Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 91 of 97
Found at i:35980761 original size:30 final size:29
Alignment explanation
Indices: 35980690--35980768 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
35980680 GTTTATGCCG
*
35980690 TAAGTTATTATTATTGTTTTATTTTTTTTA
1 TAAGTTATAATTATT-TTTTATTTTTTTTA
* *
35980720 TAATTTTTAATTATTATTTTATTTTTATTTA
1 TAAGTTATAATTATT-TTTTATTTTT-TTTA
35980751 -AAGTTATAATT-TTTTTTA
1 TAAGTTATAATTATTTTTTA
35980769 AGTTTTACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 5 0.12
29 2 0.05
30 31 0.74
31 4 0.10
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (29 bp):
TAAGTTATAATTATTTTTTATTTTTTTTA
Found at i:35984043 original size:26 final size:27
Alignment explanation
Indices: 35984001--35984055 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
35983991 GCCAAAAGGG
*
35984001 AACTCTCAACTTTATATCAAGGAGATT
1 AACTCTCAACTTGATATCAAGGAGATT
*
35984028 AACTCT-AACTTGATATGAAGGAGATT
1 AACTCTCAACTTGATATCAAGGAGATT
35984054 AA
1 AA
35984056 TTCAACCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (27 bp):
AACTCTCAACTTGATATCAAGGAGATT
Found at i:35984264 original size:102 final size:101
Alignment explanation
Indices: 35984157--35984402 Score: 296
Period size: 102 Copynumber: 2.4 Consensus size: 101
35984147 ATAGCATAAC
* *
35984157 ATCATTACAGCCAAATTATGAGCGATAAAGCTAGCGGCTGGAATGT-GAATAATAAATTATGGTC
1 ATCATTACAGCCAAAATATGAGCGATAAAGCTAGCGGCT-GAA-GTAGAATAATAAACTATGGTC
* * * *
35984221 AAAGAATAAGTGATGAAGCTTGTGACCAAAAGAAGAAT
64 AAAGAATAAGCGATAAAACTTGCGACCAAAAGAAGAAT
* * * *
35984259 ATCATTACAGCCAAAATATGAGCGGTAAAGCTTGCGGCTGAAGTAAGAATGATGAACTATGGTCA
1 ATCATTACAGCCAAAATATGAGCGATAAAGCTAGCGGCTGAAGT-AGAATAATAAACTATGGTCA
* * * *
35984324 AAGAATAAGCGATAAAACTTGCGACTAATAGTATAAT
65 AAGAATAAGCGATAAAACTTGCGACCAAAAGAAGAAT
* * * *
35984361 ATAATTACAACCAAAATATAAGCGATAAAGCTAGCGACTGAA
1 ATCATTACAGCCAAAATATGAGCGATAAAGCTAGCGGCTGAA
35984403 TATGAAATTT
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
100 2 0.02
101 3 0.02
102 117 0.96
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (101 bp):
ATCATTACAGCCAAAATATGAGCGATAAAGCTAGCGGCTGAAGTAGAATAATAAACTATGGTCAA
AGAATAAGCGATAAAACTTGCGACCAAAAGAAGAAT
Found at i:35985717 original size:29 final size:29
Alignment explanation
Indices: 35985679--35985748 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
35985669 AGAAAATAGG
35985679 TGTACAAGAATAGGTACAAGAGAAGAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
* *
35985708 TGTACGAGAATAGGTACAAGAGAATAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
*
35985737 TGTACATGAATA
1 TGTACAAGAATA
35985749 AGTATACAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.46, C:0.10, G:0.26, T:0.19
Consensus pattern (29 bp):
TGTACAAGAATAGGTACAAGAGAAGAAGC
Found at i:35986039 original size:35 final size:35
Alignment explanation
Indices: 35986000--35986152 Score: 207
Period size: 35 Copynumber: 4.4 Consensus size: 35
35985990 GTTCTATTTA
* *
35986000 TTCTAGTTATTTTACGTTAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
* * **
35986035 TTCTAGTTGTTCTGCGTGAAGTAGTGCTTCACTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
*
35986070 TTCTACTTATTCTACGTGAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
* * *
35986105 TTTTACTTATTCTGCGTGAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
*
35986140 TTCTAGTTGTTCT
1 TTCTAGTTATTCT
35986153 CTGTACAACA
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 102 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (35 bp):
TTCTAGTTATTCTACGTGAAGTAGCACTTCACTTG
Found at i:35987891 original size:2 final size:2
Alignment explanation
Indices: 35987886--35987921 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
35987876 ATATCAAAAT
35987886 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35987922 AAACTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35989334 original size:24 final size:24
Alignment explanation
Indices: 35989306--35989387 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
35989296 ACAAGCCATG
** *
35989306 ATGTTACATACCATGTACAAAAAT
1 ATGTTACACGCCATGTACAAAAAC
*
35989330 ATGTTACACGCCATGTACAATAAC
1 ATGTTACACGCCATGTACAAAAAC
* *
35989354 ATGTGACACGCCATGTATAAAAAC
1 ATGTTACACGCCATGTACAAAAAC
*
35989378 ATGTGACACG
1 ATGTTACACG
35989388 TCATAGTTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (24 bp):
ATGTTACACGCCATGTACAAAAAC
Found at i:35989421 original size:45 final size:45
Alignment explanation
Indices: 35989359--35989478 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 45
35989349 ATAACATGTG
*
35989359 ACACGCCATGTATAAAAACATGTGACACGTCATAGTTAGGTTGTT
1 ACACGCCATGTACAAAAACATGTGACACGTCATAGTTAGGTTGTT
* * ** *
35989404 ACATGCCATGCACAAAAACATGTGACACACCATGGTTAGGTTGTT
1 ACACGCCATGTACAAAAACATGTGACACGTCATAGTTAGGTTGTT
* * *
35989449 ACACACTATGTACAAAAACATGTTACACGT
1 ACACGCCATGTACAAAAACATGTGACACGT
35989479 TATGTACAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (45 bp):
ACACGCCATGTACAAAAACATGTGACACGTCATAGTTAGGTTGTT
Found at i:35989473 original size:69 final size:69
Alignment explanation
Indices: 35989400--35989547 Score: 206
Period size: 69 Copynumber: 2.1 Consensus size: 69
35989390 ATAGTTAGGT
*
35989400 TGTTACATGCCATGCACAAAAACATGTGACACACCATGGTTAGGTTGTTACACACTATGTACAAA
1 TGTTACACGCCATGCACAAAAACATGTGACACACCATGGTTAGGTTGTTACACACTATGTACAAA
35989465 AACA
66 AACA
** * *** *
35989469 TGTTACACGTTATGTACAAAAACATGTGACATGTCATGGTTAGGTTGTTACACGCTATGTACAAA
1 TGTTACACGCCATGCACAAAAACATGTGACACACCATGGTTAGGTTGTTACACACTATGTACAAA
35989534 AACA
66 AACA
* *
35989538 TATGACACGC
1 TGTTACACGC
35989548 TATGGTTAGG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (69 bp):
TGTTACACGCCATGCACAAAAACATGTGACACACCATGGTTAGGTTGTTACACACTATGTACAAA
AACA
Found at i:35989474 original size:24 final size:24
Alignment explanation
Indices: 35989445--35989495 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
35989435 ATGGTTAGGT
35989445 TGTTACACACTATGTACAAAAACA
1 TGTTACACACTATGTACAAAAACA
**
35989469 TGTTACACGTTATGTACAAAAACA
1 TGTTACACACTATGTACAAAAACA
35989493 TGT
1 TGT
35989496 GACATGTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
TGTTACACACTATGTACAAAAACA
Found at i:35989533 original size:45 final size:45
Alignment explanation
Indices: 35989469--35989612 Score: 213
Period size: 45 Copynumber: 3.2 Consensus size: 45
35989459 TACAAAAACA
* *
35989469 TGTTACACGTTATGTACAAAAACATGTGACATGTCATGGTTAGGT
1 TGTTACACGCTATGTACAAAAACATGTGACACGTCATGGTTAGGT
*
35989514 TGTTACACGCTATGTACAAAAACATATGACACG-CTATGGTTAGGT
1 TGTTACACGCTATGTACAAAAACATGTGACACGTC-ATGGTTAGGT
*
35989559 TGTTACACG-TCATGTACAAAAACATGTGACACATCATGG-TAGGT
1 TGTTACACGCT-ATGTACAAAAACATGTGACACGTCATGGTTAGGT
35989603 TGTTACACGC
1 TGTTACACGC
35989613 CATGGTTAAG
Statistics
Matches: 90, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
44 16 0.18
45 73 0.81
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (45 bp):
TGTTACACGCTATGTACAAAAACATGTGACACGTCATGGTTAGGT
Found at i:35989533 original size:114 final size:113
Alignment explanation
Indices: 35989331--35989590 Score: 358
Period size: 114 Copynumber: 2.3 Consensus size: 113
35989321 TACAAAAATA
* * *
35989331 TGTTACACGCCATGTACAATAACATGTGACACGCCATGTATAAAAACATGTGACACGTCATAGTT
1 TGTTACAC-CTATGTACAAAAACATGTGACACGCCATGTACAAAAACATGTGACACGTCATAGTT
* *
35989396 AGGTTGTTACATGCCATGCACAAAAACATGTGACACACCATGGTTAGGT
65 AGGTTGTTACACGCCATGCACAAAAACATATGACACACCATGGTTAGGT
* ** * *
35989445 TGTTACACACTATGTACAAAAACATGTTACACGTTATGTACAAAAACATGTGACATGTCATGGTT
1 TGTTACAC-CTATGTACAAAAACATGTGACACGCCATGTACAAAAACATGTGACACGTCATAGTT
* * * *
35989510 AGGTTGTTACACGCTATGTACAAAAACATATGACACGCTATGGTTAGGT
65 AGGTTGTTACACGCCATGCACAAAAACATATGACACACCATGGTTAGGT
*
35989559 TGTTACACGTCATGTACAAAAACATGTGACAC
1 TGTTACACCT-ATGTACAAAAACATGTGACAC
35989591 ATCATGGTAG
Statistics
Matches: 128, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
113 1 0.01
114 127 0.99
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (113 bp):
TGTTACACCTATGTACAAAAACATGTGACACGCCATGTACAAAAACATGTGACACGTCATAGTTA
GGTTGTTACACGCCATGCACAAAAACATATGACACACCATGGTTAGGT
Found at i:35989616 original size:20 final size:21
Alignment explanation
Indices: 35989593--35989632 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35989583 TGTGACACAT
*
35989593 CATGG-TAGGTTGTTACACGC
1 CATGGTTAAGTTGTTACACGC
35989613 CATGGTTAAGTTGTTACACG
1 CATGGTTAAGTTGTTACACG
35989633 TTATGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (21 bp):
CATGGTTAAGTTGTTACACGC
Found at i:35989656 original size:24 final size:24
Alignment explanation
Indices: 35989624--35989679 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
35989614 ATGGTTAAGT
**
35989624 TGTTACACGTTATGTACAAAAACA
1 TGTTACACGCCATGTACAAAAACA
* *
35989648 TGTTACACGCCATGTACAGATACA
1 TGTTACACGCCATGTACAAAAACA
*
35989672 TGTAACAC
1 TGTTACAC
35989680 ATCATAGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (24 bp):
TGTTACACGCCATGTACAAAAACA
Found at i:35989738 original size:90 final size:89
Alignment explanation
Indices: 35989559--35989751 Score: 251
Period size: 90 Copynumber: 2.2 Consensus size: 89
35989549 ATGGTTAGGT
* * * *
35989559 TGTTACACGTCATGTACAAAAACATGTGACACATCATGGTAGGTTGTTACACGCCATGGTTAAGT
1 TGTTACACGCCATGTACAAAAACATGTAACACATCATGGTAAGTTGCTACACGCCATGGTTAAGT
**
35989624 TGTTACACGTTATGTACAAAAACA
66 TGTTACACGCCATGTACAAAAACA
* * * * * *
35989648 TGTTACACGCCATGTACAGATACATGTAACACATCATAGTTAAGTTGCTACATGCTATGGTTATG
1 TGTTACACGCCATGTACAAAAACATGTAACACATCAT-GGTAAGTTGCTACACGCCATGGTTAAG
35989713 TTGTTACACGCCATGTACAAAAACA
65 TTGTTACACGCCATGTACAAAAACA
* *
35989738 TATAACACGCCATG
1 TGTTACACGCCATG
35989752 GTTAGGTTGT
Statistics
Matches: 89, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
89 33 0.37
90 56 0.63
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (89 bp):
TGTTACACGCCATGTACAAAAACATGTAACACATCATGGTAAGTTGCTACACGCCATGGTTAAGT
TGTTACACGCCATGTACAAAAACA
Found at i:35989766 original size:66 final size:66
Alignment explanation
Indices: 35989648--35989902 Score: 222
Period size: 66 Copynumber: 3.8 Consensus size: 66
35989638 TACAAAAACA
* * ** * * * * *
35989648 TGTTACACGCCATGTACAGATACATGTAACACATCATAGTTAAGTTGCTACATGCTATGGTTATG
1 TGTTACACGCCATGTACAAAAACATGTAACACGCCATGGTTAGGTTGTTACATGCTATAGTTAAG
35989713 T
66 T
* ***
35989714 TGTTACACGCCATGTACAAAAACATATAACACGCCATGGTTAGGTTGTTACATGTCATATACAAA
1 TGTTACACGCCATGTACAAAAACATGTAACACGCCATGGTTAGGTTGTTACATG-C-TATAGTTA
*
35989779 AAT
64 AGT
* * * ** * *** *
35989782 ATGTTACATGTCATGTACAAAAACATGTGACACGTTATGTTTAGGTTGTTACACATTATAGTTAG
1 -TGTTACACGCCATGTACAAAAACATGTAACACGCCATGGTTAGGTTGTTACATGCTATAGTTAA
35989847 GT
65 GT
** * * *
35989849 TACTACACGTCATGTACAAAAACATGTGACATGCCATGGTTAGGTTGTTACATG
1 TGTTACACGCCATGTACAAAAACATGTAACACGCCATGGTTAGGTTGTTACATG
35989903 TCATGTACAA
Statistics
Matches: 148, Mismatches: 38, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
66 91 0.61
67 7 0.05
68 5 0.03
69 45 0.30
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (66 bp):
TGTTACACGCCATGTACAAAAACATGTAACACGCCATGGTTAGGTTGTTACATGCTATAGTTAAG
T
Found at i:35989789 original size:135 final size:135
Alignment explanation
Indices: 35989607--35989931 Score: 391
Period size: 135 Copynumber: 2.4 Consensus size: 135
35989597 GTAGGTTGTT
* * * * *
35989607 ACACGCCATGGTTAAGTTGTTACACGTTATGTACAAAAACATGTTACACGCCATGTACAGATACA
1 ACACGCCATGGTTAGGTTGTTACATGTCATGTACAAAAACATGTTACACGCCATGTACAAAAACA
** * * **
35989672 TGTAACACATCATAG-TTAAGTTGCTACATGCTATGGTTATGTTGTTACACGCCATGTACAAAAA
66 TGTAACACATCAT-GTTTAAGTTGCTACACACTATAGTTAGGTTACTACACGCCATGTACAAAAA
35989736 CATATA
130 CATATA
* * * *
35989742 ACACGCCATGGTTAGGTTGTTACATGTCATATACAAAAATATGTTACATGTCATGTACAAAAACA
1 ACACGCCATGGTTAGGTTGTTACATGTCATGTACAAAAACATGTTACACGCCATGTACAAAAACA
* * * * * * *
35989807 TGTGACACGTTATGTTTAGGTTGTTACACATTATAGTTAGGTTACTACACGTCATGTACAAAAAC
66 TGTAACACATCATGTTTAAGTTGCTACACACTATAGTTAGGTTACTACACGCCATGTACAAAAAC
* *
35989872 ATGTG
131 ATATA
* * *
35989877 ACATGCCATGGTTAGGTTGTTACATGTCATGTACAAAAACATGTGACACACCATG
1 ACACGCCATGGTTAGGTTGTTACATGTCATGTACAAAAACATGTTACACGCCATG
35989932 GTTAGGTTGT
Statistics
Matches: 158, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
134 1 0.01
135 157 0.99
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (135 bp):
ACACGCCATGGTTAGGTTGTTACATGTCATGTACAAAAACATGTTACACGCCATGTACAAAAACA
TGTAACACATCATGTTTAAGTTGCTACACACTATAGTTAGGTTACTACACGCCATGTACAAAAAC
ATATA
Found at i:35989791 original size:24 final size:24
Alignment explanation
Indices: 35989759--35989809 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
35989749 ATGGTTAGGT
*
35989759 TGTTACATGTCATATACAAAAATA
1 TGTTACATGTCATATACAAAAACA
*
35989783 TGTTACATGTCATGTACAAAAACA
1 TGTTACATGTCATATACAAAAACA
35989807 TGT
1 TGT
35989810 GACACGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (24 bp):
TGTTACATGTCATATACAAAAACA
Found at i:35989821 original size:24 final size:24
Alignment explanation
Indices: 35989767--35989821 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
35989757 GTTGTTACAT
* * * *
35989767 GTCATATACAAAAATATGTTACAT
1 GTCATGTACAAAAACATGTGACAC
35989791 GTCATGTACAAAAACATGTGACAC
1 GTCATGTACAAAAACATGTGACAC
*
35989815 GTTATGT
1 GTCATGT
35989822 TTAGGTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (24 bp):
GTCATGTACAAAAACATGTGACAC
Found at i:35989835 original size:21 final size:21
Alignment explanation
Indices: 35989811--35989863 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
35989801 AAAACATGTG
**
35989811 ACACGTTATGTTTAGGTTGTT
1 ACACGTTATGTTTAGGTTACT
*
35989832 ACACATTATAG-TTAGGTTACT
1 ACACGTTAT-GTTTAGGTTACT
*
35989853 ACACGTCATGT
1 ACACGTTATGT
35989864 ACAAAAACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (21 bp):
ACACGTTATGTTTAGGTTACT
Found at i:35989940 original size:45 final size:45
Alignment explanation
Indices: 35989842--35989946 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 45
35989832 ACACATTATA
** **
35989842 GTTAGGTTACTACACGTCATGTACAAAAACATGTGACATGCCATG
1 GTTAGGTTGTTACACGTCATGTACAAAAACATGTGACACACCATG
*
35989887 GTTAGGTTGTTACATGTCATGTACAAAAACATGTGACACACCATG
1 GTTAGGTTGTTACACGTCATGTACAAAAACATGTGACACACCATG
35989932 GTTAGGTTGTTACAC
1 GTTAGGTTGTTACAC
35989947 ACCATATTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (45 bp):
GTTAGGTTGTTACACGTCATGTACAAAAACATGTGACACACCATG
Found at i:35994197 original size:22 final size:22
Alignment explanation
Indices: 35994172--35994245 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
35994162 TGAAGACTCC
35994172 ATCTGTTGTCCTTCCTAGAGTT
1 ATCTGTTGTCCTTCCTAGAGTT
* * *
35994194 ATCTGATTGAGCCATT-CT-TACTT
1 ATCTG-TTG-TCC-TTCCTAGAGTT
35994217 CCATCTGTTGTCCTTCCTAGAGTT
1 --ATCTGTTGTCCTTCCTAGAGTT
35994241 ATCTG
1 ATCTG
35994246 CTTAAGCCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 12 0.31
23 10 0.26
24 10 0.26
25 7 0.18
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (22 bp):
ATCTGTTGTCCTTCCTAGAGTT
Found at i:35994238 original size:47 final size:47
Alignment explanation
Indices: 35994169--35994264 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
35994159 CCTTGAAGAC
*
35994169 TCCATCTGTTGTCCTTCCTAGAGTTATCTGATTGAGCCATTCTTACT
1 TCCATCTGTTGTCCTTCCTAGAGTTATCTGATTAAGCCATTCTTACT
*
35994216 TCCATCTGTTGTCCTTCCTAGAGTTATCTGCTTAAGCCATTCTTACT
1 TCCATCTGTTGTCCTTCCTAGAGTTATCTGATTAAGCCATTCTTACT
35994263 TC
1 TC
35994265 TCTCTCTCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.17, C:0.27, G:0.14, T:0.43
Consensus pattern (47 bp):
TCCATCTGTTGTCCTTCCTAGAGTTATCTGATTAAGCCATTCTTACT
Found at i:35997041 original size:2 final size:2
Alignment explanation
Indices: 35997036--35997084 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
35997026 ATACGCTAAT
* * *
35997036 TA TA TA TA TA TA TA T- TA -A TA TA TA -A AA TA TA TT TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35997075 TA TA TA TA TA
1 TA TA TA TA TA
35997085 NAAAGTGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35997067 original size:21 final size:21
Alignment explanation
Indices: 35997041--35997080 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35997031 CTAATTATAT
35997041 ATATATATATTA-ATATATAAA
1 ATATAT-TATTATATATATAAA
*
35997062 ATATATTTTTATATATATA
1 ATATATTATTATATATATA
35997081 TATANAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATTATTATATATATAAA
Found at i:35998041 original size:139 final size:139
Alignment explanation
Indices: 35997791--35998066 Score: 426
Period size: 139 Copynumber: 2.0 Consensus size: 139
35997781 GTTGCACTGG
** * *
35997791 CTCTTTACTTGTAGAGGAGAGGGACTCTTACTCTAATTCAGGTCTACCTTGACCCTTATATCTCT
1 CTCTTTACCCGTAGAGGAGAGAGACTCTTACGCTAATTCAGGTCTACCTTGACCCTTATATCTCT
* *
35997856 CATGGGGGCCCACATTAGTGAATATCTGAGTTTGCTTTGATACCACTTGTCACAAGCCGGAACTT
66 CATGGGGGCCCACATTAGTGAATATCTGAGTTTGCTTTGACACCACTTGTCACAAGCCGAAACTT
35997921 AAGCCCACC
131 AAGCCCACC
* * * * *
35997930 CTCTTTACCCGTAGAGGAGAGAGACTCTTACGCTAGTTCGGGTCTACCTTGATCTTTGTATCTCT
1 CTCTTTACCCGTAGAGGAGAGAGACTCTTACGCTAATTCAGGTCTACCTTGACCCTTATATCTCT
** *
35997995 CATGGGGGCTTACATTAGTGAATATCTGAGTTTGCTTTGACACCACTTGTCATAAGCCGAAACTT
66 CATGGGGGCCCACATTAGTGAATATCTGAGTTTGCTTTGACACCACTTGTCACAAGCCGAAACTT
35998060 AAGCCCA
131 AAGCCCA
35998067 ACCCCATATG
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
139 123 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (139 bp):
CTCTTTACCCGTAGAGGAGAGAGACTCTTACGCTAATTCAGGTCTACCTTGACCCTTATATCTCT
CATGGGGGCCCACATTAGTGAATATCTGAGTTTGCTTTGACACCACTTGTCACAAGCCGAAACTT
AAGCCCACC
Found at i:35998571 original size:2 final size:2
Alignment explanation
Indices: 35998564--35998590 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35998554 AGATAGTCAT
35998564 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
35998591 TATTACACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:36000458 original size:72 final size:72
Alignment explanation
Indices: 36000341--36000492 Score: 304
Period size: 72 Copynumber: 2.1 Consensus size: 72
36000331 ATTTCAGATC
36000341 TATTGATACATTTGAACAATGTATCGATAGATGTTCATCTTAGTTCAAATCTATCAATACATTCT
1 TATTGATACATTTGAACAATGTATCGATAGATGTTCATCTTAGTTCAAATCTATCAATACATTCT
36000406 TTGAATT
66 TTGAATT
36000413 TATTGATACATTTGAACAATGTATCGATAGATGTTCATCTTAGTTCAAATCTATCAATACATTCT
1 TATTGATACATTTGAACAATGTATCGATAGATGTTCATCTTAGTTCAAATCTATCAATACATTCT
36000478 TTGAATT
66 TTGAATT
36000485 TATTGATA
1 TATTGATA
36000493 GAAAATGTCT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 80 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (72 bp):
TATTGATACATTTGAACAATGTATCGATAGATGTTCATCTTAGTTCAAATCTATCAATACATTCT
TTGAATT
Found at i:36007134 original size:22 final size:22
Alignment explanation
Indices: 36007059--36007137 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
36007049 GCGTCTCTGG
*
36007059 TTTTTAGGCATTACGTGACT-A
1 TTTTTAGGCATTGCGTGACTGA
* * * *
36007080 GTTTTAGGTACTACGTGACTGA
1 TTTTTAGGCATTGCGTGACTGA
*
36007102 TTTTTAGGCATTGCGTGAGTGA
1 TTTTTAGGCATTGCGTGACTGA
36007124 TTTTTTA-GCATTGC
1 -TTTTTAGGCATTGC
36007138 CTAAGTCATA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.35
22 25 0.52
23 6 0.12
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (22 bp):
TTTTTAGGCATTGCGTGACTGA
Found at i:36007223 original size:23 final size:23
Alignment explanation
Indices: 36007141--36007215 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
36007131 GCATTGCCTA
*
36007141 AGTCATATAATGCCTTACTGACT
1 AGTCATACAATGCCTTACTGACT
36007164 AGTCATACAATGCCTTACTGACT
1 AGTCATACAATGCCTTACTGACT
* * *
36007187 AATCATACAATGCCTTACTAACC
1 AGTCATACAATGCCTTACTGACT
36007210 AGTCAT
1 AGTCAT
36007216 GCATTGCCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (23 bp):
AGTCATACAATGCCTTACTGACT
Found at i:36007285 original size:22 final size:22
Alignment explanation
Indices: 36007259--36007301 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36007249 TTAATCAGTC
*
36007259 ATGCAATACCTAAAAATTAGTG
1 ATGCAATACCTAAAAACTAGTG
* *
36007281 ATGCAATGCCTTAAAACTAGT
1 ATGCAATACCTAAAAACTAGT
36007302 CACCTAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (22 bp):
ATGCAATACCTAAAAACTAGTG
Found at i:36013098 original size:37 final size:37
Alignment explanation
Indices: 36013057--36013132 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 37
36013047 TTATTTTAAT
*
36013057 TTTTTCTTTTAAAAGAAAAAATAAATTTTATTAACAG
1 TTTTTCTTTTAAAAGAAAAAAGAAATTTTATTAACAG
* * * * * *
36013094 TTTTTTTTTTAGAGGCAAGAAGAAATTTTATTGACAG
1 TTTTTCTTTTAAAAGAAAAAAGAAATTTTATTAACAG
36013131 TT
1 TT
36013133 ACTATGACTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (37 bp):
TTTTTCTTTTAAAAGAAAAAAGAAATTTTATTAACAG
Found at i:36018748 original size:1 final size:1
Alignment explanation
Indices: 36018744--36018775 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
36018734 TTTTTGTAAA
*
36018744 GGGGGGGGGGGGGGGGGGGGGGGCGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
36018776 NAGTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:36018797 original size:2 final size:2
Alignment explanation
Indices: 36018790--36018838 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
36018780 TAAAAATGTT
36018790 TA TA TA TA TA TA TA TA TA -A TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36018830 -A TA TA TA TA
1 TA TA TA TA TA
36018839 ACTCAATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:36018813 original size:11 final size:11
Alignment explanation
Indices: 36018790--36018838 Score: 82
Period size: 11 Copynumber: 4.5 Consensus size: 11
36018780 TAAAAATGTT
36018790 TATATAT-ATA
1 TATATATAATA
36018800 TATATATAATA
1 TATATATAATA
*
36018811 TATATATTATA
1 TATATATAATA
36018822 TATATATAATA
1 TATATATAATA
36018833 TATATA
1 TATATA
36018839 ACTCAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
10 7 0.19
11 29 0.81
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATATATAATA
Found at i:36019846 original size:2 final size:2
Alignment explanation
Indices: 36019839--36019865 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36019829 GATGGCAACA
36019839 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
36019866 TATATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:36020261 original size:24 final size:24
Alignment explanation
Indices: 36020228--36020337 Score: 91
Period size: 24 Copynumber: 4.7 Consensus size: 24
36020218 AATTATATGT
*
36020228 CATGTACAAAAACATGTTACACGT
1 CATGTACAAAAACATGTTACACGC
* * *
36020252 TATGTACAAAAACATGTGACATGC
1 CATGTACAAAAACATGTTACACGC
* ** *** * *
36020276 AATG---ATTAGTTTGTTACATGT
1 CATGTACAAAAACATGTTACACGC
36020297 CATGTACAAAAACATGTTACACGC
1 CATGTACAAAAACATGTTACACGC
36020321 CATGTACAAAAACATGT
1 CATGTACAAAAACATGT
36020338 GACATGTCAT
Statistics
Matches: 63, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
21 13 0.21
24 50 0.79
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (24 bp):
CATGTACAAAAACATGTTACACGC
Found at i:36020306 original size:69 final size:68
Alignment explanation
Indices: 36020226--36020459 Score: 264
Period size: 69 Copynumber: 3.4 Consensus size: 68
36020216 GAAATTATAT
* *
36020226 GTCATGTACAAAAACATGTTACACGTTATGTACAAAAACATGTGACATGCAATGATTAGTTTGTT
1 GTCATGTACAAAAACATGTTACACGTCATGTACAAAAACATGTGACATGC-ATGATTAGGTTGTT
*
36020291 ACAT
65 ACAC
*
36020295 GTCATGTACAAAAACATGTTACACGCCATGTACAAAAACATGTGACATGTCAT-AGTTAGGTTGT
1 GTCATGTACAAAAACATGTTACACGTCATGTACAAAAACATGTGACATG-CATGA-TTAGGTTGT
36020359 TACAC
64 TACAC
* *** * *
36020364 GTCATAGT----TAGGTTGTTACAGGTCATGTACAAAAACATGTGATACAT-CATGGTTAGGTTG
1 GTCAT-GTACAAAAACATGTTACACGTCATGTACAAAAACATGTG--ACATGCATGATTAGGTTG
36020424 TTACAC
63 TTACAC
* *
36020430 GTCATGTACAAAAACATGTGACACGACATG
1 GTCATGTACAAAAACATGTTACACGTCATG
36020460 CTTAGGTTGT
Statistics
Matches: 137, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
65 2 0.01
66 49 0.36
68 5 0.04
69 78 0.57
70 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (68 bp):
GTCATGTACAAAAACATGTTACACGTCATGTACAAAAACATGTGACATGCATGATTAGGTTGTTA
CAC
Found at i:36020369 original size:21 final size:21
Alignment explanation
Indices: 36020343--36020389 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
36020333 CATGTGACAT
36020343 GTCATAGTTAGGTTGTTACAC
1 GTCATAGTTAGGTTGTTACAC
*
36020364 GTCATAGTTAGGTTGTTACAG
1 GTCATAGTTAGGTTGTTACAC
36020385 GTCAT
1 GTCAT
36020390 GTACAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (21 bp):
GTCATAGTTAGGTTGTTACAC
Found at i:36020419 original size:66 final size:66
Alignment explanation
Indices: 36020311--36020434 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
36020301 TACAAAAACA
**
36020311 TGTTACACGCCATGTACAAAAACATGTGACATGTCATAGTTAGGTTGTTACACGTCATAGTTAGG
1 TGTTACACGCCATGTACAAAAACATGTGACACATCATAGTTAGGTTGTTACACGTCATAGTTAGG
36020376 T
66 T
* * * *
36020377 TGTTACAGGTCATGTACAAAAACATGTGATACATCATGGTTAGGTTGTTACACGTCAT
1 TGTTACACGCCATGTACAAAAACATGTGACACATCATAGTTAGGTTGTTACACGTCAT
36020435 GTACAAAAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (66 bp):
TGTTACACGCCATGTACAAAAACATGTGACACATCATAGTTAGGTTGTTACACGTCATAGTTAGG
T
Found at i:36020421 original size:45 final size:46
Alignment explanation
Indices: 36020360--36020608 Score: 196
Period size: 45 Copynumber: 5.5 Consensus size: 46
36020350 TTAGGTTGTT
* *
36020360 ACACG-TCATAGTTAGGTTGTTACAGGTCATGTACAAAAACATGTG
1 ACACGATCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTG
*
36020405 ATAC-ATCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTG
1 ACACGATCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTG
* ** * * *
36020450 ACACGA-CATGCTTAGGTTGTTACACACCATATACAAAAATATGTT
1 ACACGATCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTG
* ** * * ** *
36020495 ACACG-TCAT-GTACAAAAATATGTGACACGTCATGGT----TAAGTTGTT
1 ACACGATCATGGT---TAGGT-TGTTACACGTCAT-GTACAAAAACATGTG
* *
36020540 ACACG-TCATGGTTAGGTTGTTAAACGTCATGTACAAAAACATATG
1 ACACGATCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTG
*
36020585 ACAC-ATCATGGTTAAGTTGTTACA
1 ACACGATCATGGTTAGGTTGTTACA
36020609 TGCTATGGTT
Statistics
Matches: 157, Mismatches: 33, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
41 2 0.01
42 11 0.07
43 2 0.01
44 1 0.01
45 125 0.80
46 3 0.02
47 2 0.01
48 10 0.06
49 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (46 bp):
ACACGATCATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTG
Found at i:36020494 original size:24 final size:24
Alignment explanation
Indices: 36020467--36020522 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
36020457 ATGCTTAGGT
36020467 TGTTACACACCATATACAAAAATA
1 TGTTACACACCATATACAAAAATA
** *
36020491 TGTTACACGTCATGTACAAAAATA
1 TGTTACACACCATATACAAAAATA
*
36020515 TGTGACAC
1 TGTTACAC
36020523 GTCATGGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (24 bp):
TGTTACACACCATATACAAAAATA
Found at i:36020523 original size:24 final size:24
Alignment explanation
Indices: 36020481--36020528 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
36020471 ACACACCATA
*
36020481 TACAAAAATATGTTACACGTCATG
1 TACAAAAATATGTGACACGTCATG
36020505 TACAAAAATATGTGACACGTCATG
1 TACAAAAATATGTGACACGTCATG
36020529 GTTAAGTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (24 bp):
TACAAAAATATGTGACACGTCATG
Found at i:36020538 original size:69 final size:66
Alignment explanation
Indices: 36020421--36020608 Score: 216
Period size: 69 Copynumber: 2.8 Consensus size: 66
36020411 CATGGTTAGG
* * *
36020421 TTGTTACACGTCATGTACAAAAACATGTGACACGACATGCTTAGGTTGTTACACACCAT-ATACA
1 TTGTTACACGTCATGTACAAAAACATGTGACACGTCATGGTTAAGTTGTTACACACCATGAT---
36020485 AAAA
63 AAAA
* ** * *
36020489 TATGTTACACGTCATGTACAAAAATATGTGACACGTCATGGTTAAGTTGTTACACGTCATGGTTA
1 T-TGTTACACGTCATGTACAAAAACATGTGACACGTCATGGTTAAGTTGTTACACACCATGATAA
**
36020554 GG
65 AA
* * *
36020556 TTGTTAAACGTCATGTACAAAAACATATGACACATCATGGTTAAGTTGTTACA
1 TTGTTACACGTCATGTACAAAAACATGTGACACGTCATGGTTAAGTTGTTACA
36020609 TGCTATGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
66 48 0.46
67 2 0.02
68 1 0.01
69 52 0.50
70 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (66 bp):
TTGTTACACGTCATGTACAAAAACATGTGACACGTCATGGTTAAGTTGTTACACACCATGATAAA
A
Found at i:36020544 original size:180 final size:180
Alignment explanation
Indices: 36020242--36020608 Score: 538
Period size: 180 Copynumber: 2.0 Consensus size: 180
36020232 TACAAAAACA
* * * *** *
36020242 TGTTACACGTTATGTACAAAAACATGTGACATGCAATGATTAGTTTGTTACATGTCATGTACAAA
1 TGTTACACGTCATGTACAAAAACATGTGACACGCAATGATTAGGTTGTTACACACCATATACAAA
* *
36020307 AACATGTTACACGCCATGTACAAAAACATGTGACATGTCATAGTTAGGTTGTTACACGTCATAGT
66 AACATGTTACACGCCATGTACAAAAACATGTGACACGTCATAGTTAAGTTGTTACACGTCATAGT
* * * * *
36020372 TAGGTTGTTACAGGTCATGTACAAAAACATGTGATACATCATGGTTAGGT
131 TAGGTTGTTAAACGTCATGTACAAAAACATATGACACATCATGGTTAAGT
*
36020422 TGTTACACGTCATGTACAAAAACATGTGACACG-ACATGCTTAGGTTGTTACACACCATATACAA
1 TGTTACACGTCATGTACAAAAACATGTGACACGCA-ATGATTAGGTTGTTACACACCATATACAA
* * * * *
36020486 AAATATGTTACACGTCATGTACAAAAATATGTGACACGTCATGGTTAAGTTGTTACACGTCATGG
65 AAACATGTTACACGCCATGTACAAAAACATGTGACACGTCATAGTTAAGTTGTTACACGTCATAG
36020551 TTAGGTTGTTAAACGTCATGTACAAAAACATATGACACATCATGGTTAAGT
130 TTAGGTTGTTAAACGTCATGTACAAAAACATATGACACATCATGGTTAAGT
36020602 TGTTACA
1 TGTTACA
36020609 TGCTATGGTT
Statistics
Matches: 166, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
179 1 0.01
180 165 0.99
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (180 bp):
TGTTACACGTCATGTACAAAAACATGTGACACGCAATGATTAGGTTGTTACACACCATATACAAA
AACATGTTACACGCCATGTACAAAAACATGTGACACGTCATAGTTAAGTTGTTACACGTCATAGT
TAGGTTGTTAAACGTCATGTACAAAAACATATGACACATCATGGTTAAGT
Found at i:36020545 original size:21 final size:21
Alignment explanation
Indices: 36020519--36020570 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
36020509 AAAATATGTG
36020519 ACACGTCATGGTTAAGTTGTT
1 ACACGTCATGGTTAAGTTGTT
*
36020540 ACACGTCATGGTTAGGTTGTT
1 ACACGTCATGGTTAAGTTGTT
*
36020561 AAACGTCATG
1 ACACGTCATG
36020571 TACAAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (21 bp):
ACACGTCATGGTTAAGTTGTT
Found at i:36020587 original size:66 final size:65
Alignment explanation
Indices: 36020411--36020691 Score: 271
Period size: 66 Copynumber: 4.2 Consensus size: 65
36020401 TGTGATACAT
* * *
36020411 CATGGTTAGGTTGTTACACGTCATGTACAAAAACATGTGACACGACATGCTTAGGTTGTTACACA
1 CATGGTTAGGTTGTTAAACGTCATGTACAAAAACATGTGACACGACATGGTTAAGTTGTTACAC-
*
36020476 C
65 G
* * ** * * *
36020477 CAT-ATACAAAAATATGTTACACGTCATGTACAAAAATATGTGACACGTCATGGTTAAGTTGTTA
1 CATGGT---TAGGT-TGTTAAACGTCATGTACAAAAACATGTGACACGACATGGTTAAGTTGTTA
36020541 CACG
62 CACG
*
36020545 TCATGGTTAGGTTGTTAAACGTCATGTACAAAAACATATGACAC-ATCATGGTTAAGTTGTTACA
1 -CATGGTTAGGTTGTTAAACGTCATGTACAAAAACATGTGACACGA-CATGGTTAAGTTGTTACA
*
36020609 TG
64 CG
* * * * *
36020611 CTATGGTTAGGTTGTTGCAA-GCCATATACAAAAACATGTGACACACACATGGTTAGGTTGTTAC
1 C-ATGGTTAGGTTGTT-AAACGTCATGTACAAAAACATGTGACAC-GACATGGTTAAGTTGTTAC
*
36020675 ATG
63 ACG
36020678 CTATGGTTAGGTTG
1 C-ATGGTTAGGTTG
36020692 NGACCTAGGC
Statistics
Matches: 181, Mismatches: 23, Indels: 21
0.80 0.10 0.09
Matches are distributed among these distances:
65 2 0.01
66 86 0.48
67 37 0.20
68 3 0.02
69 52 0.29
70 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (65 bp):
CATGGTTAGGTTGTTAAACGTCATGTACAAAAACATGTGACACGACATGGTTAAGTTGTTACACG
Found at i:36020594 original size:90 final size:89
Alignment explanation
Indices: 36020281--36020594 Score: 276
Period size: 90 Copynumber: 3.5 Consensus size: 89
36020271 CATGCAATGA
* * * ** * *
36020281 TTAGTTTGTTACATGTCATGTACAAAAACATGTTACACGCCATGTACAAAAACATGTGACATGTC
1 TTAGGTTGTTACACGTCATGTACAAAAACATGTGACACATCATGTACAAAAATATGTGACACGTC
* *
36020346 ATAGTTAGGTTGTTACACGTCATAG
66 AT-GTTAAGTTGTTACACGTCATGG
* * * ** *
36020371 TTAGGTTGTTACAGGTCATGTACAAAAACATGTGATACATCATGGT---TAGGT-TGTTACACGT
1 TTAGGTTGTTACACGTCATGTACAAAAACATGTGACACATCAT-GTACAAAAATATGTGACACGT
* ** * * *
36020432 CATGTACAAAAACATGTGACACGACATGC
65 CATGT----TAAGTTGTTACACGTCATGG
** * * * *
36020461 TTAGGTTGTTACACACCATATACAAAAATATGTTACACGTCATGTACAAAAATATGTGACACGTC
1 TTAGGTTGTTACACGTCATGTACAAAAACATGTGACACATCATGTACAAAAATATGTGACACGTC
36020526 ATGGTTAAGTTGTTACACGTCATGG
66 AT-GTTAAGTTGTTACACGTCATGG
* *
36020551 TTAGGTTGTTAAACGTCATGTACAAAAACATATGACACATCATG
1 TTAGGTTGTTACACGTCATGTACAAAAACATGTGACACATCATG
36020595 GTTAAGTTGT
Statistics
Matches: 168, Mismatches: 46, Indels: 20
0.72 0.20 0.09
Matches are distributed among these distances:
86 2 0.01
87 11 0.07
88 1 0.01
89 2 0.01
90 134 0.80
91 2 0.01
92 2 0.01
93 12 0.07
94 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (89 bp):
TTAGGTTGTTACACGTCATGTACAAAAACATGTGACACATCATGTACAAAAATATGTGACACGTC
ATGTTAAGTTGTTACACGTCATGG
Found at i:36034318 original size:187 final size:186
Alignment explanation
Indices: 36034003--36034362 Score: 711
Period size: 187 Copynumber: 1.9 Consensus size: 186
36033993 TTTGGCTCAA
36034003 AATAAAAAAATAAAAACTTAATTATTTAATTAAATTTTTTGAATAATTCAAGATTTTTTAAGTTT
1 AATAAAAAAATAAAAACTTAATTATTTAATTAAATTTTTTGAATAATTCAAGATTTTTTAAGTTT
36034068 AAAATAGACCTTGGCATGTCAAATTAAATCACTTGCTATCCTTGGCTAAAGAAAATGAATGCAAA
66 AAAATAGACCTTGGCATGTCAAATTAAATCACTTGCTATCCTTGGCTAAAGAAAATGAATGCAAA
36034133 TATACAATGCATTCGGTAGCTTAAAAATAATGGAAGAGAGANGATTACATAATATAT
131 TATACAATGCATTCGGTAGCTTAAAAATAATGGAAGAGAGA-GATTACATAATATAT
36034190 AATAAAAAAATAAAAACTTAATTATTTAATTAAATTTTTTGAATAATTCAAGATTTTTTAAGTTT
1 AATAAAAAAATAAAAACTTAATTATTTAATTAAATTTTTTGAATAATTCAAGATTTTTTAAGTTT
36034255 AAAATAGACCTTGGCATGTCAAATTAAATCACTTGCTATCCTTGGCTAAAGAAAATGAATGCAAA
66 AAAATAGACCTTGGCATGTCAAATTAAATCACTTGCTATCCTTGGCTAAAGAAAATGAATGCAAA
36034320 TATACAATGCATTCGGTAGCTTAAAAATAATGGAAGAGAGAGA
131 TATACAATGCATTCGGTAGCTTAAAAATAATGGAAGAGAGAGA
36034363 AAGAAAGAAA
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
186 2 0.01
187 171 0.99
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (186 bp):
AATAAAAAAATAAAAACTTAATTATTTAATTAAATTTTTTGAATAATTCAAGATTTTTTAAGTTT
AAAATAGACCTTGGCATGTCAAATTAAATCACTTGCTATCCTTGGCTAAAGAAAATGAATGCAAA
TATACAATGCATTCGGTAGCTTAAAAATAATGGAAGAGAGAGATTACATAATATAT
Found at i:36044517 original size:15 final size:15
Alignment explanation
Indices: 36044490--36044566 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
36044480 CTTCGGTAGT
*
36044490 TTATAATATAATATTA
1 TTATAA-ATAATATAA
36044506 TTATAAATAATATAA
1 TTATAAATAATATAA
* * *
36044521 TTTTAAGTACTATAA
1 TTATAAATAATATAA
* *
36044536 TTACAAATAATATGA
1 TTATAAATAATATAA
*
36044551 TTGTAAA-AATGATAA
1 TTATAAATAAT-ATAA
36044566 T
1 T
36044567 ATTGTAGTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
14 3 0.06
15 39 0.81
16 6 0.12
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.42
Consensus pattern (15 bp):
TTATAAATAATATAA
Found at i:36044666 original size:21 final size:23
Alignment explanation
Indices: 36044640--36044690 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
36044630 TATAAAAGAT
* *
36044640 AATATATTGTAG-T-TTTTATAA
1 AATATATTGTAGATAATATATAA
36044661 AATATATTGTAGATAATATATAA
1 AATATATTGTAGATAATATATAA
36044684 AATATAT
1 AATATAT
36044691 AATATTGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 12 0.46
22 1 0.04
23 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (23 bp):
AATATATTGTAGATAATATATAA
Found at i:36044822 original size:16 final size:15
Alignment explanation
Indices: 36044791--36044852 Score: 51
Period size: 16 Copynumber: 4.3 Consensus size: 15
36044781 TATTTGTATT
*
36044791 TTTTTAT-TATTA-A
1 TTTTTATATAATATA
36044804 TTTTTATATAATATCA
1 TTTTTATATAATAT-A
*
36044820 TTTCT-TA-AATATA
1 TTTTTATATAATATA
*
36044833 TTTTTAATATCATATA
1 TTTTT-ATATAATATA
36044849 TTTT
1 TTTT
36044853 ATTTTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 12 0.31
14 9 0.23
15 4 0.10
16 14 0.36
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTATATAATATA
Found at i:36044859 original size:7 final size:7
Alignment explanation
Indices: 36044849--36044941 Score: 66
Period size: 7 Copynumber: 13.7 Consensus size: 7
36044839 ATATCATATA
36044849 TTTTATT
1 TTTTATT
36044856 TTTTATT
1 TTTTATT
36044863 TTTTA-T
1 TTTTATT
* * *
36044869 TATAATC
1 TTTTATT
* *
36044876 TTATATA
1 TTTTATT
36044883 TTTTATT
1 TTTTATT
36044890 TTTTATT
1 TTTTATT
*
36044897 TTTTA-A
1 TTTTATT
* *
36044903 TATAATT
1 TTTTATT
*
36044910 TTTTATA
1 TTTTATT
*
36044917 TTTTATA
1 TTTTATT
36044924 TTTTA-T
1 TTTTATT
*
36044930 TTTAATT
1 TTTTATT
36044937 TTTTA
1 TTTTA
36044942 AATGATAAAA
Statistics
Matches: 64, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
6 11 0.17
7 53 0.83
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTATT
Found at i:36044882 original size:34 final size:34
Alignment explanation
Indices: 36044844--36044932 Score: 142
Period size: 34 Copynumber: 2.6 Consensus size: 34
36044834 TTTTAATATC
*
36044844 ATATATTTTATTTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTTTATTTTTTAATATAATCTT
*
36044878 ATATATTTTATTTTTTATTTTTTAATATAATTTT
1 ATATATTTTATTTTTTATTTTTTAATATAATCTT
* *
36044912 TTATATTTTATATTTTATTTT
1 ATATATTTTATTTTTTATTTT
36044933 AATTTTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (34 bp):
ATATATTTTATTTTTTATTTTTTAATATAATCTT
Found at i:36044912 original size:20 final size:19
Alignment explanation
Indices: 36044886--36044942 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
36044876 TTATATATTT
36044886 TATTTTTTATTTTTTAATA
1 TATTTTTTATTTTTTAATA
*
36044905 TAATTTTTTATATTTT-ATA
1 T-ATTTTTTATTTTTTAATA
*
36044924 TTTTATTTTAATTTTTTAA
1 TATT-TTTT-ATTTTTTAA
36044943 ATGATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.06
19 9 0.29
20 19 0.61
21 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTTTTTATTTTTTAATA
Found at i:36044913 original size:27 final size:26
Alignment explanation
Indices: 36044848--36044941 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
36044838 AATATCATAT
* *
36044848 ATTTTATTTTTTATTTTTTA-TTATA
1 ATTTAATTTTTTATTTTTTATTTTTA
*
36044873 ATCTTATATATTTTATTTTTTATTTTTTA
1 AT-TTA-ATTTTTTATTTTTTA-TTTTTA
* *
36044902 ATATAATTTTTTATATTTTATATTTTA
1 ATTTAATTTTTTATTTTTTAT-TTTTA
*
36044929 TTTTAATTTTTTA
1 ATTTAATTTTTTA
36044942 AATGATAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.04
26 3 0.05
27 43 0.77
28 2 0.04
29 6 0.11
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (26 bp):
ATTTAATTTTTTATTTTTTATTTTTA
Found at i:36048178 original size:2 final size:2
Alignment explanation
Indices: 36048171--36048207 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
36048161 GTTGACCACG
36048171 TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36048208 AGTGCTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:36048194 original size:17 final size:17
Alignment explanation
Indices: 36048172--36048205 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36048162 TTGACCACGT
36048172 CTCTCTCTCTCTCTCTC
1 CTCTCTCTCTCTCTCTC
36048189 CTCTCTCTCTCTCTCTC
1 CTCTCTCTCTCTCTCTC
36048206 TCAGTGCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (17 bp):
CTCTCTCTCTCTCTCTC
Found at i:36051247 original size:34 final size:35
Alignment explanation
Indices: 36051209--36051278 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
36051199 TTACCATATA
*
36051209 AACTACTGACT-AAT-CAGAGTTAATCCTTGCAAAT
1 AACTACTGACTCAATGC-CAGTTAATCCTTGCAAAT
* *
36051243 AACTATTGACTCATTGCCAGTTAATCCTTGCAAAT
1 AACTACTGACTCAATGCCAGTTAATCCTTGCAAAT
36051278 A
1 A
36051279 CTTTCCCGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 10 0.32
35 20 0.65
36 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.31
Consensus pattern (35 bp):
AACTACTGACTCAATGCCAGTTAATCCTTGCAAAT
Found at i:36058653 original size:24 final size:24
Alignment explanation
Indices: 36058580--36058734 Score: 150
Period size: 24 Copynumber: 6.5 Consensus size: 24
36058570 AGGGGGCGGT
*
36058580 GATCTACGTCGCA-AGGGTGATGGA
1 GATCTACGACGCACA-GGTGATGGA
* * ** **
36058604 GATTTACGGCGCACAGGAAACAGA
1 GATCTACGACGCACAGGTGATGGA
* *
36058628 GATCTACGACGTATAGGTGATGGA
1 GATCTACGACGCACAGGTGATGGA
* * * *
36058652 GATCTACGGCGCCCAGGCGAAGGA
1 GATCTACGACGCACAGGTGATGGA
*
36058676 GATCTACGATGCACAGGTGATGGA
1 GATCTACGACGCACAGGTGATGGA
* *
36058700 GATCTTCGACGCACAAGTGATGGA
1 GATCTACGACGCACAGGTGATGGA
36058724 GATCTACGACG
1 GATCTACGACG
36058735 TCGAACAAGG
Statistics
Matches: 101, Mismatches: 29, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
24 100 0.99
25 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.33, T:0.18
Consensus pattern (24 bp):
GATCTACGACGCACAGGTGATGGA
Found at i:36058754 original size:27 final size:27
Alignment explanation
Indices: 36058694--36058765 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
36058684 ATGCACAGGT
* *
36058694 GATGGAGATCTTCGACG-C--ACAAGT
1 GATGGAGATCTACGACGTCGAACAAGG
36058718 GATGGAGATCTACGACGTCGAACAAGG
1 GATGGAGATCTACGACGTCGAACAAGG
* **
36058745 GATGGTGATCTGTGACGTCGA
1 GATGGAGATCTACGACGTCGA
36058766 TTTGATAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 16 0.40
25 1 0.03
27 23 0.57
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (27 bp):
GATGGAGATCTACGACGTCGAACAAGG
Found at i:36058881 original size:54 final size:54
Alignment explanation
Indices: 36058716--36058896 Score: 213
Period size: 54 Copynumber: 3.4 Consensus size: 54
36058706 CGACGCACAA
* * * *
36058716 GTGATGGAGATCTACGACGTCGAACAAGG-GATGGTGATCTGTGACGTC-GATTTG
1 GTGATGGTGATCTACGACGTCGGA-TAGGTGATGGTGATCTATGACGTCGGA-TTG
* * * *
36058770 ATAATGGTGATCTATGACGTCGGATTGGTGATGGTGATCTATGACGTCGGATTG
1 GTGATGGTGATCTACGACGTCGGATAGGTGATGGTGATCTATGACGTCGGATTG
* * *
36058824 GTGATGGTGATCTATGACGTCGGATAGGTGATGGTGATCTATGACGCCGGATGG
1 GTGATGGTGATCTACGACGTCGGATAGGTGATGGTGATCTATGACGTCGGATTG
**
36058878 GTGACCGTGATCTACGACG
1 GTGATGGTGATCTACGACG
36058897 CACGGGTGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
53 2 0.02
54 105 0.96
55 2 0.02
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.28
Consensus pattern (54 bp):
GTGATGGTGATCTACGACGTCGGATAGGTGATGGTGATCTATGACGTCGGATTG
Found at i:36058897 original size:27 final size:27
Alignment explanation
Indices: 36058745--36058896 Score: 207
Period size: 27 Copynumber: 5.6 Consensus size: 27
36058735 TCGAACAAGG
* *
36058745 GATGGTGATCTGTGACGTC-GATTTGAT
1 GATGGTGATCTATGACGTCGGA-TTGGT
*
36058772 AATGGTGATCTATGACGTCGGATTGGT
1 GATGGTGATCTATGACGTCGGATTGGT
36058799 GATGGTGATCTATGACGTCGGATTGGT
1 GATGGTGATCTATGACGTCGGATTGGT
*
36058826 GATGGTGATCTATGACGTCGGATAGGT
1 GATGGTGATCTATGACGTCGGATTGGT
* *
36058853 GATGGTGATCTATGACGCCGGATGGGT
1 GATGGTGATCTATGACGTCGGATTGGT
** *
36058880 GACCGTGATCTACGACG
1 GATGGTGATCTATGACG
36058897 CACGGGTGTA
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 112 0.98
28 2 0.02
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.30
Consensus pattern (27 bp):
GATGGTGATCTATGACGTCGGATTGGT
Found at i:36061903 original size:16 final size:16
Alignment explanation
Indices: 36061867--36061911 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
36061857 TATACATTTT
36061867 TATTAATTAATTAAAA
1 TATTAATTAATTAAAA
*
36061883 TATTATTTAATTAATAA
1 TATTAATTAATTAA-AA
*
36061900 -ATTAATAAATTA
1 TATTAATTAATTA
36061912 TTAATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAATTAATTAAAA
Found at i:36061929 original size:27 final size:26
Alignment explanation
Indices: 36061868--36061947 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
36061858 ATACATTTTT
36061868 ATTAATTAATTAAAATATT-ATTTAATTA
1 ATTAATTAA-TAAAATATTAATTT-A-TA
* *
36061896 ATAAATTAATAAATTATTAATTTATA
1 ATTAATTAATAAAATATTAATTTATA
36061922 CATTAATTAATACAAAT-TTAATTTAT
1 -ATTAATTAATA-AAATATTAATTTAT
36061948 CAATATATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
26 2 0.04
27 28 0.62
28 15 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTAATTAATAAAATATTAATTTATA
Found at i:36064053 original size:15 final size:16
Alignment explanation
Indices: 36064023--36064056 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
36064013 GAAAAAATAA
36064023 AATTTTTTGATAAATT
1 AATTTTTTGATAAATT
*
36064039 AATTTTTT-ATTAATT
1 AATTTTTTGATAAATT
36064054 AAT
1 AAT
36064057 GCATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTTTTGATAAATT
Found at i:36067638 original size:117 final size:117
Alignment explanation
Indices: 36067432--36067655 Score: 369
Period size: 117 Copynumber: 1.9 Consensus size: 117
36067422 GTTGAAGCTC
* * * * *
36067432 TGAGCTATAATGTGATGATTGTTTGTGAGGAAAGTTATTTAGTCTAGTTGAAGCCAGAGGGGTGC
1 TGAGCTATAATGTGATGAATATTTGTGAGGAAACTTATTTAGTCTAGTTGAAACCAGAAGGGTGC
*
36067497 TTGTAAACCAGAAATATTGTTGGAATGTTTGAGTTTGTAGTTATTTCAACTA
66 TTGTAAACCAGAAATATTGTTGGAATATTTGAGTTTGTAGTTATTTCAACTA
*
36067549 TGAGCTATAATGTGATGAATATTTTTGAGGAAACTTATTTA-TGCTAGTTGAAACCAGAAGGGTG
1 TGAGCTATAATGTGATGAATATTTGTGAGGAAACTTATTTAGT-CTAGTTGAAACCAGAAGGGTG
36067613 CTTGTAAACCAGAAATATTGTTGGAATATTTGAGTTTGTAGTT
65 CTTGTAAACCAGAAATATTGTTGGAATATTTGAGTTTGTAGTT
36067656 GTCATGTGTT
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 1 0.01
117 98 0.99
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (117 bp):
TGAGCTATAATGTGATGAATATTTGTGAGGAAACTTATTTAGTCTAGTTGAAACCAGAAGGGTGC
TTGTAAACCAGAAATATTGTTGGAATATTTGAGTTTGTAGTTATTTCAACTA
Found at i:36068359 original size:68 final size:68
Alignment explanation
Indices: 36068250--36068384 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 68
36068240 TCCTTAACTG
36068250 AGTGATAGAATGGTTCTTGATTTTTCTTTGGTCAATTCCTAACCTTATTTTGTGACATTCTT-CA
1 AGTGATAGAATGGTTCTTGATTTTTCTTTGGTCAATTCCTAACCTTATTTTGTGACATT-TTGCA
36068314 ACAT
65 ACAT
* ** *
36068318 AGTGATAGAATGGTTCTTGGTTTTTCTTTGGTCGGTTCCTAATCTTATTTTGTGACATTTTGCAA
1 AGTGATAGAATGGTTCTTGATTTTTCTTTGGTCAATTCCTAACCTTATTTTGTGACATTTTGCAA
36068383 CA
66 CA
36068385 GTGTTACTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 2 0.03
68 60 0.97
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (68 bp):
AGTGATAGAATGGTTCTTGATTTTTCTTTGGTCAATTCCTAACCTTATTTTGTGACATTTTGCAA
CAT
Found at i:36070806 original size:306 final size:306
Alignment explanation
Indices: 36070228--36070831 Score: 809
Period size: 306 Copynumber: 2.0 Consensus size: 306
36070218 TGCAGCTTTC
* * * * *
36070228 TTGTCACCAGTGCCTTGGTTACCGTTTTTCCATGTTGGCATCACGAATTCTTCAATCTCTGAAAA
1 TTGTCACCAGTGCCTTGGTCACCATTTTTCCATGTTGGAACCACGAATTCTTCAATATCTGAAAA
* * * * * *
36070293 TGAATTCTGTGATGGAATGAGCGGCGATAGTAAGGGAATTGCAGCTGGAGAAGTCCCACTAGAGG
66 TGAATACGGTGATGAAATGAGCGGCGACAGTAAGGGAATTGCAGCCGGAGAAGTCCCACCAGAGG
* * * * * *
36070358 ACCCAAAAGGGCTGGTACCGGCAGCGGCAGCATTCATCTGATCAAGCTTAAGAGATGCTGGGGCA
131 ACCCAAAAAGGCAGGTACCGGCAGCGGCAGCATTCATCCGATCAAGCTTAAGAGACGCCGGAGCA
* * * **
36070423 CGCTTTTGTAGCCTGGTGGGTGGTTTCCCTGCTATGGCTTTGGTCACGCCGATATGTTGTTGCTC
196 CGCTTTTGTAGCCTGGTGGGTGGCTTCCCTACTATGGCTTTGGTCACGCCAATAAATTGTTGCTC
36070488 AAATAAGTTCCCACCGTCCTCCATTCTTGAAATGAAACGCCGCGTG
261 AAATAAGTTCCCACCGTCCTCCATTCTTGAAATGAAACGCCGCGTG
* ** *
36070534 TTGTCATCAGTGCCTTGGTCACCATTTTTCCATGTTGGAACCACGAATTCTTCTGTATCTGGAAA
1 TTGTCACCAGTGCCTTGGTCACCATTTTTCCATGTTGGAACCACGAATTCTTCAATATCTGAAAA
*
36070599 TGGATACGGTGAT-AAAGTGA-CAGGCGACAGTAAGGGAATTGCAGCCGGAGAAGTCCCACCAGA
66 TGAATACGGTGATGAAA-TGAGC-GGCGACAGTAAGGGAATTGCAGCCGGAGAAGTCCCACCAGA
* * ** *
36070662 GGTCCCAAAAAGGCAGGTCCCGGCAGCGGCAGTGTTTATCCGATCAAGCTTAAGAGACGCCGGAG
129 GGACCCAAAAAGGCAGGTACCGGCAGCGGCAGCATTCATCCGATCAAGCTTAAGAGACGCCGGAG
* * * *
36070727 CATGCTTTTGTAGCCTGGTGGGTGGCTTCCCTACTTTGGTTTTGGTCATGCCAATAAATTGCTT-
194 CACGCTTTTGTAGCCTGGTGGGTGGCTTCCCTACTATGGCTTTGGTCACGCCAATAAATTG-TTG
* * *
36070791 CTCGAATATGTTCCCACCGTCCTCCATTCTTGATATGAAAC
258 CTCAAATAAGTTCCCACCGTCCTCCATTCTTGAAATGAAAC
36070832 CCCCTGGAAA
Statistics
Matches: 256, Mismatches: 39, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
305 3 0.01
306 251 0.98
307 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (306 bp):
TTGTCACCAGTGCCTTGGTCACCATTTTTCCATGTTGGAACCACGAATTCTTCAATATCTGAAAA
TGAATACGGTGATGAAATGAGCGGCGACAGTAAGGGAATTGCAGCCGGAGAAGTCCCACCAGAGG
ACCCAAAAAGGCAGGTACCGGCAGCGGCAGCATTCATCCGATCAAGCTTAAGAGACGCCGGAGCA
CGCTTTTGTAGCCTGGTGGGTGGCTTCCCTACTATGGCTTTGGTCACGCCAATAAATTGTTGCTC
AAATAAGTTCCCACCGTCCTCCATTCTTGAAATGAAACGCCGCGTG
Found at i:36071455 original size:16 final size:16
Alignment explanation
Indices: 36071431--36071465 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36071421 GTTTTTCTTA
*
36071431 TTTTGTTTTTAAGTTT
1 TTTTGTTTTTAACTTT
*
36071447 TTTTTTTTTTAACTTT
1 TTTTGTTTTTAACTTT
36071463 TTT
1 TTT
36071466 AGCTGATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTTGTTTTTAACTTT
Found at i:36077166 original size:26 final size:26
Alignment explanation
Indices: 36077130--36077184 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
36077120 ACCCGTGTGC
* *
36077130 TCAAAGTTTCAAAGAAGAATGTTTTG
1 TCAAAGTTTCAAACAAGAATATTTTG
36077156 TCAAAGTTTCAAACAAGAATATTTTG
1 TCAAAGTTTCAAACAAGAATATTTTG
36077182 TCA
1 TCA
36077185 TGTACAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (26 bp):
TCAAAGTTTCAAACAAGAATATTTTG
Found at i:36091312 original size:24 final size:24
Alignment explanation
Indices: 36091275--36091323 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36091265 ATTTGAAGTT
* * * *
36091275 TCACAGGTTTTTGTATATGGCGTG
1 TCACAAGTTGTTGTACATGACGTG
36091299 TCACAAGTTGTTGTACATGACGTG
1 TCACAAGTTGTTGTACATGACGTG
36091323 T
1 T
36091324 AACACCCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (24 bp):
TCACAAGTTGTTGTACATGACGTG
Found at i:36091399 original size:45 final size:45
Alignment explanation
Indices: 36091299--36091464 Score: 183
Period size: 45 Copynumber: 3.7 Consensus size: 45
36091289 ATATGGCGTG
* ** * ** *
36091299 TCACAAG-TTGTTGTACATGACGTGTAACACCCTAACCATAACTTG
1 TCACAAGCTT-TTGTACATGACGTGTCACATGCTAATCATGGCTTA
* *
36091344 TCACAGGCTTTTGTACA-AAGCGTGTCACATGCTAATCATGGCTTA
1 TCACAAGCTTTTGTACATGA-CGTGTCACATGCTAATCATGGCTTA
* *
36091389 TCATAAGCTTTTGTACATGACGTGTCACATGCTAATCATGGCTTG
1 TCACAAGCTTTTGTACATGACGTGTCACATGCTAATCATGGCTTA
* *
36091434 TCACAGGTTTTTGTACATGACGTGTCACATG
1 TCACAAGCTTTTGTACATGACGTGTCACATG
36091465 TTTTTATATA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 98 0.96
46 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (45 bp):
TCACAAGCTTTTGTACATGACGTGTCACATGCTAATCATGGCTTA
Found at i:36091459 original size:24 final size:24
Alignment explanation
Indices: 36091425--36091596 Score: 117
Period size: 24 Copynumber: 7.4 Consensus size: 24
36091415 ACATGCTAAT
*
36091425 CATGGCTTGTCACAGGTTTTTGTA
1 CATGGCGTGTCACAGGTTTTTGTA
* * *
36091449 CATGACGTGTCACATGTTTTTATA
1 CATGGCGTGTCACAGGTTTTTGTA
* * * * *
36091473 TATGGCGTGTAACACG---CT-AA
1 CATGGCGTGTCACAGGTTTTTGTA
* *
36091493 CCATGACTTGTCACAGGTTTTTGTA
1 -CATGGCGTGTCACAGGTTTTTGTA
* * *
36091518 CATGGCGTGTCACACG---CT-AA
1 CATGGCGTGTCACAGGTTTTTGTA
*
36091538 CCATGGCTTGTCACAGGTTTTTGTA
1 -CATGGCGTGTCACAGGTTTTTGTA
* *
36091563 CATGACGTGTCACAGATTTTTGTA
1 CATGGCGTGTCACAGGTTTTTGTA
36091587 CATGGCGTGT
1 CATGGCGTGT
36091597 AACATCATAG
Statistics
Matches: 108, Mismatches: 30, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
20 2 0.02
21 27 0.25
24 77 0.71
25 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (24 bp):
CATGGCGTGTCACAGGTTTTTGTA
Found at i:36091564 original size:159 final size:159
Alignment explanation
Indices: 36091275--36091576 Score: 442
Period size: 159 Copynumber: 1.9 Consensus size: 159
36091265 ATTTGAAGTT
* * *
36091275 TCACAGGTTTTTGTATATGGCGTGTCACAAGTTGTTGTACATGACGTGTAACACCCTAACCATAA
1 TCACAGGTTTTTGTACATGACGTGTCACAAGTTGTTATACATGACGTGTAACACCCTAACCATAA
* * *
36091340 CTTGTCACAGGCTTTTGTACAAAGCGTGTCACATGCTAATCATGGCTTATCATAAGCTTTTGTAC
66 CTTGTCACAGGCTTTTGTACAAAGCGTGTCACACGCTAACCATGGCTTATCACAAGCTTTTGTAC
36091405 ATGACGTGTCACATGCTAATCATGGCTTG
131 ATGACGTGTCACATGCTAATCATGGCTTG
* * * * * *
36091434 TCACAGGTTTTTGTACATGACGTGTCACATGTTTTTATATATGGCGTGTAACACGCTAACCATGA
1 TCACAGGTTTTTGTACATGACGTGTCACAAGTTGTTATACATGACGTGTAACACCCTAACCATAA
* ** * * *
36091499 CTTGTCACAGGTTTTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCACAGGTTTTTGTAC
66 CTTGTCACAGGCTTTTGTACAAAGCGTGTCACACGCTAACCATGGCTTATCACAAGCTTTTGTAC
36091564 ATGACGTGTCACA
131 ATGACGTGTCACA
36091577 GATTTTTGTA
Statistics
Matches: 125, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
159 125 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (159 bp):
TCACAGGTTTTTGTACATGACGTGTCACAAGTTGTTATACATGACGTGTAACACCCTAACCATAA
CTTGTCACAGGCTTTTGTACAAAGCGTGTCACACGCTAACCATGGCTTATCACAAGCTTTTGTAC
ATGACGTGTCACATGCTAATCATGGCTTG
Found at i:36091573 original size:45 final size:45
Alignment explanation
Indices: 36091449--36091576 Score: 193
Period size: 45 Copynumber: 2.8 Consensus size: 45
36091439 GGTTTTTGTA
* * * * *
36091449 CATGACGTGTCACATGTTTTTATATATGGCGTGTAACACGCTAAC
1 CATGACTTGTCACAGGTTTTTGTACATGGCGTGTCACACGCTAAC
36091494 CATGACTTGTCACAGGTTTTTGTACATGGCGTGTCACACGCTAAC
1 CATGACTTGTCACAGGTTTTTGTACATGGCGTGTCACACGCTAAC
* *
36091539 CATGGCTTGTCACAGGTTTTTGTACATGACGTGTCACA
1 CATGACTTGTCACAGGTTTTTGTACATGGCGTGTCACA
36091577 GATTTTTGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (45 bp):
CATGACTTGTCACAGGTTTTTGTACATGGCGTGTCACACGCTAAC
Found at i:36092164 original size:22 final size:21
Alignment explanation
Indices: 36092103--36092164 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
36092093 TTAGGTATTA
36092103 TTTC-TTTTTTTTCTTTTTAT
1 TTTCTTTTTTTTTCTTTTTAT
* *
36092123 TTTGTTTTGTTTTTCATTTTAT
1 TTTCTTTT-TTTTTCTTTTTAT
36092145 TTTCTATCTTTTTTT-TTTTT
1 TTTCT-T-TTTTTTTCTTTTT
36092165 GCTTTGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.09
21 3 0.09
22 20 0.59
23 6 0.18
24 2 0.06
ACGTcount: A:0.06, C:0.08, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTCTTTTTTTTTCTTTTTAT
Found at i:36093319 original size:21 final size:21
Alignment explanation
Indices: 36093281--36093339 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
36093271 ATGAAACCTC
* * *
36093281 TTTATATCAAATACACATAAT
1 TTTATATGACATATACATAAT
*
36093302 TTTATATGACATATACATGAT
1 TTTATATGACATATACATAAT
* * *
36093323 GTTATACGTCATATACA
1 TTTATATGACATATACA
36093340 AAAATATATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTATATGACATATACATAAT
Found at i:36093593 original size:30 final size:30
Alignment explanation
Indices: 36093488--36093641 Score: 124
Period size: 30 Copynumber: 5.3 Consensus size: 30
36093478 ATTAAAAAAG
* * * *
36093488 ATTGTTACATGCCTTGTTAAAAAAATATATT
1 ATTGTTACACGCCATATTGAAAAAA-ATATT
* * *
36093519 ATTGTTACACACCATA-T-ACAAAAACA-T
1 ATTGTTACACGCCATATTGAAAAAAATATT
* * *
36093546 GTT-TT--ACGTCATGTTGAAAAAAATATT
1 ATTGTTACACGCCATATTGAAAAAAATATT
* *
36093573 ATTGTTATATGCCATATTGAAAAAAATATT
1 ATTGTTACACGCCATATTGAAAAAAATATT
* *
36093603 ATTATTACACGTCATATTG-AAAAAATATT
1 ATTGTTACACGCCATATTGAAAAAAATATT
36093632 ATTGTTACAC
1 ATTGTTACAC
36093642 TTTGATGTCT
Statistics
Matches: 96, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
24 5 0.05
25 1 0.01
26 9 0.09
27 6 0.06
28 4 0.04
29 24 0.25
30 35 0.36
31 12 0.12
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.38
Consensus pattern (30 bp):
ATTGTTACACGCCATATTGAAAAAAATATT
Found at i:36093625 original size:29 final size:30
Alignment explanation
Indices: 36093551--36093641 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
36093541 AACATGTTTT
* *
36093551 ACGTCATGTTGAAAAAAATATTATTGTTAT
1 ACGTCATATTGAAAAAAATATTATTGTTAC
* * *
36093581 ATGCCATATTGAAAAAAATATTATTATTAC
1 ACGTCATATTGAAAAAAATATTATTGTTAC
36093611 ACGTCATATTG-AAAAAATATTATTGTTAC
1 ACGTCATATTGAAAAAAATATTATTGTTAC
36093640 AC
1 AC
36093642 TTTGATGTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 19 0.36
30 34 0.64
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
ACGTCATATTGAAAAAAATATTATTGTTAC
Found at i:36096093 original size:24 final size:24
Alignment explanation
Indices: 36096066--36096177 Score: 73
Period size: 24 Copynumber: 4.7 Consensus size: 24
36096056 AGCTTTTACG
*
36096066 GCATGCTTGTCAGTTTCTTGAGTA
1 GCATGCTTGTCAGTTTCATGAGTA
* *
36096090 GCATACTTGTCAGCTTCATGAGTA
1 GCATGCTTGTCAGTTTCATGAGTA
* * * ** *
36096114 CCATCCTTG-CTGGTTTTTTGAGCA
1 GCATGCTTGTC-AGTTTCATGAGTA
** * * *
36096138 GCATGCTCATTATTTTCATAAGTA
1 GCATGCTTGTCAGTTTCATGAGTA
*
36096162 GCATGCTTCTCAGTTT
1 GCATGCTTGTCAGTTT
36096178 TGGAAGCTGT
Statistics
Matches: 61, Mismatches: 25, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
23 1 0.02
24 60 0.98
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (24 bp):
GCATGCTTGTCAGTTTCATGAGTA
Found at i:36103239 original size:2 final size:2
Alignment explanation
Indices: 36103232--36103256 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36103222 ATGCATGTTG
36103232 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
36103257 AATGACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:36116700 original size:3 final size:3
Alignment explanation
Indices: 36116692--36116720 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36116682 ACGAAAATTG
36116692 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36116721 GTTGTTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36118470 original size:15 final size:15
Alignment explanation
Indices: 36118450--36118600 Score: 73
Period size: 15 Copynumber: 10.1 Consensus size: 15
36118440 ACATTATAAT
36118450 TTAAAA-AAGAATATA
1 TTAAAATAA-AATATA
36118465 TTAAAATAAAATATA
1 TTAAAATAAAATATA
*
36118480 -TAATAT-AAA-A-A
1 TTAAAATAAAATATA
*
36118491 TTAAAATAAAATAAA
1 TTAAAATAAAATATA
* * * *
36118506 ATAAAATATAAGAAA
1 TTAAAATAAAATATA
**
36118521 TTAAAAT-TGATATA
1 TTAAAATAAAATATA
* ** *
36118535 ATATAGGTAAAAGATA
1 TTA-AAATAAAATATA
36118551 TTAAAATAAAATATA
1 TTAAAATAAAATATA
*
36118566 -TAATATAAAATTTTATA
1 TTAAAATAAAA---TATA
36118583 TTAAAAAATAAAATATA
1 TT--AAAATAAAATATA
36118600 T
1 T
36118601 AATATATAAT
Statistics
Matches: 102, Mismatches: 21, Indels: 24
0.69 0.14 0.16
Matches are distributed among these distances:
11 1 0.01
12 6 0.06
13 6 0.06
14 21 0.21
15 42 0.41
16 8 0.08
17 9 0.09
18 1 0.01
20 8 0.08
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (15 bp):
TTAAAATAAAATATA
Found at i:36118476 original size:5 final size:5
Alignment explanation
Indices: 36118466--36118527 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
36118456 AAGAATATAT
* * *
36118466 TAAAA TAAAA TATATAA TATAA -AAAT TAAAA TAAAA TAAAA TAAAA TATAA
1 TAAAA TAAAA TA-A-AA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
* *
36118517 GAAAT TAAAA T
1 TAAAA TAAAA T
36118528 TGATATAATA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
4 2 0.05
5 37 0.84
6 1 0.02
7 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:36118537 original size:29 final size:29
Alignment explanation
Indices: 36118466--36118527 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 29
36118456 AAGAATATAT
36118466 TAAAATAAAATATATAATATAAAAATTAAAA
1 TAAAATAAAATA-A-AATATAAAAATTAAAA
36118497 TAAAATAAAATAAAATATAAGAAATTAAAA
1 TAAAATAAAATAAAATATAA-AAATTAAAA
36118527 T
1 T
36118528 TGATATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 7 0.23
30 11 0.37
31 12 0.40
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (29 bp):
TAAAATAAAATAAAATATAAAAATTAAAA
Found at i:36118596 original size:34 final size:34
Alignment explanation
Indices: 36118553--36118629 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
36118543 AAAAGATATT
*
36118553 AAAATAAAATATATAATATAAAATTTTA-TATTAA
1 AAAATAAAATATATAATATAAAATATTATTA-TAA
*
36118587 AAAATAAAATATATAATATATAATATTATTATAA
1 AAAATAAAATATATAATATAAAATATTATTATAA
*
36118621 GAAATAAAA
1 AAAATAAAA
36118630 ATAACATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (34 bp):
AAAATAAAATATATAATATAAAATATTATTATAA
Found at i:36118897 original size:15 final size:15
Alignment explanation
Indices: 36118858--36118898 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
36118848 TTTTCTCTAC
*
36118858 AATCACATTACTTAT
1 AATCACATTATTTAT
*
36118873 AATTACATTATTTAT
1 AATCACATTATTTAT
*
36118888 AATCATATTAT
1 AATCACATTAT
36118899 ATTGTAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (15 bp):
AATCACATTATTTAT
Found at i:36130458 original size:29 final size:33
Alignment explanation
Indices: 36130394--36130458 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
36130384 TAGACTCTAA
36130394 TTTTATTTCTTATGAATTAATTATAATTTATTAT
1 TTTTATTTCTTATGAATTAATTATAATTTA-TAT
*
36130428 TTTTATTT-TTATTAA-TAA-TATAATTTA-AT
1 TTTTATTTCTTATGAATTAATTATAATTTATAT
36130457 TT
1 TT
36130459 AAATTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.13
31 9 0.30
32 3 0.10
33 6 0.20
34 8 0.27
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (33 bp):
TTTTATTTCTTATGAATTAATTATAATTTATAT
Found at i:36132258 original size:3 final size:3
Alignment explanation
Indices: 36132250--36132276 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
36132240 TATTTTATAA
36132250 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
36132277 TAATATTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:36135738 original size:2 final size:2
Alignment explanation
Indices: 36135731--36135807 Score: 129
Period size: 2 Copynumber: 38.5 Consensus size: 2
36135721 ACTTTCTACT
*
36135731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCN T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
36135773 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36135808 TATGCAAAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
1 1 0.01
2 70 0.97
3 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36159336 original size:37 final size:37
Alignment explanation
Indices: 36159281--36159351 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
36159271 AGATAATAGC
* *
36159281 ATTTTCAACTACAGTTCATTTCAGCTTCTTGCTAGGA
1 ATTTTCAACTACAATTCATTCCAGCTTCTTGCTAGGA
36159318 ATTTTCAACTACAATTCATTCCAGCTTCTTGCTA
1 ATTTTCAACTACAATTCATTCCAGCTTCTTGCTA
36159352 TGGTTACAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (37 bp):
ATTTTCAACTACAATTCATTCCAGCTTCTTGCTAGGA
Found at i:36167480 original size:16 final size:17
Alignment explanation
Indices: 36167459--36167491 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
36167449 ATTAATTTTA
36167459 TTTTTTTCC-TTTCCTT
1 TTTTTTTCCTTTTCCTT
36167475 TTTTTTTCCTTTTCCTT
1 TTTTTTTCCTTTTCCTT
36167492 ATTTCCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTCCTTTTCCTT
Found at i:36169759 original size:26 final size:24
Alignment explanation
Indices: 36169721--36169798 Score: 84
Period size: 26 Copynumber: 3.1 Consensus size: 24
36169711 TAGGTAAAAG
* *
36169721 AAATTAAAATAAAATATATAATATAA
1 AAATTATAATAAAA-ATA-AAAATAA
*
36169747 AAATTATATTAAAAATAAAAATATA
1 AAATTATAATAAAAATAAAAATA-A
*
36169772 AGATTATAATAAAAAATAAAAATAA
1 AAATTATAAT-AAAAATAAAAATAA
36169797 AA
1 AA
36169799 TATATGACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.11
25 14 0.32
26 25 0.57
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (24 bp):
AAATTATAATAAAAATAAAAATAA
Found at i:36169777 original size:20 final size:18
Alignment explanation
Indices: 36169726--36169800 Score: 51
Period size: 20 Copynumber: 3.9 Consensus size: 18
36169716 AAAAGAAATT
* *
36169726 AAAATAAAATATATAATATA
1 AAAATAAGAT-TAAAATA-A
* *
36169746 AAAATTATATTAAAAATAA
1 AAAATAAGATT-AAAATAA
*
36169765 AAATATAAGATTATAATAA
1 AAA-ATAAGATTAAAATAA
* *
36169784 AAAATAAAAATAAAATA
1 AAAATAAGATTAAAATA
36169801 TATGACATTA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
18 11 0.25
19 14 0.32
20 19 0.43
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (18 bp):
AAAATAAGATTAAAATAA
Found at i:36171441 original size:13 final size:13
Alignment explanation
Indices: 36171423--36171451 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36171413 CCAAACTAAT
36171423 TTATATATATATA
1 TTATATATATATA
36171436 TTATATATATATA
1 TTATATATATATA
36171449 TTA
1 TTA
36171452 ACACACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATATATATATA
Found at i:36174873 original size:35 final size:35
Alignment explanation
Indices: 36174715--36174875 Score: 126
Period size: 35 Copynumber: 4.6 Consensus size: 35
36174705 TTGTTTCATA
* * * * *
36174715 TGAAATAATGTTTTATTTATTCTAATTATTTTATG
1 TGAAATAGTGTTTCACTTGTTCTAATTATTTTACG
* * * *
36174750 TTAAGTAGTGTTTCACTTGTTCTAGTTATTCTACG
1 TGAAATAGTGTTTCACTTGTTCTAATTATTTTACG
* * * * * * *
36174785 TGAAGTAGCGCTTCATTTATTATAGTTATTTTACG
1 TGAAATAGTGTTTCACTTGTTCTAATTATTTTACG
* ** *
36174820 TAAAATAGCACTTT-ACTTGTTCTAATTATTTTACA
1 TGAAATAG-TGTTTCACTTGTTCTAATTATTTTACG
36174855 TGAAATAGTGTTTCACTTGTT
1 TGAAATAGTGTTTCACTTGTT
36174876 ATAGTAATTC
Statistics
Matches: 95, Mismatches: 29, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
34 3 0.03
35 90 0.95
36 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (35 bp):
TGAAATAGTGTTTCACTTGTTCTAATTATTTTACG
Found at i:36174920 original size:70 final size:69
Alignment explanation
Indices: 36174761--36174921 Score: 171
Period size: 70 Copynumber: 2.3 Consensus size: 69
36174751 TAAGTAGTGT
* * * * *
36174761 TTCACTTGTTCTAGTTATTCTACGTGAAGTAGCGCTTCATTTATTATAGTTATTTTACGTAAAAT
1 TTCACTTGTTCTAGTTATTTTACATGAAATAGCGCTTCACTTATTATAGTAATTTTAC-TAAAAT
*
36174826 AGCAC
65 AACAC
* * * * * *
36174831 TTTACTTGTTCTAATTATTTTACATGAAATAGTGTTTCACTTGTTATAGTAATTCTGTA-TGAAA
1 TTCACTTGTTCTAGTTATTTTACATGAAATAGCGCTTCACTTATTATAGTAATT-T-TACTAAAA
36174895 TAACAC
64 TAACAC
*
36174901 TTCACTTGATCTAGTTATTTT
1 TTCACTTGTTCTAGTTATTTT
36174922 TTATATAATA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
70 71 0.96
71 1 0.01
72 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (69 bp):
TTCACTTGTTCTAGTTATTTTACATGAAATAGCGCTTCACTTATTATAGTAATTTTACTAAAATA
ACAC
Found at i:36175431 original size:21 final size:20
Alignment explanation
Indices: 36175382--36175434 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
36175372 GTAAGAGCAT
36175382 TATTTTAAA-TATTTTTTAA
1 TATTTTAAATTATTTTTTAA
* ** *
36175401 GAAGTAAAATTATTATTTTAA
1 TATTTTAAATTATT-TTTTAA
36175422 TATTTTAAATTAT
1 TATTTTAAATTAT
36175435 ACTTGTAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTTTAAATTATTTTTTAA
Found at i:36184265 original size:16 final size:16
Alignment explanation
Indices: 36184246--36184277 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36184236 CCAGAACGAA
36184246 CATGAATCAGAGAGCT
1 CATGAATCAGAGAGCT
36184262 CATGAATCAGAGAGCT
1 CATGAATCAGAGAGCT
36184278 GGTAGCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (16 bp):
CATGAATCAGAGAGCT
Found at i:36187860 original size:13 final size:12
Alignment explanation
Indices: 36187842--36187869 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36187832 CTGCTACAGC
36187842 AAAAAAAAAAAG
1 AAAAAAAAAAAG
36187854 AAAAAAAAAAAG
1 AAAAAAAAAAAG
36187866 AAAA
1 AAAA
36187870 GCACTAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:36197175 original size:23 final size:23
Alignment explanation
Indices: 36197145--36197192 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
36197135 GCAAACCGTG
36197145 TCGGCTTGCAACATGTGTTGACA
1 TCGGCTTGCAACATGTGTTGACA
36197168 TCGGCTTGCAACATGTGTTGACA
1 TCGGCTTGCAACATGTGTTGACA
36197191 TC
1 TC
36197193 AACCCATCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (23 bp):
TCGGCTTGCAACATGTGTTGACA
Found at i:36203355 original size:67 final size:66
Alignment explanation
Indices: 36203229--36203357 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 66
36203219 TATTGATATG
* *
36203229 AGATCTACGACATTCTACCCATCTATGTTTATATATCCAAAATTCATCCTATTTCTTACTAATAC
1 AGATCTACGACATTCTACCCATCCATGTTTATATATCCAAAATCCATCCTATTTCTTACTAATAC
36203294 A
66 A
** * *
36203295 AGATCTATTACATTCTACCCCATCCATGTTTATATA-CCTAAGATCCA-CCTTATTTTTTACTAA
1 AGATCTACGACATTCTA-CCCATCCATGTTTATATATCC-AAAATCCATCC-TATTTCTTACTAA
36203358 CATGAAATCC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 19 0.35
67 35 0.65
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.39
Consensus pattern (66 bp):
AGATCTACGACATTCTACCCATCCATGTTTATATATCCAAAATCCATCCTATTTCTTACTAATAC
A
Found at i:36203841 original size:27 final size:29
Alignment explanation
Indices: 36203787--36203841 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
36203777 AATCACTATA
* *
36203787 TTTTTCTTCTAATTTGTATGATTCTCTTTT
1 TTTTTCTTC-AATTTATAAGATTCTCTTTT
36203817 TTTTTCTTC-ATTTATAAGATT-TCTT
1 TTTTTCTTCAATTTATAAGATTCTCTT
36203842 ATACTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 10 0.43
30 9 0.39
ACGTcount: A:0.16, C:0.13, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTTTCTTCAATTTATAAGATTCTCTTTT
Found at i:36211362 original size:27 final size:27
Alignment explanation
Indices: 36211307--36211424 Score: 105
Period size: 27 Copynumber: 4.4 Consensus size: 27
36211297 CACTTCTGTG
** *
36211307 CTTGGAACGTCTTTGGG--TTTATACA
1 CTTGGAACACCTTTGGGCATTTATGCA
*
36211332 CTTGGAACACCTTTGGGCATTTATGGA
1 CTTGGAACACCTTTGGGCATTTATGCA
* * * *
36211359 CTTGGAACTCCTCTGGGCATATATGTA
1 CTTGGAACACCTTTGGGCATTTATGCA
* * ** *
36211386 CTTGGAACACCCTTGAGCGCTTCTGCA
1 CTTGGAACACCTTTGGGCATTTATGCA
36211413 CTTGGAACACCT
1 CTTGGAACACCT
36211425 AGGCGCTTCC
Statistics
Matches: 73, Mismatches: 18, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
25 15 0.21
27 58 0.79
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTTGGAACACCTTTGGGCATTTATGCA
Found at i:36218619 original size:12 final size:11
Alignment explanation
Indices: 36218598--36218648 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
36218588 TTCTAGTTGT
*
36218598 TTTTTTTTCTC
1 TTTTTCTTCTC
36218609 TTTTTACTTCTC
1 TTTTT-CTTCTC
* *
36218621 TTCTTCTTTTC
1 TTTTTCTTCTC
36218632 TTTTTCTT-T-
1 TTTTTCTTCTC
36218641 TTTTTCTT
1 TTTTTCTT
36218649 AACCCTCCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 8 0.23
10 1 0.03
11 17 0.49
12 9 0.26
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTCTTCTC
Found at i:36221493 original size:17 final size:17
Alignment explanation
Indices: 36221465--36221498 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36221455 TCTGCATCAG
36221465 GAAATCATTTGCATTCCT
1 GAAATCATTTGC-TTCCT
36221483 GAAATCA-TTGCTTCCT
1 GAAATCATTTGCTTCCT
36221499 ACAGCTTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (17 bp):
GAAATCATTTGCTTCCT
Found at i:36223363 original size:13 final size:13
Alignment explanation
Indices: 36223345--36223369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36223335 TCTTACCAAT
36223345 TTTTTATTTTTTA
1 TTTTTATTTTTTA
36223358 TTTTTATTTTTT
1 TTTTTATTTTTT
36223370 TGGGCTTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:36225893 original size:47 final size:47
Alignment explanation
Indices: 36225819--36225923 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
36225809 GTCTTATGGC
*
36225819 ATGTTTGGTTGGCCATTCTCCTCTATTCCCAAAGAATTTTGATTCTT
1 ATGTTTGGTTGGCCATTCCCCTCTATTCCCAAAGAATTTTGATTCTT
* *
36225866 ATGTTTGGTTGGCCATTCCCCTTTATTCCCAAAGCATTTTGATTCTT
1 ATGTTTGGTTGGCCATTCCCCTCTATTCCCAAAGAATTTTGATTCTT
*
36225913 ATGTATGGTTG
1 ATGTTTGGTTG
36225924 AAAAATAGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (47 bp):
ATGTTTGGTTGGCCATTCCCCTCTATTCCCAAAGAATTTTGATTCTT
Found at i:36227010 original size:15 final size:14
Alignment explanation
Indices: 36226979--36227051 Score: 62
Period size: 15 Copynumber: 5.1 Consensus size: 14
36226969 NNNNNAAATT
36226979 AAATATTAATATTTTA
1 AAATATTAATA--TTA
36226995 AAATATTAATGATTA
1 AAATATTAAT-ATTA
*
36227010 AATTA-TAA-A-TA
1 AAATATTAATATTA
36227021 AAATATTAATATTTA
1 AAATATTAATA-TTA
*
36227036 AATTATTAATTATTA
1 AAATATTAA-TATTA
36227051 A
1 A
36227052 TATTTTAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
11 6 0.12
12 4 0.08
13 1 0.02
14 3 0.06
15 21 0.44
16 12 0.25
17 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (14 bp):
AAATATTAATATTA
Found at i:36227641 original size:26 final size:24
Alignment explanation
Indices: 36227587--36227642 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
36227577 GATATTTCAA
* *
36227587 TAAAATATATGTTATTTTTAAATT
1 TAAAATATACGTTATTTCTAAATT
*
36227611 CAAAATATACGTTATTTGACTAAATT
1 TAAAATATACGTTATTT--CTAAATT
36227637 TAAAAT
1 TAAAAT
36227643 CAGATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 15 0.58
26 11 0.42
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (24 bp):
TAAAATATACGTTATTTCTAAATT
Found at i:36244251 original size:2 final size:2
Alignment explanation
Indices: 36244240--36244321 Score: 116
Period size: 2 Copynumber: 41.5 Consensus size: 2
36244230 ACCCAATGAT
36244240 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA GTA -A TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T-A
*
36244281 TA TN TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36244322 CAATTTGTGT
Statistics
Matches: 73, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
1 3 0.04
2 66 0.90
3 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:36255928 original size:21 final size:20
Alignment explanation
Indices: 36255876--36255928 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
36255866 AAAAAAAGAC
*
36255876 ATAATATTTTAATAAATTTA
1 ATAATATTTTAAAAAATTTA
*
36255896 TTAA-AGTATTTAAAAAATTTAA
1 ATAATA-T-TTTAAAAAATTT-A
36255918 ATAATATTTTA
1 ATAATATTTTA
36255929 TTAATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
19 1 0.04
20 4 0.15
21 15 0.58
22 5 0.19
23 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAATATTTTAAAAAATTTA
Found at i:36258860 original size:2 final size:2
Alignment explanation
Indices: 36258853--36258897 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
36258843 GTCAAGTTAA
36258853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36258895 AT A
1 AT A
36258898 AAACTTAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36263378 original size:2 final size:2
Alignment explanation
Indices: 36263373--36263399 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36263363 TGTGTGTGAA
36263373 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
36263400 TGGACCTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36285751 original size:15 final size:15
Alignment explanation
Indices: 36285731--36285785 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
36285721 ATTTTTCTTA
*
36285731 CAATCACATTACTTG
1 CAATCACATTATTTG
*
36285746 CAATCATATTATTTG
1 CAATCACATTATTTG
*
36285761 CAATCACATTATTTA
1 CAATCACATTATTTG
*
36285776 TAATCACATT
1 CAATCACATT
36285786 GCATTGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (15 bp):
CAATCACATTATTTG
Found at i:36297316 original size:21 final size:20
Alignment explanation
Indices: 36297292--36297331 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
36297282 GCACGACGAA
36297292 TTGAATATT-TAATTCGAAAAT
1 TTGAA-ATTATAATTC-AAAAT
36297313 TTGAAATTATAATTCAAAA
1 TTGAAATTATAATTCAAAA
36297332 CAACTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
TTGAAATTATAATTCAAAAT
Found at i:36306138 original size:20 final size:20
Alignment explanation
Indices: 36306093--36306144 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
36306083 ATTAAAGGGT
36306093 AATTATA-AGA-AT-TATTA
1 AATTATATAGATATATATTA
* *
36306110 TATTATATATATATATATTA
1 AATTATATAGATATATATTA
*
36306130 AATTTTATAGATATA
1 AATTATATAGATATA
36306145 ATGATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 6 0.22
18 2 0.07
19 2 0.07
20 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
AATTATATAGATATATATTA
Found at i:36306986 original size:14 final size:14
Alignment explanation
Indices: 36306967--36307015 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 14
36306957 ATTTGAGGTA
36306967 AAAATAATATTTAT
1 AAAATAATATTTAT
36306981 AAAATAATCATATTA-
1 AAAATAAT-AT-TTAT
36306996 AAAATTTAATATTTAT
1 AAAA--TAATATTTAT
36307012 AAAA
1 AAAA
36307016 ATAAAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 8 0.27
15 9 0.30
16 9 0.30
17 4 0.13
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATAATATTTAT
Found at i:36307029 original size:31 final size:32
Alignment explanation
Indices: 36306971--36307036 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
36306961 GAGGTAAAAA
*
36306971 TAATATTTATAAAATAATCATATTAAAA-ATT
1 TAATATTTATAAAATAATAATATTAAAATATT
36307002 TAATATTTATAAAAATAA-AATCA-TAAAATATT
1 TAATATTTAT-AAAATAATAAT-ATTAAAATATT
36307034 TAA
1 TAA
36307037 AAATATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 17 0.55
32 14 0.45
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (32 bp):
TAATATTTATAAAATAATAATATTAAAATATT
Done.