Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 132 of 189
Found at i:38206526 original size:59 final size:58
Alignment explanation
Indices: 38206441--38206736 Score: 319
Period size: 59 Copynumber: 5.1 Consensus size: 58
38206431 TGAAGTGGAA
*
38206441 AATTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCAT
1 AATTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCAT
* * * * * * * ** *
38206499 AATTCGATGGTCTTTACTATCCTTTTTCATAGTTGATGGTCCTCA-CGATCCCTTTTCAT
1 AATT-GATGGTCGTCACCATCCCTTTTCATAATCGATAG-CCGAAGCTATCCCTTTTCAT
* *
38206558 AGTTAATGGTCGTCACCATCCCCTTTT-ATAATCGATAGCCGAAGCTATCCCTTTTCAT
1 AATTGATGGTCGTCACCAT-CCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCAT
* * * *
38206616 AGTTCGATGGTCATCACCATCCCTTTTCATAATCGATAGCTGAATCTATCCCTTTTCAT
1 AATT-GATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCAT
* * * * *
38206675 AATTTGATGGTCGTCACCATCCCTTTTCATAGTTGATAGTCGTCA-CCATCCCTTTTCAT
1 AA-TTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCG-AAGCTATCCCTTTTCAT
38206734 AAT
1 AAT
38206737 CGATAGCCAA
Statistics
Matches: 196, Mismatches: 34, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
57 3 0.02
58 48 0.24
59 139 0.71
60 6 0.03
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (58 bp):
AATTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCAT
Found at i:38206667 original size:88 final size:86
Alignment explanation
Indices: 38206443--38206762 Score: 313
Period size: 88 Copynumber: 3.6 Consensus size: 86
38206433 AAGTGGAAAA
**
38206443 TTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATTCGATG
1 TTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAA-CTATCCCTTTTCATAATTCGATG
*** *
38206508 GTCTTTACTATCCTTTTTCATAG
65 G-CCGAACTATCCCTTTTCATAG
* * * ** * * *
38206531 TTGATGGTCCTCACGATCCCTTTTCATAGTTAAT-GGTCGTCACCATCCCCTTTT-ATAA-TCGA
1 TTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCT-G-AACTAT-CCCTTTTCATAATTCGA
*
38206593 TAGCCGAAGCTATCCCTTTTCATAG
63 TGGCCGAA-CTATCCCTTTTCATAG
* *
38206618 TTCGATGGTCATCACCATCCCTTTTCATAATCGATAGCTGAATCTATCCCTTTTCATAATTTGAT
1 TT-GATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAA-CTATCCCTTTTCATAATTCGAT
* * *
38206683 GGTCGTCACCATCCCTTTTCATAG
64 GGCCG-AACTATCCCTTTTCATAG
* ** *
38206707 TTGATAGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAACTATCCATTTTCAT
1 TTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CTGAACTATCCCTTTTCAT
38206763 TAGTCGATAT
Statistics
Matches: 188, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
86 2 0.01
87 32 0.17
88 116 0.62
89 37 0.20
90 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (86 bp):
TTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAACTATCCCTTTTCATAATTCGATGG
CCGAACTATCCCTTTTCATAG
Found at i:38206667 original size:117 final size:117
Alignment explanation
Indices: 38206446--38206705 Score: 346
Period size: 117 Copynumber: 2.2 Consensus size: 117
38206436 TGGAAAATTG
38206446 ATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATTCGATGGTC
1 ATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATTCGATGGTC
* * * * * * * *
38206511 TTTACTATCCTTTTTCATAGTTGATGGTCCTCACGATCCCTTTTCAT-AGTTA
66 ATCACCATCCCTTTTCATAATCGATAG-CCTAACGATCCCTTTTCATAAGTTA
* *
38206563 ATGGTCGTCACCATCCCCTTTT-ATAATCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATGGT
1 ATGGTCGTCACCAT-CCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATTCGATGGT
* * *
38206627 CATCACCATCCCTTTTCATAATCGATAG-CTGAATCTATCCCTTTTCATAATTTG
65 CATCACCATCCCTTTTCATAATCGATAGCCT-AA-CGATCCCTTTTCATAAGTTA
38206681 ATGGTCGTCACCATCCCTTTTCATA
1 ATGGTCGTCACCATCCCTTTTCATA
38206706 GTTGATAGTC
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
115 2 0.02
116 1 0.01
117 95 0.76
118 27 0.22
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.38
Consensus pattern (117 bp):
ATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATTCGATGGTC
ATCACCATCCCTTTTCATAATCGATAGCCTAACGATCCCTTTTCATAAGTTA
Found at i:38206754 original size:29 final size:29
Alignment explanation
Indices: 38206451--38206777 Score: 178
Period size: 29 Copynumber: 11.1 Consensus size: 29
38206441 AATTGATGGT
*
38206451 CGTCACCATCCCTTTTCATAATCGATAGC
1 CGTCACTATCCCTTTTCATAATCGATAGC
** * *
38206480 C-AAAGCTATCCCTTTTCATAATTCGATGGT
1 CGTCA-CTATCCCTTTTCATAA-TCGATAGC
* * * * * *
38206510 CTTTACTATCCTTTTTCATAGTTGATGGTC
1 CGTCACTATCCCTTTTCATAATCGATAG-C
* * ** * *
38206540 C-TCACGATCCCTTTTCATAGTTAATGGT
1 CGTCACTATCCCTTTTCATAATCGATAGC
*
38206568 CGTCACCATCCCCTTTT-ATAATCGATAGC
1 CGTCACTAT-CCCTTTTCATAATCGATAGC
* * * *
38206597 CG-AAGCTATCCCTTTTCATAGTTCGATGGT
1 CGTCA-CTATCCCTTTTCATA-ATCGATAGC
* *
38206627 CATCACCATCCCTTTTCATAATCGATAGC
1 CGTCACTATCCCTTTTCATAATCGATAGC
* * * * *
38206656 TG-AATCTATCCCTTTTCATAATTTGATGGT
1 CGTCA-CTATCCCTTTTCATAA-TCGATAGC
* * * *
38206686 CGTCACCATCCCTTTTCATAGTTGATAGT
1 CGTCACTATCCCTTTTCATAATCGATAGC
*
38206715 CGTCACCATCCCTTTTCATAATCGATAGC
1 CGTCACTATCCCTTTTCATAATCGATAGC
*** * *
38206744 CAAAACTATCCATTTTCATTAGTCGATATGC
1 CGTCACTATCCCTTTTCA-TAATCGATA-GC
38206775 CGT
1 CGT
38206778 TGGATTTTTT
Statistics
Matches: 227, Mismatches: 56, Indels: 28
0.73 0.18 0.09
Matches are distributed among these distances:
28 11 0.05
29 132 0.58
30 78 0.34
31 6 0.03
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
CGTCACTATCCCTTTTCATAATCGATAGC
Found at i:38211004 original size:27 final size:27
Alignment explanation
Indices: 38210963--38211297 Score: 406
Period size: 27 Copynumber: 12.4 Consensus size: 27
38210953 ATAATGGGCC
**
38210963 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
38210990 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
38211017 TAAAATGACTAAAATACCCCCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
**
38211044 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
38211071 TAAAATAACTGAAATCCCCTCGAAAGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
38211098 TAAAATGACTGAAATACCATCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
38211125 TAAAATGA-TCGAAATTCCCTTGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
* * **
38211152 TAAAATGACCGAAATGCCCTTAAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
38211179 TAAAATGACTGAAATACCC-CTGAAGGG
1 TAAAATGACTGAAATACCCTC-GAAGGG
* *
38211206 TAAAATGACCGAAATACCTTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
38211233 TAAAATGACCGAAGTACCCCCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
38211260 TAAAATGA-TCGAAATACCCCCAAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
*
38211287 TAAAATAACTG
1 TAAAATGACTG
38211298 TTATACCCCT
Statistics
Matches: 268, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.00
27 265 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:38211508 original size:26 final size:26
Alignment explanation
Indices: 38211473--38211546 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
38211463 CCACATATAT
*
38211473 TGTTACTGGCAGCTTTGCTGCGTTAC
1 TGTTACTGGCAGCTTTGCTGCGTCAC
* *
38211499 TGTTACTGGCAACTTTGCTGCATCAC
1 TGTTACTGGCAGCTTTGCTGCGTCAC
* * *
38211525 TATTTCTGGTAGCTTTGCTGCG
1 TGTTACTGGCAGCTTTGCTGCG
38211547 ATTTTAGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.39
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGTCAC
Found at i:38215835 original size:29 final size:29
Alignment explanation
Indices: 38215789--38216103 Score: 265
Period size: 29 Copynumber: 10.8 Consensus size: 29
38215779 AATCACGATT
38215789 GTCGTCACCATCCCTTTTCATAGTTGATG
1 GTCGTCACCATCCCTTTTCATAGTTGATG
* * * *
38215818 GTTGTCACCATCCTTTTTCATAATTCAATG
1 GTCGTCACCATCCCTTTTCATAGTT-GATG
* * **
38215848 GTTGCCACCATCTTTTTTCATAGTTGATG
1 GTCGTCACCATCCCTTTTCATAGTTGATG
* *
38215877 GTCTTCCCCATCCCTTTTCATAGTTGATG
1 GTCGTCACCATCCCTTTTCATAGTTGATG
* * * * *
38215906 GTCGTCACCGTCCCTTTTTATAATCGATA
1 GTCGTCACCATCCCTTTTCATAGTTGATG
* * *
38215935 GTCG-AAGCTATCCCTTTTCATAATTCGATG
1 GTCGTCA-CCATCCCTTTTCATAGTT-GATG
* *
38215965 GTCATCACCATCCCTTTTCATGGTTGATG
1 GTCGTCACCATCCCTTTTCATAGTTGATG
* * ** *
38215994 GTCATCACCATCCCTTTTCATAATCAATA
1 GTCGTCACCATCCCTTTTCATAGTTGATG
*** * * *
38216023 G-CCAAAGCTATCCATTTTCATAATTCGATG
1 GTCGTCA-CCATCCCTTTTCATAGTT-GATG
** *
38216053 GTCGTCACCATATCTTTTCATAGTTGACG
1 GTCGTCACCATCCCTTTTCATAGTTGATG
38216082 GTCGTCACCATCCCTTTTCATA
1 GTCGTCACCATCCCTTTTCATA
38216104 ATCGATAGCC
Statistics
Matches: 223, Mismatches: 56, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
28 3 0.01
29 155 0.70
30 62 0.28
31 3 0.01
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (29 bp):
GTCGTCACCATCCCTTTTCATAGTTGATG
Found at i:38215965 original size:88 final size:88
Alignment explanation
Indices: 38215784--38216131 Score: 396
Period size: 88 Copynumber: 4.0 Consensus size: 88
38215774 AGTGGAATCA
* * * * *
38215784 CGATTGTCGTCACCATCCCTTTTCATAGTTGATGGTTGTCACCATCCTTTTTCATAATTCAATGG
1 CGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAA-TCAATAG
* * * ** *
38215849 TTGCCA-CCATCTTTTTTCATAGTT
65 TCG-AAGCTATCCATTTTCATAATT
* * * * *
38215873 -GATGGTCTTCCCCATCCCTTTTCATAGTTGATGGTCGTCACCGTCCCTTTTTATAATCGATAGT
1 CGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCAATAGT
*
38215937 CGAAGCTATCCCTTTTCATAATT
66 CGAAGCTATCCATTTTCATAATT
* * *
38215960 CGATGGTCATCACCATCCCTTTTCATGGTTGATGGTCATCACCATCCCTTTTCATAATCAATAGC
1 CGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCAATAGT
*
38216025 CAAAGCTATCCATTTTCATAATT
66 CGAAGCTATCCATTTTCATAATT
* ** * *
38216048 CGATGGTCGTCACCATATCTTTTCATAGTTGACGGTCGTCACCATCCCTTTTCATAATCGATAG-
1 CGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCAATAGT
* *
38216112 CCACAACTATCCATTTTCAT
66 CGA-AGCTATCCATTTTCAT
38216132 TGGTCGATGA
Statistics
Matches: 222, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
86 1 0.00
87 23 0.10
88 198 0.89
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (88 bp):
CGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCAATAGT
CGAAGCTATCCATTTTCATAATT
Found at i:38216103 original size:59 final size:58
Alignment explanation
Indices: 38215789--38216105 Score: 244
Period size: 59 Copynumber: 5.4 Consensus size: 58
38215779 AATCACGATT
* * *
38215789 GTCGTCACCATCCCTTTTCATAGTTGATGGTTGTCACCAT-CCTTTTTCATAATTCAATG
1 GTCGTCACCATCCCTTTTCATAATTGATGGTCGTCACCATACC-TTTTCATAATT-GATG
* * ** * * * * *
38215848 GTTGCCACCATCTTTTTTCATAGTTGATGGTCTTCCCCATCCCTTTTCATAGTTGATG
1 GTCGTCACCATCCCTTTTCATAATTGATGGTCGTCACCATACCTTTTCATAATTGATG
* * * * * * *
38215906 GTCGTCACCGTCCCTTTTTATAATCGATAGTCG-AAGCTATCCCTTTTCATAATTCGATG
1 GTCGTCACCATCCCTTTTCATAATTGATGGTCGTCA-CCATACCTTTTCATAATT-GATG
* ** * * ** *
38215965 GTCATCACCATCCCTTTTCATGGTTGATGGTCATCACCATCCCTTTTCATAATCAATA
1 GTCGTCACCATCCCTTTTCATAATTGATGGTCGTCACCATACCTTTTCATAATTGATG
*** * * * * *
38216023 G-CCAAAGCTATCCATTTTCATAATTCGATGGTCGTCACCATATCTTTTCATAGTTGACG
1 GTCGTCA-CCATCCCTTTTCATAATT-GATGGTCGTCACCATACCTTTTCATAATTGATG
38216082 GTCGTCACCATCCCTTTTCATAAT
1 GTCGTCACCATCCCTTTTCATAAT
38216106 CGATAGCCAC
Statistics
Matches: 195, Mismatches: 56, Indels: 14
0.74 0.21 0.05
Matches are distributed among these distances:
57 2 0.01
58 59 0.30
59 129 0.66
60 5 0.03
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (58 bp):
GTCGTCACCATCCCTTTTCATAATTGATGGTCGTCACCATACCTTTTCATAATTGATG
Found at i:38218345 original size:36 final size:36
Alignment explanation
Indices: 38218290--38218363 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
38218280 AATAAACTCT
* * *
38218290 ATTCAGTTTAGCAGTCTTTCATATCTATTCTGACTG
1 ATTCAGTTCAGCAGCCTTTCAAATCTATTCTGACTG
*
38218326 ATTCAGTTCAGTAGCCTTTCAAATCTATTCTGACTG
1 ATTCAGTTCAGCAGCCTTTCAAATCTATTCTGACTG
38218362 AT
1 AT
38218364 GCACTTCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCCTTTCAAATCTATTCTGACTG
Found at i:38221175 original size:58 final size:58
Alignment explanation
Indices: 38221113--38221333 Score: 208
Period size: 58 Copynumber: 3.8 Consensus size: 58
38221103 ATCGTATATA
* * * *
38221113 AAAAGGGATAGTTTCAACTATCGACTATGAAAAGGGATAGTTTCGACTATCGACTATG
1 AAAAGGGATGGTGTCAACCATCGACTATGAAAAGGGATAGTTACGACTATCGACTATG
* * * * * * * * *
38221171 AAAAGGGATGGTGGCGACCATCAACTATGAAAAGGGATGGTGACCACCAGCAACTATG
1 AAAAGGGATGGTGTCAACCATCGACTATGAAAAGGGATAGTTACGACTATCGACTATG
** * ** * * * * *
38221229 AAAAGGGATTTTTTTTACTATAGACTATGAAAAGGGATAGTTTCAACTATCGACTATA
1 AAAAGGGATGGTGTCAACCATCGACTATGAAAAGGGATAGTTACGACTATCGACTATG
* * *
38221287 AAAAGGGATGGTGACAACCATCGAATATGAAAAGGGATGGTTACGAC
1 AAAAGGGATGGTGTCAACCATCGACTATGAAAAGGGATAGTTACGAC
38221334 CATTTTTAGC
Statistics
Matches: 121, Mismatches: 42, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
58 121 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AAAAGGGATGGTGTCAACCATCGACTATGAAAAGGGATAGTTACGACTATCGACTATG
Found at i:38221179 original size:87 final size:87
Alignment explanation
Indices: 38221084--38221333 Score: 277
Period size: 87 Copynumber: 2.9 Consensus size: 87
38221074 CGATCAATGA
* * ** *
38221084 AAAAGGGATGGTTTTAACCATCGTA-TATAAAAAGGGATAGTTTCAACTATCGACTATGAAAAGG
1 AAAAGGGATGGTTTCAACCATCG-ACTATAAAAAGGGATGGTGACAACCATCGACTATGAAAAGG
*
38221148 GATAGTTTCGACTATCGACTATG
65 GATAGTTTCGACTATAGACTATG
** * * * * * *
38221171 AAAAGGGATGGTGGCGACCATCAACTATGAAAAGGGATGGTGACCACCAGCAACTATGAAAAGGG
1 AAAAGGGATGGTTTCAACCATCGACTATAAAAAGGGATGGTGACAACCATCGACTATGAAAAGGG
** **
38221236 ATTTTTTTTACTATAGACTATG
66 ATAGTTTCGACTATAGACTATG
* * *
38221258 AAAAGGGATAGTTTCAACTATCGACTATAAAAAGGGATGGTGACAACCATCGAATATGAAAAGGG
1 AAAAGGGATGGTTTCAACCATCGACTATAAAAAGGGATGGTGACAACCATCGACTATGAAAAGGG
* *
38221323 ATGGTTACGAC
66 ATAGTTTCGAC
38221334 CATTTTTAGC
Statistics
Matches: 128, Mismatches: 34, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
86 1 0.01
87 127 0.99
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (87 bp):
AAAAGGGATGGTTTCAACCATCGACTATAAAAAGGGATGGTGACAACCATCGACTATGAAAAGGG
ATAGTTTCGACTATAGACTATG
Found at i:38221336 original size:29 final size:29
Alignment explanation
Indices: 38221084--38221328 Score: 188
Period size: 29 Copynumber: 8.4 Consensus size: 29
38221074 CGATCAATGA
* * *
38221084 AAAAGGGATGGTTTTAACCATCGTATATA
1 AAAAGGGATGGTTTCAACCATCGAATATG
* * *
38221113 AAAAGGGATAGTTTCAACTATCGACTATG
1 AAAAGGGATGGTTTCAACCATCGAATATG
* * * *
38221142 AAAAGGGATAGTTTCGACTATCGACTATG
1 AAAAGGGATGGTTTCAACCATCGAATATG
** *
38221171 AAAAGGGATGGTGGCGACCATC-AACTATG
1 AAAAGGGATGGTTTCAACCATCGAA-TATG
** * *
38221200 AAAAGGGATGGTGACCACCAGC-AACTATG
1 AAAAGGGATGGTTTCAACCATCGAA-TATG
** ** * * *
38221229 AAAAGGGATTTTTTTTACTATAGACTATG
1 AAAAGGGATGGTTTCAACCATCGAATATG
* * * *
38221258 AAAAGGGATAGTTTCAACTATCGACTATA
1 AAAAGGGATGGTTTCAACCATCGAATATG
**
38221287 AAAAGGGATGGTGACAACCATCGAATATG
1 AAAAGGGATGGTTTCAACCATCGAATATG
38221316 AAAAGGGATGGTT
1 AAAAGGGATGGTT
38221329 ACGACCATTT
Statistics
Matches: 176, Mismatches: 38, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
28 1 0.01
29 174 0.99
30 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (29 bp):
AAAAGGGATGGTTTCAACCATCGAATATG
Found at i:38222319 original size:12 final size:12
Alignment explanation
Indices: 38222302--38222341 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
38222292 AGGCAATTAA
38222302 ACGGCCTAGCAC
1 ACGGCCTAGCAC
38222314 ACGGCCTAGCAC
1 ACGGCCTAGCAC
38222326 ACGGCCTAGCAC
1 ACGGCCTAGCAC
38222338 ACGG
1 ACGG
38222342 GCGTGTGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.25, C:0.40, G:0.28, T:0.07
Consensus pattern (12 bp):
ACGGCCTAGCAC
Found at i:38226510 original size:7 final size:7
Alignment explanation
Indices: 38226498--38226545 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
38226488 AAGATATTAG
38226498 TAAATGT
1 TAAATGT
38226505 TAAATGT
1 TAAATGT
*
38226512 TAAATAT
1 TAAATGT
38226519 TAAATGT
1 TAAATGT
38226526 TAAATGT
1 TAAATGT
*
38226533 TCAATGT
1 TAAATGT
*
38226540 TCAATG
1 TAAATG
38226546 AATTACTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (7 bp):
TAAATGT
Found at i:38233630 original size:36 final size:36
Alignment explanation
Indices: 38233583--38233656 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
38233573 AATAAACTCT
* * *
38233583 ATTCAGTTCAGCAGCCTTTCGGATCTATTCTGACTG
1 ATTCAATTCAGCACCCTTTCGGATCCATTCTGACTG
*
38233619 ATTCAATTCAGCACCCTTTTGGATCCATTCTGACTG
1 ATTCAATTCAGCACCCTTTCGGATCCATTCTGACTG
38233655 AT
1 AT
38233657 GCACTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (36 bp):
ATTCAATTCAGCACCCTTTCGGATCCATTCTGACTG
Found at i:38233831 original size:21 final size:21
Alignment explanation
Indices: 38233785--38233832 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
38233775 CAATGGAAGG
*
38233785 AAAAGGGAAATGGAATGTAAA
1 AAAATGGAAATGGAATGTAAA
*
38233806 AAAATGGAAATGGAATGTAGA
1 AAAATGGAAATGGAATGTAAA
38233827 AAAATG
1 AAAATG
38233833 CTAATGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (21 bp):
AAAATGGAAATGGAATGTAAA
Found at i:38233838 original size:21 final size:21
Alignment explanation
Indices: 38233792--38233838 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
38233782 AGGAAAAGGG
*
38233792 AAATGGAATGTAAAAAAATGG
1 AAATGGAATGTAAAAAAATGC
*
38233813 AAATGGAATGTAGAAAAATGC
1 AAATGGAATGTAAAAAAATGC
*
38233834 TAATG
1 AAATG
38233839 AGAGAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.21
Consensus pattern (21 bp):
AAATGGAATGTAAAAAAATGC
Found at i:38239733 original size:40 final size:40
Alignment explanation
Indices: 38239696--38239920 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
38239686 GCTACTCGTT
* *
38239696 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
38239736 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
38239776 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
38239816 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
38239855 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38239896 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38239921 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38239880 original size:119 final size:120
Alignment explanation
Indices: 38239698--38239920 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
38239688 TACTCGTTCA
*
38239698 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
38239763 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
38239818 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
38239880 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
38239921 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:38241117 original size:56 final size:56
Alignment explanation
Indices: 38241050--38241169 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38241040 TATTAGTTTA
38241050 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
38241106 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
38241162 TTGCCCAT
1 TTGCCCAT
38241170 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:38247299 original size:47 final size:46
Alignment explanation
Indices: 38247203--38247300 Score: 124
Period size: 47 Copynumber: 2.1 Consensus size: 46
38247193 GTCGAATTGG
* * * *
38247203 ATATATGTGGTCAAGCCACTATATTGCAGCCAAGCTACCAGAACAA
1 ATATATGTGATCAAGCCACTATATTGCAGACAAACTACCAGAAAAA
* * *
38247249 ATATATGTGATCGAGCCACTATAATTGCAGACAAACTGCTAGAAAAA
1 ATATATGTGATCAAGCCACTAT-ATTGCAGACAAACTACCAGAAAAA
38247296 ATATA
1 ATATA
38247301 GATGAACCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 20 0.45
47 24 0.55
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.23
Consensus pattern (46 bp):
ATATATGTGATCAAGCCACTATATTGCAGACAAACTACCAGAAAAA
Found at i:38250871 original size:3 final size:3
Alignment explanation
Indices: 38250865--38250920 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
38250855 CTTGTGTTCT
38250865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38250913 TTA TTA TT
1 TTA TTA TT
38250921 GCATATTTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:38252322 original size:88 final size:88
Alignment explanation
Indices: 38252224--38252401 Score: 356
Period size: 88 Copynumber: 2.0 Consensus size: 88
38252214 CTGCAGATGT
38252224 AATCCAAGCATTAGTTACTGTTGACGGTTGTTGGATCTCCCCAAGTTTTCCTCTGGGGTTGCTCC
1 AATCCAAGCATTAGTTACTGTTGACGGTTGTTGGATCTCCCCAAGTTTTCCTCTGGGGTTGCTCC
38252289 TATTTGCATCTAATGCCCTAAGC
66 TATTTGCATCTAATGCCCTAAGC
38252312 AATCCAAGCATTAGTTACTGTTGACGGTTGTTGGATCTCCCCAAGTTTTCCTCTGGGGTTGCTCC
1 AATCCAAGCATTAGTTACTGTTGACGGTTGTTGGATCTCCCCAAGTTTTCCTCTGGGGTTGCTCC
38252377 TATTTGCATCTAATGCCCTAAGC
66 TATTTGCATCTAATGCCCTAAGC
38252400 AA
1 AA
38252402 GAGTTTCTTA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (88 bp):
AATCCAAGCATTAGTTACTGTTGACGGTTGTTGGATCTCCCCAAGTTTTCCTCTGGGGTTGCTCC
TATTTGCATCTAATGCCCTAAGC
Found at i:38260643 original size:13 final size:13
Alignment explanation
Indices: 38260625--38260649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38260615 ACTAATAATA
38260625 TTTTTAATTTTTT
1 TTTTTAATTTTTT
38260638 TTTTTAATTTTT
1 TTTTTAATTTTT
38260650 AGAGTTAGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTAATTTTTT
Found at i:38264639 original size:150 final size:152
Alignment explanation
Indices: 38264248--38264820 Score: 677
Period size: 151 Copynumber: 3.8 Consensus size: 152
38264238 AAGATGTATT
* * * * * *
38264248 TTTGAGAACTTATAGCTTAACCCAATCGATTCTTGCAACTAGCTAATCAATATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAATTGAACT
* * * * *
38264313 TCCCCTAAATCTTAATTTGTTACC-C-TTTATTAAAAAAATAAACCATCGCCAACAAAATCAAGA
66 TCCCCT-AATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
* * *
38264376 TTAATGTGCTGCTAATATGCGTC
130 TTAATGTGCTGTTAATATTCATC
* * * *
38264399 TTTGAGAACTTACAGCTTAACTCGATCGATACATGCAACTAGCTAATAAATGTAGCAATTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAATTGAACT
* *
38264464 TCCCCTTAATCTCAAAGTA-TACCTCTTTTATTAAAAATAT-AACCATCACCCACAAAATCAAGA
66 TCCCC-TAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGA
* *
38264527 TTAATGTACTATTAATATTCATC
130 TTAATGTGCTGTTAATATTCATC
* * * *
38264550 TTTGAGAATTTAT-GCTTAGCTCGATTGATTCATGCAACTAGCTAATAAATATTGCAATTGAACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAATTGAACT
* * **
38264614 TCCCCTCATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACCATTGCCAACAAAATCAAGAT
66 TCCCCTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGAT
*
38264679 TAATGTGCCGTTAA-ATTCATC
131 TAATGTGCTGTTAATATTCATC
* * * *
38264700 TTTGAGAACTTATAGC-TAAATCGATCGATTC-T-C-AGTTGCTTAAAAAATA-AGCAATTGAAC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGC-TAATAAATATAGCAATTGAAC
* * *
38264760 TTCCCCTTATTCTGAAATTATTACCTCTTTTATT-AAAA-ATAAACCATCACCCACAAAATCA
65 TTCCCC-TAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCA
38264821 TATCAAGCCA
Statistics
Matches: 362, Mismatches: 52, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
146 20 0.06
147 24 0.07
148 32 0.09
149 12 0.03
150 105 0.29
151 155 0.43
152 14 0.04
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (152 bp):
TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAATTGAACT
TCCCCTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCAACAAAATCAAGAT
TAATGTGCTGTTAATATTCATC
Found at i:38266013 original size:150 final size:153
Alignment explanation
Indices: 38265625--38268160 Score: 2887
Period size: 151 Copynumber: 16.9 Consensus size: 153
38265615 AAGATGTAAT
* * * *
38265625 TTTGAGAACTTATAGCTTAACCCAATCGATTCTTGCAACTAGCT-ATCAATATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * * * *
38265689 TCCCCTAAATCTTAATTTGTTACC-CTTTTATTAAAAAAATAAACCATCGCCAACAAAATCAA-A
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
*
38265752 -TAATGTG---CTAA-ATGCGTC
131 TTAATGTGCTACTAATATGCATC
* * * *
38265770 TTTGAGAACTTACAGCTTAACTCGATCGATACATGCAACTAGCT-AT-AATGTAGCAATTGGAC-
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
*
38265832 TCCCCTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAA-A
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
* * *
38265896 TTAATGTACTATTAATATTCATC
131 TTAATGTGCTACTAATATGCATC
* * * * * *
38265919 TTTGAGAATTTATAGCTTAGCTCGATTGATTCATGCAAACTAGCTAATAAATATTGCA-ATGAAC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGC-AACTAGCTAATAAATATAGCAGTTGGAC
* * ** *
38265983 -T-CCCTTCATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACCATTGCCAACAAAATCAAG
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAG
***
38266046 ATTAATGTGCCGTTAATAT-CATC
130 ATTAATGTGCTACTAATATGCATC
* * * * *
38266069 TTTGAG-ACTTATAGCTTAAATCGATCGATTC-T-C-AGTTGCTTAATAAATA-AGCAATTGAAC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGC-TAATAAATATAGCAGTTGGAC
* * *
38266129 TTCCCCTTATTCTGAAAATATTACCTC-TTTATTAAAAATATAAACCATCACCCACAAAATCAAG
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAG
* * * *
38266193 ATTAACGTGCTTCTAGTATGC-TA
130 ATTAATGTGCTACTAATATGCATC
* * * * *
38266216 TTTGA-AACTTATAGCTTAACTTGATCGATTCATGCAACTAACTAATAAATACAGTAATTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *** *
38266280 T-CCCTTAATCTCAAATTATTACCACTTTTATTAAAAATGTAAACCATC-GTAACAAAATTAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
* * *
38266343 TTAAAGTGCTGCTAATATGCGTC
131 TTAATGTGCTACTAATATGCATC
* ** * * * *
38266366 TTTGAGAACTTATAACTTAACTTAATTGATTCATGCAAATAGCTAATAAATAT-GCAATT-AATC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGA-C
* * * *
38266429 TTCCCCTTAATCTCAAATTATTTCCTCTTTTATT-AAAATATAAACTATCGCCAACAAAATCAAG
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAG
* * *
38266493 ATTAATGTGCTTCTAACATGCACC
130 ATTAATGTGCTACTAATATGCATC
*
38266517 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATAT-GTAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
** *
38266581 TCCCCTTAATCTCAAATTATTACCTC-TTTATTAAAAATATAAACCATCACTGA-ACAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
* *
38266644 TTAAT-TGTCTGCTAATATGCGTC
131 TTAATGTG-CTACTAATATGCATC
* *
38266667 TTTGAGAACTTATAGCTTAACTCAATCGATTCATGCAACTAGCTAATAAATATAACAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
38266732 TCCCCTTAATCTCAAAGTATTA---CTTTCATT-AAAATATAAAACCATCACCCACAAAATCAAG
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATAT-AAACCATCACCCACAAAATCAAG
* * *
38266793 ATTAATGTACTACTAATATACGTC
130 ATTAATGTGCTACTAATATGCATC
* * * * *
38266817 -TTAAGAACTTATAGCTTAACTTGATCGATTCATACAACTAGTTAAT-AATATATCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *** **
38266880 TCCCCTTAATCTCAAATTATTTCCTC-TTTATTTAAAAATATAAATTGTCA-TGACAAAATCAA-
66 TCCCCTTAATCTCAAATTATTACCTCTTTTA-TTAAAAATATAAACCATCACCCACAAAATCAAG
* **
38266942 AGTAATGTG-TGTTAATATGCATC
130 ATTAATGTGCTACTAATATGCATC
*
38266965 TTTGAGAACTTAAAGCTTAACTCGATCGATTCATGCAACTATAGCTAATAAATATAGCAGTTGGA
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAAC--TAGCTAATAAATATAGCAGTTGGA
38267030 CTTCCCCTTAATCTCAAATTATTACCTC-TTTATATAAAAATATAAACCATCACCCACAAAATCA
64 CTTCCCCTTAATCTCAAATTATTACCTCTTTTAT-TAAAAATATAAACCATCACCCACAAAATCA
* * *
38267094 AGATTAATGTACTACTAATATGCGTA
128 AGATTAATGTGCTACTAATATGCATC
* *
38267120 TTTGAGAGAAC-TATAGC-TAAATCGATCGATTCATGCATCTAGCTAAT-AATATAGCAGTT-GA
1 TTT--GAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGA
* * *
38267181 CTTCCCCTTAATCTCAATTTATTACCTCTTTTATT-AAAATATAAACCATCGA-CGATAAAATCA
64 CTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC-ACCCACAAAATCA
* *
38267244 AGATTAATGTGCTGCTTATATGCATC
128 AGATTAATGTGCTACTAATATGCATC
* ** * *
38267270 TTTGAGAACTTATAGCTTAACTCGATC-AGTTCATACATTTAGGT-AT-AATATAGTAGTTGGAC
1 TTTGAGAACTTATAGCTTAACTCGATCGA-TTCATGCAACTAGCTAATAAATATAGCAGTTGGAC
* * * *
38267332 TT-CCCTTAATCTCAAATTATTACCTCTTTTATTAAAATAAATAAATCATCGCCGACAAAATCAA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAA-ATATAAACCATCACCCACAAAATCAA
* * *
38267396 GA-TAAGGTGTTGCTAATATTG--TC
129 GATTAATGTGCTACTAATA-TGCATC
* * * * *
38267419 TTTGAGAACCTATAGCTTAACTCGACCGATACATGTAGCTAGCTAATAAAT-TAAGCAGTTGGAC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATAT-AGCAGTTGGAC
*
38267483 --CCCCTTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAAACCATCACCCACAAAATCA
65 TTCCCC-TTAATCTCAAATTATTACCTCTTTTATTAAAAATAT-AAACCATCACCCACAAAATCA
* * *
38267546 AGA-TAATGTACTACT-ATGTGCGTC
128 AGATTAATGTGCTACTAATATGCATC
*
38267570 TTTGAGAACTTATAGCTTAACTC-ATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGGCT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
38267634 TCCCCTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAACCATCA-CTACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
* *
38267698 TTAATGTGTTGCTAATATGCATC
131 TTAATGTGCTACTAATATGCATC
* * * * *
38267721 TTTGAGCACTTATAGCTTAACTTGATTGATTCATGCAATTAGCTAA-AAATATAGCAGTTGCACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * **
38267785 TTCCCTTAATCTCAAATTATTACCTC-TTTATAAAAAAAATAAACCATCGCGAACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
38267849 TTAATGTGCTACTAATATGCATC
131 TTAATGTGCTACTAATATGCATC
* * * * *
38267872 TTTGAGAACTTATAGCTTAACTCGATTGATACATGCAAC-AACTAGTAAATATAGTAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
38267936 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAA-A-AAACCAT-ACCCACCCAAAATCAA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCA--CAAAATCAA
* * * *
38267998 GATTAATGTACTACTAATGTTCCTC
129 GATTAATGTGCTACTAATATGCATC
*
38268023 TTTGAGAAAC-TATAGCTTAACTCGATCGATTCATGCATC-AGCTAATAAATATAGCAGTTGGAC
1 TTTGAG-AACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGAC
* * *
38268086 TTCCCCTTAATCTC-AATTTTTACCTCTTTTATTAAAAATATAAACCATCAACGACAAAAATCAA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCAC-AAAATCAA
* *
38268150 AATTAGTGTGC
129 GATTAATGTGC
38268161 GCTAATTATG
Statistics
Matches: 2042, Mismatches: 265, Indels: 161
0.83 0.11 0.07
Matches are distributed among these distances:
143 19 0.01
144 50 0.02
145 54 0.03
146 14 0.01
147 79 0.04
148 85 0.04
149 319 0.16
150 465 0.23
151 733 0.36
152 152 0.07
153 21 0.01
154 7 0.00
155 33 0.02
156 5 0.00
157 6 0.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (153 bp):
TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
TTAATGTGCTACTAATATGCATC
Found at i:38271824 original size:153 final size:153
Alignment explanation
Indices: 38271502--38275033 Score: 4474
Period size: 153 Copynumber: 23.1 Consensus size: 153
38271492 AAGATGTATT
* * * *
38271502 TTTGAGAACTTATAGCTTAACCCAATCGATTCTTGCAACTAGCTAATCAATATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * * * *
38271567 TCCCCTAAATCTTAATTTGTTACC-CTTTTATTAAAAAAATAAACCATCGCCAACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
38271631 TTAATGTGCTGCTAATATGCGTC
131 TTAATGTGCTGCTAATATGCGTC
* * * *
38271654 TTTGAGAACTTACAGCTTAACTCGATCGATACATGCAACTAGCTAATAAATGTAGCAATTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
38271719 TCCCCTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
* ** * *
38271784 TTAATGTACTATTAATATTCATC
131 TTAATGTGCTGCTAATATGCGTC
* * * * * *
38271807 TTTGAGAATTTATAGCTTAGCTCGATTGATTCATGCAACTAGCTAATAAATATTGCAATTGAACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * ** *
38271872 TCCCCTTCATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACCATTGCCAACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
* * * *
38271937 TTAATGTGCCGTTAATATTCATC
131 TTAATGTGCTGCTAATATGCGTC
* * * * *
38271960 TTTGAGAACTTATAGCTTAAATCGATCGATTC-T-C-AGTTGCTTAATAAATA-AGCAATTGAAC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGC-TAATAAATATAGCAGTTGGAC
* * *
38272021 TTCCCCTTATTCTGAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAG
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAG
* * * *
38272086 ATTAACGTGCTTCTAGTATGCGTA
130 ATTAATGTGCTGCTAATATGCGTC
* * * * *
38272110 TTTGAGAACTTATAGCTTAACTTGATCGATTCATGCAACTAACTAATAAATACAGTAATTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *** *
38272175 T-CCCTTAATCTCAAATTATTACCACTTTTATTAAAAATGTAAACCATC-GTAACAAAATTAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
*
38272238 TTAAAGTGCTGCTAATATGCGTC
131 TTAATGTGCTGCTAATATGCGTC
* ** * * * * *
38272261 TTTGAGAACTTATAACTTAACTTAATTGATTCATGCAAATAGCTAATAAATATTGCAATT-AATC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGA-C
* * * *
38272325 TTCCCCTTAATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACTATCGCCAACAAAATCAAG
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAG
* * **
38272390 ATTAATGTGCTTCTAACATGCACC
130 ATTAATGTGCTGCTAATATGCGTC
*
38272414 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGTAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
*
38272479 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACTGACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
38272544 TTAATGTGCTGCTAATATGCGTC
131 TTAATGTGCTGCTAATATGCGTC
* *
38272567 TTTGAGAACTTATAGCTTAACTCAATCGATTCATGCAACTAGCTAATAAATATAACAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *
38272632 TCCCCTTAATCTCAAAGTATTACCTCTTTCATTAAAAATATAAACCATCACCCACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
* * *
38272697 TTAATGTACTACTAATATACGTC
131 TTAATGTGCTGCTAATATGCGTC
* * * * *
38272720 TTTAAGAACTTATAGCTTAACTTGATCGATTCATACAACTAGTTAATAAATATATCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *** *
38272785 TCCCCTTAATCTCAAATTATTTCCTCTTTTATTAAAAATATAAATTGTCGA-TGACAAAATCAAG
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC-ACCGACAAAATCAAG
* * * *
38272849 AGTAATGTGTTGTTAATATGCATC
130 ATTAATGTGCTGCTAATATGCGTC
*
38272873 TTTGAGAACTTAAAGCTTAACTCGATCGATTCATGCAACTATAGCTAATAAATATAGCAGTTGGA
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAAC--TAGCTAATAAATATAGCAGTTGGA
*
38272938 CTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAA
64 CTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAA
* * *
38273003 GATTAATGTACTACTAATATGCGTA
129 GATTAATGTGCTGCTAATATGCGTC
* *
38273028 TTTGAGAAAC-TATAGCTTAAATCGATCGATTCATGCATCTAGCTAATAAATATAGCAGTTGGAC
1 TTTGAG-AACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGAC
* *
38273092 TTCCCCTTAATCTCAATTTATTACCTCTTTTATTAAAAATATAAACCATCGA-CGATAAAAATCA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC-ACCGA-CAAAATCA
* *
38273156 AGATTAATGTGCTGCTTATATGCATC
128 AGATTAATGTGCTGCTAATATGCGTC
* ** * *
38273182 TTTGAGAACTTATAGCTTAACTCGATC-AGTTCATACATTTAGGTAATAAATATAGTAGTTGGAC
1 TTTGAGAACTTATAGCTTAACTCGATCGA-TTCATGCAACTAGCTAATAAATATAGCAGTTGGAC
* *
38273246 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATAAATAAATCATCGCCGACAAAATCA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAAT--ATAAACCATCACCGACAAAATCA
* *
38273311 AGATTAAGGTGTTGCTAATATGCGTC
128 AGATTAATGTGCTGCTAATATGCGTC
* * * * *
38273337 TTTGAGAACCTATAGCTTAACTCGACCGATACATGTAGCTAGCTAATAAATATAGCAGTTGGAC-
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
38273401 TCCCCTTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAACCATCACCCACAAAATCAAG
66 TCCCC-TTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAG
* * *
38273466 ATTAATGTACTACTAATGTGCGTC
130 ATTAATGTGCTGCTAATATGCGTC
* *
38273490 TTTGAGAACTTATAGCTTAACTCAATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGGCT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
38273555 TCCCCTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAACCATCACTGACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
* *
38273620 TTAATGTGTTGCTAATATGCATC
131 TTAATGTGCTGCTAATATGCGTC
* * * * * *
38273643 TTTGAGCACTTATAGCTTAACTTGATTGATTCATGCAATTAGCTAAAAAAATATAGCAGTTGCAC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCT-AATAAATATAGCAGTTGGAC
* * *
38273708 TTTCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAAAAATAAACCATC-GCGAACAAAATCA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATT-AAAAATATAAACCATCACCG-ACAAAATCA
* *
38273772 AGATTAATGTGCTACTAATATGCATC
128 AGATTAATGTGCTGCTAATATGCGTC
* * * * *
38273798 TTTGAGAACTTATAGCTTAACTCGATTGATACATGCAACTAACTAGTAAATATAGTAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* *
38273863 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAA-AAAAACCATCACCCACAAAATCAAGA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
* * * * *
38273927 TTAATGTACTACTAATGTTCCTC
131 TTAATGTGCTGCTAATATGCGTC
*
38273950 TTTGAGAAAC-TATAGCTTAACTCGATCGATTCATGCATCTAGCTAATAAATATAGCAGTTGGAC
1 TTTGAG-AACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGAC
* * *
38274014 TTCCCCTTAATCTCAATTTTTTACCTCTTTTATTAAAAATATAAACCATCAACGACAAAAATCAA
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGAC-AAAATCAA
* * **
38274079 AATTAGTGTGCTGCTAATATGAATC
129 GATTAATGTGCTGCTAATATGCGTC
* * *
38274104 TTTAAGAACTTATAGCTTAACTTGATCGATTCATGCATCTAGCTAATAAATATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * * * *
38274169 TCCCCTTAATCTTAAATTATTACCTCTTTTATTAAAAAAAATAAACCATCGCAGACAAAATCAAT
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATT-AAAAATATAAACCATCACCGACAAAATCAAG
* * * *
38274234 ATCAAGGTGTTGTTAATATGCGTC
130 ATTAATGTGCTGCTAATATGCGTC
* * * * *
38274258 TTTGAGAACTTATAACTTAACTCGA-CTGATACATGTAGCTAGCTAATAACTATAGCAGTTGGAC
1 TTTGAGAACTTATAGCTTAACTCGATC-GATTCATGCAACTAGCTAATAAATATAGCAGTTGGAC
* * * * *
38274322 TTCCCCTTAATCTCAAAGTATTACCTCTCTTATTAAAAATATAAACCATCGCGGTCAAAATCAAG
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAG
38274387 ATTAATGTGCTGCTAATATGCGTC
130 ATTAATGTGCTGCTAATATGCGTC
* * * *
38274411 TTTGAGAACTTACAGCTTAACTCGATTGATTCATGCAACTAGCTAATAAATATAGTAGTTGGATT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *
38274476 TCCCCTTTATCTCAAATTTTTACCTCTTTTATTAAAAATATAAACCATCACCGAGAAAATCAAG-
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
38274540 TCTAATGTGCTGCTAATA-GTCGTC
131 T-TAATGTGCTGCTAATATG-CGTC
* * * * ** * *
38274564 TTTGAGAATTTATAGCTTAAATCGATCGATTCTTACAACTATTTAATAAATA-ATGCAATTGAAC
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATA-GCAGTTGGAC
* * * *
38274628 TTCCCCTTAATATGAAATTATTACCTCTTTTGTTAAAAATATAAACCATCACCGTCAAAATCAAG
65 TTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAG
38274693 ATTAATGTGCTGCTAATATGCGTC
130 ATTAATGTGCTGCTAATATGCGTC
* * * *
38274717 TTTGAGAAATTATAACTTAACTCGATCGATTAATACAACTAGCTAATAAATATAGCAGTTGGACT
1 TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
* * *
38274782 T-CCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATCTAAACCATCACCGACAAATTCAATA
66 TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
* * * ** *
38274846 TCAATGTGCTGCAAATGTTTGTA
131 TTAATGTGCTGCTAATATGCGTC
* * * * *
38274869 TTTGAGAACTTATAG-TATAACTCGATCCATTC-TG--ACTACCTAATAAGTATATCATTTGAAC
1 TTTGAGAACTTATAGCT-TAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTG---
* * ** * * *
38274930 CACTT-CCCTTAATATCAAATTACGA-CTTTTTTATTAAAAATATAAACTATCACCGGCAAAATC
62 GACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATC
* * *
38274993 AAGATTAATATGC-GACTAATATTCATC
127 AAGATTAATGTGCTG-CTAATATGCGTC
* *
38275020 TTTAAAAACTTATA
1 TTTGAGAACTTATA
38275034 ATTTAATTTA
Statistics
Matches: 2937, Mismatches: 396, Indels: 95
0.86 0.12 0.03
Matches are distributed among these distances:
149 20 0.01
150 120 0.04
151 160 0.05
152 427 0.15
153 1384 0.47
154 461 0.16
155 349 0.12
156 16 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (153 bp):
TTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACT
TCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGA
TTAATGTGCTGCTAATATGCGTC
Found at i:38273099 original size:461 final size:459
Alignment explanation
Indices: 38271488--38275033 Score: 4494
Period size: 461 Copynumber: 7.7 Consensus size: 459
38271478 GTTGTTACAC
* * * * * * *
38271488 TGCTAAGATGTATTTTTGAGAACTTATAGCTTAACCCAATCGATTCTTGCAACTAGCTAATCAAT
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAAT
* * * * * *
38271553 ATAGCAGTTGGACTTCCCCTAAATCTTAATTTGTTACC-CTTTTATTAAAAAAATAAACCATCGC
66 ATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCAC
* *
38271617 CAACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTACAGCTTAACTCGATCG
131 CCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCG
* * * *
38271682 ATACATGCAACTAGCTAATAAATGTAGCAATTGGACTTCCCCTTAATCTCAAAGTATTACCTCTT
196 ATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTT
* * ** *
38271747 TTATTAAAAATATAAACCATCACCCACAAAATCAAGATTAATGTACTATTAATATTCATCTTTGA
261 TTATTAAAAATATAAACCATCACCGACAAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGA
* * * * *
38271812 GAATTTATAGCTTAGCTCGATTGATTCATGCAACTAGCTAATAAATAT-TGCAATTGAACTTCCC
326 GAACTTATAGCTTAACTTGATCGATTCATGCAACTAGCTAATAAATATAT-CAGTTGAACTTCCC
* * * * *
38271876 CTTCATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACCATTGCCAACAAAATCAAGATTAA
390 CTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGACAAAATCAAGATTAA
*
38271941 TGTGC
455 TGTGT
* * * * * *
38271946 CGTTAATATTCATCTTTGAGAACTTATAGCTTAAATCGATCGATTC-T-C-AGTTGCTTAATAAA
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGC-TAATAAA
* * * *
38272008 TA-AGCAATTGAACTTCCCCTTATTCTGAAATTATTACCTCTTTTATTAAAAATATAAACCATCA
65 TATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCA
* * * * *
38272072 CCCACAAAATCAAGATTAACGTGCTTCTAGTATGCGTATTTGAGAACTTATAGCTTAACTTGATC
130 CCCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATC
* * * * *
38272137 GATTCATGCAACTAACTAATAAATACAGTAATTGGACTT-CCCTTAATCTCAAATTATTACCACT
195 GATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCT
* *** * * *
38272201 TTTATTAAAAATGTAAACCATC-GTAACAAAATTAAGATTAAAGTGCTGCTAATATGCGTCTTTG
260 TTTATTAAAAATATAAACCATCACCGACAAAATCAAGATTAATGTGCTGCTAATATGCATCTTTG
* * * * *
38272265 AGAACTTATAACTTAACTTAATTGATTCATGCAAATAGCTAATAAATAT-TGCAATT-AATCTTC
325 AGAACTTATAGCTTAACTTGATCGATTCATGCAACTAGCTAATAAATATAT-CAGTTGAA-CTTC
* * * *
38272328 CCCTTAATCTCAAATTATTTCCTCTTTTATTAAAAATATAAACTATCGCCAACAAAATCAAGATT
388 CCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGACAAAATCAAGATT
38272393 AATGTGCT
453 AATGTG-T
* *
38272401 T-CTAACATGCACCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAAT
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAAT
*
38272465 ATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCAC
66 ATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCAC
** *
38272530 TGACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCAATCG
131 CCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCG
* *
38272595 ATTCATGCAACTAGCTAATAAATATAACAGTTGGACTTCCCCTTAATCTCAAAGTATTACCTCTT
196 ATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTT
* * * * * * *
38272660 TCATTAAAAATATAAACCATCACCCACAAAATCAAGATTAATGTACTACTAATATACGTCTTTAA
261 TTATTAAAAATATAAACCATCACCGACAAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGA
* * *
38272725 GAACTTATAGCTTAACTTGATCGATTCATACAACTAGTTAATAAATATATCAGTTGGACTTCCCC
326 GAACTTATAGCTTAACTTGATCGATTCATGCAACTAGCTAATAAATATATCAGTTGAACTTCCCC
* *** * *
38272790 TTAATCTCAAATTATTTCCTCTTTTATTAAAAATATAAATTGTCGATGACAAAATCAAGAGTAAT
391 TTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGACAAAATCAAGATTAAT
38272855 GTGT
456 GTGT
* *
38272859 TGTTAATATGCATCTTTGAGAACTTAAAGCTTAACTCGATCGATTCATGCAACTATAGCTAATAA
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAAC--TAGCTAATAA
38272924 ATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC
64 ATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATC
* * * *
38272989 ACCCACAAAATCAAGATTAATGTACTACTAATATGCGTATTTGAGAAAC-TATAGCTTAAATCGA
129 ACCCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAG-AACTTATAGCTTAACTCGA
* *
38273053 TCGATTCATGCATCTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAATTTATTACCT
193 TCGATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCT
* *
38273118 CTTTTATTAAAAATATAAACCATCGA-CGATAAAAATCAAGATTAATGTGCTGCTTATATGCATC
258 CTTTTATTAAAAATATAAACCATC-ACCGA-CAAAATCAAGATTAATGTGCTGCTAATATGCATC
* * ** * *
38273182 TTTGAGAACTTATAGCTTAACTCGATC-AGTTCATACATTTAGGTAATAAATATAGT-AGTTGGA
321 TTTGAGAACTTATAGCTTAACTTGATCGA-TTCATGCAACTAGCTAATAAATATA-TCAGTTGAA
* *
38273245 CTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATAAATAAATCATCGCCGACAAAATC
384 CTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAAT--ATAAACCATCGACGACAAAATC
*
38273310 AAGATTAAGGTGT
447 AAGATTAATGTGT
* * * * * *
38273323 TGCTAATATGCGTCTTTGAGAACCTATAGCTTAACTCGACCGATACATGTAGCTAGCTAATAAAT
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAAT
*
38273388 ATAGCAGTTGGAC-TCCCCTTTAATCTCAAAGTATTACCTCTTTTATTAAAAATATAAACCATCA
66 ATAGCAGTTGGACTTCCCC-TTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCA
* * * *
38273452 CCCACAAAATCAAGATTAATGTACTACTAATGTGCGTCTTTGAGAACTTATAGCTTAACTCAATC
130 CCCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATC
* *
38273517 GATTCATGCAACTAGCTAATAAATATAGCAGTTGGGCTTCCCCTTAATCTCAAAGTATTACCTCT
195 GATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCT
* *
38273582 TTTATTAAAAATATAAACCATCACTGACAAAATCAAGATTAATGTGTTGCTAATATGCATCTTTG
260 TTTATTAAAAATATAAACCATCACCGACAAAATCAAGATTAATGTGCTGCTAATATGCATCTTTG
* * * * * * *
38273647 AGCACTTATAGCTTAACTTGATTGATTCATGCAATTAGCTAAAAAAATATAGCAGTTGCACTTTC
325 AGAACTTATAGCTTAACTTGATCGATTCATGCAACTAGCT-AATAAATATATCAGTTGAACTTCC
*
38273712 CCTTAATCTCAAATTATTACCTCTTTTATTAAAAAAAATAAACCATCG-CGAACAAAATCAAGAT
389 CCTTAATCTCAAATTATTACCTCTTTTATT-AAAAATATAAACCATCGACG-ACAAAATCAAGAT
*
38273776 TAATGTGC
452 TAATGTGT
* * * * *
38273784 TACTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATTGATACATGCAACTAACTAGTAAAT
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAAT
* *
38273849 ATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAA-AAAAACCATCAC
66 ATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCAC
* * * * *
38273913 CCACAAAATCAAGATTAATGTACTACTAATGTTCCTCTTTGAGAAAC-TATAGCTTAACTCGATC
131 CCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAG-AACTTATAGCTTAACTCGATC
* * *
38273977 GATTCATGCATCTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAATTTTTTACCTCT
195 GATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCT
* * * *
38274042 TTTATTAAAAATATAAACCATCAACGACAAAAATCAAAATTAGTGTGCTGCTAATATGAATCTTT
260 TTTATTAAAAATATAAACCATCACCGAC-AAAATCAAGATTAATGTGCTGCTAATATGCATCTTT
* * * *
38274107 AAGAACTTATAGCTTAACTTGATCGATTCATGCATCTAGCTAATAAATATAGCAGTTGGACTTCC
324 GAGAACTTATAGCTTAACTTGATCGATTCATGCAACTAGCTAATAAATATATCAGTTGAACTTCC
* * *
38274172 CCTTAATCTTAAATTATTACCTCTTTTATTAAAAAAAATAAACCATCG-CAGACAAAATCAATAT
389 CCTTAATCTCAAATTATTACCTCTTTTATT-AAAAATATAAACCATCGAC-GACAAAATCAAGAT
* *
38274236 CAAGGTGT
452 TAATGTGT
* * * * * * *
38274244 TGTTAATATGCGTCTTTGAGAACTTATAACTTAACTCGA-CTGATACATGTAGCTAGCTAATAAC
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATC-GATTCATGCAACTAGCTAATAAA
* * *
38274308 TATAGCAGTTGGACTTCCCCTTAATCTCAAAGTATTACCTCTCTTATTAAAAATATAAACCATCG
65 TATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCA
*** * *
38274373 CGGTCAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTACAGCTTAACTCGATT
130 CCCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATC
* * * *
38274438 GATTCATGCAACTAGCTAATAAATATAGTAGTTGGATTTCCCCTTTATCTCAAATTTTTACCTCT
195 GATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCT
* *
38274503 TTTATTAAAAATATAAACCATCACCGAGAAAATCAAG-TCTAATGTGCTGCTAATA-GTCGTCTT
260 TTTATTAAAAATATAAACCATCACCGACAAAATCAAGAT-TAATGTGCTGCTAATATG-CATCTT
* * * * * ** *
38274566 TGAGAATTTATAGCTTAAATCGATCGATTCTTACAACTATTTAATAAATA-ATGCAATTGAACTT
323 TGAGAACTTATAGCTTAACTTGATCGATTCATGCAACTAGCTAATAAATATAT-CAGTTGAACTT
* * * *
38274630 CCCCTTAATATGAAATTATTACCTCTTTTGTTAAAAATATAAACCATC-ACCGTCAAAATCAAGA
387 CCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGA-CGACAAAATCAAGA
*
38274694 TTAATGTGC
451 TTAATGTGT
* * * * *
38274703 TGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCGATCGATTAATACAACTAGCTAATAAAT
1 TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAAT
*
38274768 ATAGCAGTTGGACTT-CCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATCTAAACCATCAC
66 ATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCAC
* * * * * * ** *
38274832 CGACAAATTCAATATCAATGTGCTGCAAATGTTTGTATTTGAGAACTTATAG-TATAACTCGATC
131 CCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCT-TAACTCGATC
* * * * * * * **
38274896 CATTC-TG--ACTACCTAATAAGTATATCATTTGAACCACTT-CCCTTAATATCAAATTACGA-C
195 GATTCATGCAACTAGCTAATAAATATAGCAGTTG---GACTTCCCCTTAATCTCAAATTATTACC
* * * * *
38274956 TTTTTTATTAAAAATATAAACTATCACCGGCAAAATCAAGATTAATATGC-GACTAATATTCATC
257 TCTTTTATTAAAAATATAAACCATCACCGACAAAATCAAGATTAATGTGCTG-CTAATATGCATC
* *
38275020 TTTAAAAACTTATA
321 TTTGAGAACTTATA
38275034 ATTTAATTTA
Statistics
Matches: 2715, Mismatches: 323, Indels: 102
0.86 0.10 0.03
Matches are distributed among these distances:
453 2 0.00
454 193 0.07
455 98 0.04
456 198 0.07
457 172 0.06
458 184 0.07
459 301 0.11
460 458 0.17
461 637 0.23
462 392 0.14
463 6 0.00
464 74 0.03
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (459 bp):
TGCTAATATGCATCTTTGAGAACTTATAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAAT
ATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCAC
CCACAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCG
ATTCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTT
TTATTAAAAATATAAACCATCACCGACAAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGA
GAACTTATAGCTTAACTTGATCGATTCATGCAACTAGCTAATAAATATATCAGTTGAACTTCCCC
TTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGACAAAATCAAGATTAAT
GTGT
Found at i:38276286 original size:3 final size:3
Alignment explanation
Indices: 38276280--38276341 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
38276270 ACCAGAGCAG
* * * * * *
38276280 GAT GAT GAT GAT GAA GAT GAT GAT GAT GAC GAC GAT GAT GGT GCT GCT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
38276328 GCT GAT GAT GAT GA
1 GAT GAT GAT GAT GA
38276342 GAACGATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:38279817 original size:135 final size:132
Alignment explanation
Indices: 38279654--38279919 Score: 396
Period size: 135 Copynumber: 2.0 Consensus size: 132
38279644 TTATTGAATT
38279654 CATTGAGTCGAATCAATAATCATATAACTTTTATCGCTTATATCTTCATTTATCATAACACTTAC
1 CATTGAGTCGAATCAATAATCATATAACTTTTATCGCTTATATCTTCATTTATCATAACACTTAC
*
38279719 GTGTGATTTTTTTTATCT-AAGCATT-TTTGTCGTTTATACGTTAATTTCTTATATAACATTTAC
66 GTGTGA-TTTTTTTATCTGAA-CATTATTT-TCGTTTATACCTTAATTTC-T-TATAACATTTAC
38279782 ATGTGAC
126 ATGTGAC
* *
38279789 CATTGAGTC-ACATCAATAATCAGT-TAACTTTTATCGTTTATATCTTCATTTATTATAACACTT
1 CATTGAGTCGA-ATCAATAATCA-TATAACTTTTATCGCTTATATCTTCATTTATCATAACACTT
**
38279852 GTGTGTGATTTTTTTATCTGAACATTATTTTCGTTTATACCTTAATTTCTTATAACATTTACATG
64 ACGTGTGATTTTTTTATCTGAACATTATTTTCGTTTATACCTTAATTTCTTATAACATTTACATG
38279917 TGA
129 TGA
38279920 TCTTTTTACC
Statistics
Matches: 122, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
132 18 0.15
133 1 0.01
134 34 0.28
135 68 0.56
136 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (132 bp):
CATTGAGTCGAATCAATAATCATATAACTTTTATCGCTTATATCTTCATTTATCATAACACTTAC
GTGTGATTTTTTTATCTGAACATTATTTTCGTTTATACCTTAATTTCTTATAACATTTACATGTG
AC
Found at i:38285511 original size:18 final size:18
Alignment explanation
Indices: 38285480--38285534 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
38285470 TCATCAGTCG
* *
38285480 CATCTTTTTTCTCATCTA
1 CATCTTCTTCCTCATCTA
* **
38285498 CATCTTCTTCCTCAGCCG
1 CATCTTCTTCCTCATCTA
*
38285516 CATATTCTTCCTCATCTA
1 CATCTTCTTCCTCATCTA
38285534 C
1 C
38285535 GCCTTCATTG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.16, C:0.36, G:0.04, T:0.44
Consensus pattern (18 bp):
CATCTTCTTCCTCATCTA
Found at i:38288092 original size:15 final size:15
Alignment explanation
Indices: 38288072--38288105 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38288062 ACCCTTTTTA
38288072 AAAAACCCAAAACCT
1 AAAAACCCAAAACCT
* *
38288087 AAAAACCCTAAACTT
1 AAAAACCCAAAACCT
38288102 AAAA
1 AAAA
38288106 GTATTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAACCCAAAACCT
Found at i:38288121 original size:23 final size:23
Alignment explanation
Indices: 38288088--38288137 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38288078 CCAAAACCTA
**
38288088 AAAACCCTAAACTTAAAAGTATT
1 AAAACCCTAAACTTAAAAACATT
*
38288111 AAAACCTTAAACTTAAAAACATT
1 AAAACCCTAAACTTAAAAACATT
38288134 AAAA
1 AAAA
38288138 ATCCTAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAACCCTAAACTTAAAAACATT
Found at i:38307787 original size:43 final size:43
Alignment explanation
Indices: 38307740--38307894 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
38307730 TCCGATATGT
*
38307740 GATTTCGTGTAAGACCACGTCTGGGACATTGGCCTCGATTTAA
1 GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTAA
* * * * * *
38307783 GATTTACGTGTAAGATCATGTCTAGGACATCGGCATCG-TATAC
1 GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTAA
* * *
38307826 GATTTCGTGTAAGACC-CTGTCTGGGATAGTGGCATCGATATT-T
1 GATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TTAA
* *
38307869 GATTACATGTAAGACCACGTCTGGGA
1 GATTTCGTGTAAGACCACGTCTGGGA
38307895 TGCTGGCATT
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
42 25 0.28
43 36 0.40
44 29 0.32
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTAA
Found at i:38310362 original size:14 final size:15
Alignment explanation
Indices: 38310338--38310372 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
38310328 TATATATATT
38310338 ACCATATAAATACTA
1 ACCATATAAATACTA
38310353 ACCATA-AAATACTA
1 ACCATATAAATACTA
38310367 ATCCAT
1 A-CCAT
38310373 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:38311069 original size:41 final size:41
Alignment explanation
Indices: 38311038--38311401 Score: 480
Period size: 41 Copynumber: 8.9 Consensus size: 41
38311028 CTATATAAAA
* * * * *
38311038 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATT
* * * * *
38311079 CACCGGCA-CAAAGCCTGTTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
38311120 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
38311161 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
38311202 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
*
38311243 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
38311284 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
38311325 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
*
38311366 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAA
38311402 ATCTCATATA
Statistics
Matches: 302, Mismatches: 18, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
41 298 0.99
42 4 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
Found at i:38311634 original size:64 final size:63
Alignment explanation
Indices: 38311516--38311696 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
38311506 GCAAACAAAC
*
38311516 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
38311577 T
63 T
38311578 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
38311642 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
38311697 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:38316984 original size:14 final size:15
Alignment explanation
Indices: 38316960--38316994 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
38316950 TATATATATT
38316960 ACCATATAAATACTA
1 ACCATATAAATACTA
38316975 ACCATA-AAATACTA
1 ACCATATAAATACTA
38316989 ATCCAT
1 A-CCAT
38316995 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:38317692 original size:41 final size:41
Alignment explanation
Indices: 38317661--38318023 Score: 480
Period size: 41 Copynumber: 8.9 Consensus size: 41
38317651 CTATATAAAA
* * * * *
38317661 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATT
* * * *
38317702 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
38317743 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
38317784 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
38317825 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
*
38317866 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAA-T
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
38317906 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
38317947 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
*
38317988 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAA
38318024 ATCTCATATA
Statistics
Matches: 302, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
40 39 0.13
41 259 0.86
42 4 0.01
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
Found at i:38317956 original size:122 final size:123
Alignment explanation
Indices: 38317661--38318023 Score: 507
Period size: 122 Copynumber: 3.0 Consensus size: 123
38317651 CTATATAAAA
* * * * * *
38317661 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTTCACCGGCA-CAAAGCCTGCTAGA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATTCACCGGCATC-AAGCCTGCTAGG
* * * * * * * * *
38317724 CATAAAGTCGGAATTAATTCACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
64 CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
* * *
38317784 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATTCACCGGCATCAAGCCTGCTAGGCA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATTCACCGGCATCAAGCCTGCTAGGCA
38317849 TTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAA-T
66 TTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
* *
38317906 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATTCACCGGCATCAAGCCTGCTAGGCA
38317971 TTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
66 TTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
38318024 ATCTCATATA
Statistics
Matches: 215, Mismatches: 23, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
122 114 0.53
123 98 0.46
124 3 0.01
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.20
Consensus pattern (123 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATTCACCGGCATCAAGCCTGCTAGGCA
TTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
Found at i:38318256 original size:64 final size:63
Alignment explanation
Indices: 38318138--38318318 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
38318128 GCAAACAAAC
*
38318138 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
38318199 T
63 T
38318200 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
38318264 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
38318319 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:38320571 original size:18 final size:18
Alignment explanation
Indices: 38320548--38320586 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
38320538 AATGCAGAGT
38320548 GATAGTTTTGAAAATTTC
1 GATAGTTTTGAAAATTTC
38320566 GATAGTTTTGAAAATTTC
1 GATAGTTTTGAAAATTTC
38320584 GAT
1 GAT
38320587 CCCTCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (18 bp):
GATAGTTTTGAAAATTTC
Found at i:38321370 original size:36 final size:34
Alignment explanation
Indices: 38321329--38321489 Score: 160
Period size: 36 Copynumber: 4.4 Consensus size: 34
38321319 ATCCACGGTT
* *
38321329 TTATGTTAGTTATGATATGATATATATTTGTGTAA
1 TTATGTAAGTTATGATATGATATATATTTATGT-A
38321364 GTTATGTAAGTTATGTAAGTTATTGTATGATATATATTTATGTA
1 -TTATGTAAGTTA--T--G--A---TATGATATATATTTATGTA
* * *
38321408 TTATGTAAGTTATGATCTGGTATATATTTATATGA
1 TTATGTAAGTTATGATATGATATATATTTATGT-A
38321443 GTTATGTAAGTTATGATATGATATATATTTATGTA
1 -TTATGTAAGTTATGATATGATATATATTTATGTA
38321478 TTATGTAAGTTA
1 TTATGTAAGTTA
38321490 AGTTATATAA
Statistics
Matches: 106, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
34 27 0.25
35 2 0.02
36 41 0.39
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 12 0.11
44 1 0.01
45 17 0.16
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (34 bp):
TTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:38321371 original size:9 final size:9
Alignment explanation
Indices: 38321359--38321421 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 9
38321349 TATATATTTG
38321359 TGTAAGTTA
1 TGTAAGTTA
38321368 TGTAAGTTA
1 TGTAAGTTA
38321377 TGTAAGTTA
1 TGTAAGTTA
* *
38321386 TTGTATGATA
1 -TGTAAGTTA
* *
38321396 TAT-ATTTA
1 TGTAAGTTA
38321404 TGT-A-TTA
1 TGTAAGTTA
38321411 TGTAAGTTA
1 TGTAAGTTA
38321420 TG
1 TG
38321422 ATCTGGTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
7 6 0.14
8 6 0.14
9 25 0.57
10 7 0.16
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:38321385 original size:45 final size:43
Alignment explanation
Indices: 38321329--38321421 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 43
38321319 ATCCACGGTT
* *
38321329 TTATGTTAGTTA-TGATATGATATATATTTGTGTAAGTTATGTAAG
1 TTATGTAAGTTATTG-TATGATATATATTTATGT-A-TTATGTAAG
38321374 TTATGTAAGTTATTGTATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATTGTATGATATATATTTATGTATTATGTAAG
38321417 TTATG
1 TTATG
38321422 ATCTGGTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 14 0.31
44 1 0.02
45 28 0.62
46 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (43 bp):
TTATGTAAGTTATTGTATGATATATATTTATGTATTATGTAAG
Found at i:38321414 original size:34 final size:36
Alignment explanation
Indices: 38321365--38321489 Score: 170
Period size: 34 Copynumber: 3.6 Consensus size: 36
38321355 TTTGTGTAAG
38321365 TTATGTAAGTTATGTAAGTTATTG-TATGATATATAT
1 TTATGTAAGTTATGTAAGTTA-TGATATGATATATAT
* *
38321401 TTATGT-A-TTATGTAAGTTATGATCTGGTATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
* *
38321435 TTATATGAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
38321471 TTATGT-A-TTATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTA
38321490 AGTTATATAA
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
33 2 0.03
34 39 0.49
35 3 0.04
36 36 0.45
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.50
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:38321612 original size:13 final size:13
Alignment explanation
Indices: 38321594--38321620 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38321584 TGATTATCAT
38321594 CTTTAAATTTTAA
1 CTTTAAATTTTAA
38321607 CTTTAAATTTTAA
1 CTTTAAATTTTAA
38321620 C
1 C
38321621 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:38322164 original size:19 final size:20
Alignment explanation
Indices: 38322137--38322174 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
38322127 TATCTTACAT
38322137 TTTAAAATAAAAA-TAAAAA
1 TTTAAAATAAAAACTAAAAA
*
38322156 TTTAGAATAAAAACTAAAA
1 TTTAAAATAAAAACTAAAA
38322175 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
TTTAAAATAAAAACTAAAAA
Found at i:38322641 original size:72 final size:72
Alignment explanation
Indices: 38322553--38322784 Score: 243
Period size: 72 Copynumber: 3.2 Consensus size: 72
38322543 TGTATAACAG
* * *
38322553 AATAAATGGTTCTACTTAATATCAAAACTCAATAAGTTGAACTAAACTAACCTTTTTAAAAATTC
1 AATAAATGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTC
*
38322618 ATAATTG
66 ATAATTA
* * ** ** * * *
38322625 AACAAATGTTTTTACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGC-TTCTGAAAATGT
1 AATAAATGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAAT-T
*
38322689 -ATAACTA
65 CATAATTA
** * * **
38322696 AATAAATGGTTTCGCTTAATAACAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACAC
1 AATAAATGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTC
38322761 ATAATTA
66 ATAATTA
* *
38322768 AATAAACGATTTTACTT
1 AATAAATGGTTTTACTT
38322785 GATAATTAAT
Statistics
Matches: 123, Mismatches: 34, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
71 54 0.44
72 69 0.56
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (72 bp):
AATAAATGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTC
ATAATTA
Found at i:38325877 original size:27 final size:27
Alignment explanation
Indices: 38325829--38325904 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
38325819 CAGAGGAGTG
* * * *
38325829 TCGACGGTGATGCAGCAAAGGGGACAG
1 TCGACAGTAATGCAGCAGAGGGGACAA
*
38325856 TTGACAGTAATGCAGCAGAGGGGACAA
1 TCGACAGTAATGCAGCAGAGGGGACAA
* *
38325883 TCGACGGTGATGCAGCAGAGGG
1 TCGACAGTAATGCAGCAGAGGG
38325905 TCGGGGAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.39, T:0.13
Consensus pattern (27 bp):
TCGACAGTAATGCAGCAGAGGGGACAA
Found at i:38338858 original size:9 final size:9
Alignment explanation
Indices: 38338844--38338872 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
38338834 TAAACAATTC
38338844 AATAATATA
1 AATAATATA
38338853 AATAATATA
1 AATAATATA
38338862 AATAATATA
1 AATAATATA
38338871 AA
1 AA
38338873 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:38339166 original size:30 final size:31
Alignment explanation
Indices: 38339127--38339186 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
38339117 GGAGGTGGGA
*
38339127 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
38339158 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
38339187 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:38339497 original size:9 final size:9
Alignment explanation
Indices: 38339480--38339512 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
38339470 TCGAGTTGAT
*
38339480 TCGAATAAC
1 TCGATTAAC
38339489 TCGATTAAC
1 TCGATTAAC
38339498 TCGATTAAC
1 TCGATTAAC
38339507 TCGATT
1 TCGATT
38339513 CGTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:38340823 original size:32 final size:34
Alignment explanation
Indices: 38340760--38340823 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
38340750 TCTAATAATT
* *
38340760 TCACTATTATAAAACTATTGTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
38340794 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
38340824 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:38341738 original size:11 final size:10
Alignment explanation
Indices: 38341711--38341756 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
38341701 AAATTGTTGC
38341711 ATTTGTTTTG
1 ATTTGTTTTG
38341721 ATATTGTTCTTG
1 AT-TTGTT-TTG
38341733 ATTTGTTTTG
1 ATTTGTTTTG
*
38341743 AAATTGTTTTG
1 -ATTTGTTTTG
38341754 ATT
1 ATT
38341757 GTCTGCTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 7 0.23
11 19 0.61
12 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.17, T:0.63
Consensus pattern (10 bp):
ATTTGTTTTG
Found at i:38341738 original size:22 final size:21
Alignment explanation
Indices: 38341711--38341779 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 21
38341701 AAATTGTTGC
*
38341711 ATTTGTTTTGATATTGTTCTTG
1 ATTTGTTTTGAAATTGTT-TTG
38341733 ATTTGTTTTGAAATTGTTTTG
1 ATTTGTTTTGAAATTGTTTTG
*
38341754 A-TTGTCTGCTGGAAATTGTTTTG
1 ATTTGT-T--TTGAAATTGTTTTG
38341777 ATT
1 ATT
38341780 GTCTGCTGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.10
21 5 0.12
22 17 0.41
23 14 0.34
24 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.58
Consensus pattern (21 bp):
ATTTGTTTTGAAATTGTTTTG
Found at i:38341770 original size:23 final size:23
Alignment explanation
Indices: 38341742--38341794 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
38341732 GATTTGTTTT
38341742 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
38341765 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
38341788 GAAATTG
1 GAAATTG
38341795 AATTTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:38341802 original size:29 final size:26
Alignment explanation
Indices: 38341744--38341803 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 26
38341734 TTTGTTTTGA
38341744 AATTGTTTTGATTGTCTGCTGGA---
1 AATTGTTTTGATTGTCTGCTGGATTG
38341767 AATTGTTTTGATTGTCTGCTGGAAATTG
1 AATTGTTTTGATTGTCTGCTGG--ATTG
38341795 AATTTGTTT
1 AA-TTGTTT
38341804 ATGTTAGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 22 0.71
25 1 0.03
28 2 0.06
29 6 0.19
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (26 bp):
AATTGTTTTGATTGTCTGCTGGATTG
Found at i:38342951 original size:25 final size:25
Alignment explanation
Indices: 38342917--38343118 Score: 179
Period size: 25 Copynumber: 8.2 Consensus size: 25
38342907 TACATCAATA
*
38342917 ATTAAAATAAGGACTTTAATATTTC
1 ATTAAAATAAGGACTTTAATATTTT
* * *
38342942 ATTAAAATAATGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
38342965 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
38342990 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
38343013 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* * *
38343038 ATTAAAATAAGTAC--TAATCAATAT
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
38343062 -TTAAAATAAAGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
38343086 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
38343113 AATAAA
1 ATTAAA
38343119 GAAATTTAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
23 52 0.37
24 10 0.07
25 56 0.39
26 8 0.06
27 16 0.11
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:38342965 original size:48 final size:47
Alignment explanation
Indices: 38342910--38343092 Score: 312
Period size: 48 Copynumber: 3.8 Consensus size: 47
38342900 AAATAATTAC
*
38342910 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAATGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAA-GACTA
38342958 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAA-GACTA
38343006 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGTACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAG-ACTA
* *
38343054 ATCAATATTTAAAATAAAGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
38343093 ATCAAGAAAT
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 1 0.01
48 129 0.99
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (47 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGACTA
Found at i:38346566 original size:24 final size:25
Alignment explanation
Indices: 38346531--38346578 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
38346521 TTATGAAATT
38346531 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
38346555 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
38346579 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:38346727 original size:66 final size:66
Alignment explanation
Indices: 38346657--38346974 Score: 287
Period size: 66 Copynumber: 5.2 Consensus size: 66
38346647 AAATATATTT
38346657 AATATTAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
38346722 G
66 G
* * * *
38346723 AATATTAATTAT-TAAGAATTT-TA--TTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT
1 AATATTAATTATGT--TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
**
38346775 -TT
64 AAG
38346777 AATATTAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
38346842 G
66 G
* * * *
38346843 AATATTAATTAT-TAAGAATTT-TA--TTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT
1 AATATTAATTATGT--TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
**
38346895 -TT
64 AAG
*
38346897 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
38346962 G
66 G
38346963 AATATTAATTAT
1 AATATTAATTAT
38346975 TAAGAATTTT
Statistics
Matches: 194, Mismatches: 26, Indels: 64
0.68 0.09 0.23
Matches are distributed among these distances:
53 10 0.05
54 27 0.14
55 10 0.05
56 8 0.04
57 6 0.03
58 2 0.01
59 20 0.10
60 16 0.08
61 20 0.10
62 2 0.01
63 6 0.03
64 8 0.04
65 10 0.05
66 39 0.20
67 10 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (66 bp):
AATATTAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
G
Found at i:38346757 original size:120 final size:120
Alignment explanation
Indices: 38346619--38347031 Score: 781
Period size: 120 Copynumber: 3.4 Consensus size: 120
38346609 AATTATTTTA
* * * *
38346619 AATTTTATTAAATCATATATTTTAAGTAAAATATATTTAATATTAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
38346684 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
38346739 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
38346804 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
38346859 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
38346924 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
38346979 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
38347032 TAAATATGAT
Statistics
Matches: 289, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 289 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:38346899 original size:15 final size:15
Alignment explanation
Indices: 38346864--38346915 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38346854 TTAAGAATTT
*
38346864 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38346878 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38346892 TATTTAATAATAAT-
1 TATTTAATTATAATA
38346906 TATGTTAATT
1 TAT-TTAATT
38346916 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38347014 original size:16 final size:16
Alignment explanation
Indices: 38346993--38347034 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38346983 TTATTAAATT
*
38346993 ATATATTTTAATTATA
1 ATATATTTTAATAATA
38347009 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
38347024 AT-TATGTTTAA
1 ATATAT-TTTAA
38347035 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:38347019 original size:15 final size:15
Alignment explanation
Indices: 38346984--38347025 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38346974 TTAAGAATTT
*
38346984 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38346998 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38347012 TATTTAATAATAAT
1 TATTTAATTATAAT
38347026 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38347753 original size:38 final size:36
Alignment explanation
Indices: 38347696--38347767 Score: 83
Period size: 38 Copynumber: 1.9 Consensus size: 36
38347686 TGAACTTTTA
* *
38347696 AAATTTTTTATAATTTTTATTAGTGTTTTAAAATTT
1 AAATTTTTTATAATTTTTATAAGTATTTTAAAATTT
*
38347732 AAATTTTTT-TAATTTTCTTTATAATTATTTTAAAAT
1 AAATTTTTTATAA--TT-TTTATAAGTATTTTAAAAT
38347768 AAATCTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
35 3 0.10
36 9 0.30
37 2 0.07
38 16 0.53
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (36 bp):
AAATTTTTTATAATTTTTATAAGTATTTTAAAATTT
Found at i:38348486 original size:17 final size:17
Alignment explanation
Indices: 38348464--38348527 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
38348454 AATCTTAGAG
38348464 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
38348481 TTCTAATTGTGT-CTAAGAG
1 TTCTAATTGTATAC--AG-C
*
38348500 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAGC
*
38348517 TTTTAATTGTA
1 TTCTAATTGTA
38348528 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 3 0.08
19 11 0.30
20 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:38348807 original size:47 final size:48
Alignment explanation
Indices: 38348731--38348824 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 48
38348721 TGAGGGAATT
38348731 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
* *
38348779 CTGTTGAATCCTTT-TCATTGCGAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTT
38348825 ATGCAAAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 30 0.68
48 14 0.32
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTG
Found at i:38353624 original size:17 final size:17
Alignment explanation
Indices: 38353602--38353665 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
38353592 AATCTTAGAG
38353602 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
38353619 TTCTAATTGTGT-CTAAGAG
1 TTCTAATTGTATAC--AG-C
*
38353638 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAGC
*
38353655 TTTTAATTGTA
1 TTCTAATTGTA
38353666 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 3 0.08
19 11 0.30
20 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:38353944 original size:47 final size:48
Alignment explanation
Indices: 38353869--38353962 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 48
38353859 TGAGGGAATT
38353869 CTGTTAAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTTG
1 CTGTTAAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTTG
* *
38353917 CTGTTGAATCCTTT-TCATTGCGAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTAAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTT
38353963 AAGCAAAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 31 0.70
48 13 0.30
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (48 bp):
CTGTTAAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTTG
Found at i:38356756 original size:122 final size:123
Alignment explanation
Indices: 38356451--38356797 Score: 588
Period size: 123 Copynumber: 2.8 Consensus size: 123
38356441 TTATTTCAAG
* *
38356451 TTGACGTTTGTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
38356516 AAATCGCGCCCTCGTGGACGCGGTTTGGCTACAGTAGGTCATGTAAGAAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGGTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
* * *
38356574 TTGATGTTTCTGAGAAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * * *
38356639 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAAT-TTTTTT
66 AAATCGCGCCCTCGTGGACGCGGTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
38356696 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
38356761 AAATCGCACCCTCGTGGACGCGGTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGGTTTTGCTACAGTAG
38356798 CAAGTTTGGG
Statistics
Matches: 207, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
122 100 0.48
123 107 0.52
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGGTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
Found at i:38359920 original size:10 final size:10
Alignment explanation
Indices: 38359905--38359929 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38359895 CAAATCTAAC
38359905 ATTATGTAAA
1 ATTATGTAAA
38359915 ATTATGTAAA
1 ATTATGTAAA
38359925 ATTAT
1 ATTAT
38359930 TAAGTCCAAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:38359974 original size:55 final size:55
Alignment explanation
Indices: 38359913--38360038 Score: 252
Period size: 55 Copynumber: 2.3 Consensus size: 55
38359903 ACATTATGTA
38359913 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
38359968 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
38360023 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
38360039 GGTTAGGGTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:38360106 original size:23 final size:23
Alignment explanation
Indices: 38360045--38360318 Score: 100
Period size: 29 Copynumber: 10.1 Consensus size: 23
38360035 ATTAGGTTAG
38360045 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT-AA--A--TTA
38360073 GGTTTAGGGTTTTTAATTAAATTAGGTTA
1 GG-TTAGGGTTTTTAATT-AA--A--TTA
38360102 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GGTTAGGGTTTTTAATT-AA--A--TTA
38360131 GGGTTTAGGGTTTTTAATTAAATTAGGTTA
1 -GG-TTAGGGTTTTTAATTAAATT-----A
38360161 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
38360185 GATTAGGGTTAGGGTTTTAATTAAATTAGATTA
1 GGTTAGGG-T----TTTTAATT--A--A-ATTA
38360218 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
* * * *
38360242 GATTAGGGTTAGGGTTAGGGTTTTGAATTA
1 GGTTAGGGTT---TTTA----ATTAAATTA
*
38360272 -ATTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
38360294 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
38360317 GG
1 GG
38360319 GTTTTTATTG
Statistics
Matches: 209, Mismatches: 10, Indels: 59
0.75 0.04 0.21
Matches are distributed among these distances:
22 7 0.03
23 39 0.19
24 6 0.03
25 3 0.01
26 6 0.03
27 2 0.01
28 10 0.05
29 94 0.45
30 29 0.14
32 1 0.00
33 5 0.02
34 7 0.03
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:38360150 original size:88 final size:86
Alignment explanation
Indices: 38360033--38360257 Score: 396
Period size: 88 Copynumber: 2.6 Consensus size: 86
38360023 AAATTATGTA
*
38360033 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGGGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
*
38360098 GTTAGGGTTAGGGTTTTTAATT
66 ATTAGGGTTAGGG-TTTTAATT
38360120 AAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
38360185 GATTAGGGTTAGGGTTTTAATT
65 GATTAGGGTTAGGGTTTTAATT
* *
38360207 AAATTAGATTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
38360258 AGGGTTTTGA
Statistics
Matches: 133, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
86 36 0.27
87 35 0.26
88 62 0.47
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (86 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
ATTAGGGTTAGGGTTTTAATT
Found at i:38360165 original size:59 final size:58
Alignment explanation
Indices: 38360033--38360257 Score: 398
Period size: 59 Copynumber: 3.9 Consensus size: 58
38360023 AAATTATGTA
* *
38360033 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTAATT
*
38360091 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGG-TTAGGGTTTTTAATT
38360150 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGG-TTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTAATT
*
38360207 AAATTAGATTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTT
38360258 AGGGTTTTGA
Statistics
Matches: 162, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
57 56 0.35
58 49 0.30
59 57 0.35
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (58 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTAATT
Found at i:38360280 original size:29 final size:29
Alignment explanation
Indices: 38360033--38360257 Score: 398
Period size: 29 Copynumber: 7.8 Consensus size: 29
38360023 AAATTATGTA
38360033 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
38360062 AAATTAGGTTAGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
38360091 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
38360120 AAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
38360150 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
38360179 AAATTAGATTAGGGTTAGGG-TTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
38360207 AAATTAGATTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
38360236 AAATTAGATTAGGGTTAGGGTT
1 AAATTAGGTTAGGGTTAGGGTT
38360258 AGGGTTTTGA
Statistics
Matches: 191, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
28 28 0.15
29 134 0.70
30 29 0.15
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:38360292 original size:18 final size:18
Alignment explanation
Indices: 38360256--38360325 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 18
38360246 AGGGTTAGGG
*
38360256 TTAGGGTTTTGAATT-AA
1 TTAGGGTTTTTAATTAAA
38360273 TTAGGGTTTTTAATTAAATTA
1 TTAGGGTTTTTAATT-AA--A
38360294 GGTTAGGGTTTTTAATTAAA
1 --TTAGGGTTTTTAATTAAA
38360314 TTAGGGTTTTTA
1 TTAGGGTTTTTA
38360326 TTGCATCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
17 14 0.30
18 12 0.26
19 1 0.02
20 1 0.02
21 1 0.02
22 2 0.04
23 15 0.33
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAAA
Found at i:38360404 original size:36 final size:36
Alignment explanation
Indices: 38360364--38360478 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
38360354 ATATCAAATA
*
38360364 ATATCAAAATAACTCGAAAAAATTTCTATGCCTATT
1 ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
* **** * * *
38360400 ATATC-AAATAAACTTCTATTTTATTAC-AT-CAAATA
1 ATATCAAAAT-AAC-TCGAAAAAATTTCTATGCATATT
*
38360435 ATATCAAAATAACTCGAAAAAATTTCTATGCGTATT
1 ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
*
38360471 ACATCAAA
1 ATATCAAA
38360479 TAAACTTCTA
Statistics
Matches: 55, Mismatches: 19, Indels: 10
0.65 0.23 0.12
Matches are distributed among these distances:
34 7 0.13
35 17 0.31
36 24 0.44
37 7 0.13
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (36 bp):
ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
Found at i:38360430 original size:25 final size:25
Alignment explanation
Indices: 38360396--38360506 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
38360386 TTTCTATGCC
*
38360396 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
38360421 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTT
* * * **
38360442 AATAAC-TCGAAA-AAATTTCTATGCG
1 TATTACATC-AAATAAACTTCTAT-TT
38360467 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
38360492 TATTACATCAAATAA
1 TATTACATCAAATAA
38360507 TAAATTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.17
22 2 0.03
23 2 0.03
24 4 0.06
25 34 0.52
26 11 0.17
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTT
Found at i:38360431 original size:71 final size:71
Alignment explanation
Indices: 38360324--38360508 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
38360314 TTAGGGTTTT
* *
38360324 TATTGCATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
38360389 CTATGCC
65 CTATGCC
*
38360396 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
38360461 TATGCG
66 TATGCC
38360467 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
38360509 AATTTAAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 96 0.89
72 12 0.11
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:38360649 original size:21 final size:21
Alignment explanation
Indices: 38360602--38360651 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
38360592 CTTCCTCTAG
* * *
38360602 CTTCCGGCGGTGATTGTTCTT
1 CTTCCGGTGGTGATCGTGCTT
* *
38360623 CCTCCGGTGGTGATCGTGGTT
1 CTTCCGGTGGTGATCGTGCTT
38360644 CTTCCGGT
1 CTTCCGGT
38360652 TCGGCATCTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.26, G:0.32, T:0.38
Consensus pattern (21 bp):
CTTCCGGTGGTGATCGTGCTT
Found at i:38360950 original size:18 final size:18
Alignment explanation
Indices: 38360906--38360951 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
38360896 GATTCGGAAA
* *
38360906 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
38360924 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
38360942 AGGAAACATA
1 AGGATACATA
38360952 CCTGGTATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:38361549 original size:7 final size:7
Alignment explanation
Indices: 38361539--38361563 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38361529 TTATATACAT
38361539 AATACTA
1 AATACTA
38361546 AATACTA
1 AATACTA
38361553 AATACTA
1 AATACTA
38361560 AATA
1 AATA
38361564 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:38362692 original size:21 final size:21
Alignment explanation
Indices: 38362653--38362692 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38362643 TGAAAATATA
* **
38362653 AAAAAATTTAAAATTATTTTT
1 AAAAAATATAAAAAAATTTTT
38362674 AAAAAATATAAAAAAATTT
1 AAAAAATATAAAAAAATTT
38362693 AAATTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAATATAAAAAAATTTTT
Found at i:38362697 original size:30 final size:30
Alignment explanation
Indices: 38362645--38362709 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
38362635 GCCATTGATG
38362645 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
38362676 AAAATATAAAAAAATTT-AAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
38362705 AAAAT
1 AAAAT
38362710 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.32
30 6 0.18
31 17 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:38362766 original size:51 final size:51
Alignment explanation
Indices: 38362710--38362831 Score: 192
Period size: 51 Copynumber: 2.4 Consensus size: 51
38362700 TTTAAAAAAT
*
38362710 GAAATTGAGGGGAAATTGAAATTAAATATGAATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGAATTTGAGAGAATTTTGGAAG
**
38362761 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGAATTTGAGAGAATTTTGGAAG
38362812 GAAATTTG-GAAGGAAATTGA
1 GAAA-TTGAG-AGGAAATTGA
38362832 GAGGAAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 53 0.80
52 13 0.20
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGAATTTGAGAGAATTTTGGAAG
Found at i:38362821 original size:12 final size:12
Alignment explanation
Indices: 38362804--38362829 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38362794 TTGAGAGAAT
38362804 TTTGGAAGGAAA
1 TTTGGAAGGAAA
38362816 TTTGGAAGGAAA
1 TTTGGAAGGAAA
38362828 TT
1 TT
38362830 GAGAGGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (12 bp):
TTTGGAAGGAAA
Found at i:38365629 original size:11 final size:11
Alignment explanation
Indices: 38365613--38365638 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38365603 TATTTTTTAA
38365613 TTTTAAAATAC
1 TTTTAAAATAC
38365624 TTTTAAAATAC
1 TTTTAAAATAC
38365635 TTTT
1 TTTT
38365639 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:38365672 original size:23 final size:22
Alignment explanation
Indices: 38365644--38365695 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
38365634 CTTTTTTTAA
38365644 AATTTTTTT--AATTTTAAAAT
1 AATTTTTTTAAAATTTTAAAAT
38365664 AATTTTTTTAAAATTTTAAAAT
1 AATTTTTTTAAAATTTTAAAAT
*
38365686 AAATTTTTTA
1 AATTTTTTTA
38365696 TATTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 9 0.31
22 20 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTTTTTAAAATTTTAAAAT
Found at i:38367516 original size:85 final size:85
Alignment explanation
Indices: 38367373--38367546 Score: 330
Period size: 85 Copynumber: 2.0 Consensus size: 85
38367363 TTGCACTCCT
*
38367373 GGTTTATCTTTGTTCTCACATTTTGTATATGCTTGCAGTGGCTTAAGATATATTTTTCCTATCTG
1 GGTTTATCTTTGTTCTCACATTTTGTATATGCTTGCAGTGGCTTAAGATATATTTTTCCTATCAG
38367438 CTGATTTCTTTATATTTTGC
66 CTGATTTCTTTATATTTTGC
*
38367458 GGTTTATCTTTGTTCTCACATTTTGTATATGCTTGCAGTGGCTTAATATATATTTTTCCTATCAG
1 GGTTTATCTTTGTTCTCACATTTTGTATATGCTTGCAGTGGCTTAAGATATATTTTTCCTATCAG
38367523 CTGATTTCTTTATATTTTGC
66 CTGATTTCTTTATATTTTGC
38367543 GGTT
1 GGTT
38367547 CCCTATGGTC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.52
Consensus pattern (85 bp):
GGTTTATCTTTGTTCTCACATTTTGTATATGCTTGCAGTGGCTTAAGATATATTTTTCCTATCAG
CTGATTTCTTTATATTTTGC
Found at i:38369424 original size:7 final size:7
Alignment explanation
Indices: 38369412--38369450 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
38369402 AGATTATGAT
38369412 GGGCATA
1 GGGCATA
38369419 GGGCATA
1 GGGCATA
38369426 GGGCATA
1 GGGCATA
38369433 GGGCATA
1 GGGCATA
38369440 GGGCATA
1 GGGCATA
38369447 GGGC
1 GGGC
38369451 TGACAGACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.46, T:0.13
Consensus pattern (7 bp):
GGGCATA
Found at i:38369855 original size:9 final size:9
Alignment explanation
Indices: 38369841--38370058 Score: 80
Period size: 9 Copynumber: 23.9 Consensus size: 9
38369831 ATATTTTTTC
38369841 TATAAAAAT
1 TATAAAAAT
38369850 TATAAAAA-
1 TATAAAAAT
*
38369858 AATAAAAA-
1 TATAAAAAT
38369866 -ATAAAAA-
1 TATAAAAAT
*
38369873 TATTAAAAGAA
1 TA-TAAAA-AT
*
38369884 TATGAAAAT
1 TATAAAAAT
* *
38369893 TGATATAAAC
1 T-ATAAAAAT
38369903 T-T-AAAAT
1 TATAAAAAT
38369910 TATAAAAA-
1 TATAAAAAT
*
38369918 CATAAAAAT
1 TATAAAAAT
*
38369927 TCTAATAAAT
1 TATAA-AAAT
38369937 TAT-AAAAT
1 TATAAAAAT
38369945 TAT--AAAT
1 TATAAAAAT
38369952 TAGT-AAAAT
1 TA-TAAAAAT
*
38369961 ATATTTAAAAT
1 -TA-TAAAAAT
*
38369972 TTTATAAAAT
1 TATA-AAAAT
*
38369982 CGTATTAAAATT
1 --TA-TAAAAAT
38369994 CTATAAAAAT
1 -TATAAAAAT
* *
38370004 CATAAAAAA
1 TATAAAAAT
** *
38370013 TATTTAAAG
1 TATAAAAAT
*
38370022 TATTAAAAT
1 TATAAAAAT
*
38370031 TAATATAAATT
1 T-ATA-AAAAT
38370042 TATAAAAAT
1 TATAAAAAT
38370051 TATAAAAA
1 TATAAAAA
38370059 AAATCATAAA
Statistics
Matches: 160, Mismatches: 30, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
7 17 0.11
8 25 0.16
9 60 0.38
10 37 0.23
11 14 0.09
12 5 0.03
13 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:38369951 original size:15 final size:16
Alignment explanation
Indices: 38369931--38369960 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38369921 AAAAATTCTA
38369931 ATAAATTA-TAAAATT
1 ATAAATTAGTAAAATT
38369946 ATAAATTAGTAAAAT
1 ATAAATTAGTAAAAT
38369961 ATATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
ATAAATTAGTAAAATT
Found at i:38369981 original size:21 final size:21
Alignment explanation
Indices: 38369955--38370007 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
38369945 TATAAATTAG
*
38369955 TAAAAT-ATATTTAAAATTTTA
1 TAAAATCATA-TTAAAATTCTA
*
38369976 TAAAATCGTATTAAAATTCTA
1 TAAAATCATATTAAAATTCTA
38369997 TAAAAATCATA
1 T-AAAATCATA
38370008 AAAAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAAATCATATTAAAATTCTA
Found at i:38371693 original size:29 final size:28
Alignment explanation
Indices: 38371643--38371708 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
38371633 TTTTTCTCAT
* *
38371643 CCAATTATCAAAAGTTATAAAATAGTCAC
1 CCAATTAT-GAAAGTTACAAAATAGTCAC
* * *
38371672 CTAATTATGAAAGCTTACAAAATGGTTAC
1 CCAATTATGAAAG-TTACAAAATAGTCAC
38371701 CCAATTAT
1 CCAATTAT
38371709 TCAAATTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (28 bp):
CCAATTATGAAAGTTACAAAATAGTCAC
Found at i:38373434 original size:20 final size:22
Alignment explanation
Indices: 38373394--38373434 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
38373384 TCAGCAACCT
38373394 TTCTTCATTTGTTGGCTCTCTCA
1 TTCTTCATTTGTT-GCTCTCTCA
38373417 TTCTTCATTT-TT-CTCTCT
1 TTCTTCATTTGTTGCTCTCT
38373435 AAAATAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.59
Consensus pattern (22 bp):
TTCTTCATTTGTTGCTCTCTCA
Found at i:38376524 original size:84 final size:84
Alignment explanation
Indices: 38376383--38376553 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 84
38376373 TGGGAAGAAT
*
38376383 GCAATATATGTCAAAGTCTGGAATTGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGAAA
1 GCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGAAA
38376448 TGCAAACCAGTTCTTTCAG
66 TGCAAACCAGTTCTTTCAG
38376467 GCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGAAA
1 GCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGAAA
38376532 TGCAAACCAGTTCTTTCAG
66 TGCAAACCAGTTCTTTCAG
38376551 GCA
1 GCA
38376554 TGGGGATGAT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (84 bp):
GCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGAAA
TGCAAACCAGTTCTTTCAG
Found at i:38379387 original size:10 final size:9
Alignment explanation
Indices: 38379375--38379478 Score: 81
Period size: 9 Copynumber: 11.4 Consensus size: 9
38379365 ACATGTGGCA
38379375 AAAAATTAT
1 AAAAATTAT
38379384 AAAAA--AT
1 AAAAATTAT
*
38379391 AAAAATAAAT
1 AAAAAT-TAT
*
38379401 AAAATTTAT
1 AAAAATTAT
38379410 AAAAATTATT
1 AAAAATTA-T
**
38379420 AAATTTTAAT
1 AAAAATT-AT
38379430 AAAAA-TATT
1 AAAAATTA-T
38379439 AAAAATTAT
1 AAAAATTAT
**
38379448 AAAAATCGT
1 AAAAATTAT
38379457 AAAAA-TATT
1 AAAAATTA-T
38379466 AAAAATTAT
1 AAAAATTAT
38379475 AAAA
1 AAAA
38379479 TTGTATTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.09
8 1 0.01
9 45 0.60
10 21 0.28
11 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:38379413 original size:19 final size:18
Alignment explanation
Indices: 38379389--38379453 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 18
38379379 ATTATAAAAA
*
38379389 ATAAAAATAAATAAAATTT
1 ATAAAAAT-ATTAAAATTT
*
38379408 ATAAAAATTATTAAATTTT
1 ATAAAAA-TATTAAAATTT
*
38379427 AATAAAAATATTAAAAATT
1 -ATAAAAATATTAAAATTT
38379446 ATAAAAAT
1 ATAAAAAT
38379454 CGTAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 8 0.20
19 24 0.60
20 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAAATATTAAAATTT
Found at i:38379477 original size:18 final size:18
Alignment explanation
Indices: 38379389--38379480 Score: 71
Period size: 19 Copynumber: 5.0 Consensus size: 18
38379379 ATTATAAAAA
* *
38379389 ATAAAAATAAATAAAATTT
1 ATAAAAAT-ATTAAAAATT
**
38379408 ATAAAAATTATTAAATTTT
1 ATAAAAA-TATTAAAAATT
38379427 AATAAAAATATTAAAAATT
1 -ATAAAAATATTAAAAATT
**
38379446 ATAAAAATCGTAAAAA-T
1 ATAAAAATATTAAAAATT
*
38379463 ATTAAAA-ATTATAAAATT
1 ATAAAAATATTA-AAAATT
38379481 GTATTAATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
16 2 0.03
17 11 0.18
18 15 0.25
19 24 0.40
20 8 0.13
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (18 bp):
ATAAAAATATTAAAAATT
Found at i:38379675 original size:3 final size:3
Alignment explanation
Indices: 38379667--38379734 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
38379657 AAATTAGTTA
38379667 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
38379715 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
38379735 AAGGATAGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:38380072 original size:31 final size:32
Alignment explanation
Indices: 38380034--38380096 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
38380024 TGGCAAATTA
38380034 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
38380065 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
38380097 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:38386212 original size:31 final size:31
Alignment explanation
Indices: 38386174--38386267 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
38386164 AGGCAAATTA
38386174 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
38386205 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
38386236 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
38386268 AAAATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 52 0.84
32 10 0.16
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:38386728 original size:18 final size:19
Alignment explanation
Indices: 38386705--38386740 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38386695 TTTGGTACGA
*
38386705 TAATTTTA-ATTTTTTTAC
1 TAATTTTATATTTCTTTAC
38386723 TAATTTTATATTTCTTTA
1 TAATTTTATATTTCTTTA
38386741 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TAATTTTATATTTCTTTAC
Found at i:38386776 original size:48 final size:48
Alignment explanation
Indices: 38386724--38386826 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 48
38386714 TTTTTTTACT
* *
38386724 AATTTTATAT-TTCTTTATATTTTTTATAATTTTCTTAC-AACTTTATAA
1 AATTTTATATATT-TCTATATATTTTATAATTTT-TTACGAACTTTATAA
**
38386772 AATTTTATATATTTCTATATATTTTATAATTTTTTACGATTTTTATAA
1 AATTTTATATATTTCTATATATTTTATAATTTTTTACGAACTTTATAA
38386820 AATTTTA
1 AATTTTA
38386827 CAAATTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
47 4 0.08
48 43 0.88
49 2 0.04
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (48 bp):
AATTTTATATATTTCTATATATTTTATAATTTTTTACGAACTTTATAA
Found at i:38386780 original size:10 final size:9
Alignment explanation
Indices: 38386765--38386905 Score: 52
Period size: 10 Copynumber: 14.6 Consensus size: 9
38386755 TTCTTACAAC
38386765 TTTATAAAAT
1 TTTAT-AAAT
*
38386775 TTTATATAT
1 TTTATAAAT
*
38386784 TTCTATATAT
1 TT-TATAAAT
38386794 TTTAT-AAT
1 TTTATAAAT
* *
38386802 TTTTTACGATT
1 TTTATA--AAT
38386813 TTTATAAAAT
1 TTTAT-AAAT
*
38386823 TTTACAAAT
1 TTTATAAAT
* *
38386832 TTTTTAATT
1 TTTATAAAT
38386841 TTTAATAATAT
1 TTT-ATAA-AT
*
38386852 TTTA-ACATTT
1 TTTATA-A-AT
38386862 TTTATTAAAAT
1 TTTA-T-AAAT
* *
38386873 TTAATAATT
1 TTTATAAAT
*
38386882 TTTATAACT
1 TTTATAAAT
*
38386891 TTTATTGAAT
1 TTTA-TAAAT
38386901 TTTAT
1 TTTAT
38386906 TTTTAGCATT
Statistics
Matches: 99, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
8 6 0.06
9 37 0.37
10 39 0.39
11 14 0.14
12 2 0.02
13 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTATAAAT
Found at i:38386815 original size:19 final size:20
Alignment explanation
Indices: 38386793--38386843 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
38386783 TTTCTATATA
*
38386793 TTTTATAATTTTTTAC-GAT
1 TTTTATAATTTTTTACAAAT
**
38386812 TTTTATAAAATTTTACAAAT
1 TTTTATAATTTTTTACAAAT
38386832 TTTT-TAATTTTT
1 TTTTATAATTTTT
38386844 AATAATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTTACAAAT
Found at i:38386818 original size:28 final size:26
Alignment explanation
Indices: 38386771--38386865 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 26
38386761 CAACTTTATA
* *
38386771 AAATTTTATATATTTCTAT-ATATTTT
1 AAATTTTTTA-ATTTTTATAATATTTT
*
38386797 ATAATTTTTTACGATTTTTATAAAATTTT
1 A-AATTTTTTA--ATTTTTATAATATTTT
38386826 ACAAATTTTTTAATTTTTAATAATATTTT
1 --AAATTTTTTAATTTTT-ATAATATTTT
38386855 AACATTTTTTA
1 AA-ATTTTTTA
38386866 TTAAAATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 10 0.18
28 21 0.37
29 15 0.26
30 9 0.16
31 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (26 bp):
AAATTTTTTAATTTTTATAATATTTT
Found at i:38386849 original size:48 final size:47
Alignment explanation
Indices: 38386732--38386874 Score: 137
Period size: 48 Copynumber: 2.9 Consensus size: 47
38386722 CTAATTTTAT
** * *
38386732 ATTTCTTTATATTTTTTATAATTTTCTTACAACTTTATAAAATTTTATAT
1 ATTT-TTTATA-TTTTTATAATTTT-TTACATTTTTATAAAATTTTACAA
*
38386782 A-TTTCTATATATTTTATAATTTTTTACGATTTTTATAAAATTTTACAA
1 ATTTTTTATAT-TTTTATAATTTTTTAC-ATTTTTATAAAATTTTACAA
*
38386830 ATTTTTTA-ATTTTTAATAATATTTTAACATTTTTTATTAAAATTT
1 ATTTTTTATATTTTT-ATAAT-TTTTTACA-TTTTTA-TAAAATTT
38386875 AATAATTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
47 9 0.11
48 42 0.53
49 19 0.24
50 9 0.11
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (47 bp):
ATTTTTTATATTTTTATAATTTTTTACATTTTTATAAAATTTTACAA
Found at i:38386884 original size:48 final size:47
Alignment explanation
Indices: 38386737--38386895 Score: 123
Period size: 48 Copynumber: 3.3 Consensus size: 47
38386727 TTTATATTTC
* * ** *
38386737 TTTATATTTTTTATAATTTTCTTAC-AACTTTATAAAATTTTATATATT
1 TTTATATATTTTATAATTTT-TAACGATTTTTATAAAATTTAATA-ATT
* *
38386785 TCTATATATTTTATAATTTTTTACGATTTTTATAAAATTTTACA-AATT
1 TTTATATATTTTATAATTTTTAACGATTTTTATAAAA-TTTA-ATAATT
38386833 TTT-TA-ATTTTTAATAATATTTTAAC-ATTTTTTATTAAAATTTAATAATT
1 TTTATATA-TTTT-ATAAT-TTTTAACGA-TTTTTA-TAAAATTTAATAATT
38386882 TTTATA-ACTTTTAT
1 TTTATATA-TTTTAT
38386896 TGAATTTTAT
Statistics
Matches: 93, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
46 1 0.01
47 10 0.11
48 40 0.43
49 29 0.31
50 13 0.14
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (47 bp):
TTTATATATTTTATAATTTTTAACGATTTTTATAAAATTTAATAATT
Found at i:38387315 original size:14 final size:14
Alignment explanation
Indices: 38387280--38387326 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
38387270 TATGATTATG
*
38387280 TTTAAA-TTTAGAG
1 TTTAAATTTTAGAA
*
38387293 TTTAGAATTTTGGAA
1 TTTA-AATTTTAGAA
38387308 TTTAAATTTTAGAA
1 TTTAAATTTTAGAA
38387322 CTTTA
1 -TTTA
38387327 TGATTTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 4 0.14
14 11 0.39
15 13 0.46
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (14 bp):
TTTAAATTTTAGAA
Found at i:38394542 original size:16 final size:16
Alignment explanation
Indices: 38394521--38394572 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
38394511 AGAATGGAAA
38394521 GAAAATTAGAAAGATG
1 GAAAATTAGAAAGATG
* *
38394537 GAAAATTA-AAAGGTA
1 GAAAATTAGAAAGATG
*
38394552 GAAAAAT-GAAAAGATG
1 GAAAATTAG-AAAGATG
38394568 GAAAA
1 GAAAA
38394573 ATATATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (16 bp):
GAAAATTAGAAAGATG
Found at i:38394573 original size:16 final size:16
Alignment explanation
Indices: 38394530--38394574 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
38394520 AGAAAATTAG
*
38394530 AAAGATGG-AAAATTA
1 AAAGATGGAAAAATGA
* *
38394545 AAAGGTAGAAAAATGA
1 AAAGATGGAAAAATGA
38394561 AAAGATGGAAAAAT
1 AAAGATGGAAAAAT
38394575 ATATTTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (16 bp):
AAAGATGGAAAAATGA
Found at i:38409861 original size:38 final size:38
Alignment explanation
Indices: 38409810--38409886 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
38409800 GGAGCCTTTG
38409810 ACCTTCCCTCACATATCTAAATCCTTTGTGTTTACCCT
1 ACCTTCCCTCACATATCTAAATCCTTTGTGTTTACCCT
38409848 ACCTTCCCTCACATATCTAAATCCTTTGTGTTTACCCT
1 ACCTTCCCTCACATATCTAAATCCTTTGTGTTTACCCT
38409886 A
1 A
38409887 AGCGATGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.39
Consensus pattern (38 bp):
ACCTTCCCTCACATATCTAAATCCTTTGTGTTTACCCT
Found at i:38415379 original size:44 final size:44
Alignment explanation
Indices: 38415314--38415682 Score: 159
Period size: 44 Copynumber: 7.9 Consensus size: 44
38415304 ATCGCATCAA
*
38415314 ATTGAAGCCAGAAATCTTATCTCCCTGAAATTACAGCAGAGCAG
1 ATTGAAGCCAGTAATCTTATCTCCCTGAAATTACAGCAGAGCAG
* * **
38415358 ATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAG
1 ATTGAAGCCAGTAATCTTATCTCCCTGAAATTACAGCAGAGCAG
* *** * * * * *
38415402 ATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
1 ATTGAAGCCAGTAATCTTATCTCCCTGAAATTAC-----AGCAGA--G---CAG
* * * *
38415456 ATTGAAGCCAGAAATCTTATTTCCCT-AAGATTACAGCGGAGCAA
1 ATTGAAGCCAGTAATCTTATCTCCCTGAA-ATTACAGCAGAGCAG
* * ** **
38415500 ATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGG
1 ATTGAAGCCAGTAATCTTATCTCCCTGAAATTACAGCAGAGCAG
* *** * * *
38415544 ATTAAAATAAAG-GATCTTATCTCTCT-AAAGTTACAATAGAGTAGATCGCATCAG
1 ATT-GAAGCCAGTAATCTTATCTCCCTGAAA-TTAC-----AGCAGA--G---CAG
* * *
38415598 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAG
1 ATTGAAGCCAGTAATCTTATCTCCCTGAAATTACAGCAGAGCAG
* * * * *
38415642 ATTGAAGCTAATAATCCTATCTCCTTGAAATTACAGTAGAG
1 ATTGAAGCCAGTAATCTTATCTCCCTGAAATTACAGCAGAG
38415683 TGGATTAAAA
Statistics
Matches: 234, Mismatches: 65, Indels: 52
0.67 0.19 0.15
Matches are distributed among these distances:
43 2 0.01
44 153 0.65
45 5 0.02
47 2 0.01
49 18 0.08
51 2 0.01
53 6 0.03
54 44 0.19
55 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (44 bp):
ATTGAAGCCAGTAATCTTATCTCCCTGAAATTACAGCAGAGCAG
Found at i:38415432 original size:142 final size:142
Alignment explanation
Indices: 38415169--38415699 Score: 830
Period size: 142 Copynumber: 3.7 Consensus size: 142
38415159 TGTAAGGAAA
* * * * * * *
38415169 CAGATTTAAGCCACAAATCTTATCTTCCTGAGATTACAGCGGAGCACATAGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
*
38415234 ATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
38415299 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
38415311 CAAATTGAAGCCAGAAATCTTATCTCCCTGAAATTACAGCAGAGCAGATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
* *
38415376 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
38415441 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
38415453 CAGATTGAAGCCAGAAATCTTATTTCCCT-AAGATTACAGCGGAGCAAATTGAAGCCAGTAATCC
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAA-ATTACAGCGGAGCAGATTGAAGCCAGTAATCC
* * *
38415517 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAATA
65 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
38415582 GAGTAGATCGCAT
130 GAGTAGATCGCAT
* * *
38415595 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
* * * *
38415660 ATCTCCTTGAAATTACAGTAGAGTGGATTAAAATAAAGGA
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
38415700 AAAGAACAGA
Statistics
Matches: 358, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
141 2 0.01
142 355 0.99
143 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:38415534 original size:98 final size:98
Alignment explanation
Indices: 38415355--38415541 Score: 223
Period size: 98 Copynumber: 1.9 Consensus size: 98
38415345 TACAGCAGAG
* * * * * * *
38415355 CAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAATGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTAAGATTACAGCGGAGCAAATTAAAACAAATAATCCT
*
38415420 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* * * * * *
38415453 CAGATTGAAGCCAGAAATCTTATTTCCCTAAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTAAGATTACAGCGGAGCAAATTAAAACAAATAATCCT
*
38415518 ATCTCCCTG-AGATTACAGTGGAGT
66 ATCTCCCTGAAG-TTACAGTAGAGT
38415542 GGATTAAAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
97 2 0.03
98 71 0.97
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (98 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTAAGATTACAGCGGAGCAAATTAAAACAAATAATCCT
ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Done.