAAA-ATTATCTAAGATGTT
19354016 TGGAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
CAAAAATTATCTAAGATGTT
Found at i:19359498 original size:18 final size:17
Alignment explanation
Indices: 19359476--19359520 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
19359466 TAACTATAAC
19359476 ATTAATAATTAAATTATT
1 ATTAATAATTAAA-TATT
* *
19359494 GTTAATAAAATAAATATT
1 ATTAAT-AATTAAATATT
19359512 ATTAATAAT
1 ATTAATAAT
19359521 ATGTTACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTAATAATTAAATATT
Found at i:19364069 original size:14 final size:15
Alignment explanation
Indices: 19364041--19364070 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19364031 CTAGGTTTGG
19364041 ACAGTGCAGCCTCGA
1 ACAGTGCAGCCTCGA
19364056 ACAGTGCA-CCTCGA
1 ACAGTGCAGCCTCGA
19364070 A
1 A
19364071 GTTCTGCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.33, G:0.23, T:0.13
Consensus pattern (15 bp):
ACAGTGCAGCCTCGA
Found at i:19366447 original size:12 final size:12
Alignment explanation
Indices: 19366430--19366454 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19366420 ATACTTCACC
19366430 CCATAAACTTGT
1 CCATAAACTTGT
19366442 CCATAAACTTGT
1 CCATAAACTTGT
19366454 C
1 C
19366455 TAGTTGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CCATAAACTTGT
Found at i:19367751 original size:2 final size:2
Alignment explanation
Indices: 19367744--19367770 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19367734 ACCTTATGTT
19367744 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
19367771 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:19368438 original size:24 final size:22
Alignment explanation
Indices: 19368411--19368461 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
19368401 TAGGGCCAGT
*
19368411 CCAACGGCCAGAAACTGCCATAAG
1 CCAACAGCCAGAAAC-GCC-TAAG
* *
19368435 CCAACAGCTAGAAACGGCTAAG
1 CCAACAGCCAGAAACGCCTAAG
19368457 CCAAC
1 CCAAC
19368462 CAACGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 2 0.08
24 13 0.54
ACGTcount: A:0.39, C:0.33, G:0.20, T:0.08
Consensus pattern (22 bp):
CCAACAGCCAGAAACGCCTAAG
Found at i:19369261 original size:87 final size:86
Alignment explanation
Indices: 19369110--19369272 Score: 220
Period size: 87 Copynumber: 1.9 Consensus size: 86
19369100 TTAAATTTAG
* *
19369110 TGAATTCATCAAGTCTGTCTCCATAGGACCACCCAAACTTTGGGATATGAACTCGTTAAAAGTAA
1 TGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAAAGTAA
19369175 GAAACTCAACCTCATATGTCGA
66 G-AACTCAACCTCATATGTCGA
* * * * * *
19369197 TGAATTCATCAAGTTTGTCTTAATAGGACCACCTAAA-TTCTGGGCTATGAATTCATTAAGAGTA
1 TGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTT-TGGGATATGAACTCATTAAAAGTA
*
19369261 AGAACTTAACCT
65 AGAACTCAACCT
19369273 TCTGCATGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
86 11 0.17
87 55 0.83
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (86 bp):
TGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAAAGTAA
GAACTCAACCTCATATGTCGA
Found at i:19378310 original size:43 final size:43
Alignment explanation
Indices: 19378255--19378461 Score: 229
Period size: 43 Copynumber: 4.8 Consensus size: 43
19378245 TTATGTGGGA
* * * *
19378255 AAACGCCGCTATAGAACATGATCTTTAGCGGCGCCTTTCATGC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCTAC
** * * * *
19378298 AAACGTCACTATAGAACATGATCTTTAACAGCGTTTTTCCTAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCTAC
* * *
19378341 GAACACCGCTATAGAACATGATATTTAGCGACGCTTTTCCTAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCTAC
* *
19378384 AAACACCGCTATAGAACATTATCTTTAGCGGCGGTTTAT--TAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTT-TCCTAC
* * *
19378426 AAACACCGCTAAAGAACATTATCTTTAGTGGCGCTT
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTT
19378462 CTTTTACAAA
Statistics
Matches: 138, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 36 0.26
43 101 0.73
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCTAC
Found at i:19378483 original size:43 final size:42
Alignment explanation
Indices: 19378353--19378483 Score: 111
Period size: 43 Copynumber: 3.1 Consensus size: 42
19378343 ACACCGCTAT
* * * * * *
19378353 AGAACATGATATTTAGCGACGCTTT-TCCTACAAACACCGCTAT
1 AGAACATTATCTTTAGCGGCGCTTTAT--TACAAACACCACAAA
* * *
19378396 AGAACATTATCTTTAGCGGCGGTTTATTACAAACACCGCTAA
1 AGAACATTATCTTTAGCGGCGCTTTATTACAAACACCACAAA
* * **
19378438 AGAACATTATCTTTAGTGGCGCTTCTTTTACAAATGCCACAAA
1 AGAACATTATCTTTAGCGGCGCTT-TATTACAAACACCACAAA
19378481 AGA
1 AGA
19378484 CCATGTTCTA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
42 36 0.49
43 37 0.50
44 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
AGAACATTATCTTTAGCGGCGCTTTATTACAAACACCACAAA
Found at i:19380438 original size:92 final size:92
Alignment explanation
Indices: 19380306--19380488 Score: 269
Period size: 92 Copynumber: 2.0 Consensus size: 92
19380296 GGAAGCTTAA
* *
19380306 GTTAAAGCAAATTATTTACGAAAATGTGATACTTAAAAAAAAATT-AGGTGCAAAAACATAGTGT
1 GTTAAAGCAAATGATTTACGAAAACGTGATACTT-AAAAAAAATTGAGGTGCAAAAACATAGTGT
19380370 TAGAAAACAGTTATTATTTTGGAAAACC
65 TAGAAAACAGTTATTATTTTGGAAAACC
* * * * *
19380398 GTTAAAGTAAATGATTTACGAAAACGTGATATTTTAAAAAAATTGAGGTGCGAAAACGTAGTGTT
1 GTTAAAGCAAATGATTTACGAAAACGTGATACTTAAAAAAAATTGAGGTGCAAAAACATAGTGTT
* *
19380463 AGAAAATAGTTATTGTTTTGGAAAAC
66 AGAAAACAGTTATTATTTTGGAAAAC
19380489 TGTGTTCTAC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 9 0.11
92 72 0.89
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (92 bp):
GTTAAAGCAAATGATTTACGAAAACGTGATACTTAAAAAAAATTGAGGTGCAAAAACATAGTGTT
AGAAAACAGTTATTATTTTGGAAAACC
Found at i:19381310 original size:27 final size:27
Alignment explanation
Indices: 19381279--19381449 Score: 152
Period size: 27 Copynumber: 6.3 Consensus size: 27
19381269 TATAACAGTC
*
19381279 ATTTTACCCTAT-GGGGTAATTTCGATA
1 ATTTTACCCTTTAGGGGT-ATTTCGATA
* * * *
19381306 ATTTTATCCTTT-GATGGTATTTTGGTA
1 ATTTTACCCTTTAG-GGGTATTTCGATA
* *
19381333 ATTTTATCCTTTGGGGGTATTTC-AGTA
1 ATTTTACCCTTTAGGGGTATTTCGA-TA
*
19381360 ATTTTACCCTTTAGGGGTATTTCAATA
1 ATTTTACCCTTTAGGGGTATTTCGATA
* * *
19381387 ATTTTACCC-ATCGAGGGTATTTCGGTA
1 ATTTTACCCTTTAG-GGGTATTTCGATA
* * *
19381414 ATTTTACCATTCAGGGGTATTTCAATA
1 ATTTTACCCTTTAGGGGTATTTCGATA
19381441 ATTTTACCC
1 ATTTTACCC
19381450 ATCGAGGGTA
Statistics
Matches: 117, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.02
27 109 0.93
28 6 0.05
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTTAGGGGTATTTCGATA
Found at i:19381379 original size:54 final size:53
Alignment explanation
Indices: 19381279--19381462 Score: 185
Period size: 54 Copynumber: 3.4 Consensus size: 53
19381269 TATAACAGTC
* * ***
19381279 ATTTTACCCTAT--GGGGTAATTTCGATAATTTTATCCTTT-GATGGTATTTTGGTA
1 ATTTTACCC-ATCGGGGGT-ATTTCG-TAATTTTACCCTTTAG-GGGTATTTCAATA
* * *
19381333 ATTTTATCCTTTGGGGGTATTTCAGTAATTTTACCCTTTAGGGGTATTTCAATA
1 ATTTTACCCATCGGGGGTATTTC-GTAATTTTACCCTTTAGGGGTATTTCAATA
* * *
19381387 ATTTTACCCATCGAGGGTATTTCGGTAATTTTACCATTCAGGGGTATTTCAATA
1 ATTTTACCCATCGGGGGTATTTC-GTAATTTTACCCTTTAGGGGTATTTCAATA
*
19381441 ATTTTACCCATCGAGGGTATTT
1 ATTTTACCCATCGGGGGTATTT
19381463 TGGTCATTTA
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
53 1 0.01
54 104 0.93
55 7 0.06
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (53 bp):
ATTTTACCCATCGGGGGTATTTCGTAATTTTACCCTTTAGGGGTATTTCAATA
Found at i:19381406 original size:81 final size:81
Alignment explanation
Indices: 19381274--19381449 Score: 221
Period size: 81 Copynumber: 2.2 Consensus size: 81
19381264 AAGGGTATAA
* * * * * * *
19381274 CAGTCATTTTACCCTATGGGGTAATTTCGATAATTTTATCCTTTGATGGTATTTTGGTAATTTTA
1 CAGTAATTTTACCCTATGGGGTAATTTCAATAATTTTACCCATCGAGGGTATTTCGGTAATTTTA
**
19381339 TCC-TTTGGGGGTATTT
66 -CCATTCAGGGGTATTT
*
19381355 CAGTAATTTTACCCTTTAGGGGT-ATTTCAATAATTTTACCCATCGAGGGTATTTCGGTAATTTT
1 CAGTAATTTTACCCTAT-GGGGTAATTTCAATAATTTTACCCATCGAGGGTATTTCGGTAATTTT
19381419 ACCATTCAGGGGTATTT
65 ACCATTCAGGGGTATTT
*
19381436 CAATAATTTTACCC
1 CAGTAATTTTACCC
19381450 ATCGAGGGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 75 0.91
82 5 0.06
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (81 bp):
CAGTAATTTTACCCTATGGGGTAATTTCAATAATTTTACCCATCGAGGGTATTTCGGTAATTTTA
CCATTCAGGGGTATTT
Found at i:19381458 original size:27 final size:28
Alignment explanation
Indices: 19381346--19381462 Score: 145
Period size: 27 Copynumber: 4.3 Consensus size: 28
19381336 TTATCCTTTG
* **
19381346 GGGGTATTTCAGTAATTTTACCC-TTTA
1 GGGGTATTTCAATAATTTTACCCATCGA
19381373 GGGGTATTTCAATAATTTTACCCATCGA
1 GGGGTATTTCAATAATTTTACCCATCGA
**
19381401 -GGGTATTTCGGTAATTTTA-CCATTC-A
1 GGGGTATTTCAATAATTTTACCCA-TCGA
19381427 GGGGTATTTCAATAATTTTACCCATCGA
1 GGGGTATTTCAATAATTTTACCCATCGA
19381455 -GGGTATTT
1 GGGGTATTT
19381463 TGGTCATTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.05
27 68 0.87
28 6 0.08
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (28 bp):
GGGGTATTTCAATAATTTTACCCATCGA
Found at i:19381471 original size:27 final size:27
Alignment explanation
Indices: 19381279--19381471 Score: 135
Period size: 27 Copynumber: 7.1 Consensus size: 27
19381269 TATAACAGTC
*
19381279 ATTTTACCCTAT-G-GGGTAATTTCGATA
1 ATTTTACCC-ATCGAGGGT-ATTTCGGTA
* * * * *
19381306 ATTTTATCCTTTGATGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGGTA
* * * * *
19381333 ATTTTATCCTTTGGGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTCGGTA
** **
19381360 ATTTTACCC-TTTAGGGGTATTTCAATA
1 ATTTTACCCATCGA-GGGTATTTCGGTA
19381387 ATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTCGGTA
**
19381414 ATTTTA-CCATTC-AGGGGTATTTCAATA
1 ATTTTACCCA-TCGA-GGGTATTTCGGTA
* *
19381441 ATTTTACCCATCGAGGGTATTTTGGTC
1 ATTTTACCCATCGAGGGTATTTCGGTA
19381468 ATTT
1 ATTT
19381472 AACAAATTTT
Statistics
Matches: 135, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.05
27 119 0.88
28 9 0.07
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGGTA
Found at i:19388173 original size:33 final size:33
Alignment explanation
Indices: 19388115--19388205 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
19388105 TATGATATAT
19388115 ATTTTTTATATTCTTTAAATG-TTATAAATTGC
1 ATTTTTTATATTCTTTAAATGTTTATAAATTGC
19388147 ATTTTTTATATTCTTTAAATGTTTATAAATTGC
1 ATTTTTTATATTCTTTAAATGTTTATAAATTGC
19388180 ATTTTTTATATTCTTTAAATGTTTAT
1 ATTTTTTATATTCTTTAAATGTTTAT
19388206 GTAAGTTATG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 21 0.36
33 37 0.64
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (33 bp):
ATTTTTTATATTCTTTAAATGTTTATAAATTGC
Found at i:19400633 original size:10 final size:10
Alignment explanation
Indices: 19400620--19400644 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19400610 CAATGACCAC
19400620 GTTGACCTAT
1 GTTGACCTAT
19400630 GTTGACCTAT
1 GTTGACCTAT
19400640 GTTGA
1 GTTGA
19400645 TCAGTCGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (10 bp):
GTTGACCTAT
Found at i:19414049 original size:43 final size:41
Alignment explanation
Indices: 19413968--19414051 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 41
19413958 TTTTATCCTA
* *
19413968 GAAAAAATGAATTTAAAAAGAGAAGATAATCTTAGGTTGTT
1 GAAAAAATGAATTTAAAAAGAGAAGATAAACATAGGTTGTT
*
19414009 GAAAAAA-GAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
1 GAAAAAATGAATTT-AAAA-A-GAGAAGATAAACATAGGTTGTT
19414052 CGATTTACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 6 0.16
41 11 0.30
42 1 0.03
43 19 0.51
ACGTcount: A:0.50, C:0.02, G:0.23, T:0.25
Consensus pattern (41 bp):
GAAAAAATGAATTTAAAAAGAGAAGATAAACATAGGTTGTT
Found at i:19415469 original size:60 final size:60
Alignment explanation
Indices: 19415371--19415522 Score: 171
Period size: 60 Copynumber: 2.5 Consensus size: 60
19415361 GGAATGATCC
* * *
19415371 TGGTCTTAATGATAAGAC-GAATGGTCAATATGTTAATCCTCCAGTTCGTAGAGTGATACA
1 TGGTCTGAATGATAA-ACTGAATGGTCAAGATGTCAATCCTCCAGTTCGTAGAGTGATACA
* * * * *
19415431 TGGTCTGAATGATAACCTGAATGGTCAAGATGTCAATCCTCCTGTTCGTAGGGTGCTACC
1 TGGTCTGAATGATAAACTGAATGGTCAAGATGTCAATCCTCCAGTTCGTAGAGTGATACA
* * ** *
19415491 TAGTTTGAATGATAATTTGAATGGTCAGGATG
1 TGGTCTGAATGATAAACTGAATGGTCAAGATG
19415523 CTAATTCTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 1 0.01
60 77 0.99
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (60 bp):
TGGTCTGAATGATAAACTGAATGGTCAAGATGTCAATCCTCCAGTTCGTAGAGTGATACA
Found at i:19415533 original size:60 final size:59
Alignment explanation
Indices: 19415389--19415548 Score: 176
Period size: 60 Copynumber: 2.7 Consensus size: 59
19415379 ATGATAAGAC
* * * *
19415389 GAATGGTCAATATGTTAATCCTCCAGTTCGTAGAGTGATACATGGTCTGAATGATAACCT
1 GAATGGTCAAGATG-TAATCCTCCTGTTCGTAGGGTGATACATAGTCTGAATGATAACCT
* * * **
19415449 GAATGGTCAAGATGTCAATCCTCCTGTTCGTAGGGTGCTACCTAGTTTGAATGATAATTT
1 GAATGGTCAAGATGT-AATCCTCCTGTTCGTAGGGTGATACATAGTCTGAATGATAACCT
* * * *
19415509 GAATGGTCAGGATGCTAATTCTCCTATTCATAGGGTGATA
1 GAATGGTCAAGATG-TAATCCTCCTGTTCGTAGGGTGATA
19415549 GATGACTGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 82 0.98
61 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (59 bp):
GAATGGTCAAGATGTAATCCTCCTGTTCGTAGGGTGATACATAGTCTGAATGATAACCT
Found at i:19417451 original size:29 final size:29
Alignment explanation
Indices: 19417416--19417491 Score: 152
Period size: 29 Copynumber: 2.6 Consensus size: 29
19417406 CCGAAAGGTA
19417416 AAATTGAAGACGTACTGGTAAGGGTAGAT
1 AAATTGAAGACGTACTGGTAAGGGTAGAT
19417445 AAATTGAAGACGTACTGGTAAGGGTAGAT
1 AAATTGAAGACGTACTGGTAAGGGTAGAT
19417474 AAATTGAAGACGTACTGG
1 AAATTGAAGACGTACTGG
19417492 AAAGCAAGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (29 bp):
AAATTGAAGACGTACTGGTAAGGGTAGAT
Found at i:19428586 original size:31 final size:31
Alignment explanation
Indices: 19428543--19428615 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
19428533 ATAAATCTCT
* * *
19428543 AAAATTTTTAAAATTTTTAATTAAAA-CTATA
1 AAAAATTTTAAAAGTTATAATTAAAACCT-TA
* *
19428574 AAAAATTTTAAAAGTTATCATTAAAACCTTC
1 AAAAATTTTAAAAGTTATAATTAAAACCTTA
19428605 AAAAATTTTAA
1 AAAAATTTTAA
19428616 TTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAAATTTTAAAAGTTATAATTAAAACCTTA
Found at i:19428628 original size:21 final size:21
Alignment explanation
Indices: 19428575--19428628 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
19428565 AAAACTATAA
* * *
19428575 AAAATTTTAAAAGTTATCATT
1 AAAATTTCAAAAATTATAATT
* *
19428596 AAAACCTTCAAAAATTTTAATT
1 AAAA-TTTCAAAAATTATAATT
19428618 AAAATTTCAAA
1 AAAATTTCAAA
19428629 CTTAACACCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATTTCAAAAATTATAATT
Found at i:19429308 original size:18 final size:19
Alignment explanation
Indices: 19429285--19429320 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19429275 CCTGGGAGGA
*
19429285 ATTGGGGTTGGT-TTGGGT
1 ATTGGGCTTGGTCTTGGGT
19429303 ATTGGGCTTGGTCTTGGG
1 ATTGGGCTTGGTCTTGGG
19429321 CTTGGTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.06, C:0.06, G:0.47, T:0.42
Consensus pattern (19 bp):
ATTGGGCTTGGTCTTGGGT
Found at i:19430943 original size:7 final size:7
Alignment explanation
Indices: 19430931--19430978 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
19430921 AAACAATTCG
19430931 AAAATTA
1 AAAATTA
19430938 AAAATTA
1 AAAATTA
19430945 ACAAA-TA
1 A-AAATTA
19430952 AAAATTA
1 AAAATTA
*
19430959 AAAATAA
1 AAAATTA
*
19430966 AAGAAATA
1 AA-AATTA
19430974 AAAAT
1 AAAAT
19430979 ATTGTATCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 3 0.09
7 23 0.68
8 8 0.24
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (7 bp):
AAAATTA
Found at i:19430956 original size:21 final size:22
Alignment explanation
Indices: 19430931--19430978 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
19430921 AAACAATTCG
*
19430931 AAAATTAAAAAT-TAACAAATA
1 AAAATTAAAAATAAAACAAATA
*
19430952 AAAATTAAAAATAAAAGAAATA
1 AAAATTAAAAATAAAACAAATA
19430974 AAAAT
1 AAAAT
19430979 ATTGTATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATTAAAAATAAAACAAATA
Found at i:19438502 original size:151 final size:146
Alignment explanation
Indices: 19438158--19438570 Score: 495
Period size: 151 Copynumber: 2.7 Consensus size: 146
19438148 TGGCTGAGAG
* *
19438158 ACACGCCCATGTCTCAGGCCTTGTAACCTTCGAACTAGGGACACACGGCCGTGTCCCAACTCGTG
1 ACACGCCCGTGTCTCAGG-CTTGTAACCTTCGAACTAGGGACACAAGGCC--GTCCCAACTCGTG
* * * * *
19438223 TGCTCACCCGTGTAACTCACTGAGTAGGGTCACACGACCATGCCGCACGCCATGTGCCAAGCCAT
63 TCCTCA-CTGTGTAACTCACTGAGTAGGGTCACACGGCCATGTCACACGCCATGTGCCAAGCCAT
19438288 GTAACTCTATAAGTTGCCCC
127 GTAACTCTATAAGTTGCCCC
* * * * *
19438308 GCACGCCTGTGTCTTAGGCCGTGTAACCTTCGAACTAGGGACACAAGGCCGTCCCCTAACTCATG
1 ACACGCCCGTGTCTCAGG-CTTGTAACCTTCGAACTAGGGACACAAGGCCGT-CCC-AACTCGTG
*
19438373 TCCTCATCTGTGTAACTCACTGAGTAGGGTCACACGGCCATGTCACACGCCTGTGTGCCAAGCCA
63 TCCTCA-CTGTGTAACTCACTGAGTAGGGTCACACGGCCATGTCACACGCC-ATGTGCCAAGCCA
* *
19438438 TGTAACTCTCTAGGTTGCCCC
126 TGTAACTCTATAAGTTGCCCC
* * *
19438459 ACATGCCCGTGTCTCAGGCTATGTAACCTTCGAATTAGGGACACATA-GCTATGTCCCAACTCGT
1 ACACGCCCGTGTCTCAGGCT-TGTAACCTTCGAACTAGGGACACA-AGGC--CGTCCCAACTCGT
* * * *
19438523 GTCCTCACTCGTGTAACTTATTGAGTAGGGTCACACAGCCGTGTCACA
62 GTCCTCACT-GTGTAACTCACTGAGTAGGGTCACACGGCCATGTCACA
19438571 GGTCGTGTGG
Statistics
Matches: 227, Mismatches: 28, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
148 2 0.01
149 3 0.01
150 99 0.44
151 117 0.52
152 4 0.02
153 2 0.01
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.23
Consensus pattern (146 bp):
ACACGCCCGTGTCTCAGGCTTGTAACCTTCGAACTAGGGACACAAGGCCGTCCCAACTCGTGTCC
TCACTGTGTAACTCACTGAGTAGGGTCACACGGCCATGTCACACGCCATGTGCCAAGCCATGTAA
CTCTATAAGTTGCCCC
Found at i:19444923 original size:40 final size:40
Alignment explanation
Indices: 19444857--19445015 Score: 174
Period size: 40 Copynumber: 4.0 Consensus size: 40
19444847 AATTATTGAA
* * * * *
19444857 TGATTGTACATGCGTGCCCATGTTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * *
19444897 TGATTGCACATATGTTCTCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
19444937 TAATTACACATACGTGCCCCTTTTTGTACTTCGGTGCCCA
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * *
19444977 TGATTGCACATACGTGCCCATGTTTGTACTTCGATACCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
19445016 TTGAACACAT
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:19445003 original size:80 final size:80
Alignment explanation
Indices: 19444864--19445015 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
19444854 GAATGATTGT
* * * *
19444864 ACATGCGTGCCCATGTTTGTACTTCAGTACCCCTGATTGCACATATGTTCTCCTATTTGTACTTC
1 ACATACGTGCCCATGTTTGTACTTCAGTACCCATGATTGCACATACGTGCTCCTATTTGTACTTC
*
19444929 GGTACCCCTAATTAC
66 GATACCCCTAATTAC
* * * * *
19444944 ACATACGTGCCCCTTTTTGTACTTCGGTGCCCATGATTGCACATACGTGC-CCATGTTTGTACTT
1 ACATACGTGCCCATGTTTGTACTTCAGTACCCATGATTGCACATACGTGCTCC-TATTTGTACTT
19445008 CGATACCC
65 CGATACCC
19445016 TTGAACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 2 0.03
80 59 0.97
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (80 bp):
ACATACGTGCCCATGTTTGTACTTCAGTACCCATGATTGCACATACGTGCTCCTATTTGTACTTC
GATACCCCTAATTAC
Found at i:19448611 original size:20 final size:20
Alignment explanation
Indices: 19448561--19448617 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
19448551 AGTTTATGCT
* ** *
19448561 AAGTAAATGAAATGCAAAGT
1 AAGTAAATGGAATGGTAAGA
*
19448581 AAGTAAGTGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
19448601 AAGTAAATGGAGTGGTA
1 AAGTAAATGGAATGGTA
19448618 CATAGTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:19451966 original size:26 final size:26
Alignment explanation
Indices: 19451932--19452012 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
19451922 AACGTACCAA
* * *
19451932 TATCACAGCAAGGCTGCCAATAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
* *
19451958 TATCGCAGCAAAGCTGCTAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
19451984 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
19452010 TAT
1 TAT
19452013 ACTACCTCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:19452257 original size:26 final size:27
Alignment explanation
Indices: 19452183--19452342 Score: 223
Period size: 27 Copynumber: 6.0 Consensus size: 27
19452173 ACAGTCAGTC
* * *
19452183 TACCCTATGGGGGTATTTTGGTTATTT
1 TACCCTATGGGGGTATTTCGATCATTT
19452210 TACCCTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*** *
19452237 TACCCTA-CAAGGTATTTCGATAATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
19452263 TACCGTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
19452290 TACCTTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
19452317 TACCCTATGGGGGTATTTCGACCATT
1 TACCCTATGGGGGTATTTCGATCATT
19452343 CATTTACCTC
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
26 21 0.18
27 96 0.82
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCGATCATTT
Found at i:19453270 original size:17 final size:16
Alignment explanation
Indices: 19453236--19453268 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19453226 AAACTTTAGG
19453236 TGCAAAAATGTAATTT
1 TGCAAAAATGTAATTT
*
19453252 TGCAAAAATGTGATTT
1 TGCAAAAATGTAATTT
19453268 T
1 T
19453269 TGGACTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (16 bp):
TGCAAAAATGTAATTT
Found at i:19462811 original size:26 final size:26
Alignment explanation
Indices: 19462735--19462814 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
19462725 AACGCACCAA
* * *
19462735 TATCGCAGC-AAGCTACCAGTAATAA
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
19462760 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
19462786 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
19462812 TAT
1 TAT
19462815 ACTACCTCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 8 0.16
26 41 0.84
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:19463027 original size:27 final size:26
Alignment explanation
Indices: 19462967--19463151 Score: 140
Period size: 27 Copynumber: 6.9 Consensus size: 26
19462957 TCATCTCCTA
** * *
19462967 GGGGTATAACAGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTCTA-CCTATG
*
19462994 AGGGTATTTCAGTCATTCTATCCTATG
1 GGGGTATTTCAGTCATTCTA-CCTATG
* *
19463021 GGAGTATTTC-GATCATTCTATCCTATA
1 GGGGTATTTCAG-TCATTCTA-CCTATG
* *
19463048 GGGGTATTTCGGTCATTTTACTCTATG
1 GGGGTATTTCAGTCATTCTAC-CTATG
* *
19463075 GGGGTATTTCAATCATTTTACCTTATG
1 GGGGTATTTCAGTCATTCTACC-TATG
*
19463102 GGGGTATTTC-GATCATTTTACCTAATG
1 GGGGTATTTCAG-TCATTCTACCT-ATG
* ** *
19463129 AGGGTATTTTGGTCATTTTACCT
1 GGGGTATTTCAGTCATTCTACCT
19463152 GACCTAAACG
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
26 4 0.03
27 128 0.96
28 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (26 bp):
GGGGTATTTCAGTCATTCTACCTATG
Found at i:19463037 original size:54 final size:51
Alignment explanation
Indices: 19462979--19463150 Score: 182
Period size: 54 Copynumber: 3.2 Consensus size: 51
19462969 GGTATAACAG
* *
19462979 TCATTTTACCCTATAAGGGTATTTCAGTCATTCTATCCTATGGGAGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTC-GTCATTTTA-CCTATGGG-GTATTTCGA
* * *
19463033 TCATTCTATCCTATAGGGGTATTTCGGTCATTTTACTCTATGGGGGTATTTCAA
1 TCATTTTACCCTATAGGGGTATTTC-GTCATTTTAC-CTAT-GGGGTATTTCGA
* * * *
19463087 TCATTTTACCTTATGGGGGTATTTCGATCATTTTACCTAATGAGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCG-TCATTTTACCT-ATG-GGGTATTTCGA
19463141 TCATTTTACC
1 TCATTTTACC
19463151 TGACCTAAAC
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
53 5 0.05
54 92 0.92
55 3 0.03
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (51 bp):
TCATTTTACCCTATAGGGGTATTTCGTCATTTTACCTATGGGGTATTTCGA
Found at i:19463134 original size:81 final size:81
Alignment explanation
Indices: 19462978--19463150 Score: 226
Period size: 81 Copynumber: 2.1 Consensus size: 81
19462968 GGGTATAACA
*
19462978 GTCATTTTACCCTATAAGGGTATTTCAGTCATTCTATCCTATGGGAGTATTTCGATCATTCTATC
1 GTCATTTTACCCTATAAGGGTATTTCAATCATTCTATCCTATGGGAGTATTTCGATCATTCTATC
19463043 CTATAGGGGTATTTCG
66 CTATAGGGGTATTTCG
* ** * * *
19463059 GTCATTTTACTCTATGGGGGTATTTCAATCATTTTA-CCTTATGGGGGTATTTCGATCATTTTA-
1 GTCATTTTACCCTATAAGGGTATTTCAATCATTCTATCC-TATGGGAGTATTTCGATCATTCTAT
*
19463122 CCTA-ATGAGGGTATTTTG
65 CCTATA-G-GGGTATTTCG
19463140 GTCATTTTACC
1 GTCATTTTACC
19463151 TGACCTAAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 7 0.09
81 72 0.90
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATAAGGGTATTTCAATCATTCTATCCTATGGGAGTATTTCGATCATTCTATC
CTATAGGGGTATTTCG
Found at i:19463881 original size:26 final size:26
Alignment explanation
Indices: 19463843--19463919 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
19463833 TCAGCACACC
* *
19463843 AATATCTCAGCAAGGTTGCCAGTAAT
1 AATATCGCAGCAAAGTTGCCAGTAAT
* *
19463869 AATATCGCTGCAAAGTTGCCAGTAAC
1 AATATCGCAGCAAAGTTGCCAGTAAT
* * * *
19463895 AGTATTGCAGCAAAGCTACCAGTAA
1 AATATCGCAGCAAAGTTGCCAGTAA
19463920 CAGTATACTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (26 bp):
AATATCGCAGCAAAGTTGCCAGTAAT
Found at i:19464092 original size:27 final size:26
Alignment explanation
Indices: 19464060--19464127 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
19464050 AAGGCCATAT
19464060 CAGTCATTTCATCTCC-TAGGGGTATAA
1 CAGTCATTTCA-C-CCATAGGGGTATAA
*
19464087 CAGTCATTTTACCCTATAGGGGTATAA
1 CAGTCATTTCACCC-ATAGGGGTATAA
*
19464114 CAGTCATTTTACCC
1 CAGTCATTTCACCC
19464128 TATGAGTGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
25 2 0.05
26 1 0.03
27 35 0.92
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (26 bp):
CAGTCATTTCACCCATAGGGGTATAA
Found at i:19464128 original size:27 final size:27
Alignment explanation
Indices: 19464076--19464185 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
19464066 TTTCATCTCC
19464076 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATAACAGTCATTTTACCCTA
19464103 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATAACAGTCATTTTACCCTA
* ** * *
19464130 T-GAGTGTATTTCGGTCAATTTACCCTA
1 TAG-GGGTATAACAGTCATTTTACCCTA
**
19464157 T-GGGGTAATTTCAGTCATTTTACCCTA
1 TAGGGGT-ATAACAGTCATTTTACCCTA
19464184 TA
1 TA
19464186 AGAGTATTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.06
27 68 0.94
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
TAGGGGTATAACAGTCATTTTACCCTA
Done.