Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 22 of 132
Found at i:6398863 original size:2 final size:2
Alignment explanation
Indices: 6398856--6398882 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6398846 TATTAATAAC
6398856 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 T
6398883 TTTAAACATC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6400798 original size:16 final size:16
Alignment explanation
Indices: 6400762--6400800 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6400752 AAATTGTATT
*
6400762 TATATTATATTATTTTA
1 TATATT-TATAATTTTA
6400779 -ATATTTATAATTTTA
1 TATATTTATAATTTTA
6400794 TATATTT
1 TATATTT
6400801 TTTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTATAATTTTA
Found at i:6400802 original size:25 final size:23
Alignment explanation
Indices: 6400758--6400823 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
6400748 GAAAAAATTG
* *
6400758 TATTTAT-ATTATAT-TATTTTAA
1 TATTTATAATTTTATATATTTT-T
6400780 TATTTATAATTTTATATATTTTT
1 TATTTATAATTTTATATATTTTT
*
6400803 TATTTATTAAATTTTTTATAT
1 TATTTA-T-AATTTTATATAT
6400824 AGTCATCTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.19
23 12 0.32
24 7 0.19
25 11 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTATAATTTTATATATTTTT
Found at i:6400807 original size:16 final size:16
Alignment explanation
Indices: 6400771--6400821 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
6400761 TTATATTATA
*
6400771 TTATTTTA-ATATTTA
1 TTATTTTATATATTTT
*
6400786 TAATTTTATATATTTT
1 TTATTTTATATATTTT
*
6400802 TTA-TTTATTAAATTTT
1 TTATTTTA-TATATTTT
6400818 TTAT
1 TTAT
6400822 ATAGTCATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTATATATTTT
Found at i:6400810 original size:27 final size:25
Alignment explanation
Indices: 6400767--6400823 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
6400757 GTATTTATAT
6400767 TATATTATTTTAATATTTATAATTTTA
1 TATATTATTTTAATA-TTA-AATTTTA
* *
6400794 TATATT-TTTTATTTATTAAATTTTT
1 TATATTATTTTA-ATATTAAATTTTA
6400819 TATAT
1 TATAT
6400824 AGTCATCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 11 0.41
26 8 0.30
27 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TATATTATTTTAATATTAAATTTTA
Found at i:6405613 original size:24 final size:24
Alignment explanation
Indices: 6405567--6405616 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6405557 GGCTGGCTCC
* *
6405567 TTTTAATATTTTATAATTTTAAAA
1 TTTTAATATTGTATAATTATAAAA
6405591 TTTTAATATTAGTAT-ATTATAAAA
1 TTTTAATATT-GTATAATTATAAAA
6405615 TT
1 TT
6405617 ACATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTAATATTGTATAATTATAAAA
Found at i:6405916 original size:14 final size:14
Alignment explanation
Indices: 6405897--6405935 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6405887 CTTCACTTGT
6405897 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
*
6405911 TTTCTTCCTTTTTC
1 TTTCTTTCTTTTTC
6405925 TTT-TTT-TTTTT
1 TTTCTTTCTTTTT
6405936 TTACATGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 5 0.22
13 2 0.09
14 16 0.70
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:6408348 original size:23 final size:23
Alignment explanation
Indices: 6408305--6408349 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6408295 AAAAAAATTC
**
6408305 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
6408328 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
6408350 ATTCGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:6414613 original size:17 final size:17
Alignment explanation
Indices: 6414593--6414626 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6414583 AAAAAAAATT
*
6414593 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
6414610 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
6414627 TTATTGTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:6415418 original size:17 final size:17
Alignment explanation
Indices: 6415385--6415417 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6415375 AATTCAGTTG
6415385 ATATATTTAAATATTTT
1 ATATATTTAAATATTTT
6415402 ATATA-TTAAATATTTT
1 ATATATTTAAATATTTT
6415418 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTAAATATTTT
Found at i:6415437 original size:12 final size:13
Alignment explanation
Indices: 6415409--6415436 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6415399 TTTATATATT
6415409 AAATATTTTTTAA
1 AAATATTTTTTAA
6415422 AAATATTTTTTAA
1 AAATATTTTTTAA
6415435 AA
1 AA
6415437 TGACAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:6417396 original size:6 final size:6
Alignment explanation
Indices: 6417385--6417409 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6417375 TTTCAGCCGG
6417385 CTGAGC CTGAGC CTGAGC CTGAGC C
1 CTGAGC CTGAGC CTGAGC CTGAGC C
6417410 GCAGCACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.32, T:0.16
Consensus pattern (6 bp):
CTGAGC
Found at i:6426843 original size:20 final size:19
Alignment explanation
Indices: 6426820--6426891 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
6426810 AATTACAAAT
6426820 AAAAATTAAAAATAATTTCC
1 AAAAATTAAAAATAATTT-C
* *
6426840 AAAAATTCAAAATAATTTT
1 AAAAATTAAAAATAATTTC
* *
6426859 TAAAATTTAAAAT-ATTTAC
1 AAAAATTAAAAATAATTT-C
6426878 AAAAATTATAAAAT
1 AAAAATTA-AAAAT
6426892 TTATATTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.09
19 17 0.40
20 22 0.51
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTAAAAATAATTTC
Found at i:6426912 original size:25 final size:27
Alignment explanation
Indices: 6426859--6426915 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 27
6426849 AAATAATTTT
6426859 TAAAATTTAAAATATTTACAAAAATTA
1 TAAAATTTAAAATATTTACAAAAATTA
* *
6426886 TAAAATTT-ATATTTTTA-AAAAATTA
1 TAAAATTTAAAATATTTACAAAAATTA
6426911 TAAAA
1 TAAAA
6426916 AAATTTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 13 0.46
26 7 0.25
27 8 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAAATTTAAAATATTTACAAAAATTA
Found at i:6432428 original size:127 final size:127
Alignment explanation
Indices: 6432142--6432529 Score: 643
Period size: 127 Copynumber: 3.0 Consensus size: 127
6432132 TTTCCAAATA
6432142 TATATACTTTTGTTATAAAGTTGATTTATAAGCTAAAATTATAAAATAATACTTAAATTATATTA
1 TATATACTTTTGTTATAAAGTTGATTTATAAGCTAAAATTATAAAATAATACTTAAATTATATTA
6432207 TTGGCATCTATTTTTTTTTTATCACAATTGGTACCTAAATTATGTCGTTTTCTCAATTTGATT
66 TTGGCATCTA-TTTTTTTTTATCACAATTGGTACCTAAATTATGTCGTTTTCTCAATTTGATT
6432270 TATATACTTTTGTTATAAAGTTGATTTATAAGCTAAAATTATAAAATAATACTTAAATTATATTA
1 TATATACTTTTGTTATAAAGTTGATTTATAAGCTAAAATTATAAAATAATACTTAAATTATATTA
6432335 TTGGCATCTATTTTTTTTTATCACAATTGGTACCTAAATTATGTCGTTTTCTCAATTTGATT
66 TTGGCATCTATTTTTTTTTATCACAATTGGTACCTAAATTATGTCGTTTTCTCAATTTGATT
6432397 TATATACTTTTGTTATAAAGTTGATTTATAAGCTAAAATTATAAAATAATACTTAAATTATATAT
1 TATATACTTTTGTTATAAAGTTGATTTATAAGCTAAAATTATAAAATAATACTTAAA-T-TATA-
* * **
6432462 TTTTTCAAATTGGCATCTA-ATTTTTTTATCACAAGTGGTACCTAAATTATACCGTTTTCTCAAT
63 ---TT---ATTGGCATCTATTTTTTTTTATCACAATTGGTACCTAAATTATGTCGTTTTCTCAAT
6432526 TTGA
122 TTGA
6432530 CACCTAAACA
Statistics
Matches: 247, Mismatches: 4, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
127 109 0.44
128 76 0.31
129 4 0.02
133 2 0.01
135 45 0.18
136 11 0.04
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.47
Consensus pattern (127 bp):
TATATACTTTTGTTATAAAGTTGATTTATAAGCTAAAATTATAAAATAATACTTAAATTATATTA
TTGGCATCTATTTTTTTTTATCACAATTGGTACCTAAATTATGTCGTTTTCTCAATTTGATT
Found at i:6456744 original size:2 final size:2
Alignment explanation
Indices: 6456737--6456761 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6456727 TTTTAAAATC
6456737 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6456762 GATTTTGGAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6457274 original size:28 final size:28
Alignment explanation
Indices: 6457243--6457303 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
6457233 AAAACGGGAC
*
6457243 TTTTGGA-TACCCGGGGGCAAAATGGTAA
1 TTTTGGACT-CCCGGGGACAAAATGGTAA
* * *
6457271 TTTTAGACTCTCGGGGATAAAATGGTAA
1 TTTTGGACTCCCGGGGACAAAATGGTAA
6457299 TTTTG
1 TTTTG
6457304 AGAAAATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (28 bp):
TTTTGGACTCCCGGGGACAAAATGGTAA
Found at i:6457444 original size:29 final size:29
Alignment explanation
Indices: 6457406--6457632 Score: 190
Period size: 29 Copynumber: 7.7 Consensus size: 29
6457396 CTGGGGGTAC
* * *
6457406 AATGGTAA-TTTTGGAAGTGTCGTGGTCAAA
1 AATGG-AATTTTTGGAAGTTTTGGGGT-AAA
* * * *
6457436 AATGGAATTTCTGAAAGTTTGGGGGCAAA
1 AATGGAATTTTTGGAAGTTTTGGGGTAAA
* *
6457465 AATGTAATTTTAGGAAGTTTTGAGGGT-AA
1 AATGGAATTTTTGGAAGTTTTG-GGGTAAA
* * *
6457494 AATGTAATTTTTGAAAGTTTTAGGGTCAAA
1 AATGGAATTTTTGGAAGTTTTGGGGT-AAA
*
6457524 AATGGAATTTTTGGAAGTTTAGGGGTAAA
1 AATGGAATTTTTGGAAGTTTTGGGGTAAA
* * * *
6457553 AATGTAATTTTTAGAAGTTTCAGGGATAAA
1 AATGGAATTTTTGGAAGTTT-TGGGGTAAA
**
6457583 AATATAATTTTTGGAAG-TTTGGGGTTAAA
1 AATGGAATTTTTGGAAGTTTTGGGG-TAAA
*
6457612 AATGGAATTTTGGAGAAGTTT
1 AATGGAATTTTTG-GAAGTTT
6457633 GAAGGTCAAA
Statistics
Matches: 160, Mismatches: 29, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
28 7 0.04
29 80 0.50
30 71 0.44
31 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
AATGGAATTTTTGGAAGTTTTGGGGTAAA
Found at i:6457521 original size:88 final size:88
Alignment explanation
Indices: 6457429--6457621 Score: 257
Period size: 88 Copynumber: 2.2 Consensus size: 88
6457419 GAAGTGTCGT
* *
6457429 GGTCAAAAATGGAATTTCTGAAAGTTTGGGGGCAAAAATGTAA-TTTTAGGAAGTTTTGAGGG-T
1 GGTCAAAAATGGAATTTCTGAAAGTTTAGGGGCAAAAATGTAATTTTTA-GAAG-TTTCAGGGAT
*
6457492 -AAAATGTAATTTTTGAAAGTTTTAG
64 AAAAATATAATTTTTGAAAG-TTTAG
* * *
6457517 GGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTAGAAGTTTCAGGGATAA
1 GGTCAAAAATGGAATTTCTGAAAGTTTAGGGGCAAAAATGTAATTTTTAGAAGTTTCAGGGATAA
* *
6457582 AAATATAATTTTTGGAAGTTTGG
66 AAATATAATTTTTGAAAGTTTAG
*
6457605 GGTTAAAAATGGAATTT
1 GGTCAAAAATGGAATTT
6457622 TGGAGAAGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
87 7 0.08
88 64 0.69
89 22 0.24
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (88 bp):
GGTCAAAAATGGAATTTCTGAAAGTTTAGGGGCAAAAATGTAATTTTTAGAAGTTTCAGGGATAA
AAATATAATTTTTGAAAGTTTAG
Found at i:6457533 original size:59 final size:60
Alignment explanation
Indices: 6457410--6457643 Score: 232
Period size: 59 Copynumber: 4.0 Consensus size: 60
6457400 GGGTACAATG
* * * * * *
6457410 GTAA-TTTTGGAAGTGTCGTGGTCAAAAATGGAATTTCTGA-AAG-TTTGGGGGCAAAAAT
1 GTAATTTTTGGAAGTTTTGGGGT-AAAAATGGAATTTTTGAGAAGTTTTAGGGTCAAAAAT
* *
6457468 GTAATTTTAGGAAGTTTTGAGGGT-AAAATGTAATTTTTGA-AAGTTTTAGGGTCAAAAAT
1 GTAATTTTTGGAAGTTTTG-GGGTAAAAATGGAATTTTTGAGAAGTTTTAGGGTCAAAAAT
* * * *
6457527 GGAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTT-AGAAGTTTCAGGGAT-AAAAAT
1 GTAATTTTTGGAAGTTTTGGGGTAAAAATGGAATTTTTGAGAAGTTTTAGGG-TCAAAAAT
* * * *
6457586 ATAATTTTTGGAAG-TTTGGGGTTAAAAATGGAATTTTGGAGAAGTTTGAAGGTCAAAA
1 GTAATTTTTGGAAGTTTTGGGG-TAAAAATGGAATTTTTGAGAAGTTTTAGGGTCAAAA
6457644 TATGATTTAT
Statistics
Matches: 148, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
58 32 0.22
59 97 0.66
60 19 0.13
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (60 bp):
GTAATTTTTGGAAGTTTTGGGGTAAAAATGGAATTTTTGAGAAGTTTTAGGGTCAAAAAT
Found at i:6458190 original size:12 final size:11
Alignment explanation
Indices: 6458162--6458188 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6458152 CCCTAGCCCC
6458162 TTTTTATTCAT
1 TTTTTATTCAT
6458173 TTTTTATTCAT
1 TTTTTATTCAT
6458184 TTTTT
1 TTTTT
6458189 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTATTCAT
Found at i:6458977 original size:17 final size:17
Alignment explanation
Indices: 6458955--6459063 Score: 155
Period size: 17 Copynumber: 6.4 Consensus size: 17
6458945 TGGACATTAT
*
6458955 TTTAAATTTGAAATAAA
1 TTTAAATTTAAAATAAA
* *
6458972 TTTAAATTCAAATTAAA
1 TTTAAATTTAAAATAAA
6458989 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
6459006 CTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
6459023 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
*
6459041 TTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
6459058 TTTAAA
1 TTTAAA
6459064 ATGAGTTTGG
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
17 65 0.81
18 15 0.19
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:6459715 original size:14 final size:15
Alignment explanation
Indices: 6459696--6459727 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
6459686 GTTATAAGTA
6459696 TTTTTAAAATTAT-T
1 TTTTTAAAATTATAT
6459710 TTTTTAAAATTATAT
1 TTTTTAAAATTATAT
6459725 TTT
1 TTT
6459728 ATTTAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTAAAATTATAT
Found at i:6460428 original size:20 final size:20
Alignment explanation
Indices: 6460405--6460451 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6460395 TCAAAAGTAT
*
6460405 TTTTGGGACAAAAAAAGCAC
1 TTTTGAGACAAAAAAAGCAC
* * *
6460425 TTTTGAGATAAAAGAAGTAC
1 TTTTGAGACAAAAAAAGCAC
6460445 TTTTGAG
1 TTTTGAG
6460452 TTTTTCAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (20 bp):
TTTTGAGACAAAAAAAGCAC
Found at i:6460560 original size:19 final size:17
Alignment explanation
Indices: 6460530--6460564 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
6460520 GAGAATTTTG
6460530 ATTTTTTTCTCAAAAGT
1 ATTTTTTTCTCAAAAGT
6460547 ATTTTTTTGACTCAAAAG
1 ATTTTTTT--CTCAAAAG
6460565 CAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (17 bp):
ATTTTTTTCTCAAAAGT
Found at i:6466103 original size:3 final size:3
Alignment explanation
Indices: 6466078--6466135 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
6466068 TCATTTCGCC
* *
6466078 ATT A-T ATT GTT ACT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6466124 ATT ATT ATT ATT
1 ATT ATT ATT ATT
6466136 GTTGTTGTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6466140 original size:3 final size:3
Alignment explanation
Indices: 6466134--6466178 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
6466124 ATTATTATTA
6466134 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
6466179 AAGCCCAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:6466227 original size:11 final size:11
Alignment explanation
Indices: 6466211--6466265 Score: 69
Period size: 11 Copynumber: 4.9 Consensus size: 11
6466201 ACCAAGCCAT
6466211 TTTAAATTTAA
1 TTTAAATTTAA
6466222 TTTAAATTTAAA
1 TTTAAATTT-AA
6466234 TTT-AATTTAAA
1 TTTAAATTT-AA
6466245 TTTAAATTT-A
1 TTTAAATTTAA
6466255 TTATAAATTTA
1 TT-TAAATTTA
6466266 TAAATAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.08
11 27 0.68
12 10 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:6466229 original size:6 final size:6
Alignment explanation
Indices: 6466211--6466254 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
6466201 ACCAAGCCAT
6466211 TTTAAA TTT-AA TTTAAA TTTAAA TTT-AA TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
6466255 TTATAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:6466233 original size:17 final size:17
Alignment explanation
Indices: 6466211--6466265 Score: 94
Period size: 17 Copynumber: 3.2 Consensus size: 17
6466201 ACCAAGCCAT
6466211 TTTAAATTTAATTTAAA
1 TTTAAATTTAATTTAAA
6466228 TTTAAATTTAATTTAAA
1 TTTAAATTTAATTTAAA
6466245 TTTAAATTT-ATTATAAA
1 TTTAAATTTAATT-TAAA
6466262 TTTA
1 TTTA
6466266 TAAATAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 3 0.08
17 34 0.92
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:6468251 original size:29 final size:28
Alignment explanation
Indices: 6468208--6468312 Score: 84
Period size: 29 Copynumber: 3.5 Consensus size: 28
6468198 GAAGGTCCCT
* *
6468208 AAACTATTTAAAAATTGTAATTTGACCCCA
1 AAACT-TTCAAAAATT-TATTTTGACCCCA
* * *
6468238 AAACTTTCAAAAATTACATTTTTACCCCT
1 AAACTTTCAAAAATT-TATTTTGACCCCA
* *
6468267 AAACTTCCAAAAATTTCATTTTTGACCCAAA
1 AAACTTTCAAAAATTT-A-TTTTGACCC-CA
*
6468298 AAACTTGCAAAAATT
1 AAACTTTCAAAAATT
6468313 ACATTTTTGC
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
29 33 0.55
30 13 0.22
31 14 0.23
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (28 bp):
AAACTTTCAAAAATTTATTTTGACCCCA
Found at i:6468309 original size:31 final size:30
Alignment explanation
Indices: 6468228--6468348 Score: 156
Period size: 29 Copynumber: 4.1 Consensus size: 30
6468218 AAAATTGTAA
*
6468228 TTTGACCCCAAAACTTTCAAAAATTACATT
1 TTTGACCCCAAAACTTCCAAAAATTACATT
* *
6468258 TTT-ACCCCTAAACTTCCAAAAATTTCATT
1 TTTGACCCCAAAACTTCCAAAAATTACATT
* *
6468287 TTTGACCCAAAAAACTTGCAAAAATTACATT
1 TTTGACCC-CAAAACTTCCAAAAATTACATT
**
6468318 TTTG-CCCCTGAACTTCCAAAAATTACATT
1 TTTGACCCCAAAACTTCCAAAAATTACATT
6468347 TT
1 TT
6468349 AACCCTGAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
29 46 0.59
30 10 0.13
31 22 0.28
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
TTTGACCCCAAAACTTCCAAAAATTACATT
Found at i:6468314 original size:60 final size:59
Alignment explanation
Indices: 6468228--6468348 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 59
6468218 AAAATTGTAA
* * *
6468228 TTTGACCCCAAAACTTTCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTTCATT
1 TTTGACCCAAAAACTTGCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATT
* *
6468287 TTTGACCCAAAAAACTTGCAAAAATTACATTTTTGCCCCTGAACTTCCAAAAATTACATT
1 TTTGACCC-AAAAACTTGCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATT
6468347 TT
1 TT
6468349 AACCCTGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 8 0.14
60 48 0.86
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (59 bp):
TTTGACCCAAAAACTTGCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATT
Found at i:6468493 original size:146 final size:146
Alignment explanation
Indices: 6468331--6468685 Score: 385
Period size: 146 Copynumber: 2.4 Consensus size: 146
6468321 GCCCCTGAAC
* * * * *
6468331 TTCCAAAAATTA-CATTTTAACCCTGAAACTCTCGAAATTACCATTTTACCCCCGAGTATCCAAA
1 TTCCCAAAATTACCATTTTAACCCTGAAAGTC-CAAAATTATCATTTTACCCCCGGGTATCCAAA
* * * *
6468395 AAGTCCC-GTTTTAATCTCGATTCTTTCGAAA-ATTACCGTTTTACCCCCGATCATCTAAAATAT
65 AAGTCCCAGTTTTAATCCCGATTCTTTCGAAACATTACCATTTTACCCCCAAGCATCTAAAATAT
*
6468458 TATTTTTAACTCCAAAAA
130 CATTTTTAAC-CCAAAAA
* * * ** * *
6468476 TTCCCAAAATTACCATTTTACCCCCGAGAGTCCAAAATTATCATTTTACCATCGGGCATCCAGAA
1 TTCCCAAAATTACCATTTTAACCCTGAAAGTCCAAAATTATCATTTTACCCCCGGGTATCCAAAA
* * * ** * *
6468541 AGTCCCATTTTTTATCCCGATTCTTTCGAAACATTACCATTTTATCCTTAAGCGTCTAAAATGTC
66 AGTCCCAGTTTTAATCCCGATTCTTTCGAAACATTACCATTTTACCCCCAAGCATCTAAAATATC
* *
6468606 ATTTTTAACCCGAAAT
131 ATTTTTAACCCAAAAA
* ** *
6468622 TTTCCAAAATTACCATTTT-GTCCTCGAAAGTCCAAAATTATCATTTTATCCCCGGGTATCCAAA
1 TTCCCAAAATTACCATTTTAACCCT-GAAAGTCCAAAATTATCATTTTACCCCCGGGTATCCAAA
6468686 GGTCTCGTTT
Statistics
Matches: 170, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
145 45 0.26
146 92 0.54
147 33 0.19
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (146 bp):
TTCCCAAAATTACCATTTTAACCCTGAAAGTCCAAAATTATCATTTTACCCCCGGGTATCCAAAA
AGTCCCAGTTTTAATCCCGATTCTTTCGAAACATTACCATTTTACCCCCAAGCATCTAAAATATC
ATTTTTAACCCAAAAA
Found at i:6472349 original size:4 final size:4
Alignment explanation
Indices: 6472340--6472367 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
6472330 ATACCTTTCT
6472340 ATTC ATTC ATTC ATTC ATTC ATTC ATTC
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC
6472368 GCATCACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTC
Found at i:6480569 original size:92 final size:92
Alignment explanation
Indices: 6480412--6481421 Score: 1795
Period size: 92 Copynumber: 11.0 Consensus size: 92
6480402 GTGGATCAGA
*
6480412 TCAAATGTCAATCCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
*
6480477 AAGTTATAGTAAGAACAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
*
6480504 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCCTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
* *
6480569 AAATTATAGTTAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
6480596 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
*
6480661 AAGTTATATTAAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
6480688 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
6480753 AAGTTATAGTAAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
6480780 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
*
6480845 AAGTTATTGTAAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
* * * *
6480872 TTAAATGTTAATTCTTATCCTCTTGAAGTTATAATAAAGTTAGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
6480937 AAGTTATAGTAAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
6480964 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
6481029 AAGTTATAGTAAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
* * *
6481056 TCAAATGTCAATTCTTATCATCTTGAAGTTATAGTAAAGTTGGATAATAAACTTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
6481121 AAGTTATAGTAAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
6481148 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
6481213 AAGTTATAGTAAGAGCAAGATGAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
*
6481240 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTCGGATAATGAACCTTTATCTCTCTG
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
*
6481305 AAGTTATAGTAAGAGCAAGATTAAGTT
66 AAGTTATAGTAAGAGCAAGATGAAGTT
* ** * *
6481332 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTCGGATAACAAATCTTTATCTCTCTA
1 TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
* * * *
6481397 AAGTTGTAGAAAGAGTAAGAAGAAG
66 AAGTTATAGTAAGAGCAAGATGAAG
6481422 CCTAGACGTC
Statistics
Matches: 881, Mismatches: 37, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 881 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (92 bp):
TCAAATGTCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAACCTTTATCTCTCTG
AAGTTATAGTAAGAGCAAGATGAAGTT
Found at i:6481699 original size:17 final size:17
Alignment explanation
Indices: 6481676--6481733 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
6481666 ACCAAGCCGT
6481676 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
6481693 ATTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
6481710 TTTAAATTTA--TTAAA
1 TTTAAATTTATTTTAAA
6481725 TTTAAATTT
1 TTTAAATTT
6481734 TGGATTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.36
17 25 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:6481713 original size:6 final size:6
Alignment explanation
Indices: 6481676--6481733 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
6481666 ACCAAGCCGT
* * *
6481676 TTTAAA TTT-AT TTTAAA ATTAAA TTT-AT TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6481720 -TTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTT
6481734 TGGATTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
3 2 0.05
4 1 0.02
5 9 0.22
6 29 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:6481740 original size:28 final size:26
Alignment explanation
Indices: 6481693--6481769 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 26
6481683 TTATTTTAAA
6481693 ATTAAATTTATTTTAAATTTAAATTT
1 ATTAAATTTATTTTAAATTTAAATTT
** *
6481719 ATTAAATTTAAATTTTGGATTTAATTTT
1 ATTAAATTT--ATTTTAAATTTAAATTT
* *
6481747 AATTTAAAATTATTATAAATTTA
1 -A-TTAAATTTATTTTAAATTTA
6481770 TAAATAAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 9 0.22
28 23 0.57
29 1 0.03
30 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (26 bp):
ATTAAATTTATTTTAAATTTAAATTT
Found at i:6483731 original size:30 final size:30
Alignment explanation
Indices: 6483694--6483948 Score: 179
Period size: 29 Copynumber: 8.6 Consensus size: 30
6483684 TAAGCTGTCT
* *
6483694 AAAAATTATAATTTGACCCCAAAACTTCTC
1 AAAAATTACATTTTGACCCCAAAACTTCTC
* * * *
6483724 TAAAATTACATTTTCGATCTCGAAACTT-TC
1 AAAAATTACATTTT-GACCCCAAAACTTCTC
* * * *
6483754 AAAAATTATATTTTTACTCCTAAACTTCT-
1 AAAAATTACATTTTGACCCCAAAACTTCTC
*
6483783 AAAAATTACATTTTAACCCCAAAACTTC-C
1 AAAAATTACATTTTGACCCCAAAACTTCTC
* * **
6483812 AAAAATTACATTTTTACCTCTGAACTTC-C
1 AAAAATTACATTTTGACCCCAAAACTTCTC
* ** *
6483841 AAAAATTCCATTTTTGACCAAAAAAACTT-GC
1 AAAAATTACA-TTTTGACC-CCAAAACTTCTC
*
6483872 AAAAATTACATTTTTG-CCCCTAAACTTC-C
1 AAAAATTACA-TTTTGACCCCAAAACTTCTC
* *
6483901 AAAAATTATATTTTTGACCCCGAAAC-TC-C
1 AAAAATTACA-TTTTGACCCCAAAACTTCTC
*
6483930 CAAAATTACCATTTT-ACCC
1 AAAAATTA-CATTTTGACCC
6483949 TCGGATATCC
Statistics
Matches: 181, Mismatches: 35, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
28 4 0.02
29 102 0.56
30 44 0.24
31 31 0.17
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAAATTACATTTTGACCCCAAAACTTCTC
Found at i:6483779 original size:60 final size:58
Alignment explanation
Indices: 6483694--6483948 Score: 226
Period size: 60 Copynumber: 4.3 Consensus size: 58
6483684 TAAGCTGTCT
* * * * * * * * *
6483694 AAAAATTATAATTTGACCCCAAAACTTCTCTAAAATTACATTTTCGATCTCGAAACTTTC
1 AAAAATTACATTTTTACCCCTAAACTTC-CAAAAATTACATTTT-GACCACAAAACTTCC
* * * * *
6483754 AAAAATTATATTTTTACTCCTAAACTTCTAAAAATTACATTTTAACCCCAAAACTTCC
1 AAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTGACCACAAAACTTCC
* * * * *
6483812 AAAAATTACATTTTTACCTCTGAACTTCCAAAAATTCCATTTTTGACCAAAAAAACTTGC
1 AAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACA-TTTTGACC-ACAAAACTTCC
* * * *
6483872 AAAAATTACATTTTTGCCCCTAAACTTCCAAAAATTATATTTTTGACCCCGAAAC-TCC
1 AAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACA-TTTTGACCACAAAACTTCC
*
6483930 CAAAATTACCA-TTTTACCC
1 AAAAATTA-CATTTTTACCC
6483949 TCGGATATCC
Statistics
Matches: 160, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
58 59 0.37
59 26 0.16
60 75 0.47
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.34
Consensus pattern (58 bp):
AAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTGACCACAAAACTTCC
Found at i:6483868 original size:89 final size:87
Alignment explanation
Indices: 6483691--6483944 Score: 246
Period size: 89 Copynumber: 2.9 Consensus size: 87
6483681 CCCTAAGCTG
* * * * * * *
6483691 TCTAAAAATTATAATTTGACCCCAAAACTTCTCTAAAATTACATTTTCGATCTCGAAACTTTCAA
1 TCTAAAAATTACATTTTAACCCCAAAACTTC-CAAAAATTACATTTT-TACCTCGAAACTTCCAA
* **
6483756 AAATTATATTTTTACTCCTAAACT
64 AAATTACATTTTTACTCAAAAACT
6483780 TCTAAAAATTACATTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCTCTG-AACTTCCAAA
1 TCTAAAAATTACATTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCTC-GAAACTTCCAAA
*
6483844 AATTCCATTTTTGAC-CAAAAAAACT
65 AATTACATTTTT-ACTC--AAAAACT
** * * * *
6483869 TGC-AAAAATTACATTTTTGCCCCTAAACTTCCAAAAATTATATTTTTGACCCCGAAAC-TCCCA
1 T-CTAAAAATTACATTTTAACCCCAAAACTTCCAAAAATTACATTTTT-ACCTCGAAACTTCCAA
6483932 AAATTACCATTTT
64 AAATTA-CATTTT
6483945 ACCCTCGGAT
Statistics
Matches: 139, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
87 24 0.17
88 17 0.12
89 84 0.60
90 14 0.10
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.35
Consensus pattern (87 bp):
TCTAAAAATTACATTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCTCGAAACTTCCAAAA
ATTACATTTTTACTCAAAAACT
Found at i:6483960 original size:118 final size:117
Alignment explanation
Indices: 6483746--6483963 Score: 280
Period size: 118 Copynumber: 1.8 Consensus size: 117
6483736 TTCGATCTCG
* * * *
6483746 AAACTTTCAAAAATTATATTTTTACTCCTAAACTTCTAAAAATTACATTTTAACCCCAAAACTTC
1 AAACTTGCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTAACCCCAAAACTTC
*
6483811 CAAAAATTACATTTTTACCTCTGAACTTCCAAAAATTCCATTTTTGACCAAAA
66 CAAAAATTACATTTTTACCTCGGAAC-TCCAAAAATTCCATTTTTGACCAAAA
* * * *
6483864 AAACTTGCAAAAATTACATTTTTGCCCCTAAACTTCCAAAAATTATATTTTTGACCCCGAAAC-T
1 AAACTTGCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACA-TTTTAACCCCAAAACTT
*
6483928 CCCAAAATTACCA-TTTTACCCTCGGATA-TCCAAAAA
65 CCAAAAATTA-CATTTTTA-CCTCGGA-ACTCCAAAAA
6483964 GTCCCGTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
118 64 0.74
119 21 0.24
120 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (117 bp):
AAACTTGCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTAACCCCAAAACTTC
CAAAAATTACATTTTTACCTCGGAACTCCAAAAATTCCATTTTTGACCAAAA
Found at i:6484077 original size:28 final size:28
Alignment explanation
Indices: 6484046--6484107 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6484036 CCAAAATTTC
* * *
6484046 CCAAAATTACCGTTTTGCCCTTGAG-AGT
1 CCAAAATTACCATTTTACCCTCGAGCA-T
6484074 CCAAAATTACCATTTTACCCTCGAGCAT
1 CCAAAATTACCATTTTACCCTCGAGCAT
6484102 CCAAAA
1 CCAAAA
6484108 AGTCCCGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCTCGAGCAT
Found at i:6484084 original size:145 final size:145
Alignment explanation
Indices: 6483929--6484251 Score: 413
Period size: 145 Copynumber: 2.2 Consensus size: 145
6483919 CCCGAAACTC
*
6483929 CCAAAATTACCATTTTACCCTCGGATATCCAAAAAGTCCCG-TTTTGATCCCGATTCTTTCGAAA
1 CCAAAATTACCATTTTACCCTCGGATATCCAAAAAGTCCCGTTTTTGATCCCGATTCTTCCGAAA
* *
6483993 -ATTACCATTTTACCCTCGATCA-TCTAAAATATTATTTTTAACTCCAAAATTTCCCAAAATTAC
66 CATTACCATTTTACCCT-GAACAGTCTAAAATATCATTTTTAACT-CAAAATTT-CCAAAATTAC
* ** *
6484056 CGTTTT-GCCCTTGAGAGT
128 CATTTTAGCCC-CAAAAGT
* *
6484074 CCAAAATTACCATTTTACCCTC-GAGCATCCAAAAAGTCCCGTTTTTTATCCCGATTCTTCCGAA
1 CCAAAATTACCATTTTACCCTCGGA-TATCCAAAAAGTCCCGTTTTTGATCCCGATTCTTCCGAA
* * * * *
6484138 ACATTACCATTTTACCCTTAAGAGTCTAAAATGTCATTTTTAACTCGAAATTTTCAAAATTACCA
65 ACATTACCATTTTACCCTGAACAGTCTAAAATATCATTTTTAACTCAAAATTTCCAAAATTACCA
*
6484203 TTTTATCCCCAAAAGT
130 TTTTAGCCCCAAAAGT
* *
6484219 CCAAAATTACCATTTTACTCTCGGGTATCCAAA
1 CCAAAATTACCATTTTACCCTCGGATATCCAAA
6484252 GGTCCCGATT
Statistics
Matches: 154, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
144 2 0.01
145 83 0.54
146 34 0.22
147 35 0.23
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (145 bp):
CCAAAATTACCATTTTACCCTCGGATATCCAAAAAGTCCCGTTTTTGATCCCGATTCTTCCGAAA
CATTACCATTTTACCCTGAACAGTCTAAAATATCATTTTTAACTCAAAATTTCCAAAATTACCAT
TTTAGCCCCAAAAGT
Found at i:6485685 original size:12 final size:12
Alignment explanation
Indices: 6485668--6485694 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6485658 GGTTGTGACA
6485668 ATACATATATAT
1 ATACATATATAT
6485680 ATACATATATAT
1 ATACATATATAT
6485692 ATA
1 ATA
6485695 TATTATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATACATATATAT
Found at i:6488320 original size:14 final size:14
Alignment explanation
Indices: 6488301--6488346 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
6488291 CAACAATCCT
6488301 TAACAACCTTCAGC
1 TAACAACCTTCAGC
*
6488315 TAACAA-CTATCA-T
1 TAACAACCT-TCAGC
6488328 TAACAACCTTCAGC
1 TAACAACCTTCAGC
6488342 TAACA
1 TAACA
6488347 CTATTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.24
Consensus pattern (14 bp):
TAACAACCTTCAGC
Found at i:6488330 original size:27 final size:27
Alignment explanation
Indices: 6488287--6488350 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
6488277 TCTGAACAAA
* *
6488287 CTAACAACAATCCTTAACAACCTTCAG
1 CTAACAACTATCATTAACAACCTTCAG
6488314 CTAACAACTATCATTAACAACCTTCAG
1 CTAACAACTATCATTAACAACCTTCAG
6488341 CTAAC-ACTAT
1 CTAACAACTAT
6488351 TTACATATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.14
27 30 0.86
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.25
Consensus pattern (27 bp):
CTAACAACTATCATTAACAACCTTCAG
Found at i:6493284 original size:13 final size:13
Alignment explanation
Indices: 6493268--6493314 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6493258 CTGAACAAAC
6493268 TAACAACTATCCT
1 TAACAACTATCCT
* *
6493281 TAACAACCTTTAGC-
1 TAACAA-CTAT-CCT
6493295 TAACAACTATCCT
1 TAACAACTATCCT
6493308 TAACAAC
1 TAACAAC
6493315 CTTCAGCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 1 0.04
13 16 0.59
14 9 0.33
15 1 0.04
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (13 bp):
TAACAACTATCCT
Found at i:6493305 original size:27 final size:27
Alignment explanation
Indices: 6493267--6493330 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
6493257 TCTGAACAAA
*
6493267 CTAACAACTATCCTTAACAACCTTTAG
1 CTAACAACTATCCTTAACAACCTTCAG
6493294 CTAACAACTATCCTTAACAACCTTCAG
1 CTAACAACTATCCTTAACAACCTTCAG
6493321 CTAAC-ACTAT
1 CTAACAACTAT
6493331 TTACATATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.28
Consensus pattern (27 bp):
CTAACAACTATCCTTAACAACCTTCAG
Found at i:6495403 original size:2 final size:2
Alignment explanation
Indices: 6495396--6495421 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6495386 GTTTTTAAAA
6495396 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
6495422 TTAACATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6495520 original size:16 final size:16
Alignment explanation
Indices: 6495501--6495534 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6495491 ATTGATTAAA
6495501 AAAATAAATTT-AAAAT
1 AAAA-AAATTTGAAAAT
6495517 AAAAAAATTTGAAAAT
1 AAAAAAATTTGAAAAT
6495533 AA
1 AA
6495535 TATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAAAATTTGAAAAT
Found at i:6495526 original size:15 final size:15
Alignment explanation
Indices: 6495496--6495534 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6495486 GAGTTATTGA
*
6495496 TTAAAA-AAATAAAT
1 TTAAAATAAAAAAAT
6495510 TTAAAATAAAAAAAT
1 TTAAAATAAAAAAAT
6495525 TTGAAAATAA
1 TT-AAAATAA
6495535 TATATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 9 0.41
16 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TTAAAATAAAAAAAT
Found at i:6495563 original size:31 final size:29
Alignment explanation
Indices: 6495495--6495564 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
6495485 AGAGTTATTG
*
6495495 ATTAAAAAAATAAATTTAAAATAAAAAAA
1 ATTAAAATAATAAATTTAAAATAAAAAAA
* * *
6495524 TTTGAAAATAATATATTTATTAATTAAAAAAA
1 ATT-AAAATAATAAATTTA--AAATAAAAAAA
6495556 ATTAAAATA
1 ATTAAAATA
6495565 GCATGAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 2 0.06
30 13 0.39
31 6 0.18
32 12 0.36
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (29 bp):
ATTAAAATAATAAATTTAAAATAAAAAAA
Found at i:6499574 original size:16 final size:17
Alignment explanation
Indices: 6499540--6499581 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6499530 GATGTAGATG
6499540 AAAAATTGTTTTATGTT
1 AAAAATTGTTTTATGTT
* *
6499557 AAAAA-TGTTTTCTTTT
1 AAAAATTGTTTTATGTT
*
6499573 AAAATTTGT
1 AAAAATTGT
6499582 CTAATAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (17 bp):
AAAAATTGTTTTATGTT
Found at i:6513941 original size:17 final size:17
Alignment explanation
Indices: 6513919--6513952 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6513909 CTAAGAACTT
6513919 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
6513936 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
6513953 GTATCAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:6521994 original size:27 final size:27
Alignment explanation
Indices: 6521964--6522017 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6521954 TATTTTAGGG
6521964 ATATTTTAGTATGATTAGAACTTTAAT
1 ATATTTTAGTATGATTAGAACTTTAAT
6521991 ATATTTTAGTATGATTAGAACTTTAAT
1 ATATTTTAGTATGATTAGAACTTTAAT
6522018 CTAAGTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (27 bp):
ATATTTTAGTATGATTAGAACTTTAAT
Found at i:6524668 original size:44 final size:46
Alignment explanation
Indices: 6524584--6524673 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 46
6524574 GCTGTAATAA
*
6524584 AATAGAGCTGTAATCAGTAATTCAGTTGTTTGGTTAAATGGAATGG
1 AATAGAGCTGTAATCAATAATTCAGTTGTTTGGTTAAATGGAATGG
* *
6524630 AATAGAGCTGTAAT-AAT-ATTC-TTGTGTTTGGTTGAATGGAATGG
1 AATAGAGCTGTAATCAATAATTCAGT-TGTTTGGTTAAATGGAATGG
6524674 TACTGTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.03
44 23 0.57
45 2 0.05
46 14 0.35
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (46 bp):
AATAGAGCTGTAATCAATAATTCAGTTGTTTGGTTAAATGGAATGG
Found at i:6529569 original size:195 final size:194
Alignment explanation
Indices: 6529172--6529619 Score: 496
Period size: 195 Copynumber: 2.3 Consensus size: 194
6529162 GAAACCGGCG
* * * *
6529172 CGATGGCTGGGGTACCACATATGTTACGAGTCCTCGATTA-CTCGTGTGAGCAGCATCGTGAGTC
1 CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGA-TAGCTCGTGTGAGCAGCATCGTGACTC
* *
6529236 AAGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGTATAAG
65 AAGAAATGAGAAAAGAATCCAAGAATAGATTACAGGCCCTACGATGGCTGAGATCTATGTATAAG
* * * * *
6529301 TACATATTCTAGACAGGTCGTGTGAGCAGCATTGTTAGGGAACAGTTATATGCATAGATATCGTA
130 -ACATACTCTAGACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTATATACATAGACATCGTA
6529366 T
194 T
* * * **
6529367 CGATGGTTGAGGTGCCGCATATGTTGCGAGTCCTCGATAGCTCGTGTTAGCAGCATCGTGACTTG
1 CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTCA
* * * * * * * * *
6529432 GGAAA-GAGATATGGAT-CATA-AATAGATTATAGGCCCTACGATGGTTGGGA-CTATGCTTTAC
66 AGAAATGAGAAAAGAATCCA-AGAATAGATTACAGGCCCTACGATGGCTGAGATCTATG-TATAA
* * *
6529493 G-CATACTCTCGACAGCTCGTGTGAGCAGCATCGTTAGGGAACAATTTATAGTACAGATAGGCAT
129 GACATACTCTAGACAGCTCGTGTGAGCAGCATCGTTAGGGAAC-AGTTATA-TAC--ATAGACAT
6529557 CGTA-
190 CGTAT
* *
6529561 CTGATGGTTGGGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCG
1 C-GATGGTTGAGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCAGCATCG
6529620 AGTACTGGTA
Statistics
Matches: 212, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
191 37 0.17
192 10 0.05
193 34 0.16
194 12 0.06
195 119 0.56
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (194 bp):
CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCAGCATCGTGACTCA
AGAAATGAGAAAAGAATCCAAGAATAGATTACAGGCCCTACGATGGCTGAGATCTATGTATAAGA
CATACTCTAGACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTATATACATAGACATCGTAT
Found at i:6530401 original size:50 final size:50
Alignment explanation
Indices: 6530326--6530437 Score: 224
Period size: 50 Copynumber: 2.2 Consensus size: 50
6530316 CTGAATACTT
6530326 GTATCGGTAGAAATTGTAGGGTAAAACTTCTTAGCTTTCTGGAGTTTTTA
1 GTATCGGTAGAAATTGTAGGGTAAAACTTCTTAGCTTTCTGGAGTTTTTA
6530376 GTATCGGTAGAAATTGTAGGGTAAAACTTCTTAGCTTTCTGGAGTTTTTA
1 GTATCGGTAGAAATTGTAGGGTAAAACTTCTTAGCTTTCTGGAGTTTTTA
6530426 GTATCGGTAGAA
1 GTATCGGTAGAA
6530438 GCATAACATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (50 bp):
GTATCGGTAGAAATTGTAGGGTAAAACTTCTTAGCTTTCTGGAGTTTTTA
Found at i:6530477 original size:21 final size:21
Alignment explanation
Indices: 6530426--6530477 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
6530416 GGAGTTTTTA
6530426 GTATCGGTAGAAGCATAACAT
1 GTATCGGTAGAAGCATAACAT
* * * *
6530447 GTTTCAGTAGAGGTCAT-ACTT
1 GTATCGGTAGAAG-CATAACAT
6530468 GTATCGGTAG
1 GTATCGGTAG
6530478 TATTGTCTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGCATAACAT
Found at i:6534042 original size:15 final size:14
Alignment explanation
Indices: 6534016--6534045 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
6534006 TATATTAGAA
6534016 TAGTATTATATATT
1 TAGTATTATATATT
6534030 TAGTATATATATATT
1 TAGTAT-TATATATT
6534045 T
1 T
6534046 TAAAGTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TAGTATTATATATT
Found at i:6536607 original size:41 final size:41
Alignment explanation
Indices: 6536556--6536878 Score: 221
Period size: 41 Copynumber: 7.9 Consensus size: 41
6536546 CAAATGTTAA
* * *
6536556 AGCAATAGCGGCGTTTTTACATAA-ACGCCGCAAAAGATCGG
1 AGCAATAGCGGCGCTTATA-AGAATACGCCGCAAAAGATCGG
* ** *
6536597 AGCAATAGCGGCGCTTATAAGAATGCGCCGTTAAAGGTCGG
1 AGCAATAGCGGCGCTTATAAGAATACGCCGCAAAAGATCGG
** ** * *
6536638 AGCAATAGCGGCGCTTATGGGAA-AGCGCCGGTAAAGGTCAG
1 AGCAATAGCGGCGCTTATAAGAATA-CGCCGCAAAAGATCGG
* * * *
6536679 AGCAATAGCGGCACTTATAAGAA-ATTGCCGCTAAAGGTCGG
1 AGCAATAGCGGCGCTTATAAGAATA-CGCCGCAAAAGATCGG
* * * *
6536720 AGCAATAGCAGCGCTTATAAGAA-AGCGCCGCTAAAGGTCTG
1 AGCAATAGCGGCGCTTATAAGAATA-CGCCGCAAAAGATCGG
** * * *
6536761 AGCAATAGCGGCGCTTATGGGAA-ATCGGCGCTAAAGGTCGG
1 AGCAATAGCGGCGCTTATAAGAATA-CGCCGCAAAAGATCGG
* * * * *
6536802 AGCAATAGTGGAGCTTAT-GGTAA-AGCGCCGCTAAAGGTCGG
1 AGCAATAGCGGCGCTTATAAG-AATA-CGCCGCAAAAGATCGG
*
6536843 AGCAATAGCGGCGCTTATGAGAA-AGCGCCGCTAAAA
1 AGCAATAGCGGCGCTTATAAGAATA-CGCCGC-AAAA
6536879 TTTTTACATT
Statistics
Matches: 239, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
40 5 0.02
41 230 0.96
42 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.31, T:0.18
Consensus pattern (41 bp):
AGCAATAGCGGCGCTTATAAGAATACGCCGCAAAAGATCGG
Found at i:6536696 original size:82 final size:82
Alignment explanation
Indices: 6536581--6536877 Score: 398
Period size: 82 Copynumber: 3.6 Consensus size: 82
6536571 TTTACATAAA
* * * *
6536581 CGCCGCAAAAGATCGGAGCAATAGCGGCGCTTATAAG-AATGCGCCGTTAAAGGTCGGAGCAATA
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATAAGAAAT-CGCCGCTAAAGGTCGGAGCAATA
6536645 GCGGCGCTTATGGGAAAG
65 GCGGCGCTTATGGGAAAG
* * *
6536663 CGCCGGTAAAGGTCAGAGCAATAGCGGCACTTATAAGAAATTGCCGCTAAAGGTCGGAGCAATAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATAAGAAATCGCCGCTAAAGGTCGGAGCAATAG
* **
6536728 CAGCGCTTATAAGAAAG
66 CGGCGCTTATGGGAAAG
* ** *
6536745 CGCCGCTAAAGGTCTGAGCAATAGCGGCGCTTATGGGAAATCGGCGCTAAAGGTCGGAGCAATAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATAAGAAATCGCCGCTAAAGGTCGGAGCAATAG
* * *
6536810 TGGAGCTTATGGTAAAG
66 CGGCGCTTATGGGAAAG
* * *
6536827 CGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATGAGAAAGCGCCGCTAAA
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATAAGAAATCGCCGCTAAA
6536878 ATTTTTACAT
Statistics
Matches: 187, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
82 184 0.98
83 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.32, T:0.17
Consensus pattern (82 bp):
CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATAAGAAATCGCCGCTAAAGGTCGGAGCAATAG
CGGCGCTTATGGGAAAG
Found at i:6536775 original size:123 final size:123
Alignment explanation
Indices: 6536577--6536877 Score: 428
Period size: 123 Copynumber: 2.5 Consensus size: 123
6536567 CGTTTTTACA
* * * *
6536577 TAAA-CGCCGCAAAAGATCGGAGCAATAGCGGCGCTTATAAGAATGCGCCGTTAAAGGTCGGAGC
1 TAAAGCGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATAAGAAAGCGCCGCTAAAGGTCGGAGC
*
6536641 AATAGCGGCGCTTATGGGAAAGCGCCGGTAAAGGTCAGAGCAATAGCGGCA-CTTATAAG
66 AATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGG-AGCTTAT-AG
** * *
6536700 -AAATTGCCGCTAAAGGTCGGAGCAATAGCAGCGCTTATAAGAAAGCGCCGCTAAAGGTCTGAGC
1 TAAAGCGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATAAGAAAGCGCCGCTAAAGGTCGGAGC
* * * * *
6536764 AATAGCGGCGCTTATGGGAAATCGGCGCTAAAGGTCGGAGCAATAGTGGAGCTTATGG
66 AATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGAGCTTATAG
*
6536822 TAAAGCGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATGAGAAAGCGCCGCTAAA
1 TAAAGCGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATAAGAAAGCGCCGCTAAA
6536878 ATTTTTACAT
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
122 5 0.03
123 153 0.97
ACGTcount: A:0.32, C:0.20, G:0.31, T:0.17
Consensus pattern (123 bp):
TAAAGCGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATAAGAAAGCGCCGCTAAAGGTCGGAGC
AATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGAGCTTATAG
Found at i:6538863 original size:54 final size:54
Alignment explanation
Indices: 6538787--6538889 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
6538777 AAATACTTAA
* * *
6538787 TTATTTAATTACTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTAT
1 TTATTTAAATACTTAAAACAACCCAAATAATTAATTAATTAATTATTTATTTAT
* * *
6538841 TTATTTAAATA-TTAAAAACAACCTAAATACTTAATTATTTAATTATTTA
1 TTATTTAAATACTT-AAAACAACCCAAATAATTAATTAATTAATTATTTA
6538890 AATCAACCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.05
54 40 0.95
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.48
Consensus pattern (54 bp):
TTATTTAAATACTTAAAACAACCCAAATAATTAATTAATTAATTATTTATTTAT
Found at i:6538869 original size:88 final size:83
Alignment explanation
Indices: 6538755--6538960 Score: 313
Period size: 88 Copynumber: 2.4 Consensus size: 83
6538745 TTTTTTAAAT
*
6538755 TTTAAATTAGTAAAAACAATCCAAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTA
1 TTTAAA-TATTAAAAACAA-CCAAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTA
6538820 ATTAATTAATTATTTATTTATTTA
64 ATTAATT-A--A-TTATTTATTTA
*
6538844 TTTAAATATTAAAAACAACCTAAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAA
1 TTTAAATATTAAAAACAACC-AAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTAA
6538909 TTAATTAATTATTTATTTA
65 TTAATTAATTATTTATTTA
*
6538928 TTTAAATATTAAAAACAACCCAAATATTTAATT
1 TTTAAATATTAAAAACAA-CCAAATACTTAATT
6538961 CAAAATATTT
Statistics
Matches: 112, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
84 40 0.36
85 3 0.03
87 3 0.03
88 60 0.54
89 6 0.05
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (83 bp):
TTTAAATATTAAAAACAACCAAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTAAT
TAATTAATTATTTATTTA
Found at i:6538879 original size:34 final size:34
Alignment explanation
Indices: 6538841--6538921 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
6538831 ATTTATTTAT
* * *
6538841 TTATTTAAATATTAAAAACAACCTAAATACTTAA
1 TTATTTAATTATTAAAAACAACCCAAATAATTAA
* * *
6538875 TTATTTAATTATTTAAATCAACCCAATTAATTAA
1 TTATTTAATTATTAAAAACAACCCAAATAATTAA
*
6538909 TTAATTAATTATT
1 TTATTTAATTATT
6538922 TATTTATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (34 bp):
TTATTTAATTATTAAAAACAACCCAAATAATTAA
Found at i:6538997 original size:98 final size:98
Alignment explanation
Indices: 6538865--6539335 Score: 429
Period size: 98 Copynumber: 4.6 Consensus size: 98
6538855 AAAACAACCT
* *
6538865 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
1 AAATATTTAATTATTTAATTATTAAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
6538930 TAAATATTAAAAACAACCCAAATATTTAATTCA
66 TAAATATTAAAAACAACCCAAATATTTAATTCA
* * * * * *
6538963 AAATATTTAATCATTTAATTATTAAAAACAACCCAAATACTTAACTATTTAATTATTTAAATCAA
1 AAATATTTAATTATTTAATTATTAAAATCAACCCAATTAATTAATTAATTAATTATTT--AT---
** * * * ** *** ** *
6539028 CCCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAA
61 -TTATTTAAAT-ATTAA-AAACAACCCAAATATTT--A-ATT--CA
** * * * * *
6539074 ACAATCCAAATACTTAATTATTTAATTATTTAAATCAACTCAATTAATTAATTAATTATTTATTT
1 A-AAT--ATTTAATTAT---T-TAATTATTAAAATCAACCCAATTAATTAATTAATTAATTATTT
6539139 ATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCA
59 ATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCA
* * *
6539179 AAATACTTAATTATTTAATTATTTAAATCAACTCAATTAATTAATTAATTAATTATTTATTTATT
1 AAATATTTAATTATTTAATTATTAAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
*
6539244 TAAATATTAAAAATAACCCAAATATTTAATTCA
66 TAAATATTAAAAACAACCCAAATATTTAATTCA
* * * * *
6539277 AAATATTTAATTATTTAATTATTAAAAACAGCCCAAATACTTAATTATTTAATTATTTA
1 AAATATTTAATTATTTAATTATTAAAATCAACCCAATTAATTAATTAATTAATTATTTA
6539336 AATCAACCCA
Statistics
Matches: 292, Mismatches: 61, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
98 182 0.62
99 1 0.00
100 2 0.01
102 6 0.02
104 9 0.03
105 7 0.02
106 9 0.03
107 3 0.01
108 2 0.01
109 3 0.01
110 9 0.03
111 7 0.02
112 9 0.03
114 5 0.02
116 2 0.01
117 1 0.00
118 35 0.12
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (98 bp):
AAATATTTAATTATTTAATTATTAAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
TAAATATTAAAAACAACCCAAATATTTAATTCA
Found at i:6539001 original size:132 final size:132
Alignment explanation
Indices: 6538834--6539092 Score: 455
Period size: 132 Copynumber: 2.0 Consensus size: 132
6538824 ATTAATTATT
* * * *
6538834 TATTTATTTATTTAAATATTAAAAACAACCTAAATACTTAATTATTTAATTATTTAAATCAACCC
1 TATTTAATCATTTAAATATTAAAAACAACCCAAATACTTAACTATTTAATTATTTAAATCAACCC
*
6538899 AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
66 AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATACTTAATTCAA
6538964 AA
131 AA
*
6538966 TATTTAATCATTTAATTATTAAAAACAACCCAAATACTTAACTATTTAATTATTTAAATCAACCC
1 TATTTAATCATTTAAATATTAAAAACAACCCAAATACTTAACTATTTAATTATTTAAATCAACCC
*
6539031 AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAATCCAAATACTTAATT
66 AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATACTTAATT
6539093 ATTTAATTAT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 120 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (132 bp):
TATTTAATCATTTAAATATTAAAAACAACCCAAATACTTAACTATTTAATTATTTAAATCAACCC
AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATACTTAATTCAA
AA
Found at i:6539054 original size:34 final size:34
Alignment explanation
Indices: 6538977--6539055 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
6538967 ATTTAATCAT
* * *
6538977 TTAATTATTAAAAACAACCCAAATACTTAACTAT
1 TTAATTATTTAAAACAACCCAAATAATTAACTAA
* * *
6539011 TTAATTATTTAAATCAACCCAATTAATTAATTAA
1 TTAATTATTTAAAACAACCCAAATAATTAACTAA
6539045 TTAATTATTTA
1 TTAATTATTTA
6539056 TTTATTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (34 bp):
TTAATTATTTAAAACAACCCAAATAATTAACTAA
Found at i:6539062 original size:50 final size:50
Alignment explanation
Indices: 6539008--6539335 Score: 160
Period size: 50 Copynumber: 7.0 Consensus size: 50
6538998 AATACTTAAC
* * * *
6539008 TATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATT
1 TATTTAAATATTAAAAACAACCCAAATAATTAATTAATTAATTATTTATT
* * *
6539058 TATTTAAATATTAAAAACAATCCAAATACTTAATTATTTAATTATTTA--
1 TATTTAAATATTAAAAACAACCCAAATAATTAATTAATTAATTATTTATT
* * * * ** ** * * * * **
6539106 -A-AT-CA-ACT-CAATTAA-TTAATTAATTATTTATTTATTTATTTAAA
1 TATTTAAATATTAAAAACAACCCAAATAATTAATTAATTAATTATTTATT
* * *
6539150 TA-TT--A-A---AAA-CAACCCAAATATTTAATTCAA--AA-TACTTAAT
1 TATTTAAATATTAAAAACAACCCAAATAATTAATT-AATTAATTATTTATT
* * * * *
6539190 TATTTAATTATTTAAATCAACTCAATTAATTAATTAATTAATTATTTATT
1 TATTTAAATATTAAAAACAACCCAAATAATTAATTAATTAATTATTTATT
* * *
6539240 TATTTAAATATTAAAAATAACCCAAATATTTAATTCAA--AA-TATTTAAT
1 TATTTAAATATTAAAAACAACCCAAATAATTAATT-AATTAATTATTTATT
* * * *
6539288 TATTTAATTATTAAAAACAGCCCAAATACTTAATTATTTAATTATTTA
1 TATTTAAATATTAAAAACAACCCAAATAATTAATTAATTAATTATTTA
6539336 AATCAACCCA
Statistics
Matches: 208, Mismatches: 50, Indels: 40
0.70 0.17 0.13
Matches are distributed among these distances:
40 8 0.04
41 5 0.02
42 32 0.15
43 5 0.02
44 5 0.02
45 3 0.01
46 1 0.00
47 7 0.03
48 53 0.25
49 6 0.03
50 81 0.39
51 2 0.01
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (50 bp):
TATTTAAATATTAAAAACAACCCAAATAATTAATTAATTAATTATTTATT
Found at i:6539125 original size:34 final size:34
Alignment explanation
Indices: 6539047--6539139 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 34
6539037 TTAATTAATT
* * * *
6539047 AATTATTTATTTATTTAAATATTAAAAACAATCC
1 AATTAATTAATTATTTAATTATTTAAAACAATCC
* * *
6539081 AAATACTTAATTATTTAATTATTTAAATCAA-CTC
1 AATTAATTAATTATTTAATTATTTAAAACAATC-C
* *
6539115 AATTAATTAATTAATTATTTATTTA
1 AATTAATTAATTATTTAATTATTTA
6539140 TTTATTTAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 1 0.02
34 47 0.98
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (34 bp):
AATTAATTAATTATTTAATTATTTAAAACAATCC
Found at i:6539198 original size:8 final size:8
Alignment explanation
Indices: 6539185--6539251 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
6539175 TTCAAAATAC
6539185 TTAATTAT
1 TTAATTAT
6539193 TTAATTAT
1 TTAATTAT
* *
6539201 TTAAATCAAC
1 TT-AAT-TAT
* *
6539211 TCAATTAA
1 TTAATTAT
*
6539219 TTAATTAA
1 TTAATTAT
6539227 TTAATTAT
1 TTAATTAT
*
6539235 TTATTTAT
1 TTAATTAT
*
6539243 TTAAATAT
1 TTAATTAT
6539251 T
1 T
6539252 AAAAATAACC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
8 39 0.83
9 6 0.13
10 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATTAT
Found at i:6539315 original size:314 final size:304
Alignment explanation
Indices: 6538755--6539406 Score: 1052
Period size: 314 Copynumber: 2.1 Consensus size: 304
6538745 TTTTTTAAAT
*
6538755 TTTAAATTAGTAAAAACAATCCAAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTA
1 TTTAAA-TATTAAAAACAATCCAAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTA
* ** *
6538820 ATTAATTAATTATTTATTTATTTATTTAAATATTAAAAACAACCTAAATACTTAATTATTTAATT
65 ATTAATTAATTATTTATTTATTTATTTAAAAACAAAAAACAACCAAAATACTTAATTATTTAATT
6538885 ATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCA
130 ATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCA
6538950 AATATTTAATTCAAAATATTTAATCATTTAATTATTAAAAACAACCCAAATACTTAACTATTTAA
195 AATATTTAATTCAAAATATTTAATCATTTAATTATTAAAAACAACCCAAATACTTAACTATTTAA
6539015 TTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTA
260 TTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTA
* *
6539060 TTTAAATATTAAAAACAATCCAAATACTTAATTATTTAATTATTTAAATCAACTCAATTAATTAA
1 TTTAAATATTAAAAACAATCCAAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTAA
* * *
6539125 TTAATTATTTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAAAATACTTAAT
66 TTAATTAATTATTTATTTATTT--AT-TTAAAAACAA---AAA-A--CAA-CCAAAATACTTAAT
*
6539190 TATTTAATTATTTAAATCAACTCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAA
121 TATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAA
* * *
6539255 AATAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTATTAAAAACAGCCCAAATACTTA
186 AACAACCCAAATATTTAATTCAAAATATTTAATCATTTAATTATTAAAAACAACCCAAATACTTA
*
6539320 ATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTA
251 ACTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTA
* *
6539374 TTTAAATATTAAAAACAACCCAAATATTTAATT
1 TTTAAATATTAAAAACAATCCAAATACTTAATT
6539407 CAAAATATTT
Statistics
Matches: 320, Mismatches: 17, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
304 77 0.24
305 6 0.02
306 2 0.01
307 7 0.02
310 3 0.01
311 1 0.00
313 2 0.01
314 222 0.69
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (304 bp):
TTTAAATATTAAAAACAATCCAAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTAA
TTAATTAATTATTTATTTATTTATTTAAAAACAAAAAACAACCAAAATACTTAATTATTTAATTA
TTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAA
ATATTTAATTCAAAATATTTAATCATTTAATTATTAAAAACAACCCAAATACTTAACTATTTAAT
TATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTA
Found at i:6539320 original size:132 final size:132
Alignment explanation
Indices: 6539179--6539558 Score: 696
Period size: 132 Copynumber: 2.9 Consensus size: 132
6539169 ATTTAATTCA
*
6539179 AAATACTTAATTATTTAATTATTTAAATCAACTCAATTAATTAATTAATTAATTATTTATTTATT
1 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
* *
6539244 TAAATATTAAAAATAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTATTAAAAACAGC
66 TAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTATTAAAAACAAC
6539309 CC
131 CC
6539311 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
1 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
*
6539376 TAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTATTAAAAATAAC
66 TAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTATTAAAAACAAC
6539441 CC
131 CC
6539443 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTA---A-TTATT
1 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
6539504 TAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTAT
66 TAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTAT
6539559 ATTTAATTAT
Statistics
Matches: 244, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
128 60 0.25
129 1 0.00
132 183 0.75
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (132 bp):
AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATT
TAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTATTTAATTATTAAAAACAAC
CC
Found at i:6539330 original size:230 final size:230
Alignment explanation
Indices: 6539050--6539467 Score: 712
Period size: 230 Copynumber: 1.8 Consensus size: 230
6539040 ATTAATTAAT
* * *
6539050 TATTTATTTATTTAAATATTAAAAACAATCCAAATACTTAATTATTTAATTATTTAAATCAACTC
1 TATTTAATTATTTAAATATTAAAAACAACCCAAATACTTAATTATTTAATTATTTAAATCAACCC
*
6539115 AATTAATTAATTAATTATTTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
66 AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
* * *
6539180 AATACTTAATTATTTAATTATT-TAAATCAACTCAATTAATTAATTAATTAATTATTTATTTATT
131 AATACTTAATTATTTAATTATTAAAAAT-AACCCAAATAATTAATTAATTAATTATTTATTTATT
6539244 TAAATATTAAAAATAACCCAAATATTTAATTCAAAA
195 TAAATATTAAAAATAACCCAAATATTTAATTCAAAA
* *
6539280 TATTTAATTATTTAATTATTAAAAACAGCCCAAATACTTAATTATTTAATTATTTAAATCAACCC
1 TATTTAATTATTTAAATATTAAAAACAACCCAAATACTTAATTATTTAATTATTTAAATCAACCC
6539345 AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
66 AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
* * *
6539410 AATATTTAATTATTTAATTATTAAAAATAACCCAAATACTTAATTATTTAATTATTTA
131 AATACTTAATTATTTAATTATTAAAAATAACCCAAATAATTAATTAATTAATTATTTA
6539468 AATCAACCCA
Statistics
Matches: 175, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
230 171 0.98
231 4 0.02
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (230 bp):
TATTTAATTATTTAAATATTAAAAACAACCCAAATACTTAATTATTTAATTATTTAAATCAACCC
AATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
AATACTTAATTATTTAATTATTAAAAATAACCCAAATAATTAATTAATTAATTATTTATTTATTT
AAATATTAAAAATAACCCAAATATTTAATTCAAAA
Found at i:6539368 original size:34 final size:34
Alignment explanation
Indices: 6539283--6539497 Score: 133
Period size: 34 Copynumber: 6.4 Consensus size: 34
6539273 TTCAAAATAT
* * * * *
6539283 TTAATTATTTAATTATTAAAAACAGCCCAAATAC
1 TTAATTATTTAATTATTTAAATCAACCCAATTAA
6539317 TTAATTATTTAATTATTTAAATCAACCCAATTAA
1 TTAATTATTTAATTATTTAAATCAACCCAATTAA
* * *
6539351 TTAATTAATTAATTATTTATTTATTTAA---ATATTAA
1 TTAATTATTTAATTATTTA---AATCAACCCA-ATTAA
* ** *** * * *
6539386 -AAACAACCCAAATATTTAATTCAA---AA-TAT
1 TTAATTATTTAATTATTTAAATCAACCCAATTAA
* * *
6539415 TTAATTATTTAATTATTAAAAAT-AACCCAAATAC
1 TTAATTATTTAATTATT-TAAATCAACCCAATTAA
6539449 TTAATTATTTAATTATTTAAATCAACCCAATTAA
1 TTAATTATTTAATTATTTAAATCAACCCAATTAA
*
6539483 TTAATTAATTAATTA
1 TTAATTATTTAATTA
6539498 ATTATTTAAA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
29 2 0.01
30 12 0.09
31 9 0.06
33 6 0.04
34 101 0.73
35 5 0.04
37 4 0.03
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (34 bp):
TTAATTATTTAATTATTTAAATCAACCCAATTAA
Found at i:6539486 original size:4 final size:4
Alignment explanation
Indices: 6539477--6539506 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
6539467 AAATCAACCC
*
6539477 AATT AATT AATT AATT AATT AATT ATTT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
6539507 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:6539551 original size:22 final size:21
Alignment explanation
Indices: 6539526--6539589 Score: 91
Period size: 18 Copynumber: 3.2 Consensus size: 21
6539516 ACAACCCAAA
6539526 TATTTAATTCAAAATATTTAAT
1 TATTTAATT-AAAATATTTAAT
6539548 TATTTAATT---ATATTTAAT
1 TATTTAATTAAAATATTTAAT
6539566 TATTTAATTAAAA-ATTTAAT
1 TATTTAATTAAAATATTTAAT
6539586 TATT
1 TATT
6539590 AAAAATAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
18 18 0.46
20 11 0.28
21 1 0.03
22 9 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTAATTAAAATATTTAAT
Found at i:6539553 original size:8 final size:8
Alignment explanation
Indices: 6539540--6539575 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
6539530 TAATTCAAAA
6539540 TATTTAAT
1 TATTTAAT
6539548 TATTTAATT
1 TATTTAA-T
6539557 ATATTTAAT
1 -TATTTAAT
6539566 TATTTAAT
1 TATTTAAT
6539574 TA
1 TA
6539576 AAAATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTTAAT
Found at i:6542714 original size:43 final size:43
Alignment explanation
Indices: 6542667--6542892 Score: 185
Period size: 43 Copynumber: 5.3 Consensus size: 43
6542657 ACGCTATTTA
* *
6542667 TAGCGGCTTTTGTGGAGTAAGCGCCGTTAAAGACCATGTTCTT
1 TAGCGGCTTTTGTTGAGTAAGCGCCGCTAAAGACCATGTTCTT
* * * * * *
6542710 TAGCGGCGTTTGTTGA-TAAAGTGCTGTTAAAGAACATGATCTT
1 TAGCGGCTTTTGTTGAGT-AAGCGCCGCTAAAGACCATGTTCTT
* *
6542753 TAGCGG-TGTTTG-T-ATCTAAGTGCCGCTAAAGACCATGTTCTT
1 TAGCGGCT-TTTGTTGA-GTAAGCGCCGCTAAAGACCATGTTCTT
** * *
6542795 TAGCGG-TGTTTGTTGAAAAAGCGCCGCTAAAGAACATGGTCTT
1 TAGCGGCT-TTTGTTGAGTAAGCGCCGCTAAAGACCATGTTCTT
* * * *
6542838 TAGTGGCGTTTGTAG-GTGAAGCGCTGCTAAAGACCATGTTCTT
1 TAGCGGCTTTTGTTGAGT-AAGCGCCGCTAAAGACCATGTTCTT
*
6542881 TTGCGGCGTTTT
1 TAGCGGC-TTTT
6542893 TCCTTATAAA
Statistics
Matches: 147, Mismatches: 27, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 35 0.24
43 107 0.73
44 4 0.03
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TAGCGGCTTTTGTTGAGTAAGCGCCGCTAAAGACCATGTTCTT
Found at i:6542808 original size:85 final size:85
Alignment explanation
Indices: 6542623--6542891 Score: 310
Period size: 85 Copynumber: 3.1 Consensus size: 85
6542613 TATGTTAATA
* * * *
6542623 TTAGCGGCGTTTGTGGAAAAAACGCCGCTAAAGAACGCT-AT-TTATAGCGGCTTTTGTGGAG-T
1 TTAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGAAC-ATGATCTT-TAGCGGCGTTTGT--AGCT
*
6542685 AAGCGCCGTTAAAGACCATGTTCT
62 AAGCGCCGCTAAAGACCATGTTCT
* * * * * * *
6542709 TTAGCGGCGTTTGTTGATAAAGTGCTGTTAAAGAACATGATCTTTAGCGGTGTTTGTATCTAAGT
1 TTAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTAGCTAAGC
6542774 GCCGCTAAAGACCATGTTCT
66 GCCGCTAAAGACCATGTTCT
* * * *
6542794 TTAGCGGTGTTTGTTGAAAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTGTAGGTGAAG
1 TTAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTAGCT-AAG
*
6542859 CGCTGCTAAAGACCATGTTCT
65 CGCCGCTAAAGACCATGTTCT
*
6542880 TTTGCGGCGTTT
1 TTAGCGGCGTTT
6542892 TTCCTTATAA
Statistics
Matches: 153, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
84 1 0.01
85 75 0.49
86 75 0.49
87 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (85 bp):
TTAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTAGCTAAGC
GCCGCTAAAGACCATGTTCT
Found at i:6549136 original size:484 final size:483
Alignment explanation
Indices: 6548229--6549250 Score: 1742
Period size: 484 Copynumber: 2.1 Consensus size: 483
6548219 AAGATTGATC
6548229 AAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTTTTG
1 AAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTTTTG
* * *
6548294 GAGGAAAAAGATAGTTAGTGAAATGGGCTTGATATTGGGATTGAATGATTGATTCGGGCTTTTAA
66 GAGGAAAAAGATAGTGAGTGAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTTTTAA
* ** * *
6548359 ACTAAAAGCGGAAATGTGTTTCGTTTAAAACGCCGCCTGTGGGAATCGAACCACAACCACGTGGT
131 ACTAAAAGCGGAAATATGTTTCACTTAAAACGCCGCCTGTGGGAATCAAACCACAACCACATGGT
*
6548424 TAAAAGCCACGCGCTCTATCGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAACTTT
196 TAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAACTTT
*
6548489 TCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTTTTGAAGGAAAAAGGGAGTTGGTG
261 TCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGAAGGAAAAAGGGAGTTGGTG
6548554 AAATGGACCTGACATTAGGATTGAAAGATTGATTCGGGTTTTTAAACTAAAAATGGTAATGTGTT
326 AAATGGACCTGACATTAGGATTGAAAGATTGATTCGGGTTTTTAAACTAAAAATGGTAATGTGTT
* *
6548619 TCGGCTTTACACGTCGTCTGTCGGAAACGAACCCACAACCACGTTGTTAAAAGCCACGCACTCTG
391 TCGGCTTTACACGTCGTCTGTCGGAAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTA
* *
6548684 CCAGCTGAGCTAAGACCGCTGCTCATTT
456 CCAACTGAGCTAAGACCGCTACTCATTT
6548712 AAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTTTTG
1 AAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTTTTG
*
6548777 GAGGAAAAAGGTAGTGAGTGAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTTTTAA
66 GAGGAAAAAGATAGTGAGTGAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTTTTAA
* ** **
6548842 ACTAAAAGTGGAAATATGTTTCACTTAAAACGTTGTTTGTGGGAATCAAACCA-ATGACCACATG
131 ACTAAAAGCGGAAATATGTTTCACTTAAAACGCCGCCTGTGGGAATCAAACCACA--ACCACATG
* *
6548906 GTTAAAAGCCACGTGCTCTACCGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAATT
194 GTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAACT
*
6548971 TTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGGAGGAAAAAGGGAGTTGG
259 TTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGAAGGAAAAAGGGAGTTGG
*
6549036 TGAAATGGACCTGACATTAGGATTGAAAGATTGATTCGGGTTTTTAAACTAAAAGTGGTAATGTG
324 TGAAATGGACCTGACATTAGGATTGAAAGATTGATTCGGGTTTTTAAACTAAAAATGGTAATGTG
* *
6549101 TTTCGGCTTTACACG-CGGTCTGTCGGTAACGAACCCACAACTACGTGGTTAAAAGCCACGCACT
389 TTTCGGCTTTACACGTC-GTCTGTCGGAAACGAACCCACAACCACGTGGTTAAAAGCCACGCACT
*
6549165 CTACCAACTGAGCTATGACCGCTACTCATTT
453 CTACCAACTGAGCTAAGACCGCTACTCATTT
* *
6549196 AAACAACAAATATTTATTTTTGTGATCATTCATTTTTGTCAAAAAATAATAAAAC
1 AAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAAC
6549251 GCCGTCTGTG
Statistics
Matches: 507, Mismatches: 29, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
482 1 0.00
483 171 0.34
484 335 0.66
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (483 bp):
AAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTTTTG
GAGGAAAAAGATAGTGAGTGAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTTTTAA
ACTAAAAGCGGAAATATGTTTCACTTAAAACGCCGCCTGTGGGAATCAAACCACAACCACATGGT
TAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAACTTT
TCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGAAGGAAAAAGGGAGTTGGTG
AAATGGACCTGACATTAGGATTGAAAGATTGATTCGGGTTTTTAAACTAAAAATGGTAATGTGTT
TCGGCTTTACACGTCGTCTGTCGGAAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTA
CCAACTGAGCTAAGACCGCTACTCATTT
Found at i:6549564 original size:377 final size:378
Alignment explanation
Indices: 6548879--6549627 Score: 1275
Period size: 377 Copynumber: 2.0 Consensus size: 378
6548869 AAACGTTGTT
* ** *
6548879 TGTGGGAATCAAACCAATGACCACATGGTTAAAAGCCACGTGCTCTACCGGCTGAGCTAAGACGG
1 TGTGGGAATCAAACCAACGACCACATGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACGG
* *
6548944 CTGCTCATTTGAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACT
66 CTACTCATTTGAATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACT
* * *
6549009 TACCCTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTGAAAGATTGATTCG
131 TACCCTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGAAAGATTGATCCA
* * * *
6549074 GGTTTTTAAACTAAAAGTGGTAATGTGTTTCGGCTTTACACGCGGTCTGTCGGTAACGAACCCAC
196 GGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTGTCGGAAACGAACCCAC
* *
6549139 AACTACGTGGTTAAAAGCCACGCACTCTACCAACTGAGCTATGACCGCTACTCATTTAAACAACA
261 AACCACGTGGTTAAAAGCCACGCACTCTACCAACTGAGCTAAGACCGCTACTCATTTAAACAACA
6549204 AATATTTATTTTTGTGATCATTCATTTTTGTCAAAAAATAATAAAACGCCGTC
326 AATATTTATTTTTGTGATCATTCATTTTTGTCAAAAAATAATAAAACGCCGTC
* * * *
6549257 TGTGGGAATCGAACCCACGGCCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACGG
1 TGTGGGAATCAAACCAACGACCACATGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACGG
6549322 CTACTCATTT-AATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACT
66 CTACTCATTTGAATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACT
*
6549386 TACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGAAAGATTGATCCA
131 TACCCTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGAAAGATTGATCCA
6549451 GGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTGTCGGAAACGAACCCAC
196 GGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTGTCGGAAACGAACCCAC
* * *
6549516 AACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCTCATTTAAACAATA
261 AACCACGTGGTTAAAAGCCACGCACTCTACCAACTGAGCTAAGACCGCTACTCATTTAAACAACA
*
6549581 AATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAAC
326 AATATTTATTTTTGTGATCATTCATTTTTGTCAAAAAATAATAAAAC
6549628 TTACCTTTTG
Statistics
Matches: 347, Mismatches: 24, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
377 281 0.81
378 66 0.19
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (378 bp):
TGTGGGAATCAAACCAACGACCACATGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACGG
CTACTCATTTGAATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACT
TACCCTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGAAAGATTGATCCA
GGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTGTCGGAAACGAACCCAC
AACCACGTGGTTAAAAGCCACGCACTCTACCAACTGAGCTAAGACCGCTACTCATTTAAACAACA
AATATTTATTTTTGTGATCATTCATTTTTGTCAAAAAATAATAAAACGCCGTC
Found at i:6549682 original size:861 final size:861
Alignment explanation
Indices: 6548384--6550111 Score: 2999
Period size: 861 Copynumber: 2.0 Consensus size: 861
6548374 GTGTTTCGTT
* * *
6548384 TAAAACGCCGCCTGTGGGAATCGAACCACAACCACGTGGTTAAAAGCCACGCGCTCTATCGGCTG
1 TAAAACGCCGCCTGTGGGAATCGAACCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTG
*
6548449 AGCTAAGACGGCTGCTCATTTGAATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAAA
66 AGCTAAGACGGCTACTCATTTGAATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAAA
*
6548514 ATAATAAAACTTACCTTTTGAAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTGAA
131 ATAATAAAACTTACCTTTTGAAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGAA
* * * **
6548579 AGATTGATTCGGGTTTTTAAACTAAAAATGGTAATGTGTTTCGGCTTTACACGTCGTCTGTCGGA
196 AGATTGATCCAGGTTTTTAAACTAAAAATGGTAATGTGTTTCGACTTTACACACCGTCTGTCGGA
* *
6548644 AACGAACCCACAACCACGTTGTTAAAAGCCACGCACTCTGCCAGCTGAGCTAAGACCGCTGCTCA
261 AACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCTCA
6548709 TTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTT
326 TTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTT
*
6548774 TTGGAGGAAAAAGGTAGTGAGTGAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTTT
391 TTGGAGGAAAAAGGTAGTGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTTT
** *
6548839 TAAACTAAAAGTGGAAATATGTTTCACTTAAAACGTTGTTTGTGGGAATCAAACCAATGACCACA
456 TAAACTAAAAGTGGAAATATGTTTCACTTAAAACGCCGTTTGTGAGAATCAAACCAATGACCACA
* *
6548904 TGGTTAAAAGCCACGTGCTCTACCGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAA
521 TGGTTAAAAGCCACGCGCTCTACAGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAA
6548969 TTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGGAGGAAAAAGGGAGTT
586 TTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGGAGGAAAAAGGGAGTT
* *
6549034 GGTGAAATGGACCTGACATTAGGATTGAAAGATTGATTCGGGTTTTTAAACTAAAAGTGGTAATG
651 GGTGAAATGGACCTGACATTAGGATTGAAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAATG
* * * * ** *
6549099 TGTTTCGGCTTTACACGCGGTCTGTCGGTAACGAACCCACAACTACGTGGTTAAAAGCCACGCAC
716 TGTTTCGACTTTACACACCGTCTATCGAAAACGAACCCACAACCACGTGGTTAAAAGCCACGCAC
* *
6549164 TCTACCAACTGAGCTATGACCGCTACTCATTTAAACAACAAATATTTATTTTTGTGATCATTCAT
781 TCTACCAACTGAGCTAAGACAGCTACTCATTTAAACAACAAATATTTATTTTTGTGATCATTCAT
6549229 TTTTGTCAAAAAATAA
846 TTTTGTCAAAAAATAA
* **
6549245 TAAAACGCCGTCTGTGGGAATCGAACCCACGGCCACGTGGTTAAAAGCCACGCACTCTACCAGCT
1 TAAAACGCCGCCTGTGGGAATCGAA-CCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCT
6549310 GAGCTAAGACGGCTACTCATTT-AATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAA
65 GAGCTAAGACGGCTACTCATTTGAATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAA
*
6549374 AATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGA
130 AATAATAAAACTTACCTTTTGAAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGA
*
6549439 AAGATTGATCCAGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTGTCGG
195 AAGATTGATCCAGGTTTTTAAACTAAAAATGGTAATGTGTTTCGACTTTACACACCGTCTGTCGG
6549504 AAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCTC
260 AAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCTC
6549569 ATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCT
325 ATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCT
*
6549634 TTTGGAGGAAAAAGGTAGTGAGTAAAATGGGCTTGATATTGGGATTGAATGATTGATCCGGGCTT
390 TTTGGAGGAAAAAGGTAGTGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTT
* * * *
6549699 TTAAACTAAAAGTGGAAATGTGTTTCGCTTAAAACGCCGTTTGTGAGAATCGAACCCATGACCAC
455 TTAAACTAAAAGTGGAAATATGTTTCACTTAAAACGCCGTTTGTGAGAATCAAACCAATGACCAC
* *
6549764 GTGGTTAAAAGCCACGCGCTCTACAGGTTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTA
520 ATGGTTAAAAGCCACGCGCTCTACAGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTA
* *
6549829 ATTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAATTTACCTTTTGGAGGAAAAAGGGAGT
585 ATTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGGAGGAAAAAGGGAGT
*
6549894 TGGTGAATTGGACCTGACATTAGGATTGAAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAAT
650 TGGTGAAATGGACCTGACATTAGGATTGAAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAAT
6549959 GTGTTTCGACTTTACACACCGTCTATCGAAAACGAACCCACAACCACGTGGTTAAAAGCCACGCA
715 GTGTTTCGACTTTACACACCGTCTATCGAAAACGAACCCACAACCACGTGGTTAAAAGCCACGCA
* * * * *
6550024 CTCTACCAGCTGAGCTAAGTCAGCTGCTCATTTAAACAATAAATATTTATTTTTGTGTTCATTCA
780 CTCTACCAACTGAGCTAAGACAGCTACTCATTTAAACAACAAATATTTATTTTTGTGATCATTCA
6550089 TTTTTGTCAAAAAATAA
845 TTTTTGTCAAAAAATAA
6550106 TAAAAC
1 TAAAAC
6550112 TTACTTTTTG
Statistics
Matches: 817, Mismatches: 49, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
861 762 0.93
862 55 0.07
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (861 bp):
TAAAACGCCGCCTGTGGGAATCGAACCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTG
AGCTAAGACGGCTACTCATTTGAATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAAA
ATAATAAAACTTACCTTTTGAAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGAA
AGATTGATCCAGGTTTTTAAACTAAAAATGGTAATGTGTTTCGACTTTACACACCGTCTGTCGGA
AACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCTCA
TTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTT
TTGGAGGAAAAAGGTAGTGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCCGGGCTTT
TAAACTAAAAGTGGAAATATGTTTCACTTAAAACGCCGTTTGTGAGAATCAAACCAATGACCACA
TGGTTAAAAGCCACGCGCTCTACAGGCTGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAA
TTTTTCTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCCTTTGGAGGAAAAAGGGAGTT
GGTGAAATGGACCTGACATTAGGATTGAAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAATG
TGTTTCGACTTTACACACCGTCTATCGAAAACGAACCCACAACCACGTGGTTAAAAGCCACGCAC
TCTACCAACTGAGCTAAGACAGCTACTCATTTAAACAACAAATATTTATTTTTGTGATCATTCAT
TTTTGTCAAAAAATAA
Found at i:6549922 original size:241 final size:242
Alignment explanation
Indices: 6549245--6550450 Score: 1640
Period size: 241 Copynumber: 5.0 Consensus size: 242
6549235 CAAAAAATAA
* *
6549245 TAAAACGCCGTCTGTGGGAATCGAACCCACGGCCACGTGGTTAAAAGCCACGCACTCTACCAGCT
1 TAAAACGCCGTCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCACTCTACCAGCT
* *
6549310 GAGCTAAGACGGCTACTCATTT-AATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAA
66 GAGCTAAGACGGCTGCTCATTTAAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGAA
*
6549374 AATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGA
131 AATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTGA
*
6549439 AAGATTGATCCAGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACT
196 AAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACT
* * * * *
6549486 TTACACACCGTCTGTCG-GAAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGC
1 TAAAACGCCGTCTGT-GAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCACTCTACCAGC
* * * *
6549550 TGAGCTAAGACCGCTGCTCATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAG
65 TGAGCTAAGACGGCTGCTCATTTAAA-TATAAATATTAATTTTTCTGATCATTCATTTTTGTCAG
* * * * * *
6549615 AAAATAATAAAACTTACCTTTTGGAGGAAAAAGGTAG-TGAGTAAAATGGGCTTGATATTGGGAT
129 AAAATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTG-GTGAAATGGACCTGACATTAGGAT
* * *
6549679 TGAATGATTGATCCGGGCTTTTAAACTAAAAGTGGAAATGTGTTTCG-CT
193 TGAAAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACT
* * * *
6549728 TAAAACGCCGTTTGTGAGAATCGAACCCATGACCACGTGGTTAAAAGCCACGCGCTCTA-CAGGT
1 TAAAACGCCGTCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCACTCTACCA-GC
*
6549792 TGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGA
65 TGAGCTAAGACGGCTGCTCATTTAAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGA
* *
6549857 AAATAATAAAATTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAATTGGACCTGACATTAGGATTG
130 AAATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTG
*
6549922 AAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACT
195 AAAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACT
* * * * * *
6549970 TTACACACCGTCTATCGA-AAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGC
1 TAAAACGCCGTCTGT-GAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCACTCTACCAGC
* * * * * * *
6550034 TGAGCTAAGTCAGCTGCTCATTTAAACAATAAATATTTATTTTTGTGTTCATTCATTTTTGTCAA
65 TGAGCTAAGACGGCTGCTCATTTAAA-TATAAATATTAATTTTTCTGATCATTCATTTTTGTCAG
* ** * * *
6550099 AAAATAATAAAACTTACTTTTTGGAGGAAAAAGATAG-TGAGTGAAATGGGCCTGATATTGGGAT
129 AAAATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTG-GTGAAATGGACCTGACATTAGGAT
** * * * *
6550163 TGAATTATTGATCTGAGCTTTTAAACTAAAAGTAG-AATTGTGTTTCG-CT
193 TGAAAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAA-TGTGTTTCGACT
* * * * * * * * *
6550212 TGAAATGCCATCTGTGGGAATCAAACCCACGACCACGTGGTTAAAAGCCACACGCTTTACCGGCT
1 TAAAACGCCGTCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCACTCTACCAGCT
* * *
6550277 GAGCTAAGACGACTGCTCATTTGAATATAAATATTAATTTTTTTGATCATTCATTTTT-TCAGAA
66 GAGCTAAGACGGCTGCTCATTTAAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGAA
6550341 AATAATAAAACTTACCTTTTGGAGGAAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTG
131 AATAATAAAACTTACCTTTTGGAGG-AAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTG
6550406 AAAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAATGTGTTTCG
195 AAAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAATGTGTTTCG
6550451 GCTTTACACG
Statistics
Matches: 833, Mismatches: 115, Indels: 34
0.85 0.12 0.03
Matches are distributed among these distances:
240 29 0.03
241 308 0.37
242 236 0.28
243 260 0.31
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (242 bp):
TAAAACGCCGTCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCACTCTACCAGCT
GAGCTAAGACGGCTGCTCATTTAAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGAA
AATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTGA
AAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACT
Found at i:6550157 original size:484 final size:483
Alignment explanation
Indices: 6549245--6550747 Score: 2315
Period size: 484 Copynumber: 3.2 Consensus size: 483
6549235 CAAAAAATAA
* * * *
6549245 TAAAACGCCGTCTGTGGGAATCGAACCCACGGCCACGTGGTTAAAAGCCACGCACTCTACCAGCT
1 TAAAACGCCATCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCGCTCTACCAGCT
* *
6549310 GAGCTAAGACGGCTACTCATTT-AATATAAATATTAACTTTTCTGATCATTCATTTTTGTCAGAA
66 GAGCTAAGACGGCTGCTCATTTGAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGAA
*
6549374 AATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTAACATTAGGATTGA
131 AATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTGA
*
6549439 AAGATTGATCC-AGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTGTCG
196 AAGATTGATCCGA-GTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTATC-
6549503 GAAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCT
259 GAAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCT
6549568 CATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACC
324 CATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACC
* *
6549633 TTTTGGAGGAAAAAGGTAGTGAGTAAAATGGGCTTGATATTGGGATTGAATGATTGATCCGGGCT
389 TTTTGGAGGAAAAAGGTAGTGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCTGGGCT
6549698 TTTAAACTAAAAGTGGAAATGTGTTTCGCT
454 TTTAAACTAAAAGTGGAAATGTGTTTCGCT
* * * *
6549728 TAAAACGCCGTTTGTGAGAATCGAACCCATGACCACGTGGTTAAAAGCCACGCGCTCTA-CAGGT
1 TAAAACGCCATCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCGCTCTACCA-GC
6549792 TGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGA
65 TGAGCTAAGACGGCTGCTCATTTGAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGA
* *
6549857 AAATAATAAAATTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAATTGGACCTGACATTAGGATTG
130 AAATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTG
6549922 AAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTATCG
195 AAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTATCG
* *
6549987 AAAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGTCAGCTGCT
260 -AAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCT
* * *
6550052 CATTTAAACAATAAATATTTATTTTTGTGTTCATTCATTTTTGTCAAAAAATAATAAAACTTACT
324 CATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACC
* * * *
6550117 TTTTGGAGGAAAAAGATAGTGAGTGAAATGGGCCTGATATTGGGATTGAATTATTGATCTGAGCT
389 TTTTGGAGGAAAAAGGTAGTGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCTGGGCT
* *
6550182 TTTAAACTAAAAGTAGAATTGTGTTTCGCT
454 TTTAAACTAAAAGTGGAAATGTGTTTCGCT
* * * * * * *
6550212 TGAAATGCCATCTGTGGGAATCAAACCCACGACCACGTGGTTAAAAGCCACACGCTTTACCGGCT
1 TAAAACGCCATCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCGCTCTACCAGCT
* *
6550277 GAGCTAAGACGACTGCTCATTTGAATATAAATATTAATTTTTTTGATCATTCATTTTT-TCAGAA
66 GAGCTAAGACGGCTGCTCATTTGAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGAA
6550341 AATAATAAAACTTACCTTTTGGAGGAAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTG
131 AATAATAAAACTTACCTTTTGGAGG-AAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTG
* *
6550406 AAAGATTGATCCGGGTTTTTAAACTAAAAGTGGTAATGTGTTTCGGC--T--------T-TA-C-
195 AAAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTATCG
* * *
6550458 --ACG---------CCACGTGGTTAAAAGCCACGCACTTTACCAACAGAGCTAAGACCGCTGCTC
260 AAACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCTC
*
6550512 ATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATCATAAAACTTACCT
325 ATTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCT
* *
6550577 TTTGGAGGGAAAAAGGTAATGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCTGGGTT
390 TTTGGA-GGAAAAAGGTAGTGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCTGGGCT
6550642 TTTAAACTAAAAGTGGAAATGTGTTTCGCT
454 TTTAAACTAAAAGTGGAAATGTGTTTCGCT
* * * *
6550672 TAAAACACCATCTGTGAGAAATCGAACCCACAACCACGTGGTTAAAAGCGATGCGCTCTACCAGC
1 TAAAACGCCATCTGTGAG-AATCGAACCCACGACCACGTGGTTAAAAGCCACGCGCTCTACCAGC
6550737 TGAGCTAAGAC
65 TGAGCTAAGAC
6550748 AGCAACTTAT
Statistics
Matches: 942, Mismatches: 70, Indels: 38
0.90 0.07 0.04
Matches are distributed among these distances:
459 113 0.12
460 94 0.10
461 50 0.05
468 3 0.00
472 1 0.00
473 2 0.00
474 1 0.00
482 3 0.00
483 108 0.11
484 565 0.60
485 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (483 bp):
TAAAACGCCATCTGTGAGAATCGAACCCACGACCACGTGGTTAAAAGCCACGCGCTCTACCAGCT
GAGCTAAGACGGCTGCTCATTTGAATATAAATATTAATTTTTCTGATCATTCATTTTTGTCAGAA
AATAATAAAACTTACCTTTTGGAGGAAAAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTGA
AAGATTGATCCGAGTTTTTAAACTAAAAGTGGTAATGTGTTTCGACTTTACACACCGTCTATCGA
AACGAACCCACAACCACGTGGTTAAAAGCCACGCACTCTACCAGCTGAGCTAAGACCGCTGCTCA
TTTAAACAATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATAATAAAACTTACCTT
TTGGAGGAAAAAGGTAGTGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCTGGGCTTT
TAAACTAAAAGTGGAAATGTGTTTCGCT
Found at i:6550634 original size:219 final size:218
Alignment explanation
Indices: 6550239--6550669 Score: 625
Period size: 219 Copynumber: 2.0 Consensus size: 218
6550229 GAATCAAACC
* ** * * *
6550239 CACGACCACGTGGTTAAAAGCCACACGCTTTACCGGCTGAGCTAAGACGACTGCTCATTTGAATA
1 CACGACCACGTGGTTAAAAGCCACACACTTTACCAACAGAGCTAAGACGACTGCTCATTTAAAAA
*
6550304 TAAATATTAATTTTTTTGATCATTCATTTTTTCAGAAAATAATAAAACTTACCTTTTGGAGGAAA
66 TAAATATTAATTTTTGTGATCATTCATTTTTTCAGAAAATAATAAAACTTACCTTTTGGAGGAAA
* *
6550369 AAAGGGAGTTGGTGAAATGGACCTGACATTAGGATTGAAAGATTGATCCGGGTTTTTAAACTAAA
131 AAAGGGAGATGGTAAAATGGACCTGACATTAGGATTGAAAGATTGATCCGGGTTTTTAAACTAAA
*
6550434 AGTGGTAATGTGTTTCGGCTTTA
196 AGTGGAAATGTGTTTCGGCTTTA
*
6550457 CACG-CCACGTGGTTAAAAGCCACGCACTTTACCAACAGAGCTAAGACCG-CTGCTCATTTAAAC
1 CACGACCACGTGGTTAAAAGCCACACACTTTACCAACAGAGCTAAGA-CGACTGCTCATTTAAA-
* *
6550520 AATAAATATTTATTTTTGTGATCATTCATTTTTGTCAGAAAATCATAAAACTTACCTTTTGGAGG
64 AATAAATATTAATTTTTGTGATCATTCATTTTT-TCAGAAAATAATAAAACTTACCTTTTGGAGG
* * * * * * *
6550585 GAAAAAGGTA-ATGAGTAAAATGGGCCTGATATTGGGATTGAATGATTGATCTGGGTTTTTAAAC
128 AAAAAAGGGAGATG-GTAAAATGGACCTGACATTAGGATTGAAAGATTGATCCGGGTTTTTAAAC
6550649 TAAAAGTGGAAATGTGTTTCG
192 TAAAAGTGGAAATGTGTTTCG
6550670 CTTAAAACAC
Statistics
Matches: 189, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
217 49 0.26
218 38 0.20
219 102 0.54
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (218 bp):
CACGACCACGTGGTTAAAAGCCACACACTTTACCAACAGAGCTAAGACGACTGCTCATTTAAAAA
TAAATATTAATTTTTGTGATCATTCATTTTTTCAGAAAATAATAAAACTTACCTTTTGGAGGAAA
AAAGGGAGATGGTAAAATGGACCTGACATTAGGATTGAAAGATTGATCCGGGTTTTTAAACTAAA
AGTGGAAATGTGTTTCGGCTTTA
Found at i:6554572 original size:2 final size:2
Alignment explanation
Indices: 6554565--6554602 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6554555 TACCAAAACC
6554565 TA TA TA TA TA TA TA TA TA TA TA TA TA 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
6554603 CATGCCATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6558127 original size:14 final size:15
Alignment explanation
Indices: 6558097--6558127 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6558087 ATTATAAAAA
6558097 ATTTATAAAATATTT
1 ATTTATAAAATATTT
6558112 ATTTATAAAA-ATTT
1 ATTTATAAAATATTT
6558126 AT
1 AT
6558128 GATCAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTATAAAATATTT
Found at i:6558492 original size:31 final size:30
Alignment explanation
Indices: 6558433--6558501 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
6558423 CTAATGATTT
*
6558433 TAAAATTA--TTAAAGTTATTTTTTAAATA
1 TAAAATTATTTTAAAATTATTTTTTAAATA
6558461 TAAAATTATTTTAAAATTATTTTGTTAAATA
1 TAAAATTATTTTAAAATTATTTT-TTAAATA
*
6558492 TATAATTATT
1 TAAAATTATT
6558502 AAAATCATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 8 0.22
30 12 0.33
31 16 0.44
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
TAAAATTATTTTAAAATTATTTTTTAAATA
Found at i:6558877 original size:24 final size:24
Alignment explanation
Indices: 6558845--6558896 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6558835 AGATGAGTTT
*
6558845 AGTATTTTCCCGAGAAACAAACAG
1 AGTATTTTCCCAAGAAACAAACAG
* *
6558869 AGTATTTTCCTAAGAAACAAATAG
1 AGTATTTTCCCAAGAAACAAACAG
6558893 AGTA
1 AGTA
6558897 ATTTGTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (24 bp):
AGTATTTTCCCAAGAAACAAACAG
Found at i:6560597 original size:51 final size:51
Alignment explanation
Indices: 6560516--6560708 Score: 278
Period size: 51 Copynumber: 3.8 Consensus size: 51
6560506 GCTATAAACG
6560516 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
6560568 AAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *** * * *
6560619 AAAGGTCCGATGATTAATTGTCATCGTGAGTAAATGAATCCAAGATGAAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
6560670 AAAGGTCCGATGACTTAGTGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
6560709 TTTTATATGG
Statistics
Matches: 127, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 123 0.97
52 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:6563729 original size:52 final size:52
Alignment explanation
Indices: 6563651--6563894 Score: 366
Period size: 52 Copynumber: 4.7 Consensus size: 52
6563641 GTCAATGCTA
* *
6563651 AAGGTTCGATGACTATATGTCATCGTGAGTATATAAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
* ** *
6563703 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATAGATTAC
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
* * *
6563755 AAGGTCCGATGACTATGTGTCATTGTGAGTATAT-GATCCTTTATGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
* *
6563806 GAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
*
6563858 GAGGTCCGATGACTATGTGTCATCGTGAGTAT-TAAAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAAT
6563895 GAGGAATGAA
Statistics
Matches: 176, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
51 50 0.28
52 126 0.72
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
Found at i:6563831 original size:103 final size:104
Alignment explanation
Indices: 6563651--6563894 Score: 384
Period size: 103 Copynumber: 2.4 Consensus size: 104
6563641 GTCAATGCTA
* *
6563651 AAGGTTCGATGACTATATGTCATCGTGAGTATATAAATCCTTTACGGATTATAAGGTCCGATGAC
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATAAGGTCCGATGAC
*
6563716 TATGTGTCATCGTGAGTATATGAATCCTTTATAGATTAC
66 TATGTGTCATCGTGAGTATATGAATCCTTTACAGATTAC
* * * *
6563755 AAGGTCCGATGACTATGTGTCATTGTGAGTATAT-GATCCTTTATGGATTATGAGGTCCGATGAC
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATAAGGTCCGATGAC
* *
6563819 TATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
66 TATGTGTCATCGTGAGTATATGAATCCTTTACAGATTAC
*
6563858 GAGGTCCGATGACTATGTGTCATCGTGAGTAT-TAAAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAAT
6563895 GAGGAATGAA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
102 1 0.01
103 95 0.75
104 31 0.24
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (104 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATAAGGTCCGATGAC
TATGTGTCATCGTGAGTATATGAATCCTTTACAGATTAC
Found at i:6567952 original size:16 final size:16
Alignment explanation
Indices: 6567931--6567963 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6567921 TGATAATTTT
*
6567931 AATGTTAAAGGACTAA
1 AATGTTAAAGGAATAA
6567947 AATGTTAAAGGAATAA
1 AATGTTAAAGGAATAA
6567963 A
1 A
6567964 TTTGTAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (16 bp):
AATGTTAAAGGAATAA
Found at i:6568399 original size:18 final size:16
Alignment explanation
Indices: 6568376--6568411 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
6568366 CTTAGTAAAT
6568376 ATTAAATTGAGGAATGAA
1 ATTAAATTGA--AATGAA
6568394 ATTAAATTGAAATGAA
1 ATTAAATTGAAATGAA
6568410 AT
1 AT
6568412 GGTATTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (16 bp):
ATTAAATTGAAATGAA
Found at i:6569031 original size:52 final size:52
Alignment explanation
Indices: 6568953--6569243 Score: 483
Period size: 52 Copynumber: 5.6 Consensus size: 52
6568943 TAAATGCAAA
6568953 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
6569005 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
6569057 AGGTTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATGATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
6569109 AGGTTCGATCACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
** * * * *
6569161 AGGTTTGATGACTATGTGTCATTGTGAGTATATGAGTCCTTTTCGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
6569213 AGGTCCGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
6569244 TAAATGAGAA
Statistics
Matches: 224, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 224 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:6577153 original size:41 final size:41
Alignment explanation
Indices: 6577079--6577159 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
6577069 ATTATTAGGC
* * * *
6577079 TTTGTGCCTAGCAGGCTTTGTGCCGGTGTATTGATTCAGGT
1 TTTGTGCCTAGCAGGCTTCGAGCCGGTGAATTGAATCAGGT
*
6577120 TTTGTGCCTAGCAGGCTTCGAGCTGGTGAATTGAATCAGG
1 TTTGTGCCTAGCAGGCTTCGAGCCGGTGAATTGAATCAGG
6577160 CCTTGAGCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.16, C:0.17, G:0.32, T:0.35
Consensus pattern (41 bp):
TTTGTGCCTAGCAGGCTTCGAGCCGGTGAATTGAATCAGGT
Found at i:6578865 original size:14 final size:15
Alignment explanation
Indices: 6578838--6578866 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6578828 GAATTAGAGT
6578838 TTGGCTTAGAATTAG
1 TTGGCTTAGAATTAG
6578853 TTGGCTT-GAATTAG
1 TTGGCTTAGAATTAG
6578867 GTATGTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (15 bp):
TTGGCTTAGAATTAG
Found at i:6581180 original size:26 final size:23
Alignment explanation
Indices: 6581151--6581218 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 23
6581141 GGAAGGAAAT
6581151 TGAATTAATTAGGATTAAATAAAGTA
1 TGAATTAATTAGGATTAAAT-AA--A
* *
6581177 TGAATTGAGTTA-GA-AAAATAAA
1 TGAATT-AATTAGGATTAAATAAA
*
6581199 TGAGTTAATTAGGATTAAAT
1 TGAATTAATTAGGATTAAAT
6581219 TGGAATTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
21 4 0.12
22 8 0.24
23 4 0.12
24 2 0.06
25 4 0.12
26 8 0.24
27 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.34
Consensus pattern (23 bp):
TGAATTAATTAGGATTAAATAAA
Found at i:6581227 original size:17 final size:18
Alignment explanation
Indices: 6581205--6581240 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6581195 TAAATGAGTT
6581205 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
6581222 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
6581240 A
1 A
6581241 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:6581783 original size:37 final size:38
Alignment explanation
Indices: 6581684--6581785 Score: 98
Period size: 37 Copynumber: 2.6 Consensus size: 38
6581674 ACGTTGAGTT
* *
6581684 GATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATTC
1 GATGAGACACTGGGTGTC---ACTTTACTTCGGATAGATCC
** * ** *
6581725 GATGAGGTACCGGGTACCACTTTACTTCGGCTAGA-CC
1 GATGAGACACTGGGTGTCACTTTACTTCGGATAGATCC
6581762 GATGAGACACTGGGTGTCACTTTA
1 GATGAGACACTGGGTGTCACTTTA
6581786 TTACTTCAAA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
37 20 0.42
38 15 0.31
41 13 0.27
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (38 bp):
GATGAGACACTGGGTGTCACTTTACTTCGGATAGATCC
Found at i:6585272 original size:12 final size:12
Alignment explanation
Indices: 6585255--6585279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6585245 ATATATCCAC
6585255 TTAGTACTTTTA
1 TTAGTACTTTTA
6585267 TTAGTACTTTTA
1 TTAGTACTTTTA
6585279 T
1 T
6585280 CTTGCATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTAGTACTTTTA
Found at i:6585547 original size:23 final size:23
Alignment explanation
Indices: 6585512--6585559 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6585502 AAACGAAAAT
*
6585512 TAAAAGATGGAATATAGATGGAA
1 TAAAAGATGGAATATAGATAGAA
*
6585535 TAAAATGAT-GAATATGGATAGAA
1 TAAAA-GATGGAATATAGATAGAA
6585558 TA
1 TA
6585560 TAGTTGTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (23 bp):
TAAAAGATGGAATATAGATAGAA
Found at i:6590248 original size:17 final size:17
Alignment explanation
Indices: 6590194--6590249 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
6590184 CTCTTGATTT
*
6590194 TTAACATTCCATCTTCC
1 TTAACCTTCCATCTTCC
* * *
6590211 TTAACC-TCCTTTTATCT
1 TTAACCTTCCATCT-TCC
6590228 TTAACCTTCCATCTTCC
1 TTAACCTTCCATCTTCC
6590245 TTAAC
1 TTAAC
6590250 TTTTCATATT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.17
17 20 0.67
18 5 0.17
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAACCTTCCATCTTCC
Found at i:6596114 original size:29 final size:29
Alignment explanation
Indices: 6596055--6596113 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6596045 TTTAGTCTAA
* *
6596055 TGTACAATTTTATACATGTATTTTAATTT
1 TGTACAATTTTATACATGAAATTTAATTT
*
6596084 TGTACAATTTTATACATGAAAATTTGATTT
1 TGTACAATTTTATACATG-AAATTTAATTT
6596114 GACCAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (29 bp):
TGTACAATTTTATACATGAAATTTAATTT
Found at i:6597247 original size:17 final size:18
Alignment explanation
Indices: 6597210--6597247 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6597200 TTACAAAAAA
*
6597210 AATTCAAAATAAATTTTTT
1 AATTCAAAAT-AATTTATT
6597229 AATTCAAAAT-ATTTATT
1 AATTCAAAATAATTTATT
6597246 AA
1 AA
6597248 AAACCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTCAAAATAATTTATT
Found at i:6605163 original size:32 final size:31
Alignment explanation
Indices: 6605116--6605192 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
6605106 ATTATTTTAA
*
6605116 ATGTGTATAATTGAATTAAAAATTAAAGTTTC
1 ATGTATATAATTGAA-TAAAAATTAAAGTTTC
* * * *
6605148 ATGTATATATTTGAATCACAATTAAAGTTTT
1 ATGTATATAATTGAATAAAAATTAAAGTTTC
* *
6605179 ATATGTATAATTGA
1 ATGTATATAATTGA
6605193 CCTAAATCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.43
Consensus pattern (31 bp):
ATGTATATAATTGAATAAAAATTAAAGTTTC
Found at i:6617528 original size:19 final size:17
Alignment explanation
Indices: 6617481--6617533 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 17
6617471 ATATTATAAT
6617481 TAATTTTTATTAAAATCA
1 TAATTTTT-TTAAAATCA
*
6617499 TAATTTCTTTTAAAAGTTA
1 TAATTT-TTTTAAAA-TCA
6617518 TAAATTTTTTTCAAAA
1 T-AATTTTTTT-AAAA
6617534 ATTCTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.40
19 9 0.30
20 9 0.30
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (17 bp):
TAATTTTTTTAAAATCA
Found at i:6617541 original size:20 final size:20
Alignment explanation
Indices: 6617500--6617541 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
6617490 TTAAAATCAT
*
6617500 AATTTCTTTTAAAAGTTATA
1 AATTTCTTTTAAAAATTATA
*
6617520 AATTT-TTTTCAAAAATTCTA
1 AATTTCTTTT-AAAAATTATA
6617540 AA
1 AA
6617542 AATCGAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (20 bp):
AATTTCTTTTAAAAATTATA
Found at i:6619498 original size:19 final size:19
Alignment explanation
Indices: 6619456--6619525 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
6619446 TAAAACAATT
* **
6619456 TTTTATAAATTTTAAATATG
1 TTTTAT-AATTTTTAATAAC
6619476 TTTTATAATTTTTAATAAC
1 TTTTATAATTTTTAATAAC
6619495 TTTTA-ATATTTTT-ATAAC
1 TTTTATA-ATTTTTAATAAC
*
6619513 ATTTAATAATTTT
1 -TTTTATAATTTT
6619526 ATTTTAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.14
19 30 0.70
20 7 0.16
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAC
Found at i:6619511 original size:18 final size:18
Alignment explanation
Indices: 6619483--6619527 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
6619473 ATGTTTTATA
*
6619483 ATTTTTAATAACTTTTAAT
1 ATTTTT-ATAACATTTAAT
6619502 ATTTTTATAACATTTAAT
1 ATTTTTATAACATTTAAT
*
6619520 AATTTTAT
1 ATTTTTAT
6619528 TTTAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTATAACATTTAAT
Found at i:6619595 original size:22 final size:23
Alignment explanation
Indices: 6619554--6619602 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
6619544 TTTAAAAAGT
6619554 ATTTTATAATTTTTAGAATAA-C
1 ATTTTATAATTTTTAGAATAACC
* **
6619576 ATTTTATGATTTTTTTAATAACC
1 ATTTTATAATTTTTAGAATAACC
6619599 ATTT
1 ATTT
6619603 CTAGAATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTTATAATTTTTAGAATAACC
Found at i:6621930 original size:26 final size:24
Alignment explanation
Indices: 6621885--6621932 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
6621875 AGAGAAATGT
*
6621885 AAATGTGATATGTGAAATTATGAG
1 AAATGTGATATGAGAAATTATGAG
*
6621909 AAATGATGAATATGAGAGATTATG
1 AAATG-TG-ATATGAGAAATTATG
6621933 CCCATGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 2 0.10
26 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGTGATATGAGAAATTATGAG
Found at i:6624240 original size:7 final size:7
Alignment explanation
Indices: 6624228--6624253 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6624218 TAATAATCTT
6624228 ATTTACC
1 ATTTACC
6624235 ATTTACC
1 ATTTACC
6624242 ATTTACC
1 ATTTACC
6624249 ATTTA
1 ATTTA
6624254 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTACC
Found at i:6633789 original size:30 final size:29
Alignment explanation
Indices: 6633754--6633830 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
6633744 TTTTTTGTTC
*
6633754 AATTTGATATTTAAATTT-AATATATTTTTT
1 AATTTGGTATTTAAATTTGAA-A-ATTTTTT
** *
6633784 AATTTGGTACATAAATTTGAAACTTTTTT
1 AATTTGGTATTTAAATTTGAAAATTTTTT
*
6633813 AAGTTGGTATTTAAATTT
1 AATTTGGTATTTAAATTT
6633831 TTTGGGGTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 21 0.54
30 16 0.41
31 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (29 bp):
AATTTGGTATTTAAATTTGAAAATTTTTT
Found at i:6634147 original size:9 final size:9
Alignment explanation
Indices: 6634135--6634179 Score: 56
Period size: 10 Copynumber: 4.8 Consensus size: 9
6634125 AATAATATAT
6634135 ATTTTAAAA
1 ATTTTAAAA
6634144 ATTTTCTAAAA
1 A-TTT-TAAAA
6634155 ATTTTAAAA
1 ATTTTAAAA
6634164 A-TTTAAAA
1 ATTTTAAAA
6634172 ATATTTAA
1 AT-TTTAA
6634180 CAACTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.25
9 7 0.22
10 11 0.34
11 6 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:6635169 original size:25 final size:25
Alignment explanation
Indices: 6635141--6635190 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6635131 TTTAGTCCAA
6635141 TGTGAAGCCTAAATTATAATAAAAG
1 TGTGAAGCCTAAATTATAATAAAAG
6635166 TGTGAAGCCTAAATTATAATAAAAG
1 TGTGAAGCCTAAATTATAATAAAAG
6635191 AAATTGTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
TGTGAAGCCTAAATTATAATAAAAG
Done.