Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 384 of 410
Found at i:116598433 original size:26 final size:26
Alignment explanation
Indices: 116598365--116598420 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
116598355 TACTTATTTA
*
116598365 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
116598392 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
116598417 TATA
1 TATA
116598421 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:116600098 original size:19 final size:19
Alignment explanation
Indices: 116600056--116600098 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
116600046 AATTAACACT
116600056 AATA-TAATTAATTTTAAA
1 AATATTAATTAATTTTAAA
** *
116600074 TTTATTAATTATTTTTAAA
1 AATATTAATTAATTTTAAA
116600093 AATATT
1 AATATT
116600099 TTGTGATTAC
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTAATTAATTTTAAA
Found at i:116600180 original size:2 final size:2
Alignment explanation
Indices: 116600175--116600202 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
116600165 ATTTGTTTAA
116600175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116600203 GTTTGTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116605300 original size:17 final size:16
Alignment explanation
Indices: 116605271--116605309 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
116605261 AAAGAAATCC
116605271 TTAATTATCAAAAAAA
1 TTAATTATCAAAAAAA
* *
116605287 TTAAGTTATTAAAAATA
1 TTAA-TTATCAAAAAAA
116605304 TTAATT
1 TTAATT
116605310 TTAATTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
TTAATTATCAAAAAAA
Found at i:116607034 original size:2 final size:2
Alignment explanation
Indices: 116607029--116607074 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
116607019 ATATACACAT
*
116607029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116607070 -A TA TA
1 TA TA TA
116607075 AAACTTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:116613492 original size:2 final size:2
Alignment explanation
Indices: 116613485--116613514 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
116613475 GAAACATGTG
116613485 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116613515 TCATTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116624690 original size:80 final size:80
Alignment explanation
Indices: 116624557--116624717 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
116624547 TAGGTACCAT
*
116624557 TAATTGAAGGGATGGGTGAATGCATGGTTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
1 TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
*
116624622 CTCTATGGAGTTTCC
66 CTCTACGGAGTTTCC
*
116624637 TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTCTC
1 TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
116624702 CTCTACGGAGTTTCC
66 CTCTACGGAGTTTCC
116624717 T
1 T
116624718 TCTGTTCTCA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (80 bp):
TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
CTCTACGGAGTTTCC
Found at i:116635838 original size:30 final size:30
Alignment explanation
Indices: 116635804--116635863 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
116635794 GTGCTTTTAG
116635804 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
1 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
116635834 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
1 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
116635864 CACATTCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.07, C:0.20, G:0.23, T:0.50
Consensus pattern (30 bp):
TTGGGGCCTGTGGTTCTCTTTACTTACTTT
Found at i:116646073 original size:21 final size:20
Alignment explanation
Indices: 116646048--116646111 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
116646038 TAGCCTTCAG
116646048 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTT-TGT
* * *
116646069 GCTTCAG-TTAGC-CTTCGG
1 GCTTCCGTTTAGCACTTTGT
116646087 GCTTCCGTTTAGCACTTTTGT
1 GCTTCCGTTTAGCAC-TTTGT
116646108 GCTT
1 GCTT
116646112 TAGTTAGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 6 0.18
21 13 0.38
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:116646084 original size:39 final size:39
Alignment explanation
Indices: 116646030--116646118 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
116646020 GCTTTGATGA
*
116646030 GCTTCGGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
* *
116646069 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
*
116646108 GCTTTAGTTAG
1 GCTTCAGTTAG
116646119 ATTTCGGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
Found at i:116646295 original size:58 final size:58
Alignment explanation
Indices: 116646205--116646325 Score: 233
Period size: 58 Copynumber: 2.1 Consensus size: 58
116646195 TAATGTGTGG
116646205 AAAAAGAAATGTAAATAATGTTATCATTATTTTTGAGCTCAATTAAGTAAATTATTTT
1 AAAAAGAAATGTAAATAATGTTATCATTATTTTTGAGCTCAATTAAGTAAATTATTTT
116646263 AAAAAGAAATGTAAATAATGTTATCATTATTTTTGAGCTCAATTAAGTAAATTATTTT
1 AAAAAGAAATGTAAATAATGTTATCATTATTTTTGAGCTCAATTAAGTAAATTATTTT
*
116646321 TAAAA
1 AAAAA
116646326 TGAGATTATA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (58 bp):
AAAAAGAAATGTAAATAATGTTATCATTATTTTTGAGCTCAATTAAGTAAATTATTTT
Found at i:116650591 original size:47 final size:47
Alignment explanation
Indices: 116650532--116650694 Score: 208
Period size: 47 Copynumber: 3.5 Consensus size: 47
116650522 AATGTCTGAA
116650532 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
*** * * *
116650579 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCGAG
*
116650625 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCGTCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
116650672 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
116650695 ACTTATGGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.33
47 55 0.57
48 1 0.01
49 2 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
Found at i:116650635 original size:93 final size:93
Alignment explanation
Indices: 116650476--116650740 Score: 431
Period size: 93 Copynumber: 2.8 Consensus size: 93
116650466 AGGATATTTG
* * * * *
116650476 GGCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATAGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
116650541 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
116650569 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
116650634 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
116650662 GGCGTCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
116650727 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
116650741 ACTTATGGGC
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 161 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:116650747 original size:46 final size:46
Alignment explanation
Indices: 116650480--116650748 Score: 245
Period size: 46 Copynumber: 5.8 Consensus size: 46
116650470 TATTTGGGCA
* * * * *
116650480 TCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATAGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *** * * * * *
116650526 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
*
116650573 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *** * * * *
116650619 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
116650666 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
116650712 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
116650749 GCGGGTTACA
Statistics
Matches: 173, Mismatches: 44, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
46 104 0.60
47 69 0.40
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:116653524 original size:15 final size:15
Alignment explanation
Indices: 116653504--116653572 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
116653494 GTATCTTGGG
116653504 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
116653519 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
116653534 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
116653549 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
116653564 TTTCTTTAT
1 TTTCTTTAT
116653573 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:116653566 original size:30 final size:30
Alignment explanation
Indices: 116653495--116653582 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
116653485 CATAATATCG
* * * *
116653495 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
116653525 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
116653555 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
116653583 TATTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:116653583 original size:14 final size:14
Alignment explanation
Indices: 116653504--116653583 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
116653494 GTATCTTGGG
*
116653504 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
116653519 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
116653534 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
116653549 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
116653564 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
116653578 TTTCTT
1 TTTCTT
116653584 ATTATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:116656025 original size:46 final size:45
Alignment explanation
Indices: 116655969--116656237 Score: 260
Period size: 46 Copynumber: 5.8 Consensus size: 45
116655959 TATTTGGGCA
116655969 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* ** * *
116656015 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGT-TGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-A-CTTATG-GA-T-GCGAAG
*
116656062 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
116656108 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
116656155 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
116656201 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
116656238 GCGGGTTACA
Statistics
Matches: 182, Mismatches: 25, Indels: 32
0.76 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 3 0.02
46 98 0.54
47 62 0.34
48 3 0.02
49 6 0.03
50 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:116656090 original size:47 final size:47
Alignment explanation
Indices: 116656021--116656183 Score: 201
Period size: 47 Copynumber: 3.5 Consensus size: 47
116656011 AATGTCTGAA
116656021 CTCGTTGAGTTGAGTCCGAGTTCGAGAGTTGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGTTGTAACTAGGCATCCGAG
* * * * *
116656068 CTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGTTGT-AACTAG-GCA--TCCGAG
*
116656114 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGTTGTAACTAGGCATCCGAG
116656161 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
116656184 ACTTATGGAT
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 1 0.01
46 28 0.29
47 51 0.53
48 1 0.01
49 6 0.06
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGTTGTAACTAGGCATCCGAG
Found at i:116656124 original size:93 final size:93
Alignment explanation
Indices: 116655965--116656229 Score: 467
Period size: 93 Copynumber: 2.8 Consensus size: 93
116655955 AGGATATTTG
* *
116655965 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
116656030 TTGAGTCCGAGTTCGAGAGTTGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
116656058 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
116656123 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
116656151 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
116656216 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
116656230 ACTTATGGGC
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:116657578 original size:31 final size:29
Alignment explanation
Indices: 116657540--116657617 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
116657530 GGCGTTACAT
*
116657540 AGTGACTAAAATATTACAACACAATAATATA
1 AGTGACTAAAATATAACAACAC-A-AATATA
* ***
116657571 AGTGACTAAAAGATAACATTTCAAATATA
1 AGTGACTAAAATATAACAACACAAATATA
*
116657600 AGTGACTAAAATGTAACA
1 AGTGACTAAAATATAACA
116657618 TGAGGAAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATATAACAACACAAATATA
Found at i:116658484 original size:2 final size:2
Alignment explanation
Indices: 116658477--116658511 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
116658467 TATGGTACCA
116658477 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116658512 GTTATAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116658636 original size:20 final size:20
Alignment explanation
Indices: 116658585--116658636 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
116658575 TTATGCCACA
116658585 TCAATATTTTTATCCTGAATT
1 TCAATA-TTTTATCCTGAATT
* *
116658606 TCAAGAGTTTATCCTGAATT
1 TCAATATTTTATCCTGAATT
116658626 TCAATATTTTA
1 TCAATATTTTA
116658637 ATTTGAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (20 bp):
TCAATATTTTATCCTGAATT
Found at i:116664140 original size:48 final size:48
Alignment explanation
Indices: 116664069--116664164 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
116664059 ATATGTATAA
* *
116664069 ATAATATAAATTAATTTAATATATTATT-ATTATTAAATACAACAAACT
1 ATAATATAAATTAACTTAATATATT-TTAATAATTAAATACAACAAACT
* * *
116664117 ATAATTTAATTTAACTTAATATATTTTAATAATTAAATACAATAAACT
1 ATAATATAAATTAACTTAATATATTTTAATAATTAAATACAACAAACT
116664165 TGTATGATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (48 bp):
ATAATATAAATTAACTTAATATATTTTAATAATTAAATACAACAAACT
Found at i:116674379 original size:19 final size:20
Alignment explanation
Indices: 116674346--116674383 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
116674336 CACGAATAGC
116674346 AGGGAAAGAAAAAAGGAAAA
1 AGGGAAAGAAAAAAGGAAAA
116674366 AGGGAAAG-AAAAAGGAAA
1 AGGGAAAGAAAAAAGGAAA
116674384 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AGGGAAAGAAAAAAGGAAAA
Found at i:116674382 original size:11 final size:13
Alignment explanation
Indices: 116674357--116674389 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
116674347 GGGAAAGAAA
116674357 AAAGGAAAAAGGG
1 AAAGGAAAAAGGG
116674370 AAA-GAAAAA-GG
1 AAAGGAAAAAGGG
116674381 AAAGGAAAA
1 AAAGGAAAA
116674390 TTTAGGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 11 0.58
13 3 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AAAGGAAAAAGGG
Found at i:116676114 original size:41 final size:42
Alignment explanation
Indices: 116676037--116676116 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
116676027 AATTTGAGTC
*
116676037 CACACGGCATGTCACACGGGCGTGTGATCAGACCGTGTGAGA
1 CACACGGCATGTCACACGGGCATGTGATCAGACCGTGTGAGA
* * *
116676079 CACACGGCTTG-CATACGGGCATGTTGAT-AGGCCGTGTG
1 CACACGGCATGTCACACGGGCATG-TGATCAGACCGTGTG
116676117 TCCCTTGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 19 0.58
42 14 0.42
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (42 bp):
CACACGGCATGTCACACGGGCATGTGATCAGACCGTGTGAGA
Found at i:116677281 original size:15 final size:15
Alignment explanation
Indices: 116677261--116677312 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
116677251 TTTATTTCAG
116677261 ATTATATTTTAGTCA
1 ATTATATTTTAGTCA
**
116677276 ATTATA-TTT-GAAA
1 ATTATATTTTAGTCA
116677289 TATTATATTTTAGTCA
1 -ATTATATTTTAGTCA
*
116677305 TTTATATT
1 ATTATATT
116677313 ATCATTTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.31
15 16 0.55
16 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (15 bp):
ATTATATTTTAGTCA
Found at i:116677827 original size:2 final size:2
Alignment explanation
Indices: 116677822--116677846 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
116677812 TTGAAAAAAG
116677822 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
116677847 GTTTGTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116680943 original size:2 final size:2
Alignment explanation
Indices: 116680938--116680962 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
116680928 ATTTAAATAC
116680938 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
116680963 AATGAAAATT
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:116681261 original size:21 final size:21
Alignment explanation
Indices: 116681237--116681308 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 21
116681227 TAGGTGTTAA
116681237 TTATATTTTTTTATTCTAATG
1 TTATATTTTTTTATTCTAATG
*
116681258 TTATAAATATTTAATTTATTGTTAA--
1 TTAT--AT-TTT--TTTATT-CTAATG
116681283 TTATATTTTTTTATTCTAATG
1 TTATATTTTTTTATTCTAATG
116681304 TTATA
1 TTATA
116681309 AATATTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
19 3 0.07
20 6 0.15
21 9 0.22
22 3 0.07
23 4 0.10
24 3 0.07
25 4 0.10
26 6 0.15
27 3 0.07
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (21 bp):
TTATATTTTTTTATTCTAATG
Found at i:116681267 original size:25 final size:25
Alignment explanation
Indices: 116681239--116681315 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
116681229 GGTGTTAATT
116681239 ATATTTTTTTATTCTAATGTTATAA
1 ATATTTTTTTATTCTAATGTTATAA
* * *
116681264 ATA---TTTAATT-TATTGTTA-ATT
1 ATATTTTTTTATTCTAATGTTATA-A
116681285 ATATTTTTTTATTCTAATGTTATAA
1 ATATTTTTTTATTCTAATGTTATAA
116681310 ATATTT
1 ATATTT
116681316 AATTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
20 1 0.03
21 10 0.25
22 6 0.15
24 6 0.15
25 16 0.40
26 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (25 bp):
ATATTTTTTTATTCTAATGTTATAA
Found at i:116681282 original size:46 final size:46
Alignment explanation
Indices: 116681231--116681323 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
116681221 TAAATGTAGG
116681231 TGTTAATTATATTTTTTTATTCTAATGTTATAAATATTTAATTTAT
1 TGTTAATTATATTTTTTTATTCTAATGTTATAAATATTTAATTTAT
116681277 TGTTAATTATATTTTTTTATTCTAATGTTATAAATATTTAATTTAT
1 TGTTAATTATATTTTTTTATTCTAATGTTATAAATATTTAATTTAT
116681323 T
1 T
116681324 TTCAAGGAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.61
Consensus pattern (46 bp):
TGTTAATTATATTTTTTTATTCTAATGTTATAAATATTTAATTTAT
Found at i:116681316 original size:21 final size:21
Alignment explanation
Indices: 116681246--116681316 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
116681236 ATTATATTTT
116681246 TTTATTCTAATGTTATAAATA
1 TTTATTCTAATGTTATAAATA
* * *
116681267 TTTAATT-TATTGTTAATTATATTTT
1 TTT-ATTCTAATGTT-A-TA-A-ATA
116681292 TTTATTCTAATGTTATAAATA
1 TTTATTCTAATGTTATAAATA
116681313 TTTA
1 TTTA
116681317 ATTTATTTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
21 14 0.37
22 5 0.13
23 4 0.11
24 5 0.13
25 10 0.26
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTATTCTAATGTTATAAATA
Found at i:116688231 original size:33 final size:33
Alignment explanation
Indices: 116688184--116688297 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
116688174 GGACTTTTCT
* * *
116688184 TTTTCTAGTTGTACACTCGAGGTGCACATTCCC
1 TTTTCAAGTTGTACACTCGAAGTGCACATACCC
* * *
116688217 TTTTCAAGTGGTACACACGAAGTGTACATACCC
1 TTTTCAAGTTGTACACTCGAAGTGCACATACCC
* * * *
116688250 TTTTCAATTTGTACATTC-AATGTGCACATAACA
1 TTTTCAAGTTGTACACTCGAA-GTGCACATACCC
116688283 TTTTCAAG-TGTACAC
1 TTTTCAAGTTGTACAC
116688298 ATATAGTGTA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
32 8 0.12
33 57 0.88
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (33 bp):
TTTTCAAGTTGTACACTCGAAGTGCACATACCC
Found at i:116688351 original size:33 final size:33
Alignment explanation
Indices: 116688283--116688421 Score: 122
Period size: 33 Copynumber: 4.3 Consensus size: 33
116688273 GCACATAACA
* * * *
116688283 TTTTCAAGT-GTACACATATAGTGTACCTTTCC
1 TTTTCAAGTGGTATACACAAAGTATACCTTTCC
* *
116688315 TTTTCAAGTGGTATACACCAAGTATACCTTTTC
1 TTTTCAAGTGGTATACACAAAGTATACCTTTCC
*
116688348 TTTTCATA-TGGTATACACAAAGTATACCGTTCC
1 TTTTCA-AGTGGTATACACAAAGTATACCTTTCC
* * * * * **
116688381 TTTCCAAGT-GTACACATAAAGTGTACATAACC
1 TTTTCAAGTGGTATACACAAAGTATACCTTTCC
116688413 TTTTCAAGT
1 TTTTCAAGT
116688422 TGTACCATTT
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
32 34 0.40
33 51 0.59
34 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (33 bp):
TTTTCAAGTGGTATACACAAAGTATACCTTTCC
Found at i:116691785 original size:16 final size:17
Alignment explanation
Indices: 116691748--116691786 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
116691738 ATATTTTTAG
*
116691748 ATTAATTTTTATTTAAA
1 ATTAATTTTTATTAAAA
*
116691765 TTTAATTTTT-TTAAAA
1 ATTAATTTTTATTAAAA
116691781 ATTAAT
1 ATTAAT
116691787 ACACTAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTAATTTTTATTAAAA
Found at i:116691900 original size:39 final size:39
Alignment explanation
Indices: 116691842--116691929 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 39
116691832 TTAAAAGTAT
*
116691842 TTATATTTAAAAAATACAAATAAATATAATAAATATTTTA
1 TTATA-TTAAAAAACACAAATAAATATAATAAATATTTTA
* *
116691882 TTATATTAAAGAACACAAATAAATATAGTAAATATTTTA
1 TTATATTAAAAAACACAAATAAATATAATAAATATTTTA
*
116691921 TTTTATTAA
1 TTATATTAA
116691930 TATAAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 39 0.89
40 5 0.11
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (39 bp):
TTATATTAAAAAACACAAATAAATATAATAAATATTTTA
Found at i:116692104 original size:29 final size:30
Alignment explanation
Indices: 116692039--116692105 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
116692029 TTAATATAAA
116692039 TATAA-ATATAAATATATATAATAATTATT
1 TATAATATATAAATATATATAATAATTATT
*
116692068 TA-ACATATATAATTA-ATATAAT-ATTATTT
1 TATA-ATATATAAATATATATAATAATTA-TT
116692097 TATAATATA
1 TATAATATA
116692106 ATGTTGGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 5 0.15
29 19 0.58
30 9 0.27
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TATAATATATAAATATATATAATAATTATT
Found at i:116695737 original size:29 final size:29
Alignment explanation
Indices: 116695669--116695737 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
116695659 AGAAATATTT
* *
116695669 TTATAAAATG-TCTAATGTGGTATTTGTA
1 TTATAAAATGTTCTAATGTGGTACTTGAA
*
116695697 TTTTGAAAATGTTC-AATGTGGTACTTGAA
1 TTAT-AAAATGTTCTAATGTGGTACTTGAA
116695726 TTATAAATATGT
1 TTATAAA-ATGT
116695738 ATTTTTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 6 0.18
29 26 0.76
30 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.45
Consensus pattern (29 bp):
TTATAAAATGTTCTAATGTGGTACTTGAA
Found at i:116696447 original size:29 final size:29
Alignment explanation
Indices: 116696392--116696448 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
116696382 ATATATATTA
* * * * *
116696392 AAAATTCAAATATTACATTAGATATTTTC
1 AAAATGCAAATATGACACTAAACATTTTC
116696421 AAAATGCAAATATGACACTAAACATTTT
1 AAAATGCAAATATGACACTAAACATTTT
116696449 ATAAAAGTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATGCAAATATGACACTAAACATTTTC
Found at i:116697590 original size:27 final size:29
Alignment explanation
Indices: 116697559--116697613 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
116697549 TACAATAAAA
116697559 ATATTAAAAATTAAAA-AAAT-TAAAATC
1 ATATTAAAAATTAAAATAAATATAAAATC
* * *
116697586 ATATTTATATTTAAAATAAATATAAAAT
1 ATATTAAAAATTAAAATAAATATAAAAT
116697614 AAAACAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.57
28 4 0.17
29 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
ATATTAAAAATTAAAATAAATATAAAATC
Found at i:116698936 original size:22 final size:22
Alignment explanation
Indices: 116698908--116698953 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
116698898 ATTATAGAGT
*
116698908 AAAAATATTAAAAGGACTAAAG
1 AAAAATAATAAAAGGACTAAAG
116698930 AAAAATAATAAAAGGACTAAAG
1 AAAAATAATAAAAGGACTAAAG
116698952 AA
1 AA
116698954 GCAATTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAAATAATAAAAGGACTAAAG
Found at i:116699026 original size:17 final size:17
Alignment explanation
Indices: 116699001--116699045 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
116698991 TAATTACACG
* *
116699001 TGTAAATATTACAGATA
1 TGTATATATTACACATA
116699018 TGTATATATTACACATA
1 TGTATATATTACACATA
116699035 TGTATATATTA
1 TGTATATATTA
116699046 ATAAAATAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (17 bp):
TGTATATATTACACATA
Found at i:116699156 original size:10 final size:10
Alignment explanation
Indices: 116699138--116699167 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
116699128 AAGGCTAAAC
*
116699138 GAAATAGAAA
1 GAAAAAGAAA
116699148 GAAAAAGAAA
1 GAAAAAGAAA
116699158 GAAAAAGAAA
1 GAAAAAGAAA
116699168 AAGGGGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:116699164 original size:16 final size:17
Alignment explanation
Indices: 116699143--116699192 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
116699133 TAAACGAAAT
116699143 AGAAAGAAAAAGAAAGA
1 AGAAAGAAAAAGAAAGA
**
116699160 A-AAAGAAAAAG-GGGA
1 AGAAAGAAAAAGAAAGA
116699175 AGAAAGAAAGAAGAAAGA
1 AGAAAGAAA-AAGAAAGA
116699193 CAAGGCTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 3 0.12
16 17 0.65
17 4 0.15
18 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAAGAAAGA
Found at i:116703715 original size:14 final size:13
Alignment explanation
Indices: 116703692--116703730 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
116703682 ATATCAACTA
116703692 ATTTTTTTTATAT
1 ATTTTTTTTATAT
116703705 ATTTTTCTTTATAT
1 ATTTTT-TTTATAT
**
116703719 ATAATTTTTATA
1 ATTTTTTTTATA
116703731 CATTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTTTATAT
Found at i:116706644 original size:20 final size:22
Alignment explanation
Indices: 116706605--116706645 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
116706595 CATCTCCGAC
*
116706605 GGAAACAGAATATGTTTTGGAA
1 GGAAACAGAATATGTCTTGGAA
116706627 GGAAACAG-A-ATGTCTTGGA
1 GGAAACAGAATATGTCTTGGA
116706646 TTCTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.39, C:0.07, G:0.29, T:0.24
Consensus pattern (22 bp):
GGAAACAGAATATGTCTTGGAA
Found at i:116707034 original size:14 final size:16
Alignment explanation
Indices: 116707005--116707034 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
116706995 ATATTTCAAA
116707005 TTTCTCTCAAATTTTT
1 TTTCTCTCAAATTTTT
116707021 TTTCTCTC-AATTTT
1 TTTCTCTCAAATTTT
116707035 CTATCTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTCTCTCAAATTTTT
Found at i:116709117 original size:219 final size:219
Alignment explanation
Indices: 116708738--116709143 Score: 686
Period size: 219 Copynumber: 1.9 Consensus size: 219
116708728 ATCGTCTTCA
* *
116708738 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCTCATTGTGGCCT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * *
116708803 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTTCTTCTGTATGTCGGCTGTGAGTTTGGACACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTTGGACACTC
116708868 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCATCGTCTTCA
131 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCATCGTCTTCA
116708933 TCGACTTAAACGTTCGACGGCTGG
196 TCGACTTAAACGTTCGACGGCTGG
* *
116708957 TCGCTGTTCTATTTCGAAACCTAGTCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * * *
116709022 TTCCCTTTGTCCAGTTCCATGTCTATCCTTTTGCTTCTGTATGTCCGCCGTGAGTTTGGCCACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTTGGACACTC
** *
116709087 ATTGACTCTGGGTTTTGCCTTTTCTCCATTTTCAGACCCTGTTGCAGCAGCAGCCAT
131 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCAT
116709144 TGGTTGAACC
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 173 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (219 bp):
TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTTGGACACTC
ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCTGTTACAGCAGCAGCCATCGTCTTCA
TCGACTTAAACGTTCGACGGCTGG
Found at i:116710645 original size:55 final size:54
Alignment explanation
Indices: 116710513--116710692 Score: 191
Period size: 55 Copynumber: 3.3 Consensus size: 54
116710503 TATTTTTATA
* * * **
116710513 TTTAAATCGATTGTCATGTTGAAATACTGCTTTTTTTG-ATAAATTGTTTATATG
1 TTTAAATCGATTGTTATGTTGGAATACTGCTTATTTTGAATTGATTG-TTATATG
* * * * **
116710567 TTTAAATCGATTATTACGGTGGAACACTGCTTCCTTTGAATTGATTGTGTATATG
1 TTTAAATCGATTGTTATGTTGGAATACTGCTTATTTTGAATTGATTGT-TATATG
* * * *
116710622 TTTAAATGGATTGTTATGTTGGAATACTGTTTATTTTTAATTGATTACTTATATG
1 TTTAAATCGATTGTTATGTTGGAATACTGCTTATTTTGAATTGATT-GTTATATG
116710677 TTTAAATCGATTGTTA
1 TTTAAATCGATTGTTA
116710693 CGTAGCACGT
Statistics
Matches: 102, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
54 31 0.30
55 70 0.69
56 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (54 bp):
TTTAAATCGATTGTTATGTTGGAATACTGCTTATTTTGAATTGATTGTTATATG
Found at i:116713355 original size:37 final size:37
Alignment explanation
Indices: 116713305--116713384 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
116713295 TTATTTAATG
116713305 CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
1 CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
* *
116713342 CAATGAGACACTAACTTTATTTGTTGAAGATGCTCTC
1 CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
116713379 CAATGA
1 CAATGA
116713385 AATTCTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (37 bp):
CAATGAGACACTAACCTTACTTGTTGAAGATGCTCTC
Found at i:116713830 original size:18 final size:19
Alignment explanation
Indices: 116713797--116713833 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
116713787 AATAATTTTT
*
116713797 AAAATTTTAAATATTTATA
1 AAAATTCTAAATATTTATA
116713816 AAAATTCTAAA-ATTTATA
1 AAAATTCTAAATATTTATA
116713834 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTCTAAATATTTATA
Found at i:116713838 original size:25 final size:27
Alignment explanation
Indices: 116713796--116713857 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 27
116713786 AAATAATTTT
* *
116713796 TAAAATTTTAAATATTTATAAAAATTC
1 TAAAATTTTAAATATTTAAAAAAATTA
*
116713823 TAAAA-TTTATAT-TTTAAAAAAATTA
1 TAAAATTTTAAATATTTAAAAAAATTA
116713848 TAAAAATTTT
1 T-AAAATTTT
116713858 TAAAAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 12 0.40
26 10 0.33
27 8 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TAAAATTTTAAATATTTAAAAAAATTA
Found at i:116714011 original size:16 final size:16
Alignment explanation
Indices: 116713990--116714020 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
116713980 CTTTGAAAAT
116713990 TTTCAAATATATGTGG
1 TTTCAAATATATGTGG
*
116714006 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
116714021 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGG
Found at i:116718791 original size:50 final size:46
Alignment explanation
Indices: 116718720--116718841 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 46
116718710 TGTCTTCGAC
** * *
116718720 ATGGACTTACATGAATTATTCCTGTCTCCAATGTCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAG-CAT-TATA-A-ATAAT
* * * *
116718770 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCTTATAACTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCATTATAAATAAT
*
116718816 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
116718842 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 27 0.44
47 1 0.02
48 4 0.06
49 2 0.03
50 28 0.45
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCATTATAAATAAT
Found at i:116718847 original size:5 final size:5
Alignment explanation
Indices: 116718837--116718861 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
116718827 TGGCTCATTT
116718837 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
116718862 AACTCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:116721804 original size:68 final size:63
Alignment explanation
Indices: 116721657--116721804 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 63
116721647 CATAATTTTG
* * *
116721657 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACTTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
* * *
116721720 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACACATAGTACCACCCATGCGACCTAGC--CAGT--T--TATC
116721783 TCGTA
59 TCGTA
116721788 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
116721805 ATGTGCACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 42 0.59
64 1 0.01
65 2 0.03
66 1 0.01
68 23 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
Found at i:116722342 original size:30 final size:30
Alignment explanation
Indices: 116722307--116722367 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
116722297 TCCTTAACTC
116722307 AAAC-TTTGTCAAAATTACAATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAATTTTGCCCCT
* * *
116722337 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
116722367 A
1 A
116722368 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:116724418 original size:25 final size:26
Alignment explanation
Indices: 116724390--116724450 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
116724380 ATTACTTATT
116724390 TTTATTATTGAAAATATT-TATTT-TA
1 TTTATTATTGAAAAT-TTATATTTGTA
*
116724415 TTTATTGGATTGCAAATTTATATTTGTA
1 TTTATT--ATTGAAAATTTATATTTGTA
116724443 TTTATTAT
1 TTTATTAT
116724451 AGATGTAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 6 0.19
26 4 0.13
27 13 0.42
28 8 0.26
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (26 bp):
TTTATTATTGAAAATTTATATTTGTA
Found at i:116724426 original size:27 final size:28
Alignment explanation
Indices: 116724396--116724448 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
116724386 TATTTTTATT
116724396 ATTGAAAATATT-TATTT-TATTTATTGG
1 ATTGAAAAT-TTATATTTGTATTTATTGG
*
116724423 ATTGCAAATTTATATTTGTATTTATT
1 ATTGAAAATTTATATTTGTATTTATT
116724449 ATAGATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.09
27 13 0.57
28 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (28 bp):
ATTGAAAATTTATATTTGTATTTATTGG
Found at i:116728919 original size:38 final size:38
Alignment explanation
Indices: 116728868--116728945 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
116728858 GAGCATCTGT
*
116728868 TTGATATTTATATATGCTAAGAGAACACCATAAAGTTC
1 TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
116728906 TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
1 TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
116728944 TT
1 TT
116728946 ATGCTTGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (38 bp):
TTGATATTTATATATGCTAAGAGAACAACATAAAGTTC
Found at i:116737080 original size:3 final size:3
Alignment explanation
Indices: 116737072--116737112 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
116737062 ATTAGTTTAA
116737072 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
116737113 ATTTAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:116738709 original size:67 final size:67
Alignment explanation
Indices: 116738626--116738753 Score: 238
Period size: 67 Copynumber: 1.9 Consensus size: 67
116738616 GAGAAGTAAT
*
116738626 GTGCAATACAAATCATCAATTTCCTTTGAATATTTGAATAAGGCTTTAATACTAAAAGCTCACTA
1 GTGCAATACAAATCATCAATTTCCTTCGAATATTTGAATAAGGCTTTAATACTAAAAGCTCACTA
116738691 AC
66 AC
*
116738693 GTGCAATACAAATCATCAATTTCCTTCGAATATTTGAATTAGGCTTTAATACTAAAAGCTC
1 GTGCAATACAAATCATCAATTTCCTTCGAATATTTGAATAAGGCTTTAATACTAAAAGCTC
116738754 GATGTAAAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (67 bp):
GTGCAATACAAATCATCAATTTCCTTCGAATATTTGAATAAGGCTTTAATACTAAAAGCTCACTA
AC
Found at i:116749076 original size:24 final size:24
Alignment explanation
Indices: 116749030--116749080 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
116749020 ACATGTTTAT
116749030 TTTTAAAATTTATTAAACAATATGA
1 TTTTAAAATTTATTAAACAATAT-A
*
116749055 TTTTATAATTT-TTAAA-ATATATA
1 TTTTAAAATTTATTAAACA-ATATA
116749078 TTT
1 TTT
116749081 GCTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 9 0.38
25 10 0.42
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAAAATTTATTAAACAATATA
Found at i:116749538 original size:24 final size:23
Alignment explanation
Indices: 116749498--116749567 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
116749488 TAAAAACATT
*
116749498 TTAAATATTCATATAAATATTTTA
1 TTAAA-ATTAATATAAATATTTTA
*
116749522 TTAAAATTAATATTAAATTTTTTA
1 TTAAAATTAATA-TAAATATTTTA
*
116749546 TTATAAA-TATATATAAACATTT
1 TTA-AAATTA-ATATAAATATTT
116749568 ATAAAACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 6 0.15
24 27 0.69
25 6 0.15
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAAAATTAATATAAATATTTTA
Found at i:116759903 original size:20 final size:19
Alignment explanation
Indices: 116759878--116759918 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
116759868 AAATTAAGAG
116759878 TTATTT-TTTAATTTTATGTA
1 TTATTTATTT-ATTTTAT-TA
116759898 TTATTTATTTATTTTATTA
1 TTATTTATTTATTTTATTA
116759917 TT
1 TT
116759919 TTTCACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTATTTATTTATTTTATTA
Found at i:116763075 original size:40 final size:40
Alignment explanation
Indices: 116763020--116763199 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
116763010 TATTCGGATG
* * * *
116763020 ATATCCGGGTTAAGTCGCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
116763060 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
116763099 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
116763139 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
116763179 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
116763200 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
39 49 0.39
40 75 0.60
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:116763151 original size:79 final size:80
Alignment explanation
Indices: 116763020--116763199 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 80
116763010 TATTCGGATG
* * ** * *
116763020 ATATCCGGGTTAAGTCGCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAG-TCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
116763084 TTTGTGCTAG-TGACT
66 TTTGTGCGAGTTG-CT
*
116763099 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
116763164 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
*
116763179 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
116763200 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 62 0.69
80 26 0.29
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:116771218 original size:40 final size:40
Alignment explanation
Indices: 116771163--116771343 Score: 251
Period size: 40 Copynumber: 4.5 Consensus size: 40
116771153 TATTCGGATG
* * *
116771163 ATATCCGGGCTAAGTCTCGAAGGCATTTGTG-TAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACT
116771203 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
116771243 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
116771283 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACT
*
116771323 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
116771344 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.10
40 113 0.88
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:116777126 original size:17 final size:17
Alignment explanation
Indices: 116777101--116777134 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
116777091 TAAATAAATT
116777101 ATTAAAAAAATATAAAA
1 ATTAAAAAAATATAAAA
* *
116777118 ATTATAAAATTATAAAA
1 ATTAAAAAAATATAAAA
116777135 TTCATTTTAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAAAAATATAAAA
Found at i:116780418 original size:19 final size:18
Alignment explanation
Indices: 116780396--116780509 Score: 69
Period size: 19 Copynumber: 6.4 Consensus size: 18
116780386 AATTACAAAA
*
116780396 AAAATTTAAAATAATTTTT
1 AAAATTTAAAAT-ATTTAT
116780415 AAAATTTAAAATATTTAT
1 AAAATTTAAAATATTTAT
* *
116780433 AAAAATT-CAATATTTAT
1 AAAATTTAAAATATTTAT
* *
116780450 --ATTTATAAAAAAATTT-T
1 AAAATT-T-AAAATATTTAT
*
116780467 AAAATTTTAAAAATATATAT
1 AAAA-TTT-AAAATATTTAT
* *
116780487 AAAAATTAATAT-TTTA-
1 AAAATTTAAAATATTTAT
116780503 AAAATTT
1 AAAATTT
116780510 TCTAAAATAA
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
15 2 0.03
16 7 0.09
17 13 0.18
18 21 0.28
19 24 0.32
20 7 0.09
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTTAAAATATTTAT
Found at i:116781778 original size:13 final size:13
Alignment explanation
Indices: 116781760--116781789 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
116781750 CACTGGACCC
*
116781760 TTATATTTCGTAA
1 TTATATTTAGTAA
116781773 TTATATTTAGTAA
1 TTATATTTAGTAA
116781786 TTAT
1 TTAT
116781790 GTTATTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (13 bp):
TTATATTTAGTAA
Found at i:116789374 original size:20 final size:20
Alignment explanation
Indices: 116789333--116789374 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
116789323 ATGATATAAC
* *
116789333 ATGTGTAATAGTTGATATAT
1 ATGTGTAATAGCTGATAGAT
116789353 ATGTGTAATAGCT-ATAAGAT
1 ATGTGTAATAGCTGAT-AGAT
116789373 AT
1 AT
116789375 TTTATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (20 bp):
ATGTGTAATAGCTGATAGAT
Found at i:116789510 original size:4 final size:4
Alignment explanation
Indices: 116789501--116789533 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
116789491 AGCAAACGTG
116789501 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
116789534 TAGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:116790526 original size:7 final size:7
Alignment explanation
Indices: 116790493--116790524 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
116790483 CTGAATCATG
116790493 AACCCTT
1 AACCCTT
116790500 AACCCTT
1 AACCCTT
116790507 AACCCTT
1 AACCCTT
116790514 AACCC-T
1 AACCCTT
116790520 AACCC
1 AACCC
116790525 CTTACACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.31, C:0.47, G:0.00, T:0.22
Consensus pattern (7 bp):
AACCCTT
Found at i:116790557 original size:14 final size:14
Alignment explanation
Indices: 116790493--116790559 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
116790483 CTGAATCATG
116790493 AACCCTT-AACCCTT
1 AACCCTTAAACCC-T
116790507 AACCCTT-AACCCT
1 AACCCTTAAACCCT
*
116790520 AACCCCTTACA-CCT
1 AA-CCCTTAAACCCT
* *
116790534 AAACCTTAAACCCC
1 AACCCTTAAACCCT
116790548 AACCCTTAAACC
1 AACCCTTAAACC
116790560 ACACTTAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 9 0.20
14 35 0.78
15 1 0.02
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTTAAACCCT
Found at i:116790587 original size:32 final size:32
Alignment explanation
Indices: 116790528--116790589 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
116790518 CTAACCCCTT
* *
116790528 ACACCTAAACCTTAAACCCCAACCCTTAAACC
1 ACACCTAAACCATAAACCCCAAACCTTAAACC
* * *
116790560 ACACTTAAACCATAATCCCTAAACCTTAAA
1 ACACCTAAACCATAAACCCCAAACCTTAAA
116790590 ATAGTAACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (32 bp):
ACACCTAAACCATAAACCCCAAACCTTAAACC
Found at i:116791096 original size:40 final size:40
Alignment explanation
Indices: 116790960--116791119 Score: 187
Period size: 41 Copynumber: 3.9 Consensus size: 40
116790950 GTTATATGAC
* *
116790960 TTTTAGCGGCGTTTTA-CAAAAAGCGCCGCTAATGCTCCGGC
1 TTTTAGCGGCGTTTTACCAAAAA-CGCCGCTAATGCT-CTGT
* *
116791001 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTGTT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTG-T
* *
116791042 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTTCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGT
* * * *
116791082 TTTTAGTGGCGTTTTAACAAAAAACGCCGGTATTGCTC
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTAATGCTC
116791120 CAAAAACGCC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 16 0.15
41 83 0.80
42 5 0.05
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGT
Found at i:116791110 original size:82 final size:82
Alignment explanation
Indices: 116790960--116791110 Score: 207
Period size: 82 Copynumber: 1.8 Consensus size: 82
116790950 GTTATATGAC
* *
116790960 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCGGCTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCGGCTTTTAGCGGCGTTTTACAAAAAAC
116791025 GCCGCTAATGCTTTGTT
66 GCCGCTAATGCTTTGTT
* * * * *
116791042 TTTTAGCGGCGTTTTACCAAAAA-CGCCGCTATTTCT-CTGTTTTTAGTGGCGTTTTAACAAAAA
1 TTTTAGCGGCGTTTTA-CAAAAAGCGCCGCTAATGCTCCGGCTTTTAGCGGCGTTTT-ACAAAAA
116791105 ACGCCG
64 ACGCCG
116791111 GTATTGCTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
81 16 0.27
82 38 0.63
83 6 0.10
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCGGCTTTTAGCGGCGTTTTACAAAAAAC
GCCGCTAATGCTTTGTT
Found at i:116791126 original size:20 final size:20
Alignment explanation
Indices: 116791101--116791140 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
116791091 CGTTTTAACA
116791101 AAAAACGCCGGTATTGCTCC
1 AAAAACGCCGGTATTGCTCC
*
116791121 AAAAACGCCGTTATTGCTCC
1 AAAAACGCCGGTATTGCTCC
116791141 GTGTTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (20 bp):
AAAAACGCCGGTATTGCTCC
Found at i:116801579 original size:23 final size:23
Alignment explanation
Indices: 116801550--116801597 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
116801540 GAAATGATGT
*
116801550 TTTTACTGTGTATTTGTCATTAG
1 TTTTACTGTGTATTTGTCAGTAG
116801573 TTTTACTGTGTATTTGTCAGTAG
1 TTTTACTGTGTATTTGTCAGTAG
116801596 TT
1 TT
116801598 ACTCCGACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.19, T:0.56
Consensus pattern (23 bp):
TTTTACTGTGTATTTGTCAGTAG
Found at i:116803911 original size:32 final size:32
Alignment explanation
Indices: 116803870--116803935 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
116803860 AACTAGAAGT
*
116803870 TAGCTTGCTCATGCATCTTTAGGCGCAGTATA
1 TAGCTTGCTCATGCATCTTTAGGCACAGTATA
116803902 TAGCTTGCTCATGCATCTTTAGGCACAGTATA
1 TAGCTTGCTCATGCATCTTTAGGCACAGTATA
116803934 TA
1 TA
116803936 CAATGTAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (32 bp):
TAGCTTGCTCATGCATCTTTAGGCACAGTATA
Found at i:116807068 original size:18 final size:19
Alignment explanation
Indices: 116807040--116807080 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
116807030 TTGTAATAGT
*
116807040 AATTACTTAAAGATAAAAA
1 AATTACTTAAAGACAAAAA
116807059 AATT-CTTAAAGACAAAAA
1 AATTACTTAAAGACAAAAA
116807077 AATT
1 AATT
116807081 TACATTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (19 bp):
AATTACTTAAAGACAAAAA
Found at i:116812736 original size:46 final size:46
Alignment explanation
Indices: 116812682--116812867 Score: 230
Period size: 46 Copynumber: 4.0 Consensus size: 46
116812672 GTGTGCTCTC
* *
116812682 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
116812728 TTATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
116812774 TGATATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
116812820 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
116812866 TG
1 TG
116812868 TCAAAGATAA
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 1 0.01
46 120 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:116812839 original size:92 final size:92
Alignment explanation
Indices: 116812682--116812862 Score: 256
Period size: 92 Copynumber: 2.0 Consensus size: 92
116812672 GTGTGCTCTC
*** * * * * *
116812682 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTTATATGAAATGTGTAAGA
1 TGATATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGA
* *
116812747 CCATGGTTGAAAGATACTATGGCAACG
66 CCATAGTTGAAAGACACTATGGCAACG
116812774 TGATATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAG
1 TGATATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAG
116812838 ACCATAGTTGAAAGACACTATGGCA
65 ACCATAGTTGAAAGACACTATGGCA
116812863 TCATGTCAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 1 0.01
92 77 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (92 bp):
TGATATGAAATGAACAAAACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGA
CCATAGTTGAAAGACACTATGGCAACG
Found at i:116821070 original size:46 final size:46
Alignment explanation
Indices: 116820994--116821585 Score: 799
Period size: 46 Copynumber: 12.8 Consensus size: 46
116820984 TGATGTCATA
* * * *
116820994 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCATGTTGCCATG
* * ***
116821040 GTATCTTTCAACCATTGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
* *
116821087 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* **
116821133 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
116821179 GTATCTTTCAACCATGGTCTTACACATTTCATACCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* ***
116821225 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
*
116821272 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
116821318 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
116821364 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* ***
116821410 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
* ***
116821457 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
*
116821504 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
116821550 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
116821586 GAGAGCACAC
Statistics
Matches: 494, Mismatches: 48, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
46 328 0.66
47 166 0.34
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
Found at i:116821267 original size:139 final size:139
Alignment explanation
Indices: 116820994--116821585 Score: 821
Period size: 139 Copynumber: 4.3 Consensus size: 139
116820984 TGATGTCATA
* * * * * *
116820994 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATTGT
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
* * * *
116821058 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
65 CTTATTCATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
116821123 GGTTGCCATG
130 GGTTGCCATG
* *
116821133 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
** * * * ***
116821198 TTACACA-TTTCATACCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCA
66 TTATTCATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCA
*
116821262 TGTTGCCATG
130 GGTTGCCATG
*
116821272 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
* * *
116821337 TTATTCA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
66 TTATTCATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
116821401 GTTGCCATG
131 GTTGCCATG
* *** *
116821410 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
* * *
116821475 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
65 CTTATTCATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
116821540 GGTTGCCATG
130 GGTTGCCATG
* *
116821550 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
116821586 GAGAGCACAC
Statistics
Matches: 401, Mismatches: 48, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
138 85 0.21
139 232 0.58
140 84 0.21
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (139 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
GTTGCCATG
Found at i:116821311 original size:185 final size:185
Alignment explanation
Indices: 116821031--116821582 Score: 996
Period size: 185 Copynumber: 3.0 Consensus size: 185
116821021 TTTCTGTCAT
*
116821031 GTTGCCATGGTATCTTTCAACCATTGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTC
116821096 AACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
66 AACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
*
116821161 TCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAC
131 TCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAC
116821216 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTC
*
116821281 AACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
66 AACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
*
116821346 TCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
131 TCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAC
116821401 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTC
* ** * *
116821466 AACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCAT
66 AACCATGGTCTTACTCA-TTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCAT
* *
116821531 TTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATA
130 TTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
116821583 TCAGAGAGCA
Statistics
Matches: 354, Mismatches: 12, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
185 262 0.74
186 92 0.26
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (185 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTC
AACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
TCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAC
Found at i:116827491 original size:14 final size:14
Alignment explanation
Indices: 116827463--116827496 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
116827453 TTTAAAAATT
116827463 AAATACTTTTAAAA
1 AAATACTTTTAAAA
116827477 AAATATCTTTTAAAA
1 AAATA-CTTTTAAAA
116827492 AAATA
1 AAATA
116827497 AAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATACTTTTAAAA
Found at i:116827492 original size:16 final size:15
Alignment explanation
Indices: 116827453--116827494 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
116827443 CGGCATGTAA
116827453 TTTAAAAATTAAATACT
1 TTTAAAAA--AAATACT
116827470 TTT-AAAAAAATATCT
1 TTTAAAAAAAATA-CT
116827485 TTTAAAAAAA
1 TTTAAAAAAA
116827495 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 10 0.43
17 3 0.13
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAAAAAAATACT
Found at i:116828141 original size:15 final size:14
Alignment explanation
Indices: 116828114--116828140 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
116828104 GATTATAATA
116828114 AAATATTAAAAAAT
1 AAATATTAAAAAAT
116828128 AAATATTAAAAAA
1 AAATATTAAAAAA
116828141 AGGACATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:116831080 original size:24 final size:24
Alignment explanation
Indices: 116831051--116831099 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
116831041 GGTAAACAAA
116831051 TTGAAGCTAGAAGTTGAAATGATG
1 TTGAAGCTAGAAGTTGAAATGATG
*
116831075 TTGAAGCTTGAAGTTGAAATGATG
1 TTGAAGCTAGAAGTTGAAATGATG
116831099 T
1 T
116831100 AGCTGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (24 bp):
TTGAAGCTAGAAGTTGAAATGATG
Found at i:116833223 original size:300 final size:298
Alignment explanation
Indices: 116832674--116833265 Score: 762
Period size: 300 Copynumber: 2.0 Consensus size: 298
116832664 TATCATAAGC
* * *
116832674 CTTCTCCAGATCTATCTTGATAGACATCTATCTTTTGTGTTTGCTTCTCATGGAATGAATAACTT
1 CTTCTACAAATCTATCTTGATAGACATCCATCTTTTGTGTTTGCTTCTCATGGAATGAATAACTT
* * ** * *
116832739 CTTGGATGACTATGATATTGTTAGTGATCTTTCCAGCAATAATGCCCGCCTATTCTAGGTCAATA
66 CTTGGACGACTATGATATTGTTAGTGATCTTTCCAGAAATAAAACCCGCCTATTCTAGGCCAACA
* * * * * *
116832804 ATTTTAGGAAAAACAACCTTATATCTGTTCGAAATGGTCTTTATAACTTGCATGTAAACAACTGA
131 ATTCTAGGAAAAACAACCGTATATCTATTCGAAATGGTCTTTAGAACCTGCATGTAAACAACTAA
*
116832869 ACACAAGTTTATTAGGCGAAATTGTGCAAAGTTTGTGCAATTAAAGGGTAGAAGGGATATATCAG
196 ACACAAGTTTATTAGGCGAAATTATGCAAAGTTTGTGCAATTAAAGGGTAGAAGGGATATATCAG
*
116832934 AGGGAACTTTATCGTTAT-GAAATTAACAGGTATAATAG
261 AGGGAACTTTATCGTTATAG-AATTAAAAGGTATAATAG
* *
116832972 CTTCTACAAATCTATCTTGATGGCCATCCATCTTTTGTGTTTGCTTCTCATGG-ATGAATAACTT
1 CTTCTACAAATCTATCTTGATAGACATCCATCTTTTGTGTTTGCTTCTCATGGAATGAATAACTT
* * * * ** *
116833036 CTTGGGCGATTATGATATTGTTAGTGGTGTTCCTTT-TAGAAATAAAACTTGCCTTTTC-AGGGC
66 CTTGGACGACTATGATATTGTTA---GTGAT-CTTTCCAGAAATAAAACCCGCCTATTCTA-GGC
* * * * *
116833099 CAACGATTCTAGGAAAAACAACCGTATATCTATTCGGAATGGTCTTTAGGACCTGCTTGTAAAGA
126 CAACAATTCTAGGAAAAACAACCGTATATCTATTCGAAATGGTCTTTAGAACCTGCATGTAAACA
* *
116833164 ACTAAACACAATTTTATTGGGCGAAATTATGCAAAGTTCT-TGCAATTAAAGGGTAGAAGGGATA
191 ACTAAACACAAGTTTATTAGGCGAAATTATGCAAAGTT-TGTGCAATTAAAGGGTAGAAGGGATA
* * *
116833228 TATCATAGGGTACTTTATTGTTATAGAATTAAAAGGTA
255 TATCAGAGGGAACTTTATCGTTATAGAATTAAAAGGTA
116833266 GAATGAGAAA
Statistics
Matches: 251, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
297 31 0.12
298 48 0.19
299 1 0.00
300 165 0.66
301 6 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (298 bp):
CTTCTACAAATCTATCTTGATAGACATCCATCTTTTGTGTTTGCTTCTCATGGAATGAATAACTT
CTTGGACGACTATGATATTGTTAGTGATCTTTCCAGAAATAAAACCCGCCTATTCTAGGCCAACA
ATTCTAGGAAAAACAACCGTATATCTATTCGAAATGGTCTTTAGAACCTGCATGTAAACAACTAA
ACACAAGTTTATTAGGCGAAATTATGCAAAGTTTGTGCAATTAAAGGGTAGAAGGGATATATCAG
AGGGAACTTTATCGTTATAGAATTAAAAGGTATAATAG
Found at i:116833671 original size:25 final size:23
Alignment explanation
Indices: 116833629--116833675 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
116833619 TGTACAACAA
*
116833629 ACAATTTCTCTTTTATTTTTTTT
1 ACAATTTCTCTTTCATTTTTTTT
116833652 ACAATTTCTCTCTATCATTTTTTT
1 ACAATTTCTCT-T-TCATTTTTTT
116833676 GTACCCTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 1 0.05
25 9 0.43
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (23 bp):
ACAATTTCTCTTTCATTTTTTTT
Found at i:116836808 original size:13 final size:12
Alignment explanation
Indices: 116836786--116836820 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
116836776 ATTTTTTATA
116836786 TCTGAATCTGAT
1 TCTGAATCTGAT
116836798 TCTGTAATCTGAT
1 TCTG-AATCTGAT
116836811 ATCTGAATCT
1 -TCTGAATCT
116836821 AGATCTGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 4 0.19
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (12 bp):
TCTGAATCTGAT
Found at i:116842697 original size:7 final size:7
Alignment explanation
Indices: 116842680--116842722 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
116842670 TTATATCTGA
116842680 TTTTA-T
1 TTTTATT
116842686 TTTTATT
1 TTTTATT
116842693 TTTTATT
1 TTTTATT
116842700 TTTTATT
1 TTTTATT
116842707 TTTTATT
1 TTTTATT
*
116842714 TTTAATT
1 TTTTATT
116842721 TT
1 TT
116842723 GCCCTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:116846846 original size:40 final size:40
Alignment explanation
Indices: 116846789--116846902 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
116846779 TTATGTTTGA
*
116846789 CACTT-GTGTGCGTATCGAGATAGCTTCGGCTATATAAAG
1 CACTTAGTGTGCGAATCGAGATAGCTTCGGCTATATAAAG
* * **
116846828 CACTTAGTGTGCGAATCGAAATAGCTTCGACTATATATGG
1 CACTTAGTGTGCGAATCGAGATAGCTTCGGCTATATAAAG
* *
116846868 CACTTAGTGTGCTAGA-CTGAGATAGCTTCAGCTAT
1 CACTTAGTGTGCGA-ATC-GAGATAGCTTCGGCTAT
116846903 GAGAGGTAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 5 0.08
40 43 0.68
41 15 0.24
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
CACTTAGTGTGCGAATCGAGATAGCTTCGGCTATATAAAG
Found at i:116848233 original size:19 final size:19
Alignment explanation
Indices: 116848205--116848241 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
116848195 GCGTGTCTGG
116848205 TGTCACACGGCCTGTTCAC
1 TGTCACACGGCCTGTTCAC
*
116848224 TGTCATACGGCCTGTTCA
1 TGTCACACGGCCTGTTCA
116848242 TGTGGGCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.22, T:0.30
Consensus pattern (19 bp):
TGTCACACGGCCTGTTCAC
Found at i:116848402 original size:17 final size:17
Alignment explanation
Indices: 116848380--116848419 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
116848370 GTGAATGTTT
116848380 TGAATGGATTTTGAGTA
1 TGAATGGATTTTGAGTA
*
116848397 TGAATGGATTTTGAGTG
1 TGAATGGATTTTGAGTA
116848414 TGAATG
1 TGAATG
116848420 TATAAATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.40
Consensus pattern (17 bp):
TGAATGGATTTTGAGTA
Found at i:116849347 original size:26 final size:26
Alignment explanation
Indices: 116849311--116849363 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
116849301 GTGTGTAGAG
116849311 GATTTTGTAATATGATATCTGAATCT
1 GATTTTGTAATATGATATCTGAATCT
*
116849337 GATTTTGTAATCTGATATCTGAATCT
1 GATTTTGTAATATGATATCTGAATCT
116849363 G
1 G
116849364 GGTCTGTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (26 bp):
GATTTTGTAATATGATATCTGAATCT
Found at i:116849348 original size:13 final size:13
Alignment explanation
Indices: 116849311--116849352 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
116849301 GTGTGTAGAG
*
116849311 GATTTTGTAATAT
1 GATTTTGTAATCT
*
116849324 GATATCTG-AATCT
1 GAT-TTTGTAATCT
116849337 GATTTTGTAATCT
1 GATTTTGTAATCT
116849350 GAT
1 GAT
116849353 ATCTGAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (13 bp):
GATTTTGTAATCT
Found at i:116849361 original size:13 final size:13
Alignment explanation
Indices: 116849323--116849363 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
116849313 TTTTGTAATA
116849323 TGATATCTGAATC
1 TGATATCTGAATC
*
116849336 TGAT-TTTGTAATC
1 TGATATCTG-AATC
116849349 TGATATCTGAATC
1 TGATATCTGAATC
116849362 TG
1 TG
116849364 GGTCTGTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (13 bp):
TGATATCTGAATC
Found at i:116849371 original size:26 final size:26
Alignment explanation
Indices: 116849316--116849375 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
116849306 TAGAGGATTT
* * *
116849316 TGTAATATGATATCTGAATCTGATTT
1 TGTAATCTGATATCTGAATCTGAGTC
*
116849342 TGTAATCTGATATCTGAATCTGGGTC
1 TGTAATCTGATATCTGAATCTGAGTC
116849368 TGT-ATCTG
1 TGTAATCTG
116849376 TTTCTGTCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (26 bp):
TGTAATCTGATATCTGAATCTGAGTC
Found at i:116851209 original size:44 final size:42
Alignment explanation
Indices: 116851129--116851275 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 42
116851119 TTTCGTTATG
* * * **
116851129 TGATTTCGTGTAAGACCACGTCTGAGACGTTGGCATCG-ACTTC
1 TGATTTCATGTAAGACCATGTCTGAGACATCAGCATCGTA--TC
* *
116851172 TGTTTTATATGTAAGACCATGTCTGAGACATCAGCATCGTATC
1 TGATTT-CATGTAAGACCATGTCTGAGACATCAGCATCGTATC
* * * * *
116851215 TGATTTCGTGTAAGACCCTGTCTGAGACAGT-GGCATCGATGTT
1 TGATTTCATGTAAGACCATGTCTGAGACA-TCAGCATCG-TATC
*
116851258 TGATTACATGTAAGACCA
1 TGATTTCATGTAAGACCA
116851276 AGTTTGGGAC
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.31
43 30 0.36
44 26 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGAGACATCAGCATCGTATC
Found at i:116851238 original size:42 final size:42
Alignment explanation
Indices: 116851129--116851243 Score: 117
Period size: 44 Copynumber: 2.7 Consensus size: 42
116851119 TTTCGTTATG
* **
116851129 TGATTTCGTGTAAGACCAC-GTCTGAGACGTTGGCATCGACTTC
1 TGATTTCGTGTAAGACC-CTGTCTGAGACATCAGCATCGAC-TC
* ** *
116851172 TGTTTTATATGTAAGACCATGTCTGAGACATCAGCATCGTA-TC
1 TGATTT-CGTGTAAGACCCTGTCTGAGACATCAGCATCG-ACTC
116851215 TGATTTCGTGTAAGACCCTGTCTGAGACA
1 TGATTTCGTGTAAGACCCTGTCTGAGACA
116851244 GTGGCATCGA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
42 20 0.34
43 12 0.21
44 25 0.43
45 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGAGACATCAGCATCGACTC
Found at i:116851251 original size:42 final size:42
Alignment explanation
Indices: 116851129--116851253 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 42
116851119 TTTCGTTATG
116851129 TGATTTCGTGTAAGACCAC-GTCTGAGAC-GTTGGCATCGACTTC
1 TGATTTCGTGTAAGACC-CTGTCTGAGACAG-TGGCATCGAC-TC
* ** * *
116851172 TGTTTTATATGTAAGACCATGTCTGAGACA-TCAGCATCGTA-TC
1 TGATTT-CGTGTAAGACCCTGTCTGAGACAGT-GGCATCG-ACTC
116851215 TGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGA
1 TGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGA
116851254 TGTTTGATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
41 1 0.02
42 26 0.39
43 14 0.21
44 24 0.36
45 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGACTC
Found at i:116855262 original size:65 final size:66
Alignment explanation
Indices: 116855142--116855332 Score: 276
Period size: 65 Copynumber: 2.8 Consensus size: 66
116855132 CGATTTGTCT
* * * * *
116855142 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGG-GTACATC-C---GTATCACACATGTGACCTAGCTACATTTAT
116855207 CTTTCA
61 CTTTCA
116855213 CGTAGCTCTCTTGTCTACATGGGT-CATCCGTATCACACATGTGACCTAGCTACATTTATCTTTC
1 CGTAGCTCTCTTGTCTACATGGGTACATCCGTATCACACATGTGACCTAGCTACATTTATCTTTC
116855277 A
66 A
116855278 CGTAGCTCTCTTGTCTACATGGGATACATCCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGG-TACATCCGTATCACACATGTGACCTAGCTAC
116855333 TACAGGTGTC
Statistics
Matches: 114, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
65 56 0.49
66 1 0.01
67 29 0.25
68 1 0.01
69 3 0.03
70 2 0.02
71 22 0.19
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (66 bp):
CGTAGCTCTCTTGTCTACATGGGTACATCCGTATCACACATGTGACCTAGCTACATTTATCTTTC
A
Found at i:116862749 original size:66 final size:63
Alignment explanation
Indices: 116862671--116862853 Score: 228
Period size: 66 Copynumber: 2.8 Consensus size: 63
116862661 TAGTACCACT
*
116862671 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGG-GTCCTTCAC-T---AT
116862733 CACG
60 CACG
116862737 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCAC
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCAC
116862802 G
63 G
116862803 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGG
116862854 ATACATCTCG
Statistics
Matches: 110, Mismatches: 1, Indels: 12
0.89 0.01 0.10
Matches are distributed among these distances:
66 70 0.64
67 6 0.05
68 1 0.01
69 2 0.02
70 9 0.08
71 22 0.20
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (63 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCACG
Found at i:116862782 original size:71 final size:66
Alignment explanation
Indices: 116862694--116862886 Score: 278
Period size: 66 Copynumber: 2.8 Consensus size: 66
116862684 CGATTTGTCT
116862694 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGG-GTCCTTCAC-T---ATCACGCATGCGACCTAGCTACATTTAT
116862759 CTTTCA
61 CTTTCA
116862765 CGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCACGCATGCGACCTAGCTACATTTATCTTTC
1 CGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCACGCATGCGACCTAGCTACATTTATCTTTC
116862830 A
66 A
* * * * *
116862831 CGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGG-TCCTTCAC-TATCACGCATGCGACCTAGCTAC
116862887 TACAGGGTGT
Statistics
Matches: 115, Mismatches: 5, Indels: 7
0.91 0.04 0.06
Matches are distributed among these distances:
66 57 0.50
67 5 0.04
68 21 0.18
69 1 0.01
70 9 0.08
71 22 0.19
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (66 bp):
CGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCACGCATGCGACCTAGCTACATTTATCTTTC
A
Found at i:116862905 original size:68 final size:67
Alignment explanation
Indices: 116862689--116862954 Score: 180
Period size: 68 Copynumber: 3.9 Consensus size: 67
116862679 CTAGCCGATT
* * * * * * *
116862689 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCACGTAGCTCTCTTGTCTACATGG-GTACAT--C-TCGTATCACACATGTGACCTAGCTACA
** *
116862754 TTTATC
62 TACAGC
* * * * * * **
116862760 TTTCACGTAGCTCTCTTGTCTACATGGGTCCTTCAC-TATCACGCATGCGACCTAGCTACATTTA
1 TGTCACGTAGCTCTCTTGTCTACATGGGTACATCTCGTATCACACATGTGACCTAGCTACATACA
*
116862824 TC
66 GC
*
116862826 TTTCACGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTAC-TAC
1 TGTCACGTAGCTCTCTTGTCTACATGGG-TACATCTCGTATCACACATGTGACCTAGCTACATAC
*
116862890 AGGG
65 A-GC
* * * * * *
116862894 TGTCTCGTAGCTTTCTTGTAC-ACATGATGTGCA-CTCAGCATCATACATGTGACCTAGCTAC
1 TGTCACGTAGCTCTCTTGT-CTACATG-GGTACATCTC-GTATCACACATGTGACCTAGCTAC
116862955 GCTCCCTCTA
Statistics
Matches: 168, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
66 57 0.34
67 10 0.06
68 68 0.40
69 2 0.01
70 6 0.04
71 25 0.15
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (67 bp):
TGTCACGTAGCTCTCTTGTCTACATGGGTACATCTCGTATCACACATGTGACCTAGCTACATACA
GC
Found at i:116864227 original size:17 final size:17
Alignment explanation
Indices: 116864172--116864234 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
116864162 TAAATAAAGG
*
116864172 TACTGAA-AATTGACCGC
1 TACTGAATAA-TGACCGT
*
116864189 TACTGAATAATCGACTGT
1 TACTGAATAAT-GACCGT
116864207 TACTG-ATCAATGACCGT
1 TACTGAAT-AATGACCGT
*
116864224 TACTAAATAAT
1 TACTGAATAAT
116864235 TGATTATTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 22 0.58
18 16 0.42
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (17 bp):
TACTGAATAATGACCGT
Found at i:116864361 original size:22 final size:21
Alignment explanation
Indices: 116864318--116864361 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
116864308 TAAATGTCTA
* * *
116864318 AATGATACTGAATATTGGTTG
1 AATGATAATGAAAATTGATTG
116864339 AATGATAATGAAAAATTGATTG
1 AATGATAATG-AAAATTGATTG
116864361 A
1 A
116864362 TGTTGAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (21 bp):
AATGATAATGAAAATTGATTG
Found at i:116869011 original size:51 final size:51
Alignment explanation
Indices: 116868935--116869037 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
116868925 GAATCCGATG
*
116868935 ATTGTTTGCTATTTAGAAATAGAAGTTGTACCGAAGAGTTCAGAAGCTTAT
1 ATTGTTTGCTATTTAGAAATAGAAGTTGTACCGAAGAATTCAGAAGCTTAT
*
116868986 ATTGTTTGCTATTTAGAAATAGAAGTTGTACTGAAGAATTCAGAAGCTTAT
1 ATTGTTTGCTATTTAGAAATAGAAGTTGTACCGAAGAATTCAGAAGCTTAT
116869037 A
1 A
116869038 CAGAATATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (51 bp):
ATTGTTTGCTATTTAGAAATAGAAGTTGTACCGAAGAATTCAGAAGCTTAT
Found at i:116872216 original size:6 final size:6
Alignment explanation
Indices: 116872205--116872233 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
116872195 TACCGCTACA
116872205 GTTACT GTTACT GTTACT GTTACT GTTAC
1 GTTACT GTTACT GTTACT GTTACT GTTAC
116872234 GGTGTATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
GTTACT
Found at i:116872381 original size:18 final size:18
Alignment explanation
Indices: 116872358--116872416 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
116872348 AATTGACCGC
116872358 TACTGAATAATCGACTAT
1 TACTGAATAATCGACTAT
116872376 TACTG-ATCAAT-GAC-AGT
1 TACTGAAT-AATCGACTA-T
*
116872393 TACTGAATAA-CTGATTAT
1 TACTGAATAATC-GACTAT
116872411 TACTGA
1 TACTGA
116872417 TGACTGACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
16 1 0.03
17 13 0.38
18 19 0.56
19 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (18 bp):
TACTGAATAATCGACTAT
Found at i:116872530 original size:22 final size:21
Alignment explanation
Indices: 116872487--116872530 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
116872477 TAAATGTCTA
* * *
116872487 AATGATACTGAATATTGGTTG
1 AATGATAATGAAAATTGATTG
116872508 AATGATAATGAAAAATTGATTG
1 AATGATAATG-AAAATTGATTG
116872530 A
1 A
116872531 TGTTGAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (21 bp):
AATGATAATGAAAATTGATTG
Found at i:116878310 original size:25 final size:24
Alignment explanation
Indices: 116878274--116878549 Score: 109
Period size: 23 Copynumber: 11.8 Consensus size: 24
116878264 TTAACCTTAT
116878274 TTTTA-TATTATATATTATATAATTA
1 TTTTATTA-TATATATTATAT-ATTA
116878299 TTTTATTATATATTATT-TATATTA
1 TTTTATTATATA-TATTATATATTA
116878323 TTATTATTAT-T-TATTATATATTA
1 TT-TTATTATATATATTATATATTA
* *
116878346 TTTT-TCACA-A-ATTAT-TATTA
1 TTTTATTATATATATTATATATTA
116878366 TTTTACATTAT-TAT-TTATATATTA
1 TTTT--ATTATATATATTATATATTA
* * *
116878390 TTATTA-TATTTTTACTTGTAT-TATA
1 TT-TTATTATATATA-TTATATAT-TA
116878415 TATTTATTA-AT-TATT-TATATATA
1 T-TTTATTATATATATTATATAT-TA
* **
116878438 TTATATATTAT-T-TTTTAAATATATGC
1 TT-T-TATTATATATATT--ATATATTA
116878464 TTTTA-TATTATATATTATA-ATTA
1 TTTTATTA-TATATATTATATATTA
116878487 TTTTA-T-TATATATTAT-TATGTCA
1 TTTTATTATATATATTATATAT-T-A
*
116878510 TTTT-TTATAT-TATTATACA-T-
1 TTTTATTATATATATTATATATTA
116878530 TTTTATCTATATATTATTAT
1 TTTTAT-TATATA-TATTAT
116878550 CATTAAAGGT
Statistics
Matches: 198, Mismatches: 14, Indels: 79
0.68 0.05 0.27
Matches are distributed among these distances:
20 13 0.07
21 20 0.10
22 20 0.10
23 49 0.25
24 42 0.21
25 35 0.18
26 14 0.07
27 5 0.03
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (24 bp):
TTTTATTATATATATTATATATTA
Found at i:116878315 original size:3 final size:3
Alignment explanation
Indices: 116878270--116878554 Score: 93
Period size: 3 Copynumber: 93.0 Consensus size: 3
116878260 ATTTTTAACC
* *
116878270 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* **
116878314 TT- TATA TTA TTA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA
* *
116878360 TTA TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA -TA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA
*
116878404 CTT- GTA TTA TATA TTTA TTAA TTA TT- TATA TATA TTA TATA TTA TT-
1 -TTA TTA TTA T-TA -TTA TT-A TTA TTA T-TA T-TA TTA T-TA TTA TTA
* ** *
116878450 TT- TTA -AA TATA TGC TT- TTA -TA TTA TATA TTA TAA TTA TT- TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *
116878492 TTA TATA TTA TTA TGTCA TT- TT- TTA -TA TTA TTA TACA TTT TTA TCTA
1 TTA T-TA TTA TTA T-T-A TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA
*
116878539 TATA TTA TTA TCA TTA
1 T-TA TTA TTA TTA TTA
116878555 AAGGTTTTTA
Statistics
Matches: 214, Mismatches: 30, Indels: 76
0.67 0.09 0.24
Matches are distributed among these distances:
2 31 0.14
3 125 0.58
4 55 0.26
5 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:116878327 original size:53 final size:51
Alignment explanation
Indices: 116878213--116878525 Score: 154
Period size: 47 Copynumber: 6.4 Consensus size: 51
116878203 AATCTAACCC
* * *
116878213 TATA-TATTT-ATTATTATATATATATT-TT-TTATATTGTTA-TTTGTT-
1 TATATTATTTAATTATTATTTATATATTATTATTATATTATTATTTTATTA
** * *
116878258 T-TATT-TTTAA-CCTTATTTTTATATTATATATTATATAATTATTTTATTA
1 TATATTATTTAATTATTATTTATATATTAT-TATTATATTATTATTTTATTA
*
116878307 TATATTATTTATATTATTA-TTAT-TATTTATTA-TATATTATT-TTTCACAAATTA
1 TATATTATTTA-ATTATTATTTATATA-TTATTATTATATTATTATTT----TATTA
* *
116878360 T-TATTATTTTACATTATTATTTATATATTATTATTATATTTTTACTTGTA-T-
1 TATATTA-TTTA-ATTATTATTTATATATTATTATTATATTATTA-TTTTATTA
*
116878411 TATA-TATTT-ATTAATTATTTATATA-TATTA-TATATTATT-TTTTA-AA
1 TATATTATTTAATT-ATTATTTATATATTATTATTATATTATTATTTTATTA
** * * * * *
116878457 TATATGCTTTTA-TATTATATAT-TATAATTATTTTATTA-TATATTATTA
1 TATATTATTTAATTATTATTTATATATTATTATTATATTATTATTTTATTA
* *
116878505 TGTCATTTTTTATATTATTAT
1 TAT-ATTATTTA-ATTATTAT
116878526 ACATTTTTAT
Statistics
Matches: 204, Mismatches: 30, Indels: 62
0.69 0.10 0.21
Matches are distributed among these distances:
44 16 0.08
45 10 0.05
46 18 0.09
47 31 0.15
48 17 0.08
49 21 0.10
50 16 0.08
51 17 0.08
52 16 0.08
53 20 0.10
54 10 0.05
55 10 0.05
57 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (51 bp):
TATATTATTTAATTATTATTTATATATTATTATTATATTATTATTTTATTA
Done.